Title: Phylogeographic Analysis of Island Colonization Events
Description: Estimation of the number of colonization events between islands of the same archipelago for a species. It uses rarefaction curves to control for both field and genetic sample sizes as it was described in Coello et al. (2022) <doi:10.1111/jbi.14341>.
Author: Alberto J. Coello [aut, cre] ,
Mario Fernandez-Mazuecos [aut] ,
Ruben H. Heleno [aut] ,
Pablo Vargas [aut]
Maintainer: Alberto J. Coello <albjcoello@gmail.com>
Diff between PAICE versions 1.0.1 dated 2023-11-13 and 1.0.2 dated 2024-07-15
PAICE-1.0.1/PAICE/R/PAICE.R |only PAICE-1.0.2/PAICE/DESCRIPTION | 10 +++++----- PAICE-1.0.2/PAICE/MD5 | 16 ++++++++-------- PAICE-1.0.2/PAICE/R/PAiCE.R |only PAICE-1.0.2/PAICE/R/print.colonization.R | 2 +- PAICE-1.0.2/PAICE/R/print.maxCol.R | 4 ++-- PAICE-1.0.2/PAICE/R/zzz.R | 2 +- PAICE-1.0.2/PAICE/data/CmonsData.RData |binary PAICE-1.0.2/PAICE/data/CmonsNetwork.RData |binary PAICE-1.0.2/PAICE/data/CmonsRare.RData |binary 10 files changed, 17 insertions(+), 17 deletions(-)
Title: Random Generation Functionality for the 'spatstat' Family
Description: Functionality for random generation of spatial data in the 'spatstat' family of packages.
Generates random spatial patterns of points according to many simple rules (complete spatial randomness,
Poisson, binomial, random grid, systematic, cell), randomised alteration of patterns
(thinning, random shift, jittering), simulated realisations of random point processes including
simple sequential inhibition, Matern inhibition models, Neyman-Scott cluster processes
(using direct, Brix-Kendall, or hybrid algorithms),
log-Gaussian Cox processes, product shot noise cluster processes
and Gibbs point processes (using Metropolis-Hastings birth-death-shift algorithm,
alternating Gibbs sampler, or coupling-from-the-past perfect simulation).
Also generates random spatial patterns of line segments,
random tessellations, and random images (random noise, random mosaics).
Excludes random generation on a linear network,
which is covered by the separate package 'spatstat.linnet'.
Author: Adrian Baddeley [aut, cre, cph]
,
Rolf Turner [aut, cph] ,
Ege Rubak [aut, cph] ,
Tilman Davies [aut, cph] ,
Kasper Klitgaard Berthelsen [ctb, cph],
David Bryant [ctb, cph],
Ya-Mei Chang [ctb, cph],
Ute Hahn [ctb],
Abdollah Jalilian [ctb],
Dominic Sc [...truncated...]
Maintainer: Adrian Baddeley <Adrian.Baddeley@curtin.edu.au>
Diff between spatstat.random versions 3.2-3 dated 2024-02-29 and 3.3-1 dated 2024-07-15
spatstat.random-3.2-3/spatstat.random/R/indefinteg.R |only spatstat.random-3.2-3/spatstat.random/man/indefinteg.Rd |only spatstat.random-3.3-1/spatstat.random/DESCRIPTION | 17 - spatstat.random-3.3-1/spatstat.random/MD5 | 115 ++++------ spatstat.random-3.3-1/spatstat.random/NAMESPACE | 3 spatstat.random-3.3-1/spatstat.random/NEWS | 37 +++ spatstat.random-3.3-1/spatstat.random/R/clusterinfo.R | 6 spatstat.random-3.3-1/spatstat.random/R/rPerfect.R | 38 +-- spatstat.random-3.3-1/spatstat.random/R/rags.R | 4 spatstat.random-3.3-1/spatstat.random/R/random.R | 4 spatstat.random-3.3-1/spatstat.random/R/randomNS.R | 6 spatstat.random-3.3-1/spatstat.random/R/randomcircembed.R | 8 spatstat.random-3.3-1/spatstat.random/R/rcauchy.R | 10 spatstat.random-3.3-1/spatstat.random/R/rmatclust.R | 14 - spatstat.random-3.3-1/spatstat.random/R/rmhmodel.R | 110 ++++----- spatstat.random-3.3-1/spatstat.random/R/rthomas.R | 10 spatstat.random-3.3-1/spatstat.random/inst/doc/packagesizes.txt | 2 spatstat.random-3.3-1/spatstat.random/inst/info |only spatstat.random-3.3-1/spatstat.random/man/Window.rmhmodel.Rd | 12 - spatstat.random-3.3-1/spatstat.random/man/as.owin.rmhmodel.Rd | 14 - spatstat.random-3.3-1/spatstat.random/man/domain.rmhmodel.Rd | 4 spatstat.random-3.3-1/spatstat.random/man/expand.owin.Rd | 10 spatstat.random-3.3-1/spatstat.random/man/is.stationary.Rd | 2 spatstat.random-3.3-1/spatstat.random/man/rGaussPoisson.Rd | 8 spatstat.random-3.3-1/spatstat.random/man/rMaternI.Rd | 10 spatstat.random-3.3-1/spatstat.random/man/rMaternII.Rd | 10 spatstat.random-3.3-1/spatstat.random/man/rMosaicField.Rd | 2 spatstat.random-3.3-1/spatstat.random/man/rPoissonCluster.Rd | 6 spatstat.random-3.3-1/spatstat.random/man/rSSI.Rd | 2 spatstat.random-3.3-1/spatstat.random/man/rStrauss.Rd | 2 spatstat.random-3.3-1/spatstat.random/man/rcell.Rd | 2 spatstat.random-3.3-1/spatstat.random/man/rclusterBKBC.Rd | 4 spatstat.random-3.3-1/spatstat.random/man/rlabel.Rd | 6 spatstat.random-3.3-1/spatstat.random/man/rmh.default.Rd | 10 spatstat.random-3.3-1/spatstat.random/man/rmhcontrol.Rd | 8 spatstat.random-3.3-1/spatstat.random/man/rmhexpand.Rd | 8 spatstat.random-3.3-1/spatstat.random/man/rmhmodel.default.Rd | 4 spatstat.random-3.3-1/spatstat.random/man/rmhstart.Rd | 2 spatstat.random-3.3-1/spatstat.random/man/rmpoint.Rd | 7 spatstat.random-3.3-1/spatstat.random/man/rmpoispp.Rd | 9 spatstat.random-3.3-1/spatstat.random/man/rnoise.Rd | 10 spatstat.random-3.3-1/spatstat.random/man/rpoint.Rd | 9 spatstat.random-3.3-1/spatstat.random/man/rpoisline.Rd | 4 spatstat.random-3.3-1/spatstat.random/man/rpoislinetess.Rd | 10 spatstat.random-3.3-1/spatstat.random/man/rpoispp.Rd | 11 spatstat.random-3.3-1/spatstat.random/man/rpoispp3.Rd | 12 - spatstat.random-3.3-1/spatstat.random/man/rpoisppOnLines.Rd | 4 spatstat.random-3.3-1/spatstat.random/man/rpoisppx.Rd | 12 - spatstat.random-3.3-1/spatstat.random/man/rshift.Rd | 10 spatstat.random-3.3-1/spatstat.random/man/rshift.ppp.Rd | 4 spatstat.random-3.3-1/spatstat.random/man/rshift.splitppp.Rd | 2 spatstat.random-3.3-1/spatstat.random/man/rstrat.Rd | 18 - spatstat.random-3.3-1/spatstat.random/man/rthinclumps.Rd | 10 spatstat.random-3.3-1/spatstat.random/man/runifdisc.Rd | 14 - spatstat.random-3.3-1/spatstat.random/man/runifpoint.Rd | 12 - spatstat.random-3.3-1/spatstat.random/man/runifpoint3.Rd | 12 - spatstat.random-3.3-1/spatstat.random/man/runifpointOnLines.Rd | 6 spatstat.random-3.3-1/spatstat.random/man/runifpointx.Rd | 12 - spatstat.random-3.3-1/spatstat.random/man/spatstat.random-internal.Rd | 1 spatstat.random-3.3-1/spatstat.random/src/Perfect.cc | 5 60 files changed, 359 insertions(+), 345 deletions(-)
More information about spatstat.random at CRAN
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Title: Parametric Statistical Modelling and Inference for the
'spatstat' Family
Description: Functionality for parametric statistical modelling and inference for spatial data,
mainly spatial point patterns, in the 'spatstat' family of packages.
(Excludes analysis of spatial data on a linear network,
which is covered by the separate package 'spatstat.linnet'.)
Supports parametric modelling, formal statistical inference, and model validation.
Parametric models include Poisson point processes, Cox point processes, Neyman-Scott cluster processes, Gibbs point processes and determinantal point processes. Models can be fitted to data using maximum likelihood, maximum pseudolikelihood, maximum composite likelihood and the method of minimum contrast. Fitted models can be simulated and predicted. Formal inference includes hypothesis tests (quadrat counting tests, Cressie-Read tests, Clark-Evans test, Berman test, Diggle-Cressie-Loosmore-Ford test, scan test, studentised permutation test, segregation test, ANOVA tests of fitted models, adjusted composite likelihood ratio test, envelope t [...truncated...]
Author: Adrian Baddeley [aut, cre, cph]
,
Rolf Turner [aut, cph] ,
Ege Rubak [aut, cph] ,
Kasper Klitgaard Berthelsen [ctb],
Achmad Choiruddin [ctb, cph],
Jean-Francois Coeurjolly [ctb],
Ottmar Cronie [ctb],
Tilman Davies [ctb],
Julian Gilbey [ctb],
Yongtao [...truncated...]
Maintainer: Adrian Baddeley <Adrian.Baddeley@curtin.edu.au>
Diff between spatstat.model versions 3.2-11 dated 2024-03-22 and 3.3-1 dated 2024-07-15
DESCRIPTION | 19 +-- MD5 | 251 ++++++++++++++++++++--------------------- NAMESPACE | 5 NEWS | 45 +++++++ R/evidence.R | 4 R/logistic.R | 11 + R/measures.R | 6 R/mpl.R | 13 +- R/ppm.R | 7 - R/predict.ppm.R | 56 +++------ R/response.R | 2 R/slrm.R | 28 +++- R/sysdata.rda |binary inst/doc/packagesizes.txt | 1 inst/info |only man/AreaInter.Rd | 4 man/DiggleGatesStibbard.Rd | 2 man/Extract.influence.ppm.Rd | 2 man/Extract.leverage.ppm.Rd | 6 man/Gcom.Rd | 10 - man/Gres.Rd | 4 man/Kcom.Rd | 10 - man/Kmodel.Rd | 9 - man/Kmodel.kppm.Rd | 2 man/Kmodel.ppm.Rd | 2 man/Kres.Rd | 4 man/MultiHard.Rd | 2 man/Smooth.msr.Rd | 4 man/Window.ppm.Rd | 12 - man/addvar.Rd | 4 man/anova.ppm.Rd | 4 man/as.fv.kppm.Rd | 6 man/as.layered.msr.Rd | 6 man/as.owin.ppm.Rd | 8 - man/auc.Rd | 6 man/berman.test.Rd | 8 - man/cauchy.estK.Rd | 12 - man/cauchy.estpcf.Rd | 14 +- man/cdf.test.Rd | 10 - man/cdf.test.mppm.Rd | 14 +- man/closepaircounts.Rd | 2 man/clusterfit.Rd | 8 - man/clusterkernel.kppm.Rd | 2 man/clusterradius.kppm.Rd | 2 man/compareFit.Rd | 4 man/data.ppm.Rd | 2 man/detpointprocfamilyfun.Rd | 4 man/dfbetas.ppm.Rd | 2 man/diagnose.ppm.Rd | 2 man/domain.ppm.Rd | 4 man/dppm.Rd | 16 +- man/dummy.ppm.Rd | 2 man/effectfun.Rd | 2 man/emend.ppm.Rd | 2 man/emend.slrm.Rd | 2 man/envelope.Rd | 60 ++++----- man/fitted.slrm.Rd | 36 +++++ man/formula.ppm.Rd | 2 man/harmonise.msr.Rd | 4 man/improve.kppm.Rd | 2 man/influence.ppm.Rd | 5 man/intensity.ppm.Rd | 6 man/intensity.slrm.Rd | 4 man/is.marked.ppm.Rd | 4 man/is.multitype.ppm.Rd | 4 man/is.stationary.ppm.Rd | 10 - man/kppm.Rd | 26 ++-- man/leverage.ppm.Rd | 7 - man/lgcp.estK.Rd | 6 man/lgcp.estpcf.Rd | 8 - man/logLik.ppm.Rd | 2 man/matclust.estK.Rd | 10 - man/matclust.estpcf.Rd | 12 - man/methods.fii.Rd | 4 man/mincontrast.Rd | 4 man/model.images.Rd | 12 - man/mppm.Rd | 10 - man/msr.Rd | 2 man/panel.contour.Rd | 10 - man/parres.Rd | 4 man/plot.dppm.Rd | 5 man/plot.influence.ppm.Rd | 2 man/plot.kppm.Rd | 11 - man/plot.leverage.ppm.Rd | 16 +- man/plot.mppm.Rd | 6 man/plot.msr.Rd | 16 +- man/plot.plotppm.Rd | 7 - man/plot.ppm.Rd | 6 man/plot.rppm.Rd | 6 man/plot.slrm.Rd | 4 man/ppm.Rd | 6 man/ppm.object.Rd | 26 ++-- man/ppm.ppp.Rd | 45 ++++--- man/predict.mppm.Rd | 4 man/predict.ppm.Rd | 8 - man/predict.slrm.Rd | 2 man/psst.Rd | 4 man/psstA.Rd | 8 - man/psstG.Rd | 4 man/qqplot.ppm.Rd | 18 +- man/quad.ppm.Rd | 4 man/quadrat.test.Rd | 18 +- man/quadrat.test.mppm.Rd | 4 man/reach.Rd | 2 man/relrisk.ppm.Rd | 8 - man/residuals.ppm.Rd | 4 man/rhohat.Rd | 10 - man/rmh.ppm.Rd | 54 ++++---- man/rmhmodel.ppm.Rd | 20 +-- man/roc.Rd | 6 man/simulate.dppm.Rd | 2 man/simulate.kppm.Rd | 20 +-- man/simulate.ppm.Rd | 10 - man/simulate.slrm.Rd | 7 - man/slrm.Rd | 2 man/spatstat.model-internal.Rd | 10 + man/spatstat.model-package.Rd | 5 man/split.msr.Rd | 8 - man/thomas.estK.Rd | 10 - man/thomas.estpcf.Rd | 14 +- man/unitname.Rd | 10 - man/unstack.msr.Rd | 2 man/varcount.Rd | 2 man/vargamma.estK.Rd | 12 - man/vargamma.estpcf.Rd | 14 +- man/vcov.ppm.Rd | 2 tests/testsP2.R | 9 + 127 files changed, 759 insertions(+), 637 deletions(-)
More information about spatstat.model at CRAN
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Title: Linear Networks Functionality of the 'spatstat' Family
Description: Defines types of spatial data on a linear network
and provides functionality for geometrical operations,
data analysis and modelling of data on a linear network,
in the 'spatstat' family of packages.
Contains definitions and support for linear networks, including creation of networks, geometrical measurements, topological connectivity, geometrical operations such as inserting and deleting vertices, intersecting a network with another object, and interactive editing of networks.
Data types defined on a network include point patterns, pixel images, functions, and tessellations.
Exploratory methods include kernel estimation of intensity on a network, K-functions and pair correlation functions on a network, simulation envelopes, nearest neighbour distance and empty space distance, relative risk estimation with cross-validated bandwidth selection. Formal hypothesis tests of random pattern (chi-squared, Kolmogorov-Smirnov, Monte Carlo, Diggle-Cressie-Loosmore-Ford, Dao-Genton, two-stage Mont [...truncated...]
Author: Adrian Baddeley [aut, cre, cph]
,
Rolf Turner [aut, cph] ,
Ege Rubak [aut, cph] ,
Greg McSwiggan [aut, cph],
Tilman Davies [ctb, cph],
Mehdi Moradi [ctb, cph],
Suman Rakshit [ctb, cph],
Ottmar Cronie [ctb]
Maintainer: Adrian Baddeley <Adrian.Baddeley@curtin.edu.au>
Diff between spatstat.linnet versions 3.1-5 dated 2024-03-25 and 3.2-1 dated 2024-07-15
DESCRIPTION | 18 +-- MD5 | 179 ++++++++++++++++----------------- NAMESPACE | 18 +++ NEWS | 36 ++++++ R/density.lpp.R | 2 R/densityfunlpp.R | 4 R/evaluateNetCovariate.R |only R/evidencelppm.R | 206 +++++++++++++++++++++++++++++++++++++- R/exactlppm.R |only R/linnet.R | 10 + R/linnetsurgery.R | 82 +++++++++------ R/lpp.R | 5 R/relrisk.lpp.R | 6 - inst/doc/packagesizes.txt | 2 inst/info |only man/Extract.linim.Rd | 6 + man/Extract.lpp.Rd | 2 man/Replace.linim.Rd | 6 - man/Smooth.lpp.Rd | 4 man/affine.linnet.Rd | 22 ++-- man/affine.lpp.Rd | 22 ++-- man/as.linim.Rd | 8 - man/as.linnet.psp.Rd | 4 man/auc.lpp.Rd | 4 man/berman.test.lpp.Rd | 4 man/bw.lppl.Rd | 4 man/cdf.test.lpp.Rd | 4 man/chop.linnet.Rd | 6 - man/clickjoin.Rd | 4 man/clicklpp.Rd | 8 - man/crossdist.lpp.Rd | 10 - man/crossing.linnet.Rd | 2 man/data.lppm.Rd | 2 man/delaunayNetwork.Rd | 10 - man/density.lpp.Rd | 4 man/densityEqualSplit.Rd | 6 - man/densityHeat.lpp.Rd | 8 - man/densityQuick.lpp.Rd | 6 - man/densityVoronoi.lpp.Rd | 4 man/diameter.linnet.Rd | 6 - man/distfun.lpp.Rd | 2 man/distmap.lpp.Rd | 4 man/envelope.lpp.Rd | 8 - man/eval.linim.Rd | 2 man/fitted.lppm.Rd | 12 -- man/heatkernelapprox.Rd | 2 man/integral.linim.Rd | 2 man/intensity.lpp.Rd | 9 - man/linearK.Rd | 2 man/linearKEuclidInhom.Rd | 4 man/linearKcross.Rd | 4 man/linearKcross.inhom.Rd | 4 man/linearKdot.Rd | 6 - man/linearKdot.inhom.Rd | 4 man/linearKinhom.Rd | 4 man/linearmarkconnect.Rd | 6 - man/linearmarkequal.Rd | 4 man/linearpcfEuclidInhom.Rd | 4 man/linearpcfcross.Rd | 6 - man/linearpcfcross.inhom.Rd | 6 - man/linearpcfdot.Rd | 8 - man/linearpcfdot.inhom.Rd | 8 - man/linearpcfinhom.Rd | 4 man/lineartileindex.Rd | 2 man/linim.Rd | 2 man/lpp.Rd | 4 man/lppm.Rd | 8 - man/mean.linim.Rd | 6 - man/methods.linfun.Rd | 4 man/methods.linim.Rd | 8 - man/methods.linnet.Rd | 44 ++++---- man/model.frame.lppm.Rd | 2 man/nnfun.lpp.Rd | 2 man/pairs.linim.Rd | 2 man/plot.linim.Rd | 14 +- man/plot.linnet.Rd | 4 man/plot.lintess.Rd | 8 - man/plot.lpp.Rd | 16 +- man/points.lpp.Rd | 2 man/predict.lppm.Rd | 2 man/rThomaslpp.Rd | 2 man/rcelllpp.Rd | 2 man/relrisk.lpp.Rd | 4 man/roc.lpp.Rd | 2 man/rpoislpp.Rd | 8 - man/runiflpp.Rd | 2 man/spatstat.linnet-deprecated.Rd | 1 man/spatstat.linnet-internal.Rd | 23 ++++ man/spatstat.linnet-package.Rd | 9 + man/superimpose.lpp.Rd | 4 man/thinNetwork.Rd | 9 + tests/testsL.R | 9 + 92 files changed, 692 insertions(+), 362 deletions(-)
More information about spatstat.linnet at CRAN
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Title: Geometrical Functionality of the 'spatstat' Family
Description: Defines spatial data types and supports geometrical operations
on them. Data types include point patterns, windows (domains),
pixel images, line segment patterns, tessellations and hyperframes.
Capabilities include creation and manipulation of data
(using command line or graphical interaction),
plotting, geometrical operations (rotation, shift, rescale,
affine transformation), convex hull, discretisation and
pixellation, Dirichlet tessellation, Delaunay triangulation,
pairwise distances, nearest-neighbour distances,
distance transform, morphological operations
(erosion, dilation, closing, opening), quadrat counting,
geometrical measurement, geometrical covariance,
colour maps, calculus on spatial domains,
Gaussian blur, level sets of images, transects of images,
intersections between objects, minimum distance matching.
(Excludes spatial data on a network, which are supported by
the package 'spatstat.linnet'.)
Author: Adrian Baddeley [aut, cre, cph]
,
Rolf Turner [aut, cph] ,
Ege Rubak [aut, cph] ,
Tilman Davies [ctb],
Ute Hahn [ctb],
Abdollah Jalilian [ctb],
Greg McSwiggan [ctb, cph],
Sebastian Meyer [ctb, cph],
Jens Oehlschlaegel [ctb, cph],
Suman Rakshit [ctb], [...truncated...]
Maintainer: Adrian Baddeley <Adrian.Baddeley@curtin.edu.au>
Diff between spatstat.geom versions 3.2-9 dated 2024-02-28 and 3.3-2 dated 2024-07-15
spatstat.geom-3.2-9/spatstat.geom/R/breakpts.R |only spatstat.geom-3.2-9/spatstat.geom/R/ewcdf.R |only spatstat.geom-3.2-9/spatstat.geom/R/hotrod.R |only spatstat.geom-3.2-9/spatstat.geom/R/integral.R |only spatstat.geom-3.2-9/spatstat.geom/R/transformquantiles.R |only spatstat.geom-3.2-9/spatstat.geom/R/uniquemap.R |only spatstat.geom-3.2-9/spatstat.geom/R/unnormdensity.R |only spatstat.geom-3.2-9/spatstat.geom/R/weightedStats.R |only spatstat.geom-3.2-9/spatstat.geom/man/ewcdf.Rd |only spatstat.geom-3.2-9/spatstat.geom/man/hotrod.Rd |only spatstat.geom-3.2-9/spatstat.geom/man/integral.Rd |only spatstat.geom-3.2-9/spatstat.geom/man/integral.density.Rd |only spatstat.geom-3.2-9/spatstat.geom/man/mean.ewcdf.Rd |only spatstat.geom-3.2-9/spatstat.geom/man/quantile.ewcdf.Rd |only spatstat.geom-3.2-9/spatstat.geom/man/quantilefun.Rd |only spatstat.geom-3.2-9/spatstat.geom/man/rounding.Rd |only spatstat.geom-3.2-9/spatstat.geom/man/transformquantiles.Rd |only spatstat.geom-3.2-9/spatstat.geom/man/uniquemap.default.Rd |only spatstat.geom-3.2-9/spatstat.geom/man/unnormdensity.Rd |only spatstat.geom-3.2-9/spatstat.geom/man/weighted.median.Rd |only spatstat.geom-3.2-9/spatstat.geom/man/whist.Rd |only spatstat.geom-3.2-9/spatstat.geom/src/hotrod.c |only spatstat.geom-3.2-9/spatstat.geom/src/tabnum.c |only spatstat.geom-3.2-9/spatstat.geom/src/whist.c |only spatstat.geom-3.3-2/spatstat.geom/DESCRIPTION | 14 spatstat.geom-3.3-2/spatstat.geom/MD5 | 203 +-- spatstat.geom-3.3-2/spatstat.geom/NAMESPACE | 56 spatstat.geom-3.3-2/spatstat.geom/NEWS | 143 ++ spatstat.geom-3.3-2/spatstat.geom/R/affine.R | 9 spatstat.geom-3.3-2/spatstat.geom/R/colourtables.R | 28 spatstat.geom-3.3-2/spatstat.geom/R/diagram.R | 32 spatstat.geom-3.3-2/spatstat.geom/R/plot.owin.R | 21 spatstat.geom-3.3-2/spatstat.geom/R/plot.ppp.R | 622 +++++----- spatstat.geom-3.3-2/spatstat.geom/R/ppp.R | 18 spatstat.geom-3.3-2/spatstat.geom/R/ppx.R | 4 spatstat.geom-3.3-2/spatstat.geom/R/psp.R | 38 spatstat.geom-3.3-2/spatstat.geom/R/randombasic.R | 6 spatstat.geom-3.3-2/spatstat.geom/R/round.R | 30 spatstat.geom-3.3-2/spatstat.geom/R/simplepanel.R | 22 spatstat.geom-3.3-2/spatstat.geom/R/solist.R | 8 spatstat.geom-3.3-2/spatstat.geom/R/symbolmap.R | 112 + spatstat.geom-3.3-2/spatstat.geom/R/tess.R | 4 spatstat.geom-3.3-2/spatstat.geom/R/unique.ppp.R | 22 spatstat.geom-3.3-2/spatstat.geom/R/uniquemap.ppp.R |only spatstat.geom-3.3-2/spatstat.geom/inst/doc/packagesizes.txt | 2 spatstat.geom-3.3-2/spatstat.geom/inst/info |only spatstat.geom-3.3-2/spatstat.geom/man/Window.tess.Rd | 12 spatstat.geom-3.3-2/spatstat.geom/man/affine.im.Rd | 2 spatstat.geom-3.3-2/spatstat.geom/man/affine.owin.Rd | 2 spatstat.geom-3.3-2/spatstat.geom/man/as.im.Rd | 4 spatstat.geom-3.3-2/spatstat.geom/man/as.matrix.owin.Rd | 4 spatstat.geom-3.3-2/spatstat.geom/man/as.polygonal.Rd | 2 spatstat.geom-3.3-2/spatstat.geom/man/bdist.pixels.Rd | 4 spatstat.geom-3.3-2/spatstat.geom/man/boundingcircle.Rd | 2 spatstat.geom-3.3-2/spatstat.geom/man/bufftess.Rd | 4 spatstat.geom-3.3-2/spatstat.geom/man/closing.Rd | 2 spatstat.geom-3.3-2/spatstat.geom/man/commonGrid.Rd | 6 spatstat.geom-3.3-2/spatstat.geom/man/connected.Rd | 2 spatstat.geom-3.3-2/spatstat.geom/man/connected.tess.Rd | 2 spatstat.geom-3.3-2/spatstat.geom/man/covering.Rd | 2 spatstat.geom-3.3-2/spatstat.geom/man/default.symbolmap.Rd |only spatstat.geom-3.3-2/spatstat.geom/man/default.symbolmap.ppp.Rd |only spatstat.geom-3.3-2/spatstat.geom/man/deltametric.Rd | 4 spatstat.geom-3.3-2/spatstat.geom/man/dilation.Rd | 4 spatstat.geom-3.3-2/spatstat.geom/man/disc.Rd | 4 spatstat.geom-3.3-2/spatstat.geom/man/discretise.Rd | 8 spatstat.geom-3.3-2/spatstat.geom/man/discs.Rd | 2 spatstat.geom-3.3-2/spatstat.geom/man/distmap.Rd | 2 spatstat.geom-3.3-2/spatstat.geom/man/distmap.owin.Rd | 4 spatstat.geom-3.3-2/spatstat.geom/man/distmap.ppp.Rd | 2 spatstat.geom-3.3-2/spatstat.geom/man/distmap.psp.Rd | 2 spatstat.geom-3.3-2/spatstat.geom/man/domain.Rd | 4 spatstat.geom-3.3-2/spatstat.geom/man/ellipse.Rd | 6 spatstat.geom-3.3-2/spatstat.geom/man/erosion.Rd | 4 spatstat.geom-3.3-2/spatstat.geom/man/fardist.Rd | 2 spatstat.geom-3.3-2/spatstat.geom/man/framedist.pixels.Rd | 4 spatstat.geom-3.3-2/spatstat.geom/man/gridweights.Rd | 2 spatstat.geom-3.3-2/spatstat.geom/man/integral.im.Rd | 4 spatstat.geom-3.3-2/spatstat.geom/man/intensity.quadratcount.Rd | 2 spatstat.geom-3.3-2/spatstat.geom/man/intersect.owin.Rd | 6 spatstat.geom-3.3-2/spatstat.geom/man/intersect.tess.Rd | 2 spatstat.geom-3.3-2/spatstat.geom/man/is.subset.owin.Rd | 4 spatstat.geom-3.3-2/spatstat.geom/man/layout.boxes.Rd | 24 spatstat.geom-3.3-2/spatstat.geom/man/nearest.raster.point.Rd | 2 spatstat.geom-3.3-2/spatstat.geom/man/nnmap.Rd | 2 spatstat.geom-3.3-2/spatstat.geom/man/nnmark.Rd | 4 spatstat.geom-3.3-2/spatstat.geom/man/opening.Rd | 2 spatstat.geom-3.3-2/spatstat.geom/man/owin.object.Rd | 4 spatstat.geom-3.3-2/spatstat.geom/man/owin2mask.Rd | 10 spatstat.geom-3.3-2/spatstat.geom/man/pixelcentres.Rd | 2 spatstat.geom-3.3-2/spatstat.geom/man/pixellate.owin.Rd | 2 spatstat.geom-3.3-2/spatstat.geom/man/pixellate.ppp.Rd | 6 spatstat.geom-3.3-2/spatstat.geom/man/pixellate.psp.Rd | 8 spatstat.geom-3.3-2/spatstat.geom/man/pixelquad.Rd | 2 spatstat.geom-3.3-2/spatstat.geom/man/plot.colourmap.Rd | 20 spatstat.geom-3.3-2/spatstat.geom/man/plot.owin.Rd | 10 spatstat.geom-3.3-2/spatstat.geom/man/plot.ppp.Rd | 17 spatstat.geom-3.3-2/spatstat.geom/man/plot.tess.Rd | 14 spatstat.geom-3.3-2/spatstat.geom/man/plot.texturemap.Rd | 2 spatstat.geom-3.3-2/spatstat.geom/man/project2set.Rd | 4 spatstat.geom-3.3-2/spatstat.geom/man/psp2mask.Rd | 8 spatstat.geom-3.3-2/spatstat.geom/man/quantilefun.im.Rd | 7 spatstat.geom-3.3-2/spatstat.geom/man/raster.x.Rd | 2 spatstat.geom-3.3-2/spatstat.geom/man/rotate.owin.Rd | 2 spatstat.geom-3.3-2/spatstat.geom/man/round.ppp.Rd | 5 spatstat.geom-3.3-2/spatstat.geom/man/rounding.ppp.Rd |only spatstat.geom-3.3-2/spatstat.geom/man/setcov.Rd | 2 spatstat.geom-3.3-2/spatstat.geom/man/spatstat.geom-deprecated.Rd | 1 spatstat.geom-3.3-2/spatstat.geom/man/spatstat.geom-internal.Rd | 69 - spatstat.geom-3.3-2/spatstat.geom/man/spatstat.geom-package.Rd | 4 spatstat.geom-3.3-2/spatstat.geom/man/summary.distfun.Rd | 4 spatstat.geom-3.3-2/spatstat.geom/man/uniquemap.ppp.Rd | 9 spatstat.geom-3.3-2/spatstat.geom/src/init.c | 4 spatstat.geom-3.3-2/spatstat.geom/src/proto.h | 4 spatstat.geom-3.3-2/spatstat.geom/tests/testsD.R | 23 spatstat.geom-3.3-2/spatstat.geom/tests/testsS.R | 13 spatstat.geom-3.3-2/spatstat.geom/tests/testsUtoZ.R | 25 117 files changed, 1048 insertions(+), 785 deletions(-)
Title: Exploratory Data Analysis for the 'spatstat' Family
Description: Functionality for exploratory data analysis and nonparametric analysis of
spatial data, mainly spatial point patterns,
in the 'spatstat' family of packages.
(Excludes analysis of spatial data on a linear network,
which is covered by the separate package 'spatstat.linnet'.)
Methods include quadrat counts, K-functions and their simulation envelopes, nearest neighbour distance and empty space statistics, Fry plots, pair correlation function, kernel smoothed intensity, relative risk estimation with cross-validated bandwidth selection, mark correlation functions, segregation indices, mark dependence diagnostics, and kernel estimates of covariate effects. Formal hypothesis tests of random pattern (chi-squared, Kolmogorov-Smirnov, Monte Carlo, Diggle-Cressie-Loosmore-Ford, Dao-Genton, two-stage Monte Carlo) and tests for covariate effects (Cox-Berman-Waller-Lawson, Kolmogorov-Smirnov, ANOVA) are also supported.
Author: Adrian Baddeley [aut, cre, cph]
,
Rolf Turner [aut, cph] ,
Ege Rubak [aut, cph] ,
Kasper Klitgaard Berthelsen [ctb],
Warick Brown [cph],
Achmad Choiruddin [ctb],
Jean-Francois Coeurjolly [ctb],
Ottmar Cronie [ctb],
Tilman Davies [ctb, cph],
Julian Gi [...truncated...]
Maintainer: Adrian Baddeley <Adrian.Baddeley@curtin.edu.au>
Diff between spatstat.explore versions 3.2-7 dated 2024-03-21 and 3.3-1 dated 2024-07-15
spatstat.explore-3.2-7/spatstat.explore/R/bw.abram.R |only spatstat.explore-3.2-7/spatstat.explore/R/densityAdaptiveKernel.R |only spatstat.explore-3.2-7/spatstat.explore/R/kernels.R |only spatstat.explore-3.2-7/spatstat.explore/R/kmrs.R |only spatstat.explore-3.2-7/spatstat.explore/R/quantiledensity.R |only spatstat.explore-3.2-7/spatstat.explore/R/stieltjes.R |only spatstat.explore-3.2-7/spatstat.explore/man/CDF.Rd |only spatstat.explore-3.2-7/spatstat.explore/man/bw.abram.Rd |only spatstat.explore-3.2-7/spatstat.explore/man/densityAdaptiveKernel.Rd |only spatstat.explore-3.2-7/spatstat.explore/man/dkernel.Rd |only spatstat.explore-3.2-7/spatstat.explore/man/kaplan.meier.Rd |only spatstat.explore-3.2-7/spatstat.explore/man/kernel.factor.Rd |only spatstat.explore-3.2-7/spatstat.explore/man/kernel.moment.Rd |only spatstat.explore-3.2-7/spatstat.explore/man/kernel.squint.Rd |only spatstat.explore-3.2-7/spatstat.explore/man/km.rs.Rd |only spatstat.explore-3.2-7/spatstat.explore/man/quantile.density.Rd |only spatstat.explore-3.2-7/spatstat.explore/man/reduced.sample.Rd |only spatstat.explore-3.2-7/spatstat.explore/man/stieltjes.Rd |only spatstat.explore-3.3-1/spatstat.explore/DESCRIPTION | 20 spatstat.explore-3.3-1/spatstat.explore/MD5 | 280 ++++------ spatstat.explore-3.3-1/spatstat.explore/NAMESPACE | 26 spatstat.explore-3.3-1/spatstat.explore/NEWS | 62 ++ spatstat.explore-3.3-1/spatstat.explore/R/Kinhom.R | 6 spatstat.explore-3.3-1/spatstat.explore/R/bw.abram.ppp.R |only spatstat.explore-3.3-1/spatstat.explore/R/bw.ppl.R | 5 spatstat.explore-3.3-1/spatstat.explore/R/densityAdaptiveKernel.ppp.R |only spatstat.explore-3.3-1/spatstat.explore/R/edgeTrans.R | 6 spatstat.explore-3.3-1/spatstat.explore/R/evidence.R | 31 - spatstat.explore-3.3-1/spatstat.explore/R/fv.R | 39 + spatstat.explore-3.3-1/spatstat.explore/R/smooth.ppp.R | 5 spatstat.explore-3.3-1/spatstat.explore/R/spatialQuantile.R | 2 spatstat.explore-3.3-1/spatstat.explore/R/sysdata.rda |binary spatstat.explore-3.3-1/spatstat.explore/inst/doc/packagesizes.txt | 1 spatstat.explore-3.3-1/spatstat.explore/inst/info |only spatstat.explore-3.3-1/spatstat.explore/man/Emark.Rd | 4 spatstat.explore-3.3-1/spatstat.explore/man/F3est.Rd | 4 spatstat.explore-3.3-1/spatstat.explore/man/Fest.Rd | 14 spatstat.explore-3.3-1/spatstat.explore/man/Finhom.Rd | 4 spatstat.explore-3.3-1/spatstat.explore/man/FmultiInhom.Rd | 2 spatstat.explore-3.3-1/spatstat.explore/man/G3est.Rd | 2 spatstat.explore-3.3-1/spatstat.explore/man/Gcross.Rd | 2 spatstat.explore-3.3-1/spatstat.explore/man/Gdot.Rd | 2 spatstat.explore-3.3-1/spatstat.explore/man/Gest.Rd | 22 spatstat.explore-3.3-1/spatstat.explore/man/Gfox.Rd | 2 spatstat.explore-3.3-1/spatstat.explore/man/Ginhom.Rd | 4 spatstat.explore-3.3-1/spatstat.explore/man/Gmulti.Rd | 2 spatstat.explore-3.3-1/spatstat.explore/man/GmultiInhom.Rd | 4 spatstat.explore-3.3-1/spatstat.explore/man/Hest.Rd | 6 spatstat.explore-3.3-1/spatstat.explore/man/Iest.Rd | 6 spatstat.explore-3.3-1/spatstat.explore/man/Jcross.Rd | 2 spatstat.explore-3.3-1/spatstat.explore/man/Jdot.Rd | 2 spatstat.explore-3.3-1/spatstat.explore/man/Jest.Rd | 12 spatstat.explore-3.3-1/spatstat.explore/man/Jinhom.Rd | 2 spatstat.explore-3.3-1/spatstat.explore/man/Jmulti.Rd | 2 spatstat.explore-3.3-1/spatstat.explore/man/K3est.Rd | 2 spatstat.explore-3.3-1/spatstat.explore/man/Kcross.Rd | 2 spatstat.explore-3.3-1/spatstat.explore/man/Kcross.inhom.Rd | 2 spatstat.explore-3.3-1/spatstat.explore/man/Kdot.Rd | 2 spatstat.explore-3.3-1/spatstat.explore/man/Kdot.inhom.Rd | 2 spatstat.explore-3.3-1/spatstat.explore/man/Kest.Rd | 10 spatstat.explore-3.3-1/spatstat.explore/man/Kest.fft.Rd | 8 spatstat.explore-3.3-1/spatstat.explore/man/Kinhom.Rd | 2 spatstat.explore-3.3-1/spatstat.explore/man/Kmark.Rd | 2 spatstat.explore-3.3-1/spatstat.explore/man/Kmeasure.Rd | 14 spatstat.explore-3.3-1/spatstat.explore/man/Kmulti.Rd | 2 spatstat.explore-3.3-1/spatstat.explore/man/Kmulti.inhom.Rd | 2 spatstat.explore-3.3-1/spatstat.explore/man/Kscaled.Rd | 2 spatstat.explore-3.3-1/spatstat.explore/man/Ksector.Rd | 2 spatstat.explore-3.3-1/spatstat.explore/man/Lest.Rd | 2 spatstat.explore-3.3-1/spatstat.explore/man/Linhom.Rd | 2 spatstat.explore-3.3-1/spatstat.explore/man/Smooth.ppp.Rd | 10 spatstat.explore-3.3-1/spatstat.explore/man/Smoothfun.ppp.Rd | 2 spatstat.explore-3.3-1/spatstat.explore/man/Tstat.Rd | 7 spatstat.explore-3.3-1/spatstat.explore/man/Window.quadrattest.Rd | 12 spatstat.explore-3.3-1/spatstat.explore/man/adaptive.density.Rd | 26 spatstat.explore-3.3-1/spatstat.explore/man/allstats.Rd | 4 spatstat.explore-3.3-1/spatstat.explore/man/as.owin.quadrattest.Rd | 8 spatstat.explore-3.3-1/spatstat.explore/man/as.tess.Rd | 5 spatstat.explore-3.3-1/spatstat.explore/man/auc.Rd | 2 spatstat.explore-3.3-1/spatstat.explore/man/berman.test.Rd | 2 spatstat.explore-3.3-1/spatstat.explore/man/bind.fv.Rd | 39 + spatstat.explore-3.3-1/spatstat.explore/man/blur.Rd | 2 spatstat.explore-3.3-1/spatstat.explore/man/bw.CvL.adaptive.Rd | 6 spatstat.explore-3.3-1/spatstat.explore/man/bw.abram.ppp.Rd | 4 spatstat.explore-3.3-1/spatstat.explore/man/bw.frac.Rd | 2 spatstat.explore-3.3-1/spatstat.explore/man/cdf.test.Rd | 2 spatstat.explore-3.3-1/spatstat.explore/man/clarkevans.Rd | 2 spatstat.explore-3.3-1/spatstat.explore/man/clusterset.Rd | 2 spatstat.explore-3.3-1/spatstat.explore/man/compatible.fasp.Rd | 9 spatstat.explore-3.3-1/spatstat.explore/man/compatible.fv.Rd | 5 spatstat.explore-3.3-1/spatstat.explore/man/density.ppp.Rd | 14 spatstat.explore-3.3-1/spatstat.explore/man/density.psp.Rd | 8 spatstat.explore-3.3-1/spatstat.explore/man/density.splitppp.Rd | 8 spatstat.explore-3.3-1/spatstat.explore/man/densityAdaptiveKernel.ppp.Rd |only spatstat.explore-3.3-1/spatstat.explore/man/densityAdaptiveKernel.splitppp.Rd | 4 spatstat.explore-3.3-1/spatstat.explore/man/densityVoronoi.Rd | 8 spatstat.explore-3.3-1/spatstat.explore/man/densityfun.Rd | 4 spatstat.explore-3.3-1/spatstat.explore/man/distcdf.Rd | 14 spatstat.explore-3.3-1/spatstat.explore/man/domain.quadrattest.Rd | 4 spatstat.explore-3.3-1/spatstat.explore/man/edge.Trans.Rd | 8 spatstat.explore-3.3-1/spatstat.explore/man/envelope.Rd | 12 spatstat.explore-3.3-1/spatstat.explore/man/envelope.pp3.Rd | 4 spatstat.explore-3.3-1/spatstat.explore/man/fryplot.Rd | 2 spatstat.explore-3.3-1/spatstat.explore/man/harmonise.fv.Rd | 10 spatstat.explore-3.3-1/spatstat.explore/man/hopskel.Rd | 4 spatstat.explore-3.3-1/spatstat.explore/man/hotbox.Rd | 2 spatstat.explore-3.3-1/spatstat.explore/man/idw.Rd | 15 spatstat.explore-3.3-1/spatstat.explore/man/integral.fv.Rd | 6 spatstat.explore-3.3-1/spatstat.explore/man/laslett.Rd | 2 spatstat.explore-3.3-1/spatstat.explore/man/markconnect.Rd | 4 spatstat.explore-3.3-1/spatstat.explore/man/markcorr.Rd | 4 spatstat.explore-3.3-1/spatstat.explore/man/markcrosscorr.Rd | 12 spatstat.explore-3.3-1/spatstat.explore/man/markmarkscatter.Rd | 6 spatstat.explore-3.3-1/spatstat.explore/man/marktable.Rd | 8 spatstat.explore-3.3-1/spatstat.explore/man/markvario.Rd | 2 spatstat.explore-3.3-1/spatstat.explore/man/methods.ssf.Rd | 2 spatstat.explore-3.3-1/spatstat.explore/man/miplot.Rd | 4 spatstat.explore-3.3-1/spatstat.explore/man/nnclean.Rd | 6 spatstat.explore-3.3-1/spatstat.explore/man/nncorr.Rd | 2 spatstat.explore-3.3-1/spatstat.explore/man/nndensity.Rd | 10 spatstat.explore-3.3-1/spatstat.explore/man/pairMean.Rd | 2 spatstat.explore-3.3-1/spatstat.explore/man/pairs.im.Rd | 4 spatstat.explore-3.3-1/spatstat.explore/man/panel.contour.Rd | 4 spatstat.explore-3.3-1/spatstat.explore/man/pcf.ppp.Rd | 4 spatstat.explore-3.3-1/spatstat.explore/man/pcf3est.Rd | 2 spatstat.explore-3.3-1/spatstat.explore/man/pcfinhom.Rd | 2 spatstat.explore-3.3-1/spatstat.explore/man/plot.fv.Rd | 4 spatstat.explore-3.3-1/spatstat.explore/man/plot.laslett.Rd | 14 spatstat.explore-3.3-1/spatstat.explore/man/plot.quadrattest.Rd | 11 spatstat.explore-3.3-1/spatstat.explore/man/plot.scan.test.Rd | 2 spatstat.explore-3.3-1/spatstat.explore/man/pool.anylist.Rd | 12 spatstat.explore-3.3-1/spatstat.explore/man/quadrat.test.Rd | 12 spatstat.explore-3.3-1/spatstat.explore/man/quadrat.test.splitppp.Rd | 6 spatstat.explore-3.3-1/spatstat.explore/man/radcumint.Rd | 2 spatstat.explore-3.3-1/spatstat.explore/man/rat.Rd | 6 spatstat.explore-3.3-1/spatstat.explore/man/rectcontact.Rd | 4 spatstat.explore-3.3-1/spatstat.explore/man/relrisk.ppp.Rd | 10 spatstat.explore-3.3-1/spatstat.explore/man/rhohat.Rd | 6 spatstat.explore-3.3-1/spatstat.explore/man/roc.Rd | 2 spatstat.explore-3.3-1/spatstat.explore/man/rotmean.Rd | 2 spatstat.explore-3.3-1/spatstat.explore/man/scan.test.Rd | 2 spatstat.explore-3.3-1/spatstat.explore/man/scanLRTS.Rd | 2 spatstat.explore-3.3-1/spatstat.explore/man/segregation.test.Rd | 6 spatstat.explore-3.3-1/spatstat.explore/man/spatcov.Rd | 2 spatstat.explore-3.3-1/spatstat.explore/man/spatialcdf.Rd | 8 spatstat.explore-3.3-1/spatstat.explore/man/spatstat.explore-deprecated.Rd | 3 spatstat.explore-3.3-1/spatstat.explore/man/spatstat.explore-internal.Rd | 9 spatstat.explore-3.3-1/spatstat.explore/man/spatstat.explore-package.Rd | 2 spatstat.explore-3.3-1/spatstat.explore/man/stienen.Rd | 17 spatstat.explore-3.3-1/spatstat.explore/man/transect.im.Rd | 2 spatstat.explore-3.3-1/spatstat.explore/man/varblock.Rd | 4 spatstat.explore-3.3-1/spatstat.explore/tests/testsNtoO.R | 17 152 files changed, 598 insertions(+), 568 deletions(-)
More information about spatstat.explore at CRAN
Permanent link
Title: Spatial Point Pattern Analysis, Model-Fitting, Simulation, Tests
Description: Comprehensive open-source toolbox for analysing Spatial Point Patterns. Focused mainly on two-dimensional point patterns, including multitype/marked points, in any spatial region. Also supports three-dimensional point patterns, space-time point patterns in any number of dimensions, point patterns on a linear network, and patterns of other geometrical objects. Supports spatial covariate data such as pixel images.
Contains over 3000 functions for plotting spatial data, exploratory data analysis, model-fitting, simulation, spatial sampling, model diagnostics, and formal inference.
Data types include point patterns, line segment patterns, spatial windows, pixel images, tessellations, and linear networks.
Exploratory methods include quadrat counts, K-functions and their simulation envelopes, nearest neighbour distance and empty space statistics, Fry plots, pair correlation function, kernel smoothed intensity, relative risk estimation with cross-validated bandwidth selection, mark correlatio [...truncated...]
Author: Adrian Baddeley [aut, cre] ,
Rolf Turner [aut] ,
Ege Rubak [aut]
Maintainer: Adrian Baddeley <Adrian.Baddeley@curtin.edu.au>
Diff between spatstat versions 3.0-8 dated 2024-03-26 and 3.1-1 dated 2024-07-15
DESCRIPTION | 18 ++--- MD5 | 49 +++++++------ NAMESPACE | 1 NEWS | 29 ++++++++ R/news.R | 11 ++- build/vignette.rds |binary inst/doc/bugfixes.Rnw | 26 ++++++- inst/doc/bugfixes.pdf |binary inst/doc/datasets.pdf |binary inst/doc/fv.pdf |binary inst/doc/getstart.pdf |binary inst/doc/packagesizes.txt | 1 inst/doc/replicated.pdf |binary inst/doc/shapefiles.pdf |binary inst/doc/spatstatKnetsize.txt | 2 inst/doc/spatstatguisize.txt | 2 inst/doc/spatstatlocalsize.txt | 3 inst/doc/updates.R | 22 ++++-- inst/doc/updates.Rnw | 146 +++++++++++++++++++++++++++++++++-------- inst/doc/updates.pdf |binary inst/info |only man/spatstat-internal.Rd | 1 man/spatstat-package.Rd | 2 man/spatstat.family.Rd | 1 vignettes/bugfixes.Rnw | 26 ++++++- vignettes/updates.Rnw | 146 +++++++++++++++++++++++++++++++++-------- 26 files changed, 386 insertions(+), 100 deletions(-)
Title: Comparing and Visualizing Differences Between Surveys
Description: Easily analyze and visualize differences between samples (e.g., benchmark comparisons, nonresponse comparisons in surveys) on three levels. The comparisons can be univariate, bivariate or multivariate. On univariate level the variables of interest of a survey and a comparison survey (i.e. benchmark) are compared, by calculating one of several difference measures (e.g., relative difference in mean), and an average difference between the surveys. On bivariate level a function can calculate significant differences in correlations for the surveys. And on multivariate levels a function can calculate significant differences in model coefficients between the surveys of comparison. All of those differences can be easily plotted and outputted as a table. For more detailed information on the methods and example use see Rohr, B., Silber, H., & Felderer, B. (2024). „Comparing the Accuracy of Univariate, Bivariate, and Multivariate Estimates across Probability and Non-Probability Surveys with [...truncated...]
Author: Bjoern Rohr [aut, cre, cph],
Barbara Felderer [aut]
Maintainer: Bjoern Rohr <bjoern.rohr@gesis.org>
Diff between sampcompR versions 0.2.0 dated 2024-07-12 and 0.2.1 dated 2024-07-15
DESCRIPTION | 13 - MD5 | 13 - NAMESPACE | 2 NEWS.md | 11 + R/Output_Tables.R | 378 ++++++++++++++++++++++++++++++++++++++++++++++ README.md | 6 man/biv_per_variable.Rd |only man/figures/logo.png |only man/multi_per_variable.Rd |only 9 files changed, 409 insertions(+), 14 deletions(-)
Title: Lining Up Two Sets of Measurements
Description: Tools for detecting and correcting sample mix-ups between two sets
of measurements, such as between gene expression data on two tissues.
Broman et al. (2015) <doi:10.1534/g3.115.019778>.
Author: Karl W Broman [aut, cre]
Maintainer: Karl W Broman <broman@wisc.edu>
Diff between lineup versions 0.42 dated 2022-07-10 and 0.44 dated 2024-07-15
DESCRIPTION | 10 - MD5 | 26 +-- NEWS.md | 10 + R/calc.locallod.R | 4 README.md | 3 build/vignette.rds |binary data/expr1.rda |binary data/expr2.rda |binary data/f2cross.rda |binary data/genepos.rda |binary data/pmap.rda |binary inst/CITATION | 16 +- inst/doc/lineup.html | 359 ++++++++++++++++----------------------------------- man/calc.locallod.Rd | 4 14 files changed, 157 insertions(+), 275 deletions(-)
Title: Structured Learning in Time-Dependent Cox Models
Description: Efficient procedures for fitting and cross-validating the structurally-regularized time-dependent Cox models.
Author: Yi Lian [aut, cre],
Guanbo Wang [aut],
Archer Y. Yang [aut],
Mireille E. Schnitzer [aut],
Robert W. Platt [aut],
Rui Wang [aut],
Marc Dorais [aut],
Sylvie Perreault [aut],
Julien Mairal [ctb],
Yuansi Chen [ctb]
Maintainer: Yi Lian <yi.lian@mail.mcgill.ca>
Diff between sox versions 1.1 dated 2023-12-11 and 1.2 dated 2024-07-15
DESCRIPTION | 10 +++++----- MD5 | 12 ++++++------ inst/include/dictLearn/dicts.h | 2 +- inst/include/linalg/linalg.h | 4 ++-- inst/include/prox/fista.h | 24 ++++++++++++------------ man/sox-package.Rd | 1 - tests/testthat/test-sox.R | 1 + 7 files changed, 27 insertions(+), 27 deletions(-)
Title: Common Computational Operations Working with RefSeq Entries
(GenBank)
Description: Fetches NCBI data (RefSeq <https://www.ncbi.nlm.nih.gov/refseq/> database) and provides an environment to
extract information at the level of gene, mRNA or protein accessions.
Author: Jose V. Die [aut, cre] ,
Lluis Revilla Sancho [ctb]
Maintainer: Jose V. Die <jose.die@uco.es>
Diff between refseqR versions 1.0.2 dated 2024-05-22 and 1.1.2 dated 2024-07-15
refseqR-1.0.2/refseqR/R/refseq_XMfromXP.R |only refseqR-1.0.2/refseqR/R/refseq_XPfromXM.R |only refseqR-1.0.2/refseqR/R/refseq_XPlength.R |only refseqR-1.0.2/refseqR/R/refseq_fromXM.R |only refseqR-1.0.2/refseqR/R/refseq_geneSymbol.R |only refseqR-1.0.2/refseqR/R/refseq_mol_wt.R |only refseqR-1.0.2/refseqR/man/refseq_XMfromXP.Rd |only refseqR-1.0.2/refseqR/man/refseq_XPfromXM.Rd |only refseqR-1.0.2/refseqR/man/refseq_XPlength.Rd |only refseqR-1.0.2/refseqR/man/refseq_fromXM.Rd |only refseqR-1.0.2/refseqR/man/refseq_geneSymbol.Rd |only refseqR-1.0.2/refseqR/man/refseq_mol_wt.Rd |only refseqR-1.1.2/refseqR/DESCRIPTION | 6 - refseqR-1.1.2/refseqR/LICENSE | 2 refseqR-1.1.2/refseqR/MD5 | 65 +++++++------ refseqR-1.1.2/refseqR/NAMESPACE | 13 +- refseqR-1.1.2/refseqR/R/extract_feats.R |only refseqR-1.1.2/refseqR/R/refseqR.R | 2 refseqR-1.1.2/refseqR/R/refseq_AA_length.R |only refseqR-1.1.2/refseqR/R/refseq_AA_mol_wt.R |only refseqR-1.1.2/refseqR/R/refseq_AAseq.R | 22 ++-- refseqR-1.1.2/refseqR/R/refseq_CDScoords.R | 24 ++--- refseqR-1.1.2/refseqR/R/refseq_CDSseq.R | 18 ++- refseqR-1.1.2/refseqR/R/refseq_GeneID.R |only refseqR-1.1.2/refseqR/R/refseq_description.R | 24 ++--- refseqR-1.1.2/refseqR/R/refseq_fromGene.R | 109 +++++++++++++---------- refseqR-1.1.2/refseqR/R/refseq_mRNA2protein.R |only refseqR-1.1.2/refseqR/R/refseq_mRNAfeat.R |only refseqR-1.1.2/refseqR/R/refseq_protein2mRNA.R |only refseqR-1.1.2/refseqR/README.md |only refseqR-1.1.2/refseqR/inst/doc/refseqR.R | 38 ++++---- refseqR-1.1.2/refseqR/inst/doc/refseqR.Rmd | 82 ++++++++--------- refseqR-1.1.2/refseqR/inst/doc/refseqR.html | 76 ++++++++-------- refseqR-1.1.2/refseqR/man/extract_from_xm.Rd |only refseqR-1.1.2/refseqR/man/refseqR.Rd | 2 refseqR-1.1.2/refseqR/man/refseq_AA_length.Rd |only refseqR-1.1.2/refseqR/man/refseq_AA_mol_wt.Rd |only refseqR-1.1.2/refseqR/man/refseq_AAseq.Rd | 12 +- refseqR-1.1.2/refseqR/man/refseq_CDScoords.Rd | 18 ++- refseqR-1.1.2/refseqR/man/refseq_CDSseq.Rd | 12 +- refseqR-1.1.2/refseqR/man/refseq_GeneID.Rd |only refseqR-1.1.2/refseqR/man/refseq_description.Rd | 20 ++-- refseqR-1.1.2/refseqR/man/refseq_fromGene.Rd | 22 ++-- refseqR-1.1.2/refseqR/man/refseq_mRNA2protein.Rd |only refseqR-1.1.2/refseqR/man/refseq_mRNAfeat.Rd |only refseqR-1.1.2/refseqR/man/refseq_protein2mRNA.Rd |only refseqR-1.1.2/refseqR/vignettes/refseqR.Rmd | 82 ++++++++--------- 47 files changed, 342 insertions(+), 307 deletions(-)
Title: Bottom-Up Proteomics and LiP-MS Quality Control and Data
Analysis Tools
Description: Useful functions and workflows for proteomics quality control and data analysis of both limited proteolysis-coupled mass spectrometry (LiP-MS) (Feng et. al. (2014) <doi:10.1038/nbt.2999>) and regular bottom-up proteomics experiments. Data generated with search tools such as 'Spectronaut', 'MaxQuant' and 'Proteome Discover' can be easily used due to flexibility of functions.
Author: Jan-Philipp Quast [aut, cre] ,
Dina Schuster [aut] ,
ETH Zurich [cph, fnd]
Maintainer: Jan-Philipp Quast <quast@imsb.biol.ethz.ch>
Diff between protti versions 0.8.0 dated 2024-03-28 and 0.9.0 dated 2024-07-15
DESCRIPTION | 6 MD5 | 74 +++---- NEWS.md | 24 ++ R/analyse_functional_network.R | 123 +++++++++---- R/calculate_go_enrichment.R | 69 ++++--- R/calculate_protein_abundance.R | 6 R/calculate_sequence_coverage.R | 1 R/fetch_alphafold_aligned_error.R | 23 +- R/fetch_alphafold_prediction.R | 13 + R/fetch_chebi.R | 10 - R/fetch_mobidb.R | 13 + R/fetch_quickgo.R | 33 +++ R/fetch_uniprot.R | 48 +++-- R/fetch_uniprot_proteome.R | 18 + R/find_peptide.R | 8 R/find_peptide_in_structure.R | 2 R/qc_cvs.R | 23 +- R/try_query.R | 42 ++-- inst/doc/data_analysis_dose_response_workflow.R | 7 inst/doc/data_analysis_dose_response_workflow.Rmd | 15 + inst/doc/data_analysis_dose_response_workflow.html | 61 ++++-- inst/doc/data_analysis_single_dose_treatment_workflow.html | 4 inst/doc/input_preparation_workflow.html | 4 inst/doc/protein_structure_workflow.html | 4 inst/doc/quality_control_workflow.html | 4 man/analyse_functional_network.Rd | 4 man/calculate_go_enrichment.Rd | 11 + man/calculate_protein_abundance.Rd | 5 man/fetch_alphafold_aligned_error.Rd | 10 - man/fetch_alphafold_prediction.Rd | 4 man/fetch_mobidb.Rd | 14 + man/fetch_quickgo.Rd | 8 man/fetch_uniprot.Rd | 7 man/fetch_uniprot_proteome.Rd | 14 + man/qc_cvs.Rd | 2 man/try_query.Rd | 2 tests/testthat/test-structure_functions.R | 2 vignettes/data_analysis_dose_response_workflow.Rmd | 15 + 38 files changed, 523 insertions(+), 210 deletions(-)
Title: Parallel Partitioning-Around-Medoids (PAM) for Big Sets of Data
Description: Application of the Partitioning-Around-Medoids (PAM) clustering algorithm described in Schubert, E. and Rousseeuw, P.J.:
"Fast and eager k-medoids clustering: O(k) runtime improvement of the PAM, CLARA, and CLARANS algorithms." Information Systems,
vol. 101, p. 101804, (2021). <doi:10.1016/j.is.2021.101804>.
It uses a binary format for storing and retrieval of matrices developed for the 'jmatrix' package but the functionality of 'jmatrix'
is included here, so you do not need to install it. Also, it is used by package 'scellpam', so if you have installed it, you do not need
to install this package.
PAM can be applied to sets of data whose dissimilarity matrix can be very big. It has been tested with up to 100.000 points.
It does this with the help of the code developed for other package, 'jmatrix', which allows the matrix not to be loaded in 'R' memory (which
would force it to be of double type) but it gets from disk, which allows using float (or even smaller data types). Moreover [...truncated...]
Author: Juan Domingo [aut, cre] ,
Guillermo Ayala [ctb] ,
Spanish Ministry of Science and Innovation, MCIN/AEI
<doi:10.13039/501100011033> [fnd]
Maintainer: Juan Domingo <Juan.Domingo@uv.es>
Diff between parallelpam versions 1.4.2 dated 2024-07-01 and 1.4.3 dated 2024-07-15
DESCRIPTION | 8 +- MD5 | 10 +- NEWS | 4 + inst/doc/jmatrixpp.html | 148 ++++++++++++++++++++++---------------------- inst/doc/parallelpam.html | 148 ++++++++++++++++++++++---------------------- inst/include/sparsematrix.h | 4 - 6 files changed, 165 insertions(+), 157 deletions(-)
Title: Seamless 'Nonmem' Simulation Platform
Description: A complete and seamless 'Nonmem' simulation interface from within R. Turns 'Nonmem' control streams into simulation control streams, executes them with specified simulation input data and returns the results. The simulation is performed by 'Nonmem', eliminating time spent and risks of re-implementation of models in other tools.
Author: Philip Delff [aut, cre]
Maintainer: Philip Delff <philip@delff.dk>
Diff between NMsim versions 0.1.1 dated 2024-07-03 and 0.1.2 dated 2024-07-15
DESCRIPTION | 6 +++--- MD5 | 6 +++--- NEWS.md | 6 +++++- tests/testthat/test_NMsim.R | 2 ++ 4 files changed, 13 insertions(+), 7 deletions(-)
Title: Generating Features for a Cohort
Description: An R interface for generating features for a cohort using data in the Common Data Model. Features can be constructed using default or custom made feature definitions. Furthermore it's possible to aggregate features and get the summary statistics.
Author: Martijn Schuemie [aut],
Marc Suchard [aut],
Patrick Ryan [aut],
Jenna Reps [aut],
Anthony Sena [aut],
Ger Inberg [aut, cre],
Observational Health Data Science and Informatics [cph]
Maintainer: Ger Inberg <g.inberg@erasmusmc.nl>
Diff between FeatureExtraction versions 3.5.2 dated 2024-05-01 and 3.6.0 dated 2024-07-15
FeatureExtraction-3.5.2/FeatureExtraction/inst/java/featureExtraction-3.5.0-SNAPSHOT.jar |only FeatureExtraction-3.6.0/FeatureExtraction/DESCRIPTION | 10 FeatureExtraction-3.6.0/FeatureExtraction/MD5 | 69 +-- FeatureExtraction-3.6.0/FeatureExtraction/NEWS.md | 12 FeatureExtraction-3.6.0/FeatureExtraction/R/CovariateData.R | 2 FeatureExtraction-3.6.0/FeatureExtraction/R/DefaultCovariateSettings.R | 46 +- FeatureExtraction-3.6.0/FeatureExtraction/R/DefaultTemporalCovariateSettings.R | 14 FeatureExtraction-3.6.0/FeatureExtraction/R/GetCovariates.R | 6 FeatureExtraction-3.6.0/FeatureExtraction/R/GetDefaultCovariates.R | 11 FeatureExtraction-3.6.0/FeatureExtraction/R/Normalization.R | 4 FeatureExtraction-3.6.0/FeatureExtraction/inst/csv/PrespecAnalyses.csv | 222 +++++----- FeatureExtraction-3.6.0/FeatureExtraction/inst/csv/PrespecTemporalAnalyses.csv | 86 +-- FeatureExtraction-3.6.0/FeatureExtraction/inst/csv/jarChecksum.txt | 2 FeatureExtraction-3.6.0/FeatureExtraction/inst/doc/CreatingCovariatesBasedOnOtherCohorts.pdf |binary FeatureExtraction-3.6.0/FeatureExtraction/inst/doc/CreatingCovariatesUsingCohortAttributes.pdf |binary FeatureExtraction-3.6.0/FeatureExtraction/inst/doc/CreatingCustomCovariateBuilders.R | 3 FeatureExtraction-3.6.0/FeatureExtraction/inst/doc/CreatingCustomCovariateBuilders.Rmd | 5 FeatureExtraction-3.6.0/FeatureExtraction/inst/doc/CreatingCustomCovariateBuilders.pdf |binary FeatureExtraction-3.6.0/FeatureExtraction/inst/doc/CreatingCustomCovariateBuildersKorean.pdf |binary FeatureExtraction-3.6.0/FeatureExtraction/inst/doc/UsingFeatureExtraction.pdf |binary FeatureExtraction-3.6.0/FeatureExtraction/inst/doc/UsingFeatureExtractionKorean.pdf |binary FeatureExtraction-3.6.0/FeatureExtraction/inst/java/FeatureExtraction.jar |only FeatureExtraction-3.6.0/FeatureExtraction/inst/sql/sql_server/CreateCovAnalysisRefTables.sql | 4 FeatureExtraction-3.6.0/FeatureExtraction/inst/sql/sql_server/MeasObsValueAsConcept.sql |only FeatureExtraction-3.6.0/FeatureExtraction/java/org/ohdsi/featureExtraction/FeatureExtraction.java | 2 FeatureExtraction-3.6.0/FeatureExtraction/man/createCovariateSettings.Rd | 50 ++ FeatureExtraction-3.6.0/FeatureExtraction/man/createTemporalCovariateSettings.Rd | 16 FeatureExtraction-3.6.0/FeatureExtraction/man/getDbCovariateData.Rd | 8 FeatureExtraction-3.6.0/FeatureExtraction/tests/testBigQuery.R |only FeatureExtraction-3.6.0/FeatureExtraction/tests/testOracle.R | 4 FeatureExtraction-3.6.0/FeatureExtraction/tests/testPostgres.R | 4 FeatureExtraction-3.6.0/FeatureExtraction/tests/testRedshift.R | 4 FeatureExtraction-3.6.0/FeatureExtraction/tests/testSnowflake.R |only FeatureExtraction-3.6.0/FeatureExtraction/tests/testSpark.R |only FeatureExtraction-3.6.0/FeatureExtraction/tests/testSqlServer.R | 4 FeatureExtraction-3.6.0/FeatureExtraction/tests/testthat/setup.R | 111 +++-- FeatureExtraction-3.6.0/FeatureExtraction/tests/testthat/test-PostcoordConcepts.R |only FeatureExtraction-3.6.0/FeatureExtraction/tests/testthat/test-query-no-fail.R | 20 FeatureExtraction-3.6.0/FeatureExtraction/vignettes/CreatingCustomCovariateBuilders.Rmd | 5 39 files changed, 481 insertions(+), 243 deletions(-)
More information about FeatureExtraction at CRAN
Permanent link
Title: Physics-Informed Spatial and Functional Data Analysis
Description: An implementation of regression models with partial differential regularizations, making use of the Finite Element Method. The models efficiently handle data distributed over irregularly shaped domains and can comply with various conditions at the boundaries of the domain. A priori information about the spatial structure of the phenomenon under study can be incorporated in the model via the differential regularization. See Sangalli, L. M. (2021) <doi:10.1111/insr.12444> "Spatial Regression With Partial Differential Equation Regularisation" for an overview. The release 1.1-9 requires R (>= 4.2.0) to be installed on windows machines.
Author: Eleonora Arnone [aut, cre],
Aldo Clemente [aut],
Laura M. Sangalli [aut],
Eardi Lila [aut],
Jim Ramsay [aut],
Luca Formaggia [aut],
Giovanni Ardenghi [ctb],
Blerta Begu [ctb],
Michele Cavazzutti [ctb],
Alessandra Colli [ctb],
Alberto Colombo [ctb],
L [...truncated...]
Maintainer: Eleonora Arnone <eleonora.arnone@polimi.it>
Diff between fdaPDE versions 1.1-18 dated 2024-05-30 and 1.1-19 dated 2024-07-15
DESCRIPTION | 8 ++++---- MD5 | 6 +++--- src/Lambda_Optimization/Include/Lambda_Optimizer.h | 6 +++--- src/Regression/Include/Mixed_FE_Regression_imp.h | 18 +++++++++--------- 4 files changed, 19 insertions(+), 19 deletions(-)
Title: Covariance Regression with Random Forests
Description: Covariance Regression with Random Forests (CovRegRF) is a
random forest method for estimating the covariance matrix of a
multivariate response given a set of covariates. Random forest trees
are built with a new splitting rule which is designed to maximize the
distance between the sample covariance matrix estimates of the child
nodes. The method is described in Alakus et al. (2023)
<doi:10.1186/s12859-023-05377-y>. 'CovRegRF' uses 'randomForestSRC' package
(Ishwaran and Kogalur, 2022)
<https://cran.r-project.org/package=randomForestSRC> by freezing at the
version 3.1.0. The custom splitting rule feature is utilised to apply the
proposed splitting rule. The 'randomForestSRC' package implements 'OpenMP'
by default, contingent upon the support provided by the target architecture
and operating system. In this package, 'LAPACK' and 'BLAS' libraries are
used for matrix decompositions.
Author: Cansu Alakus [aut, cre],
Denis Larocque [aut],
Aurelie Labbe [aut],
Hemant Ishwaran [ctb] ,
Udaya B. Kogalur [ctb] ,
Intel Corporation [cph] ,
Keita Teranishi [ctb]
Maintainer: Cansu Alakus <cansu.alakus@hec.ca>
Diff between CovRegRF versions 2.0.0 dated 2024-02-13 and 2.0.1 dated 2024-07-15
DESCRIPTION | 6 +++--- MD5 | 10 +++++----- NEWS.md | 3 +++ configure | 18 +++++++++--------- configure.ac | 2 +- src/randomForestSRC.c | 12 ++++++------ 6 files changed, 27 insertions(+), 24 deletions(-)
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2019-10-09 1.0
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2022-08-14 0.1.0
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2020-03-13 1.0.0
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2022-10-02 0.4.2
2021-01-06 0.4.1
2020-11-23 0.4.0
Title: Easily Build Command Line Applications
Description: Run simple 'R' scripts as command line applications, with
automatic robust and convenient support for command line arguments.
This package provides 'Rapp', an alternative 'R' front-end similar to
'Rscript', that enables this.
Author: Tomasz Kalinowski [aut, cre]
Maintainer: Tomasz Kalinowski <tomasz@posit.co>
Diff between Rapp versions 0.1.0 dated 2023-03-20 and 0.2.0 dated 2024-07-15
DESCRIPTION | 10 ++-- MD5 | 28 +++++++------ NAMESPACE | 4 + NEWS.md |only R/app.R | 8 +-- R/args.R | 91 ++++++++++++++++++++++++++++++++++++------- R/utils.R | 24 +++++++++++ R/yaml.R | 13 +++--- README.md | 39 ++++++++++++------ inst/examples/flip-coin.R | 6 +- inst/examples/magic-8-ball.R | 10 +++- inst/examples/unique.R | 15 +++++-- man/figures |only man/run.Rd | 2 tests/testthat/test-basics.R | 2 15 files changed, 189 insertions(+), 63 deletions(-)
Title: Assessment of Regression Models Performance
Description: Utilities for computing measures to assess model quality,
which are not directly provided by R's 'base' or 'stats' packages.
These include e.g. measures like r-squared, intraclass correlation
coefficient (Nakagawa, Johnson & Schielzeth (2017)
<doi:10.1098/rsif.2017.0213>), root mean squared error or functions to
check models for overdispersion, singularity or zero-inflation and
more. Functions apply to a large variety of regression models,
including generalized linear models, mixed effects models and Bayesian
models. References: Lüdecke et al. (2021) <doi:10.21105/joss.03139>.
Author: Daniel Luedecke [aut, cre] ,
Dominique Makowski [aut, ctb] ,
Mattan S. Ben-Shachar [aut, ctb]
,
Indrajeet Patil [aut, ctb] ,
Philip Waggoner [aut, ctb] ,
Brenton M. Wiernik [aut, ctb] ,
Remi Theriault [aut, ctb] ,
Vincent Arel-Bundock [ctb] ,
Martin J [...truncated...]
Maintainer: Daniel Luedecke <d.luedecke@uke.de>
Diff between performance versions 0.12.0 dated 2024-06-08 and 0.12.1 dated 2024-07-15
performance-0.12.0/performance/tests/testthat/test-logLik.R |only performance-0.12.1/performance/DESCRIPTION | 31 +- performance-0.12.1/performance/MD5 | 76 ++--- performance-0.12.1/performance/NAMESPACE | 4 performance-0.12.1/performance/NEWS.md | 61 +++- performance-0.12.1/performance/R/check_distribution.R | 14 - performance-0.12.1/performance/R/check_homogeneity.R | 8 performance-0.12.1/performance/R/check_multimodal.R | 24 - performance-0.12.1/performance/R/check_predictions.R | 12 performance-0.12.1/performance/R/helpers.R | 2 performance-0.12.1/performance/R/icc.R | 108 +++++--- performance-0.12.1/performance/R/performance_rmse.R | 133 ++++++++-- performance-0.12.1/performance/R/r2.R | 35 ++ performance-0.12.1/performance/R/r2_bayes.R | 91 ++++-- performance-0.12.1/performance/R/r2_ferarri.R |only performance-0.12.1/performance/R/r2_mcfadden.R | 7 performance-0.12.1/performance/R/r2_nakagawa.R | 86 +++++- performance-0.12.1/performance/README.md | 47 +-- performance-0.12.1/performance/build/partial.rdb |binary performance-0.12.1/performance/inst/WORDLIST | 5 performance-0.12.1/performance/man/figures/unnamed-chunk-14-1.png |binary performance-0.12.1/performance/man/figures/unnamed-chunk-20-1.png |binary performance-0.12.1/performance/man/icc.Rd | 102 ++++++- performance-0.12.1/performance/man/performance_mae.Rd | 4 performance-0.12.1/performance/man/performance_mse.Rd | 4 performance-0.12.1/performance/man/performance_rmse.Rd | 44 +++ performance-0.12.1/performance/man/r2.Rd | 13 performance-0.12.1/performance/man/r2_bayes.Rd | 45 ++- performance-0.12.1/performance/man/r2_ferrari.Rd |only performance-0.12.1/performance/man/r2_nakagawa.Rd | 99 ++++++- performance-0.12.1/performance/tests/testthat/_snaps/check_distribution.md | 40 +-- performance-0.12.1/performance/tests/testthat/test-check_model.R | 10 performance-0.12.1/performance/tests/testthat/test-check_predictions.R | 15 + performance-0.12.1/performance/tests/testthat/test-helpers.R | 2 performance-0.12.1/performance/tests/testthat/test-icc.R | 20 - performance-0.12.1/performance/tests/testthat/test-model_performance.bayesian.R | 27 +- performance-0.12.1/performance/tests/testthat/test-model_performance.merMod.R | 2 performance-0.12.1/performance/tests/testthat/test-r2_bayes.R | 14 + performance-0.12.1/performance/tests/testthat/test-r2_ferrari.R |only performance-0.12.1/performance/tests/testthat/test-r2_nakagawa.R | 1 performance-0.12.1/performance/tests/testthat/test-rmse.R | 25 + 41 files changed, 882 insertions(+), 329 deletions(-)
Title: Animal Dominance Hierarchies by Elo Rating
Description: Provides functions to quantify animal dominance hierarchies. The major focus is on Elo rating and its ability to deal with temporal dynamics in dominance interaction sequences. For static data, David's score and de Vries' I&SI are also implemented. In addition, the package provides functions to assess transitivity, linearity and stability of dominance networks. See Neumann et al (2011) <doi:10.1016/j.anbehav.2011.07.016> for an introduction.
Author: Christof Neumann [aut, cre] ,
Lars Kulik [aut]
Maintainer: Christof Neumann <christofneumann1@gmail.com>
Diff between EloRating versions 0.46.11 dated 2020-03-12 and 0.46.18 dated 2024-07-15
EloRating-0.46.11/EloRating/R/elo.seq.R |only EloRating-0.46.18/EloRating/DESCRIPTION | 10 EloRating-0.46.18/EloRating/MD5 | 278 EloRating-0.46.18/EloRating/NAMESPACE | 174 EloRating-0.46.18/EloRating/R/CBI.R | 266 EloRating-0.46.18/EloRating/R/DCindex.R | 60 EloRating-0.46.18/EloRating/R/DS.R | 128 EloRating-0.46.18/EloRating/R/ISI-diffmat.R | 46 EloRating-0.46.18/EloRating/R/ISI-incon.R | 45 EloRating-0.46.18/EloRating/R/ISI-incontable.R | 109 EloRating-0.46.18/EloRating/R/ISI-sincon.R | 55 EloRating-0.46.18/EloRating/R/ISI.R | 422 - EloRating-0.46.18/EloRating/R/ISIranks.R | 90 EloRating-0.46.18/EloRating/R/RcppExports.R | 32 EloRating-0.46.18/EloRating/R/adv-data.R | 34 EloRating-0.46.18/EloRating/R/adv2-data.R | 36 EloRating-0.46.18/EloRating/R/advpres-data.R | 36 EloRating-0.46.18/EloRating/R/baboons-data.R | 38 EloRating-0.46.18/EloRating/R/bonobo-data.R | 36 EloRating-0.46.18/EloRating/R/coresidence.R | 258 EloRating-0.46.18/EloRating/R/correctly_predicted.R | 308 - EloRating-0.46.18/EloRating/R/creatematrix.R | 309 - EloRating-0.46.18/EloRating/R/createstartvalues.R | 160 EloRating-0.46.18/EloRating/R/devries98-data.R | 34 EloRating-0.46.18/EloRating/R/dommats-data.R | 48 EloRating-0.46.18/EloRating/R/dyadic_dom.R | 96 EloRating-0.46.18/EloRating/R/dyadic_reversals.R | 200 EloRating-0.46.18/EloRating/R/e.single.R | 160 EloRating-0.46.18/EloRating/R/elo.seq.r |only EloRating-0.46.18/EloRating/R/elo.seq_old.r | 1065 +-- EloRating-0.46.18/EloRating/R/eloplot.r | 360 - EloRating-0.46.18/EloRating/R/extract_elo.R | 318 - EloRating-0.46.18/EloRating/R/h.index.R | 232 EloRating-0.46.18/EloRating/R/heatmapplot.R | 244 EloRating-0.46.18/EloRating/R/individuals.r | 164 EloRating-0.46.18/EloRating/R/lastdaypresent.R | 127 EloRating-0.46.18/EloRating/R/likelo.R | 208 EloRating-0.46.18/EloRating/R/mat2seq.R | 70 EloRating-0.46.18/EloRating/R/optimizek.R | 276 EloRating-0.46.18/EloRating/R/optistart.R | 164 EloRating-0.46.18/EloRating/R/presence_summary.R | 158 EloRating-0.46.18/EloRating/R/print.elo.R | 40 EloRating-0.46.18/EloRating/R/print.seqchecknopres.r | 54 EloRating-0.46.18/EloRating/R/print.sequencecheck.r | 146 EloRating-0.46.18/EloRating/R/prunk.R | 214 EloRating-0.46.18/EloRating/R/randomelo.R | 186 EloRating-0.46.18/EloRating/R/randomeloextract.R | 96 EloRating-0.46.18/EloRating/R/randomsequence.R | 368 - EloRating-0.46.18/EloRating/R/scale_elo.R | 54 EloRating-0.46.18/EloRating/R/seqcheck.R | 608 +- EloRating-0.46.18/EloRating/R/simple_dom.R | 118 EloRating-0.46.18/EloRating/R/stab_elo.R | 104 EloRating-0.46.18/EloRating/R/steepness.R | 104 EloRating-0.46.18/EloRating/R/summary.elo.R | 58 EloRating-0.46.18/EloRating/R/traj_elo.r | 144 EloRating-0.46.18/EloRating/R/transitivity.R | 240 EloRating-0.46.18/EloRating/R/winprob.r | 192 EloRating-0.46.18/EloRating/R/z_helpers.R |only EloRating-0.46.18/EloRating/README.md | 50 EloRating-0.46.18/EloRating/build/partial.rdb |binary EloRating-0.46.18/EloRating/build/vignette.rds |binary EloRating-0.46.18/EloRating/inst/NEWS.Rd | 274 EloRating-0.46.18/EloRating/inst/REFERENCES.bib | 734 +- EloRating-0.46.18/EloRating/inst/doc/EloRating_tutorial.R | 1841 +++--- EloRating-0.46.18/EloRating/inst/doc/EloRating_tutorial.Rmd | 2784 ++++------ EloRating-0.46.18/EloRating/inst/doc/EloRating_tutorial.pdf |binary EloRating-0.46.18/EloRating/inst/ex-parasites.txt | 94 EloRating-0.46.18/EloRating/inst/ex-sequence.txt | 502 - EloRating-0.46.18/EloRating/man/CBI.Rd | 198 EloRating-0.46.18/EloRating/man/DCindex.Rd | 66 EloRating-0.46.18/EloRating/man/DS.Rd | 70 EloRating-0.46.18/EloRating/man/EloRating-package.Rd | 58 EloRating-0.46.18/EloRating/man/ISI.Rd | 106 EloRating-0.46.18/EloRating/man/ISIranks.Rd | 76 EloRating-0.46.18/EloRating/man/adv.Rd | 44 EloRating-0.46.18/EloRating/man/adv2.Rd | 44 EloRating-0.46.18/EloRating/man/advpres.Rd | 44 EloRating-0.46.18/EloRating/man/baboons1.Rd | 64 EloRating-0.46.18/EloRating/man/bonobos.Rd | 44 EloRating-0.46.18/EloRating/man/coresidence.Rd | 118 EloRating-0.46.18/EloRating/man/correctly_predicted.Rd | 262 EloRating-0.46.18/EloRating/man/creatematrix.Rd | 147 EloRating-0.46.18/EloRating/man/createstartvalues.Rd | 116 EloRating-0.46.18/EloRating/man/devries98.Rd | 44 EloRating-0.46.18/EloRating/man/dommats.Rd | 62 EloRating-0.46.18/EloRating/man/dot-diffmat.Rd | 56 EloRating-0.46.18/EloRating/man/dot-elo.seq_old.Rd | 168 EloRating-0.46.18/EloRating/man/dot-incon.Rd | 56 EloRating-0.46.18/EloRating/man/dot-sincon.Rd | 62 EloRating-0.46.18/EloRating/man/dyadic_dom.Rd | 54 EloRating-0.46.18/EloRating/man/dyadic_reversals.Rd | 88 EloRating-0.46.18/EloRating/man/e.single.Rd | 94 EloRating-0.46.18/EloRating/man/elo.seq.Rd | 288 - EloRating-0.46.18/EloRating/man/eloplot.Rd | 96 EloRating-0.46.18/EloRating/man/extract_elo.Rd | 148 EloRating-0.46.18/EloRating/man/h.index.Rd | 70 EloRating-0.46.18/EloRating/man/heatmapplot.Rd | 130 EloRating-0.46.18/EloRating/man/incontable.Rd | 56 EloRating-0.46.18/EloRating/man/individuals.Rd | 112 EloRating-0.46.18/EloRating/man/lastdaypresent.Rd | 69 EloRating-0.46.18/EloRating/man/likelo.Rd | 112 EloRating-0.46.18/EloRating/man/mat2seq.Rd | 64 EloRating-0.46.18/EloRating/man/optimizek.Rd | 148 EloRating-0.46.18/EloRating/man/optistart.Rd | 114 EloRating-0.46.18/EloRating/man/presence_summary.Rd | 64 EloRating-0.46.18/EloRating/man/print.elo.Rd | 48 EloRating-0.46.18/EloRating/man/print.seqchecknopres.Rd | 46 EloRating-0.46.18/EloRating/man/print.sequencecheck.Rd | 50 EloRating-0.46.18/EloRating/man/prunk.Rd | 58 EloRating-0.46.18/EloRating/man/randomelo.Rd | 104 EloRating-0.46.18/EloRating/man/randomeloextract.Rd | 72 EloRating-0.46.18/EloRating/man/randomsequence.Rd | 108 EloRating-0.46.18/EloRating/man/scale_elo.Rd | 60 EloRating-0.46.18/EloRating/man/seqcheck.Rd | 216 EloRating-0.46.18/EloRating/man/simple_dom.Rd | 70 EloRating-0.46.18/EloRating/man/stab_elo.Rd | 100 EloRating-0.46.18/EloRating/man/steepness.Rd | 76 EloRating-0.46.18/EloRating/man/summary.elo.Rd | 52 EloRating-0.46.18/EloRating/man/traj_elo.Rd | 98 EloRating-0.46.18/EloRating/man/transitivity.Rd | 60 EloRating-0.46.18/EloRating/man/winprob.Rd | 170 EloRating-0.46.18/EloRating/src/Makevars.win | 2 EloRating-0.46.18/EloRating/src/RcppExports.cpp | 5 EloRating-0.46.18/EloRating/tests/testthat.R | 8 EloRating-0.46.18/EloRating/tests/testthat/test-ISI.R | 88 EloRating-0.46.18/EloRating/tests/testthat/test-correctly_predicted.R | 64 EloRating-0.46.18/EloRating/tests/testthat/test-dyadic_dom.R | 44 EloRating-0.46.18/EloRating/tests/testthat/test-dyadic_reversals.R | 36 EloRating-0.46.18/EloRating/tests/testthat/test-elo.R |only EloRating-0.46.18/EloRating/tests/testthat/test_DS.R | 26 EloRating-0.46.18/EloRating/tests/testthat/test_comparisontooldversion.R | 162 EloRating-0.46.18/EloRating/tests/testthat/test_conversions.R | 52 EloRating-0.46.18/EloRating/tests/testthat/test_customelo.R | 102 EloRating-0.46.18/EloRating/tests/testthat/test_customelopresence.R | 240 EloRating-0.46.18/EloRating/tests/testthat/test_e.single.R | 8 EloRating-0.46.18/EloRating/tests/testthat/test_extract_elo.R | 102 EloRating-0.46.18/EloRating/tests/testthat/test_fastelo.R | 78 EloRating-0.46.18/EloRating/tests/testthat/test_mat2seq.R | 32 EloRating-0.46.18/EloRating/tests/testthat/test_misc.R |only EloRating-0.46.18/EloRating/tests/testthat/test_optimizek.R | 56 EloRating-0.46.18/EloRating/tests/testthat/test_seqcheck.R |only EloRating-0.46.18/EloRating/tests/testthat/test_transitivity.R | 66 EloRating-0.46.18/EloRating/vignettes/EloRating_tutorial.Rmd | 2784 ++++------ 143 files changed, 12397 insertions(+), 12417 deletions(-)
Title: Consistency in the Analytic Hierarchy Process
Description: A Swiss Army knife of utility functions for users of the Analytic
Hierarchy Process (AHP) which will help you to assess the consistency of a
PCM as well as to improve its consistency ratio, to compute the sensitivity
of a PCM, create a logical (as distinct from a random PCM) from preferences
provided for the alternatives, and a function that helps evaluate the actual
consistency of a PCM based on objective, fair bench marking. The various
functions in the toolkit additionally provide the flexibility to users to
specify only the upper triangular comparison ratios of the PCM in order to
performs its assigned task.
Author: Amarnath Bose [aut, cre]
Maintainer: Amarnath Bose <amarnath.bose@gmail.com>
Diff between AHPtools versions 0.2.1 dated 2023-11-02 and 0.3.0 dated 2024-07-15
DESCRIPTION | 16 ++--- MD5 | 25 +++++--- NAMESPACE | 4 + NEWS.md | 4 + R/AHPtools-package.R |only R/AHPtools.R | 117 +++++++++++++++++++++++++++++++++++++++++ R/logitModel.R |only build/partial.rdb |binary build/vignette.rds |binary inst/WORDLIST | 15 +++-- inst/doc/AHPtools.R | 2 inst/doc/AHPtools.html | 4 - man/AHPtools-package.Rd |only man/consEval.Rd |only man/logitModel.Rd |only tests/testthat/test-AHPtools.R | 29 +++++++++- 16 files changed, 187 insertions(+), 29 deletions(-)
Title: Model Based Treatment of Missing Data
Description: Contains model-based treatment of missing data for regression
models with missing values in covariates or the dependent
variable using maximum likelihood or Bayesian estimation
(Ibrahim et al., 2005; <doi:10.1198/016214504000001844>;
Luedtke, Robitzsch, & West, 2020a, 2020b;
<doi:10.1080/00273171.2019.1640104><doi:10.1037/met0000233>).
The regression model can be nonlinear (e.g., interaction
effects, quadratic effects or B-spline functions).
Multilevel models with missing data in predictors are
available for Bayesian estimation. Substantive-model compatible
multiple imputation can be also conducted.
Author: Alexander Robitzsch [aut, cre], Oliver Luedtke [aut]
Maintainer: Alexander Robitzsch <robitzsch@ipn.uni-kiel.de>
Diff between mdmb versions 1.8-7 dated 2023-02-28 and 1.9-22 dated 2024-07-15
DESCRIPTION | 8 MD5 | 202 +++++++++++------------ R/RcppExports.R | 2 R/bct_regression.R | 4 R/dbct_scaled.R | 6 R/dyjt_scaled.R | 10 - R/eval_prior_list.R | 6 R/eval_prior_list_gradient_log.R | 17 - R/eval_prior_list_sumlog.R | 10 - R/fit_bct_scaled.R | 4 R/fit_mdmb_distribution.R | 44 ++--- R/fit_mdmb_distribution_extract_results.R | 4 R/fit_mdmb_distribution_logLik_extract.R | 8 R/fit_mdmb_distribution_summary.R | 28 +-- R/fit_mdmb_distribution_summary_table.R | 4 R/fit_oprobit.R | 4 R/fit_t_scaled.R | 4 R/fit_yjt_scaled.R | 4 R/frm2datlist.R | 8 R/frm_append_list.R | 4 R/frm_check_predictor_matrix.R | 10 - R/frm_define_model_R_function.R | 52 ++--- R/frm_descriptives_variables.R | 11 - R/frm_em.R | 21 +- R/frm_em_avcov.R | 43 ++-- R/frm_em_calc_likelihood.R | 28 +-- R/frm_em_calc_likelihood_estimate_model.R | 10 - R/frm_em_ic.R | 6 R/frm_em_linreg_density_extend_args.R | 4 R/frm_em_summary_print_nodes.R | 14 - R/frm_fb.R | 18 +- R/frm_fb_descriptives_variables.R | 15 - R/frm_fb_init_imputations.R | 17 - R/frm_fb_initial_parameters.R | 31 +-- R/frm_fb_initial_parameters_se_sd_proposal.R | 4 R/frm_fb_mh_refresh_imputed_values.R | 8 R/frm_fb_mh_refresh_parameters.R | 15 - R/frm_fb_partable.R | 39 ++-- R/frm_fb_sample_imputed_values.R | 20 +- R/frm_fb_sample_imputed_values_eval_likelihood.R | 6 R/frm_fb_sample_imputed_values_proposal.R | 20 +- R/frm_fb_sample_parameter_step.R | 4 R/frm_fb_sample_parameters.R | 16 - R/frm_fb_sample_parameters_df_squeeze.R | 4 R/frm_fb_verbose_iterations.R | 16 - R/frm_fb_verbose_mh_refresh.R | 6 R/frm_formula_character.R | 6 R/frm_formula_extract_terms.R | 7 R/frm_linreg_density.R | 6 R/frm_linreg_sample_parameters.R | 6 R/frm_mdmb_regression_density.R | 15 - R/frm_mlreg_density.R | 6 R/frm_mlreg_wrapper_ml_mcmc.R | 7 R/frm_modify_parameter_labels.R | 16 - R/frm_oprobit_density.R | 4 R/frm_partable_thresholds.R | 8 R/frm_prepare_data_em.R | 13 - R/frm_prepare_data_fb.R | 18 +- R/frm_prepare_data_include_latent_data.R | 22 -- R/frm_prepare_model_nodes_weights.R | 38 ++-- R/frm_prepare_models.R | 12 - R/frm_prepare_models_design_matrices.R | 11 - R/frm_prepare_models_sigma_fixed.R | 4 R/frm_proposal_refresh_helper.R | 4 R/logLik_extract_ic.R | 8 R/logistic_regression.R | 6 R/mdmb_extract_coef.R | 4 R/mdmb_ginv.R | 4 R/mdmb_optim.R | 6 R/mdmb_optim_control.R | 10 - R/mdmb_regression.R | 66 +++---- R/mdmb_regression_R2.R | 16 - R/mdmb_regression_est_df_description.R | 6 R/mdmb_regression_extract_parameters.R | 6 R/mdmb_regression_loglike_case.R | 10 - R/mdmb_regression_loglike_logpost.R | 6 R/mdmb_regression_oprobit_density.R | 8 R/mdmb_regression_optim_oprobit_grad.R | 4 R/mdmb_regression_predict.R | 16 - R/mdmb_regression_predict_yjt_bct.R | 6 R/mdmb_regression_proc_control_optim_fct.R | 5 R/mdmb_regression_summary.R | 92 +++++----- R/mdmb_regression_summary_table.R | 4 R/mdmb_sample_missings.R | 4 R/mdmb_summary_print_computation_time.R | 6 R/offset_values_extract.R | 6 R/oprobit_regression.R | 6 R/plot.frm_fb.R | 22 +- R/summary.frm_em.R | 74 ++++---- R/summary.frm_fb.R | 56 +++--- R/yjt_regression.R | 4 build/partial.rdb |binary data/data.mb01.rda |binary data/data.mb02.rda |binary data/data.mb03.rda |binary data/data.mb04.rda |binary data/data.mb05.rda |binary inst/CITATION | 3 inst/NEWS | 10 + man/data.mb.Rd | 4 man/frm.Rd | 5 src/RcppExports.cpp | 2 102 files changed, 738 insertions(+), 769 deletions(-)
Title: Quality Control for RNA-Seq Data
Description: Functions for semi-automated quality control of bulk RNA-seq data.
Author: Frederik Ziebell [cre],
Frederik Ziebell [aut] ,
GlaxoSmithKline Research & Development Limited [cph]
Maintainer: Frederik Ziebell <f_ziebell@web.de>
Diff between RNAseqQC versions 0.2.0 dated 2024-07-01 and 0.2.1 dated 2024-07-15
DESCRIPTION | 6 ++-- MD5 | 12 ++++----- NEWS.md | 3 ++ R/pca.R | 22 +++++++++------- README.md | 5 +++ inst/doc/introduction.html | 60 ++++++++++++++++++++++----------------------- man/all_numeric.Rd | 6 ++-- 7 files changed, 63 insertions(+), 51 deletions(-)
Title: Construct Process Maps Using Event Data
Description: Visualize event logs using directed graphs, i.e. process maps. Part of the 'bupaR' framework.
Author: Gert Janssenswillen [aut, cre],
Gerard van Hulzen [ctb],
Benoît Depaire [ctb],
Felix Mannhardt [ctb],
Thijs Beuving [ctb],
urvikalia [ctb],
Hasselt University [cph]
Maintainer: Gert Janssenswillen <gert.janssenswillen@uhasselt.be>
Diff between processmapR versions 0.5.3 dated 2023-04-06 and 0.5.4 dated 2024-07-15
DESCRIPTION | 17 ++--- MD5 | 73 +++++++++++++++++----- NAMESPACE | 1 R/dotted_chart.R | 4 - R/dotted_chart_helpers.R | 2 R/layout.R | 2 R/process_map.R | 150 ++++++++++++++++++++-------------------------- R/processmapR.R | 1 R/render_map.R | 100 ++++++++++++++++++++++++++++++ R/trace_explorer.R | 2 R/utils_animateR.R |only README.md | 7 +- inst/doc/processmapr.html | 4 - inst/htmlwidgets |only man/dotted_chart.Rd | 4 - man/layout_pm.Rd | 2 man/lined_chart.Rd | 4 - man/process_map.Rd | 6 - man/trace_explorer.Rd | 4 - 19 files changed, 252 insertions(+), 131 deletions(-)
Title: Feature Stores for the 'diseasy' Framework
Description: Simple feature stores and tools for creating personalised feature stores.
'diseasystore' powers feature stores which can automatically link and aggregate features to a given stratification
level. These feature stores are automatically time-versioned (powered by the 'SCDB' package) and allows you to easily
and dynamically compute features as part of your continuous integration.
Author: Rasmus Skytte Randloev [aut, cre]
,
Marcus Munch Gruenewald [ctb] ,
Kaare Graesboell [rev] ,
Kasper Schou Telkamp [rev] ,
Lasse Engbo Christiansen [rev]
,
Sofia Myrup Otero [rev],
Statens Serum Institut, SSI [cph, fnd]
Maintainer: Rasmus Skytte Randloev <rske@ssi.dk>
Diff between diseasystore versions 0.2.1 dated 2024-04-22 and 0.2.2 dated 2024-07-15
DESCRIPTION | 8 MD5 | 26 +-- NEWS.md | 166 ++++++++++---------- R/0_R6_utils.R | 2 R/0_linters.R | 12 - R/grapes-.-grapes.R | 20 +- build/vignette.rds |binary inst/WORDLIST | 7 inst/doc/diseasystore-ecdc-respiratory-viruses.html | 4 inst/doc/diseasystore-google-covid-19.html | 4 inst/doc/diseasystore.html | 124 +++++++------- tests/testthat/helper-setup.R | 2 tests/testthat/test-grapes-.-grapes.R | 35 ++++ tests/testthat/test-truncate_interlace.R | 43 +++-- 14 files changed, 264 insertions(+), 189 deletions(-)
Title: Some Latent Variable Models
Description: Includes some procedures for latent variable modeling with a
particular focus on multilevel data.
The 'LAM' package contains mean and covariance structure modelling
for multivariate normally distributed data (mlnormal(); Longford, 1987;
<doi:10.1093/biomet/74.4.817>), a general Metropolis-Hastings algorithm
(amh(); Roberts & Rosenthal, 2001, <doi:10.1214/ss/1015346320>) and
penalized maximum likelihood estimation (pmle(); Cole, Chu & Greenland,
2014; <doi:10.1093/aje/kwt245>).
Author: Alexander Robitzsch [aut,cre]
Maintainer: Alexander Robitzsch <robitzsch@ipn.uni-kiel.de>
Diff between LAM versions 0.6-19 dated 2022-05-18 and 0.7-22 dated 2024-07-15
DESCRIPTION | 8 - MD5 | 136 ++++++++++++++-------------- R/RcppExports.R | 2 R/amh.R | 50 +++++----- R/amh_compare_estimators.R | 16 +-- R/amh_eval_priors.R | 4 R/amh_ic.R | 8 - R/amh_init_acceptance_parameters.R | 4 R/amh_proposal_refresh.R | 15 +-- R/amh_sampling.R | 20 ++-- R/clpm_to_ctm.R | 8 - R/clpm_to_ctm_drift_to_paths.R | 4 R/clpm_to_ctm_paths_to_drift.R | 4 R/confint.amh.R | 15 +-- R/confint.mlnormal.R | 14 +- R/confint.pmle.R | 12 +- R/logLik_lam.R | 8 - R/loglike_mvnorm_NA_pattern.R | 10 +- R/loglike_mvnorm_NA_pattern_R.R | 4 R/loglike_mvnorm_R.R | 6 - R/mlnormal.R | 31 +++--- R/mlnormal_check_matrix_list_difference.R | 7 - R/mlnormal_create_disp.R | 6 - R/mlnormal_equal_list_matrices.R | 4 R/mlnormal_eval_penalty_update_theta.R | 7 - R/mlnormal_eval_priors.R | 4 R/mlnormal_fill_matrix_from_list.R | 16 +-- R/mlnormal_fit_function_ml.R | 7 - R/mlnormal_ic.R | 7 - R/mlnormal_information_matrix_reml.R | 26 ++--- R/mlnormal_matrix2list.R | 13 +- R/mlnormal_postproc_eval_posterior.R | 4 R/mlnormal_postproc_parameters.R | 35 +++---- R/mlnormal_proc.R | 57 +++++------ R/mlnormal_proc_variance_shortcut.R | 20 ++-- R/mlnormal_proc_variance_shortcut_XY_R.R | 21 ++-- R/mlnormal_proc_variance_shortcut_Z_R.R | 44 ++++----- R/mlnormal_proc_variance_shortcut_Z_Rcpp.R | 26 ++--- R/mlnormal_process_prior.R | 20 ++-- R/mlnormal_update_V_R.R | 14 +- R/mlnormal_update_beta.R | 7 - R/mlnormal_update_beta_XVX_R.R | 49 ++++------ R/mlnormal_update_beta_iterations_penalty.R | 5 - R/mlnormal_update_control_list.R | 4 R/mlnormal_update_ml_derivative_V.R | 29 ++--- R/mlnormal_update_theta_ml.R | 59 +++++------- R/mlnormal_verbose_f0.R | 4 R/mlnormal_verbose_f1.R | 4 R/mlnormal_verbose_f2.R | 18 +-- R/plot.amh.R | 67 +++++++------ R/pmle.R | 30 +++--- R/pmle_eval_posterior.R | 4 R/pmle_eval_prior.R | 4 R/pmle_ic.R | 8 - R/pmle_prior_extract_density.R | 24 ++-- R/pmle_process_prior.R | 23 ++-- R/print.mlnormal.R | 47 ++++----- R/suff_stat_NA_pattern.R | 10 +- R/summary.amh.R | 108 +++++++++++----------- R/summary.mlnormal.R | 84 ++++++++--------- R/summary.pmle.R | 76 ++++++++------- R/zzz.R | 8 - README.md | 5 - build/partial.rdb |binary data/data.HT12.rda |binary inst/CITATION | 7 - inst/NEWS | 9 + man/mlnormal.Rd | 4 src/RcppExports.cpp | 2 69 files changed, 707 insertions(+), 709 deletions(-)
Title: Linters for 'box' Modules
Description: Static code analysis of 'box' modules.
The package enhances code quality by providing linters that check for common issues,
enforce best practices, and ensure consistent coding standards.
Author: Ricardo Rodrigo Basa [aut, cre],
Jakub Nowicki [aut],
Appsilon Sp. z o.o. [cph]
Maintainer: Ricardo Rodrigo Basa <opensource+rodrigo@appsilon.com>
Diff between box.linters versions 0.9.1 dated 2024-06-04 and 0.10.0 dated 2024-07-15
DESCRIPTION | 14 +-- MD5 | 57 ++++++++++----- NAMESPACE | 4 + NEWS.md | 10 ++ R/box_alphabetical_calls_linter.R | 16 ++-- R/box_mod_fun_exists_linter.R | 6 + R/box_module_usage_helper_functions.R | 17 ++++ R/box_package_usage_helper_functions.R | 31 +++++++- R/box_unused_attached_mod_linter.R | 8 +- R/box_unused_attached_mod_obj_linter.R | 6 + R/namespaced_function_calls.R |only R/style_box_use.R |only R/style_ts_queries.R |only R/zzz.R | 2 inst/WORDLIST | 2 man/namespaced_function_calls.Rd |only man/style_box_use_dir.Rd |only man/style_box_use_file.Rd |only man/style_box_use_text.Rd |only tests/testthat/mod/path/relative |only tests/testthat/styled |only tests/testthat/test-box_alphabetical_calls_linter.R | 14 +-- tests/testthat/test-box_mod_fun_exists_linter.R | 31 ++++++++ tests/testthat/test-box_module_usage_halper_functions.R | 42 +++++++++++ tests/testthat/test-box_package_usage_helper_functions.R | 50 +++++++++++++ tests/testthat/test-box_unused_attached_mod_linter.R | 29 +++++++ tests/testthat/test-box_unused_attached_mod_obj_linter.R | 35 +++++++++ tests/testthat/test-namespaced_function_calls.R |only tests/testthat/test-style_box_use.R |only tests/testthat/test-zzz.R | 3 tests/testthat/to_style |only 31 files changed, 327 insertions(+), 50 deletions(-)
Title: General to Specific Modeling and Indicator Saturation in 2SLS
Models
Description: Provides facilities of general to specific model selection for
exogenous regressors in 2SLS models. Furthermore, indicator saturation
methods can be used to detect outliers and structural breaks in the sample.
Author: Kurle Jonas [aut, cre]
Maintainer: Kurle Jonas <mail@jonaskurle.com>
Diff between ivgets versions 0.1.1 dated 2022-10-17 and 0.1.2 dated 2024-07-15
ivgets-0.1.1/ivgets/R/ivgets.R |only ivgets-0.1.2/ivgets/DESCRIPTION | 10 ivgets-0.1.2/ivgets/MD5 | 44 - ivgets-0.1.2/ivgets/NEWS.md | 20 ivgets-0.1.2/ivgets/R/data.R | 176 ++-- ivgets-0.1.2/ivgets/R/getsiv.R | 2 ivgets-0.1.2/ivgets/R/ivgets-package.R |only ivgets-0.1.2/ivgets/README.md | 79 -- ivgets-0.1.2/ivgets/build/vignette.rds |binary ivgets-0.1.2/ivgets/inst/doc/GETS-IV.R | 2 ivgets-0.1.2/ivgets/inst/doc/GETS-IV.Rmd | 38 - ivgets-0.1.2/ivgets/inst/doc/GETS-IV.html | 146 ++- ivgets-0.1.2/ivgets/man/extract_variables.Rd | 46 - ivgets-0.1.2/ivgets/man/factory_indicators.Rd | 54 - ivgets-0.1.2/ivgets/man/gets.ivreg.Rd | 200 ++--- ivgets-0.1.2/ivgets/man/ivDiag.Rd | 80 +- ivgets-0.1.2/ivgets/man/ivgets-package.Rd | 33 ivgets-0.1.2/ivgets/man/ivgets.Rd | 2 ivgets-0.1.2/ivgets/man/new_formula.Rd | 82 +- ivgets-0.1.2/ivgets/tests/testthat.R | 8 ivgets-0.1.2/ivgets/tests/testthat/test-additional.R | 594 ++++++++-------- ivgets-0.1.2/ivgets/tests/testthat/test-getsiv.R | 470 ++++++------ ivgets-0.1.2/ivgets/tests/testthat/test-getsiv_nosnap.R | 436 +++++------ ivgets-0.1.2/ivgets/vignettes/GETS-IV.Rmd | 38 - 24 files changed, 1269 insertions(+), 1291 deletions(-)
Title: C++ Header Files for Stan
Description: The C++ header files of the Stan project are provided by this package, but it contains little R code or documentation. The main reference is the vignette. There is a shared object containing part of the 'CVODES' library, but its functionality is not accessible from R. 'StanHeaders' is primarily useful for developers who want to utilize the 'LinkingTo' directive of their package's DESCRIPTION file to build on the Stan library without incurring unnecessary dependencies. The Stan project develops a probabilistic programming language that implements full or approximate Bayesian statistical inference via Markov Chain Monte Carlo or 'variational' methods and implements (optionally penalized) maximum likelihood estimation via optimization. The Stan library includes an advanced automatic differentiation scheme, 'templated' statistical and linear algebra functions that can handle the automatically 'differentiable' scalar types (and doubles, 'ints', etc.), and a parser for the Stan language. The [...truncated...]
Author: Ben Goodrich [cre, aut],
Joshua Pritikin [ctb],
Andrew Gelman [aut],
Bob Carpenter [aut],
Matt Hoffman [aut],
Daniel Lee [aut],
Michael Betancourt [aut],
Marcus Brubaker [aut],
Jiqiang Guo [aut],
Peter Li [aut],
Allen Riddell [aut],
Marco Inacio [aut [...truncated...]
Maintainer: Ben Goodrich <benjamin.goodrich@columbia.edu>
Diff between StanHeaders versions 2.32.9 dated 2024-05-29 and 2.32.10 dated 2024-07-15
DESCRIPTION | 6 +++--- MD5 | 6 +++--- inst/doc/stanmath.html | 6 +++--- inst/include/src/stan/model/model_base_crtp.hpp | 4 ++-- 4 files changed, 11 insertions(+), 11 deletions(-)
Title: Easy Data Wrangling and Statistical Transformations
Description: A lightweight package to assist in key steps involved in any data
analysis workflow: (1) wrangling the raw data to get it in the needed form,
(2) applying preprocessing steps and statistical transformations, and
(3) compute statistical summaries of data properties and distributions.
It is also the data wrangling backend for packages in 'easystats' ecosystem.
References: Patil et al. (2022) <doi:10.21105/joss.04684>.
Author: Indrajeet Patil [aut] ,
Etienne Bacher [aut, cre] ,
Dominique Makowski [aut] ,
Daniel Luedecke [aut] ,
Mattan S. Ben-Shachar [aut] ,
Brenton M. Wiernik [aut] ,
Remi Theriault [ctb] ,
Thomas J. Faulkenberry [rev],
Robert Garrett [rev]
Maintainer: Etienne Bacher <etienne.bacher@protonmail.com>
Diff between datawizard versions 0.12.0 dated 2024-07-11 and 0.12.1 dated 2024-07-15
DESCRIPTION | 14 ++-- MD5 | 10 +-- NEWS.md | 5 + inst/doc/tidyverse_translation.R | 6 +- inst/doc/tidyverse_translation.Rmd | 107 ++++++++++++++++++------------------ vignettes/tidyverse_translation.Rmd | 107 ++++++++++++++++++------------------ 6 files changed, 131 insertions(+), 118 deletions(-)
Title: Exemplar Data Sets for Student Growth Percentiles (SGP) Analyses
Description: Data sets utilized by the 'SGP' package as exemplars for users to conduct their own student growth percentiles (SGP) analyses.
Author: Damian W. Betebenner [aut, cre],
Adam R. Van Iwaarden [aut],
Ben Domingue [aut]
Maintainer: Damian W. Betebenner <dbetebenner@nciea.org>
Diff between SGPdata versions 27.0-0.0 dated 2023-10-18 and 28.0-0.0 dated 2024-07-15
DESCRIPTION | 8 ++-- MD5 | 23 ++++++------ R/zzz.R | 2 - build/vignette.rds |binary data/sgpData.rda |binary data/sgpData_LONG.rda |binary inst/CITATION | 10 ++--- inst/NEWS | 4 ++ inst/doc/SGPdata.html | 60 +++++++++++++++++--------------- man/SGPdata-package.Rd | 4 +- man/sgpData.Rd | 4 +- vignettes/releases/SGPdata-27.0-0.0.Rmd | 13 ++++-- vignettes/releases/SGPdata-28.0-0.0.Rmd |only 13 files changed, 72 insertions(+), 56 deletions(-)
Title: Group Testing Procedures for Signal Detection and
Goodness-of-Fit
Description: It provides cumulative distribution function (CDF),
quantile, p-value, statistical power calculator and random number generator
for a collection of group-testing procedures, including the Higher Criticism
tests, the one-sided Kolmogorov-Smirnov tests, the one-sided Berk-Jones tests,
the one-sided phi-divergence tests, etc. The input are a group of p-values.
The null hypothesis is that they are i.i.d. Uniform(0,1). In the context of
signal detection, the null hypothesis means no signals. In the context of the
goodness-of-fit testing, which contrasts a group of i.i.d. random variables to
a given continuous distribution, the input p-values can be obtained by the CDF
transformation. The null hypothesis means that these random variables follow the
given distribution. For reference, see [1]Hong Zhang, Jiashun Jin and Zheyang Wu.
"Distributions and power of optimal signal-detection statistics in finite case",
IEEE Transactions on Signal Processing (2020) 68, 1021-1033; [2] Hong Zhang and Zhey [...truncated...]
Author: Hong Zhang and Zheyang Wu
Maintainer: Hong Zhang <hzhang@wpi.edu>
Diff between SetTest versions 0.2.0 dated 2018-03-22 and 0.3.0 dated 2024-07-14
DESCRIPTION | 18 +-- MD5 | 70 ++++++------ R/internal.R | 280 ++++++++++++++++++++++++--------------------------- R/pbj.R | 14 +- R/phc.R | 28 +---- R/pphi.R | 55 +++++----- R/pphi.omni.R | 65 +++++++---- R/qbj.R | 18 +-- R/qhc.R | 103 +----------------- R/qphi.R | 38 ++++-- R/stat.bj.R | 2 R/stat.hc.R | 2 R/stat.phi.R | 2 R/stat.phi.omni.R | 14 +- R/test.bj.R | 17 +-- R/test.hc.R | 32 ++--- R/test.phi.R | 23 ++-- R/test.phi.omni.R | 17 ++- man/pbj.Rd | 14 +- man/phc.Rd | 20 +-- man/power.bj.Rd | 12 +- man/power.hc.Rd | 12 +- man/power.phi.Rd | 13 ++ man/pphi.Rd | 15 ++ man/pphi.omni.Rd | 15 ++ man/qbj.Rd | 21 ++- man/qhc.Rd | 21 ++- man/qphi.Rd | 39 +++++-- man/stat.bj.Rd | 4 man/stat.hc.Rd | 4 man/stat.phi.Rd | 4 man/stat.phi.omni.Rd | 24 +++- man/test.bj.Rd | 15 +- man/test.hc.Rd | 19 +-- man/test.phi.Rd | 23 ++-- man/test.phi.omni.Rd | 17 ++- 36 files changed, 561 insertions(+), 529 deletions(-)
Title: Import Multiple Files From a Single Directory at Once
Description: The goal of tor (to-R) is to help you to import multiple
files from a single directory at once, and to do so as quickly,
flexibly, and simply as possible.
Author: Mauro Lepore [aut, cre]
Maintainer: Mauro Lepore <maurolepore@gmail.com>
Diff between tor versions 1.1.2 dated 2020-03-07 and 1.1.3 dated 2024-07-14
tor-1.1.2/tor/R/imports.R |only tor-1.1.3/tor/DESCRIPTION | 26 +-- tor-1.1.3/tor/MD5 | 30 +-- tor-1.1.3/tor/NEWS.md | 8 tor-1.1.3/tor/R/load_csv.R | 1 tor-1.1.3/tor/R/tor-package.R | 7 tor-1.1.3/tor/README.md | 205 +++++++++++++----------- tor-1.1.3/tor/inst/WORDLIST | 7 tor-1.1.3/tor/man/tor-package.Rd | 5 tor-1.1.3/tor/tests/spelling.R | 9 - tor-1.1.3/tor/tests/testthat.R | 8 tor-1.1.3/tor/tests/testthat/setup.R |only tor-1.1.3/tor/tests/testthat/test-list_any.R | 20 +- tor-1.1.3/tor/tests/testthat/test-list_csv.R | 19 -- tor-1.1.3/tor/tests/testthat/test-load_any.R | 8 tor-1.1.3/tor/tests/testthat/test-load_csv.R | 8 tor-1.1.3/tor/tests/testthat/test-tor_example.R | 2 17 files changed, 192 insertions(+), 171 deletions(-)
Title: Save Output of Statistical Tests
Description: Save the output of statistical tests in an organized file that can
be shared with others or used to report statistics in scientific papers.
Author: Willem Sleegers
Maintainer: Willem Sleegers <w.sleegers@me.com>
Diff between tidystats versions 0.6.1 dated 2024-04-09 and 0.6.2 dated 2024-07-14
DESCRIPTION | 8 ++-- LICENSE | 2 - MD5 | 28 ++++++++-------- NEWS.md | 6 +++ R/zzz.r | 4 +- README.md | 8 ++-- build/partial.rdb |binary build/vignette.rds |binary inst/CITATION | 6 +-- inst/doc/custom-statistics.html | 4 +- inst/doc/introduction-to-tidystats.html | 4 +- inst/doc/reusing-statistics.html | 4 +- tests/data/effectsize.json | 34 ++++++++++---------- tests/data/glm.json | 42 ++++++++++++++---------- tests/testthat/test_glm.R | 54 ++++++++++++++++++++++++++++++++ 15 files changed, 136 insertions(+), 68 deletions(-)
Title: OLS, Moderated, Logistic, and Count Regressions Made Simple
Description: Provides SPSS- and SAS-like output for least squares multiple
regression, logistic regression, and Poisson regression. Detailed output
is also provided for OLS moderated regression, interaction plots, and
Johnson-Neyman regions of significance. The output includes standardized
coefficients, partial and semi-partial correlations, collinearity diagnostics,
plots of residuals, and detailed information about simple slopes for
interactions. There are numerous options for model plots,
including plots of interactions for both lm and lme models.
Author: Brian P. O'Connor
Maintainer: Brian P. O'Connor <brian.oconnor@ubc.ca>
Diff between SIMPLE.REGRESSION versions 0.1.6 dated 2023-02-24 and 0.1.9 dated 2024-07-14
SIMPLE.REGRESSION-0.1.6/SIMPLE.REGRESSION/R/SIMPLE.REGRESSION.R |only SIMPLE.REGRESSION-0.1.6/SIMPLE.REGRESSION/R/boc.R |only SIMPLE.REGRESSION-0.1.6/SIMPLE.REGRESSION/man/SIMPLE.REGRESSION.Rd |only SIMPLE.REGRESSION-0.1.9/SIMPLE.REGRESSION/DESCRIPTION | 27 SIMPLE.REGRESSION-0.1.9/SIMPLE.REGRESSION/MD5 | 64 - SIMPLE.REGRESSION-0.1.9/SIMPLE.REGRESSION/NAMESPACE | 19 SIMPLE.REGRESSION-0.1.9/SIMPLE.REGRESSION/R/COUNT_REGRESSION.R |only SIMPLE.REGRESSION-0.1.9/SIMPLE.REGRESSION/R/LOGISTIC_REGRESSION.R |only SIMPLE.REGRESSION-0.1.9/SIMPLE.REGRESSION/R/MODERATED_REGRESSION.R |only SIMPLE.REGRESSION-0.1.9/SIMPLE.REGRESSION/R/OLS_REGRESSION.R |only SIMPLE.REGRESSION-0.1.9/SIMPLE.REGRESSION/R/PLOT_MODEL.R |only SIMPLE.REGRESSION-0.1.9/SIMPLE.REGRESSION/R/REGIONS_OF_SIGNIFICANCE.R | 546 +++++----- SIMPLE.REGRESSION-0.1.9/SIMPLE.REGRESSION/R/utilities_boc.R |only SIMPLE.REGRESSION-0.1.9/SIMPLE.REGRESSION/data/data_Bauer_Curran_2005.rda |binary SIMPLE.REGRESSION-0.1.9/SIMPLE.REGRESSION/data/data_Halvorson_2022_log.rda |only SIMPLE.REGRESSION-0.1.9/SIMPLE.REGRESSION/data/data_Halvorson_2022_pois.rda |only SIMPLE.REGRESSION-0.1.9/SIMPLE.REGRESSION/data/data_Kremelburg_2011.rda |only SIMPLE.REGRESSION-0.1.9/SIMPLE.REGRESSION/data/data_Lorah_Wong_2018.rda |binary SIMPLE.REGRESSION-0.1.9/SIMPLE.REGRESSION/data/data_Meyers_2013.rda |only SIMPLE.REGRESSION-0.1.9/SIMPLE.REGRESSION/data/data_Orme_2009_2.rda |only SIMPLE.REGRESSION-0.1.9/SIMPLE.REGRESSION/data/data_Orme_2009_5.rda |only SIMPLE.REGRESSION-0.1.9/SIMPLE.REGRESSION/data/data_Pituch_Stevens_2016.rda |only SIMPLE.REGRESSION-0.1.9/SIMPLE.REGRESSION/man/COUNT_REGRESSION.Rd |only SIMPLE.REGRESSION-0.1.9/SIMPLE.REGRESSION/man/LOGISTIC_REGRESSION.Rd |only SIMPLE.REGRESSION-0.1.9/SIMPLE.REGRESSION/man/MODERATED_REGRESSION.Rd |only SIMPLE.REGRESSION-0.1.9/SIMPLE.REGRESSION/man/OLS_REGRESSION.Rd |only SIMPLE.REGRESSION-0.1.9/SIMPLE.REGRESSION/man/PARTIAL_COEFS.Rd | 12 SIMPLE.REGRESSION-0.1.9/SIMPLE.REGRESSION/man/PLOT_MODEL.Rd |only SIMPLE.REGRESSION-0.1.9/SIMPLE.REGRESSION/man/REGIONS_OF_SIGNIFICANCE.Rd | 139 +- SIMPLE.REGRESSION-0.1.9/SIMPLE.REGRESSION/man/SIMPLE.REGRESSION-package.Rd | 25 SIMPLE.REGRESSION-0.1.9/SIMPLE.REGRESSION/man/data_Bauer_Curran_2005.Rd | 10 SIMPLE.REGRESSION-0.1.9/SIMPLE.REGRESSION/man/data_Bodner_2016.Rd | 21 SIMPLE.REGRESSION-0.1.9/SIMPLE.REGRESSION/man/data_Chapman_Little_2016.Rd | 19 SIMPLE.REGRESSION-0.1.9/SIMPLE.REGRESSION/man/data_Cohen_Aiken_West_2003_7.Rd | 20 SIMPLE.REGRESSION-0.1.9/SIMPLE.REGRESSION/man/data_Cohen_Aiken_West_2003_9.Rd | 22 SIMPLE.REGRESSION-0.1.9/SIMPLE.REGRESSION/man/data_Green_Salkind_2014.Rd | 13 SIMPLE.REGRESSION-0.1.9/SIMPLE.REGRESSION/man/data_Halvorson_2022_log.Rd |only SIMPLE.REGRESSION-0.1.9/SIMPLE.REGRESSION/man/data_Halvorson_2022_pois.Rd |only SIMPLE.REGRESSION-0.1.9/SIMPLE.REGRESSION/man/data_Huitema_2011.Rd | 16 SIMPLE.REGRESSION-0.1.9/SIMPLE.REGRESSION/man/data_Kremelburg_2011.Rd |only SIMPLE.REGRESSION-0.1.9/SIMPLE.REGRESSION/man/data_Lorah_Wong_2018.Rd | 24 SIMPLE.REGRESSION-0.1.9/SIMPLE.REGRESSION/man/data_Meyers_2013.Rd |only SIMPLE.REGRESSION-0.1.9/SIMPLE.REGRESSION/man/data_OConnor_Dvorak_2001.Rd | 40 SIMPLE.REGRESSION-0.1.9/SIMPLE.REGRESSION/man/data_Orme_2009_2.Rd |only SIMPLE.REGRESSION-0.1.9/SIMPLE.REGRESSION/man/data_Orme_2009_5.Rd |only SIMPLE.REGRESSION-0.1.9/SIMPLE.REGRESSION/man/data_Pedhazur_1997.Rd | 19 SIMPLE.REGRESSION-0.1.9/SIMPLE.REGRESSION/man/data_Pituch_Stevens_2016.Rd |only 47 files changed, 504 insertions(+), 532 deletions(-)
More information about SIMPLE.REGRESSION at CRAN
Permanent link
Title: Non-Linear Regression with Brute Force
Description: Adds brute force and multiple starting values to nls.
Author: G. Grothendieck, R Core Team
Maintainer: G. Grothendieck <ggrothendieck@gmail.com>
Diff between nls2 versions 0.3-3 dated 2022-05-02 and 0.3-4 dated 2024-07-14
DESCRIPTION | 12 ++++++------ MD5 | 11 ++++++----- NEWS | 6 ++++++ R/nls.CPoptim.R |only R/nls2.R | 12 +++++++++++- man/nls2-internal.Rd | 5 +++-- man/nls2.Rd | 26 +++++++++++++++++++++++--- 7 files changed, 55 insertions(+), 17 deletions(-)
Title: Adaptive Multivariate Integration over Hypercubes
Description: R wrappers around the cubature C library of Steven
G. Johnson for adaptive multivariate integration over hypercubes
and the Cuba C library of Thomas Hahn for deterministic and
Monte Carlo integration. Scalar and vector interfaces for
cubature and Cuba routines are provided; the vector interfaces
are highly recommended as demonstrated in the package
vignette.
Author: Balasubramanian Narasimhan [aut, cre],
Manuel Koller [ctb],
Steven G. Johnson [aut],
Thomas Hahn [aut],
Annie Bouvier [aut],
Kien Kieu [aut],
Simen Gaure [ctb]
Maintainer: Balasubramanian Narasimhan <naras@stat.stanford.edu>
Diff between cubature versions 2.1.0 dated 2023-06-11 and 2.1.1 dated 2024-07-14
DESCRIPTION | 8 MD5 | 38 - NEWS.md | 8 R/cubature-package.R | 5 R/cubintegrate.R | 20 R/hcubature.R | 6 build/vignette.rds |binary inst/doc/cubature.R | 14 inst/doc/cubature.Rmd | 14 inst/doc/cubature.html | 1113 ++++++++++++++++++++++++------------------------ inst/doc/version2.R | 2 inst/doc/version2.Rmd | 10 inst/doc/version2.html | 285 +++--------- man/cubature-package.Rd | 10 man/cubintegrate.Rd | 19 man/hcubature.Rd | 6 src/Cuba/makefile.in | 16 src/Makevars | 3 vignettes/cubature.Rmd | 14 vignettes/version2.Rmd | 10 20 files changed, 740 insertions(+), 861 deletions(-)
Title: Clusterwise Independent Component Analysis
Description: Clustering multi-subject resting state functional Magnetic Resonance Imaging data. This methods enables the clustering of subjects based on multi-subject resting state functional Magnetic Resonance Imaging data. Objects are clustered based on similarities and differences in cluster-specific estimated components obtained by Independent Component Analysis.
Author: Jeffrey Durieux [aut, cre], Tom Wilderjans [aut], Juan Claramunt Gonzalez [ctb]
Maintainer: Jeffrey Durieux <durieux.jeffrey@gmail.com>
Diff between CICA versions 1.1.0 dated 2024-07-11 and 1.1.1 dated 2024-07-14
DESCRIPTION | 6 +++--- MD5 | 6 +++--- R/CICA.R | 6 +++--- R/ExtractICA.R | 6 +----- 4 files changed, 10 insertions(+), 14 deletions(-)
Title: Bayesian Estimation of Structural Vector Autoregressive Models
Description: Provides fast and efficient procedures for Bayesian analysis of Structural Vector Autoregressions. This package estimates a wide range of models, including homo-, heteroskedastic, and non-normal specifications. Structural models can be identified by adjustable exclusion restrictions, time-varying volatility, or non-normality. They all include a flexible three-level equation-specific local-global hierarchical prior distribution for the estimated level of shrinkage for autoregressive and structural parameters. Additionally, the package facilitates predictive and structural analyses such as impulse responses, forecast error variance and historical decompositions, forecasting, verification of heteroskedasticity, non-normality, and hypotheses on autoregressive parameters, as well as analyses of structural shocks, volatilities, and fitted values. Beautiful plots, informative summary functions, and extensive documentation complement all this. The implemented techniques align closely with thos [...truncated...]
Author: Tomasz Wozniak [aut, cre]
Maintainer: Tomasz Wozniak <wozniak.tom@pm.me>
Diff between bsvars versions 3.0.1 dated 2024-06-28 and 3.1 dated 2024-07-14
DESCRIPTION | 10 MD5 | 127 ++- NAMESPACE | 27 NEWS.md | 9 R/bsvars-package.R | 3 R/compute_conditional_sd.R | 62 + R/compute_fitted_values.R | 61 + R/compute_historical_decompositions.R | 84 ++ R/compute_impulse_responses.R | 54 + R/compute_structural_shocks.R | 58 + R/compute_variance_decompositions.R | 65 + R/estimate.BSVART.R |only R/forecast.R | 360 ++++++++-- R/plot.R | 36 - R/specify_bsvar_t.R |only R/summary.R | 533 ++++++++++++++- R/verify.R | 515 +++++++++++++- inst/CITATION | 4 inst/include/bsvars_RcppExports.h | 204 ++--- inst/tinytest/test_compute_conditional_sd.R | 39 + inst/tinytest/test_compute_impulse_responses.R | 34 inst/tinytest/test_compute_variance_decomposition.R | 29 inst/tinytest/test_estimate_bsvar_t.R |only inst/tinytest/test_forecast.R | 61 + inst/tinytest/test_verify_identification.R |only man/compute_conditional_sd.PosteriorBSVART.Rd |only man/compute_fitted_values.PosteriorBSVART.Rd |only man/compute_historical_decompositions.PosteriorBSVART.Rd |only man/compute_impulse_responses.PosteriorBSVART.Rd |only man/compute_structural_shocks.PosteriorBSVART.Rd |only man/compute_variance_decompositions.PosteriorBSVART.Rd |only man/estimate.BSVART.Rd |only man/estimate.PosteriorBSVART.Rd |only man/forecast.PosteriorBSVART.Rd |only man/specify_bsvar_t.Rd |only man/specify_posterior_bsvar_t.Rd |only man/specify_prior_bsvar_t.Rd |only man/specify_starting_values_bsvar_t.Rd |only man/summary.Forecasts.Rd | 4 man/summary.PosteriorBSVAR.Rd | 4 man/summary.PosteriorBSVARMIX.Rd | 4 man/summary.PosteriorBSVARMSH.Rd | 4 man/summary.PosteriorBSVARSV.Rd | 4 man/summary.PosteriorBSVART.Rd |only man/summary.PosteriorFEVD.Rd | 4 man/summary.PosteriorFitted.Rd | 4 man/summary.PosteriorHD.Rd | 4 man/summary.PosteriorIR.Rd | 4 man/summary.PosteriorRegimePr.Rd | 4 man/summary.PosteriorShocks.Rd | 4 man/summary.SDDRautoregression.Rd | 4 man/summary.SDDRidMIX.Rd |only man/summary.SDDRidMSH.Rd |only man/summary.SDDRidSV.Rd |only man/summary.SDDRidT.Rd |only man/summary.SDDRvolatility.Rd | 4 man/verify_autoregression.PosteriorBSVAR.Rd | 4 man/verify_autoregression.PosteriorBSVARMIX.Rd | 4 man/verify_autoregression.PosteriorBSVARMSH.Rd | 4 man/verify_autoregression.PosteriorBSVARSV.Rd | 4 man/verify_autoregression.PosteriorBSVART.Rd |only man/verify_autoregression.Rd | 4 man/verify_identification.PosteriorBSVAR.Rd |only man/verify_identification.PosteriorBSVARMIX.Rd |only man/verify_identification.PosteriorBSVARMSH.Rd |only man/verify_identification.PosteriorBSVARSV.Rd |only man/verify_identification.PosteriorBSVART.Rd |only man/verify_identification.Rd |only man/verify_volatility.PosteriorBSVAR.Rd | 7 man/verify_volatility.PosteriorBSVARMIX.Rd | 7 man/verify_volatility.PosteriorBSVARMSH.Rd | 7 man/verify_volatility.PosteriorBSVARSV.Rd | 7 man/verify_volatility.Rd | 7 src/RcppExports.cpp | 371 ++++------ src/bsvar_t.cpp |only src/bsvar_t.h |only src/forecast.cpp | 324 ++------- src/forecast.h | 73 -- src/sample_t.cpp |only src/sample_t.h |only src/verify.cpp | 4 81 files changed, 2421 insertions(+), 833 deletions(-)
More information about ChangePointTaylor at CRAN
Permanent link
Title: Advanced Graphics and Image-Processing in R
Description: Bindings to 'ImageMagick': the most comprehensive open-source image
processing library available. Supports many common formats (png, jpeg, tiff,
pdf, etc) and manipulations (rotate, scale, crop, trim, flip, blur, etc).
All operations are vectorized via the Magick++ STL meaning they operate either
on a single frame or a series of frames for working with layers, collages,
or animation. In RStudio images are automatically previewed when printed to
the console, resulting in an interactive editing environment. The latest
version of the package includes a native graphics device for creating
in-memory graphics or drawing onto images using pixel coordinates.
Author: Jeroen Ooms [aut, cre]
Maintainer: Jeroen Ooms <jeroen@berkeley.edu>
Diff between magick versions 2.8.3 dated 2024-02-18 and 2.8.4 dated 2024-07-14
DESCRIPTION | 8 +-- MD5 | 30 +++++------ NEWS | 7 +- R/RcppExports.R | 4 - R/defines.R | 2 R/edit.R | 12 +++- build/vignette.rds |binary cleanup | 1 configure | 8 +-- inst/doc/intro.Rmd | 2 inst/doc/intro.html | 127 ++++++++++++++++++++++++------------------------ man/editing.Rd | 5 + src/RcppExports.cpp | 9 +-- src/magick_types.h | 2 src/transformations.cpp | 8 ++- vignettes/intro.Rmd | 2 16 files changed, 122 insertions(+), 105 deletions(-)
Title: General-to-Specific (GETS) Modelling and Indicator Saturation
Methods
Description: Automated General-to-Specific (GETS) modelling of the mean and variance of a regression, and indicator saturation methods for detecting and testing for structural breaks in the mean, see Pretis, Reade and Sucarrat (2018) <doi:10.18637/jss.v086.i03> for an overview of the package. In advanced use, the estimator and diagnostics tests can be fully user-specified, see Sucarrat (2021) <doi:10.32614/RJ-2021-024>.
Author: Genaro Sucarrat [aut, cre], Felix Pretis [aut], James Reade [aut], Jonas Kurle [ctb], Moritz Schwarz [ctb]
Maintainer: Genaro Sucarrat <genaro.sucarrat@bi.no>
Diff between gets versions 0.37 dated 2022-10-09 and 0.38 dated 2024-07-14
DESCRIPTION | 13 - MD5 | 100 ++++--- NAMESPACE | 32 ++ NEWS | 29 ++ R/gets-base-source.R | 406 +++++++++++++++++--------------- R/gets-internal.R | 4 R/gets-isat-source.R | 2 R/gets-larch-source.R |only R/gets-logitx-source.R | 13 - build/partial.rdb |binary data/hpdata.rda |binary data/infldata.rda |binary data/so2data.rda |binary data/sp500data.rda |binary inst/doc/user-defined-gets-and-isat.pdf |binary man/arx.Rd | 30 +- man/as.lm.Rd | 4 man/biascorr.Rd | 2 man/coef.arx.Rd | 13 - man/coef.gets.Rd | 14 - man/coef.isat.Rd | 14 - man/coef.larch.Rd |only man/distorttest.Rd | 2 man/distorttestboot.Rd | 2 man/eqwma.Rd | 8 man/gets-package.Rd | 12 man/gets.isat.Rd | 4 man/gets.larch.Rd |only man/getsFun.Rd | 2 man/getsm.Rd | 2 man/iim.Rd | 6 man/isat.Rd | 12 man/isatdates.Rd | 2 man/isatloop.Rd | 4 man/isattest.Rd | 2 man/isatvar.Rd | 2 man/isatvarcorrect.Rd | 2 man/isvarcor.Rd | 2 man/isvareffcor.Rd | 2 man/larch.Rd |only man/larchEstfun.Rd |only man/logitx.Rd | 4 man/logitxSim.Rd | 4 man/mvrnormsim.Rd | 2 man/ols.Rd | 13 - man/outlierscaletest.Rd | 2 man/outliertest.Rd | 2 man/periodicdummies.Rd | 8 man/predict.arx.Rd | 6 man/predict.larch.Rd |only man/recursive.Rd | 4 man/regressorsMean.Rd | 14 - man/regressorsVariance.Rd | 51 ++-- man/vargaugeiis.Rd | 4 54 files changed, 482 insertions(+), 374 deletions(-)
Title: Interface for the 'QuickJS' Lightweight 'JavaScript' Engine
Description: An 'R' interface to the 'QuickJS' portable 'JavaScript'
engine. The engine and all 'R' to 'JavaScript' interoperability is bundled
within the package, requiring no dependencies beyond a 'C' compiler.
Author: Andrew R. Johnson [aut, cre] ,
Fabrice Bellard [cph] ,
Charlie Gordon [cph] ,
QuickJS-NG Authors [cph]
Maintainer: Andrew R. Johnson <andrew.johnson@arjohnsonau.com>
Diff between QuickJSR versions 1.3.0 dated 2024-07-08 and 1.3.1 dated 2024-07-14
DESCRIPTION | 6 MD5 | 14 - NEWS.md | 3 inst/doc/working_with_js_types.html | 2 inst/include/cpp11/environment.hpp | 5 src/Makevars | 17 -- src/init.cpp | 25 +-- src/quickjsr.cpp | 286 ++++++++++++++++++------------------ 8 files changed, 175 insertions(+), 183 deletions(-)
Title: A Glimpse at the Diversity of Peru's Endemic Plants
Description: Introducing a novel and updated database showcasing Peru's endemic plants. This meticulously compiled and revised botanical collection encompasses a remarkable assemblage of over 7,249 distinct species. The data for this resource was sourced from the work of Govaerts, R., Nic Lughadha, E., Black, N. et al., titled 'The World Checklist of Vascular Plants: A continuously updated resource for exploring global plant diversity', published in Sci Data 8, 215 (2021) <doi:10.1038/s41597-021-00997-6>.
Author: Paul E. Santos Andrade [aut, cre]
,
Lucely L. Vilca Bustamante [aut]
Maintainer: Paul E. Santos Andrade <paulefrens@gmail.com>
Diff between ppendemic versions 0.1.7 dated 2023-08-15 and 0.1.8 dated 2024-07-14
ppendemic-0.1.7/ppendemic/R/globals.R |only ppendemic-0.1.7/ppendemic/R/internals.R |only ppendemic-0.1.7/ppendemic/R/ppendemic_dat.R |only ppendemic-0.1.7/ppendemic/R/sysdata.rda |only ppendemic-0.1.7/ppendemic/data/ppendemic_tab.rda |only ppendemic-0.1.7/ppendemic/man/figures/README-map-1.png |only ppendemic-0.1.7/ppendemic/man/get_ppendemic_data.Rd |only ppendemic-0.1.7/ppendemic/man/ppendemic_tab.Rd |only ppendemic-0.1.7/ppendemic/tests/testthat/test_get_ppendemic_data.R |only ppendemic-0.1.7/ppendemic/tests/testthat/test_is_ppendemic.R |only ppendemic-0.1.7/ppendemic/tests/testthat/test_ppendemic_tab.R |only ppendemic-0.1.8/ppendemic/DESCRIPTION | 10 - ppendemic-0.1.8/ppendemic/LICENSE | 4 ppendemic-0.1.8/ppendemic/MD5 | 52 +++-- ppendemic-0.1.8/ppendemic/NAMESPACE | 2 ppendemic-0.1.8/ppendemic/R/direct_match.R |only ppendemic-0.1.8/ppendemic/R/direct_match_spp_genus.R |only ppendemic-0.1.8/ppendemic/R/fuzzy_match_genus.R |only ppendemic-0.1.8/ppendemic/R/fuzzy_match_infraspp_within_species.R |only ppendemic-0.1.8/ppendemic/R/fuzzy_match_spp_within_genus.R |only ppendemic-0.1.8/ppendemic/R/genus_match.R |only ppendemic-0.1.8/ppendemic/R/internal.R |only ppendemic-0.1.8/ppendemic/R/is_ppendemic.R | 77 +------- ppendemic-0.1.8/ppendemic/R/matching_ppendemic.R |only ppendemic-0.1.8/ppendemic/R/ppendemic_data.R | 23 +- ppendemic-0.1.8/ppendemic/R/suffix_match_spp_within_genus.R |only ppendemic-0.1.8/ppendemic/README.md | 89 +++------- ppendemic-0.1.8/ppendemic/data/ppendemic_tab13.rda |only ppendemic-0.1.8/ppendemic/inst/CITATION | 4 ppendemic-0.1.8/ppendemic/man/direct_match.Rd |only ppendemic-0.1.8/ppendemic/man/direct_match_species_within_genus_helper.Rd |only ppendemic-0.1.8/ppendemic/man/figures/README-unnamed-chunk-2-1.png |binary ppendemic-0.1.8/ppendemic/man/figures/ppendemic_logo.png |only ppendemic-0.1.8/ppendemic/man/fuzzy_match_genus.Rd |only ppendemic-0.1.8/ppendemic/man/fuzzy_match_infraspecies_within_species.Rd |only ppendemic-0.1.8/ppendemic/man/fuzzy_match_species_within_genus_helper.Rd |only ppendemic-0.1.8/ppendemic/man/genus_match.Rd |only ppendemic-0.1.8/ppendemic/man/is_ppendemic.Rd | 19 -- ppendemic-0.1.8/ppendemic/man/matching_ppendemic.Rd |only ppendemic-0.1.8/ppendemic/man/ppendemic_tab13.Rd |only ppendemic-0.1.8/ppendemic/man/suffix_match_species_within_genus_helper.Rd |only ppendemic-0.1.8/ppendemic/tests/testthat.R | 24 +- ppendemic-0.1.8/ppendemic/tests/testthat/test_matching_ppendemic.R |only 43 files changed, 116 insertions(+), 188 deletions(-)
Title: Multidimensional Item Response Theory
Description: Analysis of discrete response data using
unidimensional and multidimensional item analysis models under the Item
Response Theory paradigm (Chalmers (2012) <doi:10.18637/jss.v048.i06>).
Exploratory and confirmatory item factor analysis models
are estimated with quadrature (EM) or stochastic (MHRM) methods. Confirmatory
bi-factor and two-tier models are available for modeling item testlets using
dimension reduction EM algorithms, while multiple group analyses and
mixed effects designs are included for detecting differential item, bundle,
and test functioning, and for modeling item and person covariates.
Finally, latent class models such as the DINA, DINO, multidimensional latent class,
mixture IRT models, and zero-inflated response models are supported.
Author: Phil Chalmers [aut, cre] ,
Joshua Pritikin [ctb],
Alexander Robitzsch [ctb],
Mateusz Zoltak [ctb],
KwonHyun Kim [ctb],
Carl F. Falk [ctb],
Adam Meade [ctb],
Lennart Schneider [ctb],
David King [ctb],
Chen-Wei Liu [ctb],
Ogreden Oguzhan [ctb]
Maintainer: Phil Chalmers <rphilip.chalmers@gmail.com>
Diff between mirt versions 1.41 dated 2023-10-17 and 1.42 dated 2024-07-14
DESCRIPTION | 12 +- MD5 | 187 ++++++++++++++++---------------- NAMESPACE | 3 NEWS.md | 30 +++++ R/02a-general_methods.R | 23 +++ R/02b-item_methods.R | 20 +-- R/03-estimation.R | 26 +++- R/08-SE.methods.R | 22 ++- R/DIF.R | 7 - R/DRF.R | 12 +- R/EMstep.group.R | 34 ++--- R/EMstep.utils.R | 34 +++-- R/M2.R | 34 ++--- R/MHRM.group.R | 4 R/MultipleGroup-methods.R | 3 R/RCI.R | 153 +++++++++++++++++++++++--- R/RMSD_DIF.R | 32 +++++ R/SingleGroup-methods.R | 41 +++---- R/bfactor.R | 63 +++++++++- R/boot.mirt.R | 2 R/createItem.R | 3 R/empirical_ES.R | 11 + R/empirical_plot.R | 8 - R/estfun.R | 3 R/expected.item.R | 12 +- R/expected.test.R | 3 R/fixedCalib.R | 20 ++- R/fscores.R | 30 ++++- R/fscores.internal.R | 11 + R/itemGAM.R | 6 - R/itemfit.R | 28 +++- R/itemplot.R | 15 +- R/itemplot.internal.R | 2 R/mdirt.R | 5 R/mirt-package.R | 94 ++++++++++++---- R/mirt.R | 3 R/mirt.model.R | 24 +++- R/mixedmirt.R | 7 - R/multipleGroup.R | 132 ++++++++++++++++++++++ R/personfit.R | 36 ++++-- R/reverse.score.R |only R/shinyItemplot.R | 7 - R/simdata.R | 8 + R/utils.R | 103 +++++++++++++++++ R/wald.R | 11 + build/partial.rdb |binary build/vignette.rds |binary data/ASVAB.RData |only inst/doc/mirt-vignettes.html | 208 ++++++++++-------------------------- man/ASVAB.Rd |only man/Bock1997.Rd | 4 man/DIF.Rd | 4 man/DRF.Rd | 8 - man/LSAT6.Rd | 4 man/LSAT7.Rd | 16 ++ man/M2.Rd | 2 man/RCI.Rd | 90 +++++++++++++-- man/RMSD_DIF.Rd | 26 ++++ man/SAT12.Rd | 4 man/Science.Rd | 9 - man/anova-method.Rd | 1 man/bfactor.Rd | 64 +++++++---- man/coef-method.Rd | 1 man/createItem.Rd | 2 man/deAyala.Rd | 4 man/draw_parameters.Rd | 4 man/empirical_ES.Rd | 6 - man/empirical_plot.Rd | 8 - man/expected.item.Rd | 8 + man/expected.test.Rd | 2 man/fscores.Rd | 30 ++++- man/itemGAM.Rd | 6 - man/itemfit.Rd | 10 - man/itemplot.Rd | 10 - man/logLik-method.Rd | 1 man/mdirt.Rd | 3 man/mirt-package.Rd | 7 - man/mirt.Rd | 3 man/mirt.model.Rd | 21 +++ man/mixedmirt.Rd | 3 man/multipleGroup.Rd | 131 ++++++++++++++++++++++ man/personfit.Rd | 12 +- man/plot-method.Rd | 7 - man/print-method.Rd | 1 man/residuals-method.Rd | 6 - man/reverse.score.Rd |only man/secondOrderTest.Rd |only man/show-method.Rd | 1 man/summary-method.Rd | 1 man/traditional2mirt.Rd | 5 man/vcov-method.Rd | 1 src/Estep.cpp | 77 ++++++++----- src/Estep.h | 6 - src/dpars.cpp | 47 +++----- tests/tests/test-01-mirtOne.R | 22 +++ tests/tests/test-04-multipleGroup.R | 18 ++- tests/tests/test-11-discrete.R | 12 +- 97 files changed, 1564 insertions(+), 676 deletions(-)
Title: Sparse-Group SLOPE: Adaptive Bi-Level Selection with FDR Control
Description: Implementation of Sparse-group SLOPE (SGS) (Feser and Evangelou (2023) <doi:10.48550/arXiv.2305.09467>) models. Linear and logistic regression models are supported, both of which can be fit using k-fold cross-validation. Dense and sparse input matrices are supported. In addition, a general adaptive three operator splitting (ATOS) implementation is provided. Group SLOPE (gSLOPE) (Brzyski et al. (2019) <doi:10.1080/01621459.2017.1411269>) models are also implemented. Both gSLOPE and SGS are available with strong screening rules (Feser and Evangelou (2024) <doi:10.48550/arXiv.2405.15357>) for computational speed-up.
Author: Fabio Feser [aut, cre] ,
Marina Evangelou [aut]
Maintainer: Fabio Feser <ff120@ic.ac.uk>
Diff between sgs versions 0.1.1 dated 2023-08-22 and 0.2.0 dated 2024-07-13
sgs-0.1.1/sgs/R/generate_penalties.R |only sgs-0.1.1/sgs/R/toy_data_gen.R |only sgs-0.1.1/sgs/man/generate_penalties.Rd |only sgs-0.1.1/sgs/man/generate_toy_data.Rd |only sgs-0.1.1/sgs/man/plot.sgs_cv.Rd |only sgs-0.2.0/sgs/DESCRIPTION | 14 sgs-0.2.0/sgs/MD5 | 97 + sgs-0.2.0/sgs/NAMESPACE | 20 sgs-0.2.0/sgs/R/RcppExports.R | 10 sgs-0.2.0/sgs/R/as_sgs.R | 36 sgs-0.2.0/sgs/R/atos.R | 99 - sgs-0.2.0/sgs/R/coef.R |only sgs-0.2.0/sgs/R/fit_gslope.R |only sgs-0.2.0/sgs/R/fit_gslope_cv.R |only sgs-0.2.0/sgs/R/fit_sgs.R | 444 +------- sgs-0.2.0/sgs/R/fit_sgs_cv.R | 157 -- sgs-0.2.0/sgs/R/fitting_code.R |only sgs-0.2.0/sgs/R/gen_pens.R |only sgs-0.2.0/sgs/R/gen_toy_data.R |only sgs-0.2.0/sgs/R/global_wrapper_code.R |only sgs-0.2.0/sgs/R/plot.R | 50 sgs-0.2.0/sgs/R/predict.R | 94 + sgs-0.2.0/sgs/R/print.R | 29 sgs-0.2.0/sgs/R/run_algorithm.R | 102 - sgs-0.2.0/sgs/R/scaled_sgs.R | 80 - sgs-0.2.0/sgs/R/screen.R |only sgs-0.2.0/sgs/R/sgs-package.R | 1 sgs-0.2.0/sgs/R/utils.R | 1269 ++++++++++++----------- sgs-0.2.0/sgs/README.md | 39 sgs-0.2.0/sgs/build/partial.rdb |only sgs-0.2.0/sgs/build/vignette.rds |binary sgs-0.2.0/sgs/inst/CITATION |only sgs-0.2.0/sgs/inst/doc/reproducible_example.R | 63 - sgs-0.2.0/sgs/inst/doc/reproducible_example.Rmd | 370 +++--- sgs-0.2.0/sgs/inst/doc/reproducible_example.html | 779 +++++++++++--- sgs-0.2.0/sgs/man/arma_mv.Rd | 38 sgs-0.2.0/sgs/man/arma_sparse.Rd |only sgs-0.2.0/sgs/man/as_sgs.Rd | 25 sgs-0.2.0/sgs/man/atos.Rd | 34 sgs-0.2.0/sgs/man/coef.sgs.Rd |only sgs-0.2.0/sgs/man/figures/README-gslope-ex.avif |only sgs-0.2.0/sgs/man/figures/README-sgs-ex.avif |only sgs-0.2.0/sgs/man/fit_gslope.Rd |only sgs-0.2.0/sgs/man/fit_gslope_cv.Rd |only sgs-0.2.0/sgs/man/fit_sgs.Rd | 78 - sgs-0.2.0/sgs/man/fit_sgs_cv.Rd | 80 - sgs-0.2.0/sgs/man/gen_pens.Rd |only sgs-0.2.0/sgs/man/gen_toy_data.Rd |only sgs-0.2.0/sgs/man/plot.sgs.Rd |only sgs-0.2.0/sgs/man/predict.sgs.Rd | 29 sgs-0.2.0/sgs/man/print.sgs.Rd | 23 sgs-0.2.0/sgs/man/scaled_sgs.Rd | 27 sgs-0.2.0/sgs/man/sgs-package.Rd | 4 sgs-0.2.0/sgs/src/RcppExports.cpp | 13 sgs-0.2.0/sgs/src/arma_sparse.cpp |only sgs-0.2.0/sgs/tests/testthat/test-gglasso.R | 8 sgs-0.2.0/sgs/tests/testthat/test-grpslope.R |only sgs-0.2.0/sgs/tests/testthat/test-lasso.R | 10 sgs-0.2.0/sgs/tests/testthat/test-ols.R | 4 sgs-0.2.0/sgs/tests/testthat/test-screen.R |only sgs-0.2.0/sgs/tests/testthat/test-sgl.R | 12 sgs-0.2.0/sgs/tests/testthat/test-slope.R | 32 sgs-0.2.0/sgs/vignettes/reproducible_example.Rmd | 370 +++--- 63 files changed, 2575 insertions(+), 1965 deletions(-)
Title: Methods for Colour Vectors and Colour Palettes
Description: Provides a comprehensive library for colour vectors and colour
palettes using a new family of colour classes (palettes_colour and
palettes_palette) that always print as hex codes with colour previews.
Capabilities include: formatting, casting and coercion, extraction and
updating of components, plotting, colour mixing arithmetic, and colour
interpolation.
Author: Michael McCarthy [aut, cre, cph]
Maintainer: Michael McCarthy <m.mccarthy1624@gmail.com>
Diff between palettes versions 0.2.0 dated 2024-02-05 and 0.2.1 dated 2024-07-13
DESCRIPTION | 14 - MD5 | 22 - NEWS.md | 4 R/ggplot2-scales.R | 3 R/sysdata.rda |binary README.md | 2 inst/doc/ggplot2.html | 8 inst/doc/gt.R | 4 inst/doc/gt.Rmd | 4 inst/doc/gt.html | 359 ++++++++++++++++---------------- tests/testthat/_snaps/ggplot2-scales.md | 4 vignettes/gt.Rmd | 4 12 files changed, 227 insertions(+), 201 deletions(-)
Title: Download and Parse Public Data Released by B3 Exchange
Description: Download and parse public files released by B3 and convert them
into useful formats and data structures common to data analysis
practitioners.
Author: Wilson Freitas [aut, cre],
Marcelo Perlin [aut]
Maintainer: Wilson Freitas <wilson.freitas@gmail.com>
Diff between rb3 versions 0.0.10 dated 2023-04-14 and 0.0.11 dated 2024-07-13
rb3-0.0.10/rb3/R/scraper-cdi.R |only rb3-0.0.10/rb3/inst/extdata/templates/CDIIDI.yaml |only rb3-0.0.10/rb3/man/cdi-idi.Rd |only rb3-0.0.10/rb3/tests/fixtures/CDIIDI.yml |only rb3-0.0.10/rb3/tests/testthat/test-cdi.R |only rb3-0.0.10/rb3/tests/testthat/test-cdiidi.R |only rb3-0.0.11/rb3/DESCRIPTION | 12 rb3-0.0.11/rb3/MD5 | 248 rb3-0.0.11/rb3/NAMESPACE | 272 rb3-0.0.11/rb3/NEWS.md | 210 rb3-0.0.11/rb3/R/addin-display-template.R | 154 rb3-0.0.11/rb3/R/addin-show-templates.R | 72 rb3-0.0.11/rb3/R/convert_to.R | 72 rb3-0.0.11/rb3/R/download-data.R | 194 rb3-0.0.11/rb3/R/downloaders.R | 402 rb3-0.0.11/rb3/R/fields.R | 194 rb3-0.0.11/rb3/R/file.R | 68 rb3-0.0.11/rb3/R/handlers.R | 144 rb3-0.0.11/rb3/R/marketdata.R | 522 rb3-0.0.11/rb3/R/rb3-package.R | 146 rb3-0.0.11/rb3/R/readers.R | 932 rb3-0.0.11/rb3/R/scraper-company.R | 798 rb3-0.0.11/rb3/R/scraper-cotahist.R | 642 rb3-0.0.11/rb3/R/scraper-futures.R | 374 rb3-0.0.11/rb3/R/scraper-indexes.R | 664 rb3-0.0.11/rb3/R/scraper-yc.R | 772 rb3-0.0.11/rb3/R/transmute.R | 496 rb3-0.0.11/rb3/R/util.R | 290 rb3-0.0.11/rb3/R/zzz.R | 248 rb3-0.0.11/rb3/README.md | 820 rb3-0.0.11/rb3/build/vignette.rds |binary rb3-0.0.11/rb3/inst/CITATION | 50 rb3-0.0.11/rb3/inst/doc/B3-Indexes.R | 144 rb3-0.0.11/rb3/inst/doc/B3-Indexes.html | 1080 rb3-0.0.11/rb3/inst/doc/Fetching-historical-future-rates.R | 284 rb3-0.0.11/rb3/inst/doc/Fetching-historical-future-rates.Rmd | 404 rb3-0.0.11/rb3/inst/doc/Fetching-historical-future-rates.html | 1022 rb3-0.0.11/rb3/inst/doc/Fetching-historical-yield-curve.R | 278 rb3-0.0.11/rb3/inst/doc/Fetching-historical-yield-curve.Rmd | 338 rb3-0.0.11/rb3/inst/doc/Fetching-historical-yield-curve.html | 935 rb3-0.0.11/rb3/inst/extdata/CDIIDI.json | 10 rb3-0.0.11/rb3/inst/extdata/GetDetailsCompany.json | 2 rb3-0.0.11/rb3/inst/extdata/GetListedCashDividends.json | 2 rb3-0.0.11/rb3/inst/extdata/GetListedSupplementCompany.json | 2 rb3-0.0.11/rb3/inst/extdata/GetStockIndex.json | 2 rb3-0.0.11/rb3/inst/extdata/GetTheoricalPortfolio.json | 2 rb3-0.0.11/rb3/inst/extdata/templates/AjustesDiarios.yaml | 52 rb3-0.0.11/rb3/inst/extdata/templates/BDIN.yaml | 1906 rb3-0.0.11/rb3/inst/extdata/templates/BD_Arbit.yaml | 1016 rb3-0.0.11/rb3/inst/extdata/templates/CONTRCAD.yaml | 430 rb3-0.0.11/rb3/inst/extdata/templates/COTAHIST_DAILY.yaml | 468 rb3-0.0.11/rb3/inst/extdata/templates/COTAHIST_MONTHLY.yaml | 468 rb3-0.0.11/rb3/inst/extdata/templates/COTAHIST_YEARLY.yaml | 468 rb3-0.0.11/rb3/inst/extdata/templates/CenariosCurva.yaml | 108 rb3-0.0.11/rb3/inst/extdata/templates/CenariosPrecoReferencia.yaml | 104 rb3-0.0.11/rb3/inst/extdata/templates/CenariosSpot.yaml | 96 rb3-0.0.11/rb3/inst/extdata/templates/DeltaOpcoes.yaml | 220 rb3-0.0.11/rb3/inst/extdata/templates/Eletro.yaml | 294 rb3-0.0.11/rb3/inst/extdata/templates/FPR.yaml | 116 rb3-0.0.11/rb3/inst/extdata/templates/GetDetailsCompany.yaml | 129 rb3-0.0.11/rb3/inst/extdata/templates/GetListedCashDividends.yaml | 87 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rb3-0.0.11/rb3/tests/testthat/test-convert_to.R | 34 rb3-0.0.11/rb3/tests/testthat/test-cotahist.R | 182 rb3-0.0.11/rb3/tests/testthat/test-downloaders.R | 362 rb3-0.0.11/rb3/tests/testthat/test-fields.R | 72 rb3-0.0.11/rb3/tests/testthat/test-file.R | 62 rb3-0.0.11/rb3/tests/testthat/test-futures.R | 156 rb3-0.0.11/rb3/tests/testthat/test-indexes.R | 140 rb3-0.0.11/rb3/tests/testthat/test-indic.R | 24 rb3-0.0.11/rb3/tests/testthat/test-readers.R | 120 rb3-0.0.11/rb3/tests/testthat/test-transmute.R | 630 rb3-0.0.11/rb3/tests/testthat/test-yc.R | 298 rb3-0.0.11/rb3/vignettes/Fetching-historical-future-rates.Rmd | 404 rb3-0.0.11/rb3/vignettes/Fetching-historical-yield-curve.Rmd | 338 128 files changed, 25937 insertions(+), 25921 deletions(-)
Title: Image Processing for Simulated Cameras
Description: Uses convolution-based techniques to generate simulated camera bokeh, depth of field, and other camera effects, using an image and an optional depth map. Accepts both filename inputs and in-memory array representations of images and matrices. Includes functions to perform 2D convolutions, reorient and resize images/matrices, add image overlays, generate camera vignette effects, and add titles to images.
Author: Tyler Morgan-Wall [aut, cph, cre]
,
Sean Barrett [ctb, cph]
Maintainer: Tyler Morgan-Wall <tylermw@gmail.com>
Diff between rayimage versions 0.10.0 dated 2023-12-09 and 0.11.0 dated 2024-07-13
DESCRIPTION | 11 ++- MD5 | 78 +++++++++++++++------------ NAMESPACE | 5 + R/add_image_overlay.R | 56 +++---------------- R/add_title.R | 45 ++++----------- R/add_vignette.R | 40 +++----------- R/generate_2d_disk.R | 2 R/generate_2d_exponential.R | 2 R/generate_2d_gaussian.R | 2 R/get_file_type.R | 9 ++- R/interpolate_array.R | 25 ++++---- R/plot_image.R | 117 ++++++++++++++++------------------------- R/plot_image_grid.R | 10 +-- R/preview_focus.R | 12 ++-- R/ray_read_image.R |only R/ray_write_image.R |only R/render_bokeh.R | 54 +++++++----------- R/render_bw.R |only R/render_clamp.R |only R/render_convolution.R | 54 +++++++----------- R/render_convolution_fft.R | 59 ++++++++------------ R/render_distance.R | 4 - R/render_reorient.R | 28 +++------ R/render_resized.R | 41 ++++---------- R/run_documentation.R | 11 ++- man/add_image_overlay.Rd | 4 - man/add_title.Rd | 20 +++---- man/add_vignette.Rd | 12 ++-- man/generate_2d_disk.Rd | 2 man/generate_2d_exponential.Rd | 2 man/generate_2d_gaussian.Rd | 2 man/plot_image.Rd | 4 - man/plot_image_grid.Rd | 10 +-- man/ray_read_image.Rd |only man/ray_write_image.Rd |only man/render_bokeh.Rd | 20 +++---- man/render_boolean_distance.Rd | 4 - man/render_bw.Rd |only man/render_clamp.Rd |only man/render_convolution.Rd | 27 +++++---- man/render_convolution_fft.Rd | 33 ++++++----- man/render_reorient.Rd | 8 +- man/render_resized.Rd | 8 +- man/run_documentation.Rd | 9 ++- 44 files changed, 351 insertions(+), 479 deletions(-)
Title: Linguistic Phonetic Fieldwork Tools
Description: There are a lot of different typical tasks that have to be solved during phonetic research and experiments. This includes creating a presentation that will contain all stimuli, renaming and concatenating multiple sound files recorded during a session, automatic annotation in 'Praat' TextGrids (this is one of the sound annotation standards provided by 'Praat' software, see Boersma & Weenink 2020 <https://www.fon.hum.uva.nl/praat/>), creating an html table with annotations and spectrograms, and converting multiple formats ('Praat' TextGrid, 'ELAN', 'EXMARaLDA', 'Audacity', subtitles '.srt', and 'FLEx' flextext). All of these tasks can be solved by a mixture of different tools (any programming language has programs for automatic renaming, and Praat contains scripts for concatenating and renaming files, etc.). 'phonfieldwork' provides a functionality that will make it easier to solve those tasks independently of any additional tools. You can also compare the functionality with ot [...truncated...]
Author: George Moroz [aut, cre] ,
Jonathan Keane [rev] ,
Niko Partanen [rev] ,
Valeria Buntiakova [ctb]
Maintainer: George Moroz <agricolamz@gmail.com>
Diff between phonfieldwork versions 0.0.14 dated 2024-05-10 and 0.0.15 dated 2024-07-13
DESCRIPTION | 6 +++--- MD5 | 10 +++++----- NEWS.md | 5 +++++ R/df_to_tier.R | 12 ++++++++++++ build/vignette.rds |binary inst/doc/ethical_research_with_phonfieldwork.html | 4 ++-- 6 files changed, 27 insertions(+), 10 deletions(-)
Title: Alternating Optimization
Description: Alternating optimization is an iterative procedure that optimizes
a function by alternately performing restricted optimization over individual
parameter subsets. Instead of tackling joint optimization directly, it
breaks the problem down into simpler sub-problems. This approach can make
optimization feasible when joint optimization is too difficult.
Author: Lennart Oelschlaeger [aut, cre]
,
Siddhartha Chib [ctb]
Maintainer: Lennart Oelschlaeger <oelschlaeger.lennart@gmail.com>
Diff between ao versions 1.0.0 dated 2024-06-20 and 1.1.0 dated 2024-07-13
ao-1.0.0/ao/vignettes/README-rosenbrock_ao_path-1.png |only ao-1.1.0/ao/DESCRIPTION | 9 ao-1.1.0/ao/MD5 | 42 ao-1.1.0/ao/NAMESPACE | 42 ao-1.1.0/ao/NEWS.md | 254 +- ao-1.1.0/ao/R/ao-package.R | 82 ao-1.1.0/ao/R/ao.R | 862 ++++--- ao-1.1.0/ao/R/procedure.R | 1909 ++++++++-------- ao-1.1.0/ao/README.md | 270 +- ao-1.1.0/ao/build/vignette.rds |binary ao-1.1.0/ao/inst/doc/ao.R | 304 +- ao-1.1.0/ao/inst/doc/ao.Rmd | 731 +++--- ao-1.1.0/ao/inst/doc/ao.html | 1832 +++++++-------- ao-1.1.0/ao/man/Procedure.Rd | 1143 +++++---- ao-1.1.0/ao/man/ao-package.Rd | 60 ao-1.1.0/ao/man/ao.Rd | 487 ++-- ao-1.1.0/ao/man/ao_input_check.Rd | 64 ao-1.1.0/ao/man/figures/README-rosenbrock_ao_path-1.png |only ao-1.1.0/ao/tests/testthat.R | 8 ao-1.1.0/ao/tests/testthat/test-ao.R | 154 - ao-1.1.0/ao/tests/testthat/test-procedure.R | 22 ao-1.1.0/ao/vignettes/ao.Rmd | 731 +++--- ao-1.1.0/ao/vignettes/ref.bib | 97 23 files changed, 4841 insertions(+), 4262 deletions(-)
Title: Easy Access to Model Information for Various Model Objects
Description: A tool to provide an easy, intuitive and consistent
access to information contained in various R models, like model
formulas, model terms, information about random effects, data that was
used to fit the model or data from response variables. 'insight'
mainly revolves around two types of functions: Functions that find
(the names of) information, starting with 'find_', and functions that
get the underlying data, starting with 'get_'. The package has a
consistent syntax and works with many different model objects, where
otherwise functions to access these information are missing.
Author: Daniel Luedecke [aut, cre] ,
Dominique Makowski [aut, ctb] ,
Indrajeet Patil [aut, ctb] ,
Philip Waggoner [aut, ctb] ,
Mattan S. Ben-Shachar [aut, ctb]
,
Brenton M. Wiernik [aut, ctb] ,
Vincent Arel-Bundock [aut, ctb]
,
Etienne Bacher [aut, ctb] ,
Ale [...truncated...]
Maintainer: Daniel Luedecke <d.luedecke@uke.de>
Diff between insight versions 0.20.1 dated 2024-06-11 and 0.20.2 dated 2024-07-13
DESCRIPTION | 45 MD5 | 159 +-- NAMESPACE | 21 NEWS.md | 121 +- R/colour_tools.R | 3 R/compute_variances.R | 1017 ++++++++++++-------- R/find_formula.R | 12 R/find_interactions.R | 8 R/find_offset.R | 26 R/find_parameters.R | 6 R/find_parameters_bayesian.R | 40 R/find_parameters_emmeans.R | 8 R/find_parameters_mixed.R | 24 R/find_parameters_other.R | 28 R/find_random.R | 4 R/find_statistic.R | 5 R/find_terms.R | 22 R/find_transformation.R | 116 +- R/format_message.R | 21 R/format_rope.R | 6 R/format_value.R | 62 - R/get_data.R | 3 R/get_df.R | 15 R/get_nested_lme_varcorr.R | 7 R/get_parameters_gam.R | 18 R/get_parameters_mixed.R | 13 R/get_parameters_others.R | 49 R/get_sigma.R | 88 + R/get_statistic.R | 33 R/get_transformation.R | 31 R/get_varcov.R | 12 R/get_varcov_sandwich.R | 6 R/get_variances.R | 161 ++- R/helper_functions.R | 79 - R/is_model.R | 6 R/is_model_supported.R | 7 R/is_nested_models.R | 10 R/link_function.R | 25 R/link_inverse.R | 25 R/model_info.R | 20 R/n_obs.R | 6 R/n_parameters.R | 2 R/null_model.R | 75 - R/print.easystats_check.R | 16 R/utilities.R | 2 R/utils_model_info.R | 4 README.md | 173 +-- build/partial.rdb |binary build/vignette.rds |binary inst/WORDLIST | 3 inst/doc/display.html | 274 ++--- inst/doc/export.html | 660 ++++++------ inst/doc/insight.html | 246 ++-- man/find_parameters.averaging.Rd | 8 man/find_transformation.Rd | 12 man/format_message.Rd | 11 man/get_parameters.betareg.Rd | 3 man/get_transformation.Rd | 5 man/get_varcov.Rd | 8 man/get_variance.Rd | 147 ++ tests/testthat/_snaps/export_table.md | 44 tests/testthat/_snaps/format_table_ci.md | 22 tests/testthat/_snaps/mipo.md | 52 - tests/testthat/test-GLMMadaptive.R | 110 ++ tests/testthat/test-brms_gr_random_effects.R | 2 tests/testthat/test-clmm.R | 13 tests/testthat/test-find_terms.R | 6 tests/testthat/test-find_transformation.R | 18 tests/testthat/test-gamlss.R | 7 tests/testthat/test-get_transformation.R |only tests/testthat/test-glmgee.R |only tests/testthat/test-lme.R | 4 tests/testthat/test-null_model.R | 44 tests/testthat/test-r2_nakagawa_bernoulli.R |only tests/testthat/test-r2_nakagawa_beta.R |only tests/testthat/test-r2_nakagawa_binomial.R |only tests/testthat/test-r2_nakagawa_gamma.R |only tests/testthat/test-r2_nakagawa_linear.R |only tests/testthat/test-r2_nakagawa_negbin.R |only tests/testthat/test-r2_nakagawa_negbin_zi.R |only tests/testthat/test-r2_nakagawa_ordered_beta.R |only tests/testthat/test-r2_nakagawa_poisson.R |only tests/testthat/test-r2_nakagawa_poisson_zi.R |only tests/testthat/test-r2_nakagawa_truncated_poisson.R |only tests/testthat/test-r2_nakagawa_tweedie.R |only tests/testthat/test-rlmer.R | 58 - tests/testthat/test-rstanarm.R | 9 tests/testthat/test-svylme.R |only 88 files changed, 2709 insertions(+), 1697 deletions(-)
Title: Diagnostic Analysis Using Forward Search Procedure for Various
Models
Description: Identifies potential data outliers and their impact on estimates and
analyses. Uses the forward search approach of Atkinson and Riani, "Robust
Diagnostic Regression Analysis", 2000,<ISBN: o-387-95017-6> to prepare
descriptive statistics of a dataset that is to be analyzed by stats::lm(),
stats::glm(), stats::nls(), nlme::lme() or survival::coxph(). Includes
graphics functions to display the descriptive statistics.
Author: William Fairweather [aut, cre]
Maintainer: William Fairweather <wrf343@flowervalleyconsulting.com>
Diff between forsearch versions 6.1.0 dated 2024-06-22 and 6.2.0 dated 2024-07-13
forsearch-6.1.0/forsearch/R/Alfalfa.O.A.R |only forsearch-6.1.0/forsearch/R/Alfalfa.O.forlme2.R |only forsearch-6.1.0/forsearch/R/Machines.O.forlme.R |only forsearch-6.1.0/forsearch/R/Machines.O.forlme2.R |only forsearch-6.1.0/forsearch/R/my.transfer.R |only forsearch-6.1.0/forsearch/R/train.for3.R |only forsearch-6.2.0/forsearch/DESCRIPTION | 6 forsearch-6.2.0/forsearch/MD5 | 66 +-- forsearch-6.2.0/forsearch/NEWS.md | 16 forsearch-6.2.0/forsearch/R/aStep1.R | 197 ++++------ forsearch-6.2.0/forsearch/R/aStep2.R | 36 + forsearch-6.2.0/forsearch/R/bStep1.R |only forsearch-6.2.0/forsearch/R/bStep2.R | 98 ++-- forsearch-6.2.0/forsearch/R/cStep1.R |only forsearch-6.2.0/forsearch/R/cStep2.R | 35 + forsearch-6.2.0/forsearch/R/dStep1.R | 7 forsearch-6.2.0/forsearch/R/eStep1.R | 14 forsearch-6.2.0/forsearch/R/eStep2.R | 13 forsearch-6.2.0/forsearch/R/forsearch_cph.R | 123 +++--- forsearch-6.2.0/forsearch/R/forsearch_lm.R | 14 forsearch-6.2.0/forsearch/R/forsearch_lme.R | 22 - forsearch-6.2.0/forsearch/R/forsearch_nls.R | 17 forsearch-6.2.0/forsearch/R/plotdiag.ANOX2.R | 3 forsearch-6.2.0/forsearch/README.md | 7 forsearch-6.2.0/forsearch/build/partial.rdb |binary forsearch-6.2.0/forsearch/inst/doc/Exploring-the-Search-History.html | 6 forsearch-6.2.0/forsearch/inst/doc/Exploring-the-Search-History.rmd | 5 forsearch-6.2.0/forsearch/inst/doc/How-many-observations-are-needed-and-where-do-we-get-them.Rmd | 8 forsearch-6.2.0/forsearch/inst/doc/How-many-observations-are-needed-and-where-do-we-get-them.html | 8 forsearch-6.2.0/forsearch/man/aStep1.rd | 4 forsearch-6.2.0/forsearch/man/bStep1.rd |only forsearch-6.2.0/forsearch/man/bStep2.rd | 3 forsearch-6.2.0/forsearch/man/cStep1.Rd |only forsearch-6.2.0/forsearch/man/forsearch_cph.Rd | 8 forsearch-6.2.0/forsearch/man/forsearch_glm.Rd | 5 forsearch-6.2.0/forsearch/man/forsearch_lm.Rd | 3 forsearch-6.2.0/forsearch/man/forsearch_nls.rd | 23 - forsearch-6.2.0/forsearch/vignettes/Exploring-the-Search-History.rmd | 5 forsearch-6.2.0/forsearch/vignettes/How-many-observations-are-needed-and-where-do-we-get-them.Rmd | 8 39 files changed, 393 insertions(+), 367 deletions(-)
Title: An Implementation of Sensitivity Analysis in Bayesian Networks
Description: An implementation of sensitivity and robustness methods in Bayesian networks in R. It includes methods to perform parameter variations via a variety of co-variation schemes, to compute sensitivity functions and to quantify the dissimilarity of two Bayesian networks via distances and divergences. It further includes diagnostic methods to assess the goodness of fit of a Bayesian networks to data, including global, node and parent-child monitors. Reference: M. Leonelli, R. Ramanathan, R.L. Wilkerson (2022) <doi:10.1016/j.knosys.2023.110882>.
Author: Manuele Leonelli [aut, cre],
Ramsiya Ramanathan [aut],
Rachel Wilkerson [aut]
Maintainer: Manuele Leonelli <manuele.leonelli@ie.edu>
Diff between bnmonitor versions 0.1.4 dated 2023-06-02 and 0.2.0 dated 2024-07-13
DESCRIPTION | 14 MD5 | 174 ++-- NAMESPACE | 242 +++--- R/CD_distance.R | 494 ++++++------- R/Jeffreys.R | 454 ++++++------ R/KL.R | 1034 ++++++++++++++-------------- R/KL_bounds.R | 150 ++-- R/amalgamation.R |only R/asymeasure.R |only R/aux_diameter.R |only R/aux_gbn.R | 80 +- R/aux_global.R | 46 - R/aux_node.R | 30 R/bn2.R | 168 ++-- R/bnmonitor.R | 170 ++-- R/cachexia.R | 69 - R/chds.R | 70 - R/covariation.R | 374 +++++----- R/covariation_matrix.R | 314 ++++---- R/diabetes.R | 50 - R/diameter.R |only R/dwi.R |only R/edgestrength.R |only R/ewi.R |only R/final_node_monitor.R | 114 +-- R/fire_alarm.R | 42 - R/fquery.R | 76 +- R/frobenius.R | 470 ++++++------ R/global_monitor.R | 82 +- R/influential_obs.R | 76 +- R/mathmarks.R | 40 - R/model_pres_cov.R | 140 +-- R/mutualinfo.R |only R/node_monitor.R | 90 +- R/parent_child_monitor.R | 202 ++--- R/plot.R | 541 ++++++++------ R/print.R | 272 ++++--- R/psd_check.R | 188 ++--- R/sensitivity.R | 549 +++++++------- R/sensquery.R | 260 +++---- R/seq_node_monitor.R | 214 ++--- R/standard.R | 148 ++-- R/synthetic_bn.R | 36 R/synthetic_cbn.R | 42 - R/travel.R | 40 - README.md | 178 ++-- inst |only man/CD.Rd | 114 +-- man/Fro.CI.Rd | 86 +- man/Fro.GBN.Rd | 70 - man/Fro.Rd | 50 - man/Jeffreys.CI.Rd | 84 +- man/Jeffreys.GBN.Rd | 78 +- man/Jeffreys.Rd | 50 - man/KL.CI.Rd | 84 +- man/KL.GBN.Rd | 82 +- man/KL.Rd | 50 - man/KL.bn.fit.Rd | 114 +-- man/KL_bounds.Rd | 78 +- man/amalgamation.Rd |only man/asy_measure.Rd |only man/bn2.Rd | 56 - man/bnmonitor.Rd | 210 +++-- man/cachexia.Rd | 89 +- man/chds.Rd | 82 +- man/covariance_var.Rd | 90 +- man/covariation.Rd | 109 +- man/covariation_matrix.Rd | 96 +- man/diabetes.Rd | 54 - man/diameter.Rd |only man/dwi.Rd |only man/edge_strength.Rd |only man/ewi.Rd |only man/final_node_monitor.Rd | 86 +- man/fire_alarm.Rd | 54 - man/global_monitor.Rd | 66 - man/influential_obs.Rd | 68 - man/mathmarks.Rd | 52 - man/mean_var.Rd | 72 - man/model_pres_cov.Rd | 98 +- man/mutual_info.Rd |only man/node_monitor.Rd | 78 +- man/plot.Rd | 119 +-- man/print.Rd | 106 +- man/psd_check.Rd | 110 +- man/sensitivity.Rd | 136 +-- man/sensquery.Rd | 106 +- man/seq_node_monitor.Rd | 102 +- man/seq_pa_ch_monitor.Rd | 98 +- man/synthetic_bn.Rd | 48 - man/synthetic_cbn.Rd | 56 - man/travel.Rd | 54 - tests/testthat.R | 8 tests/testthat/test-CovariationSchemes.R | 80 +- tests/testthat/test-DissimilarityMeasures.R | 106 +- tests/testthat/test-Sensitivity.R | 64 - 96 files changed, 5762 insertions(+), 5464 deletions(-)
Title: Convert European Regional Data
Description: Motivated by changing administrative boundaries over time,
the 'nuts' package can convert European regional data with NUTS codes
between versions (2006, 2010, 2013, 2016 and 2021) and levels (NUTS 1,
NUTS 2 and NUTS 3). The package uses spatial interpolation as in Lam
(1983) <doi:10.1559/152304083783914958> based on granular (100m x
100m) area, population and land use data provided by the European
Commission's Joint Research Center.
Author: Moritz Hennicke [aut, cre, cph]
,
Werner Krause [aut, cph] ,
Pueyo-Ros Josep [rev] ,
Le Meur Nolwenn [rev]
Maintainer: Moritz Hennicke <AAoritz@posteo.de>
Diff between nuts versions 1.0.0 dated 2024-03-22 and 1.1.0 dated 2024-07-13
DESCRIPTION | 6 ++--- MD5 | 28 +++++++++++------------ NEWS.md | 5 ++++ R/all_nuts_codes.R | 2 - R/cross_walks.R | 2 - R/nuts_aggregate.R | 10 +++++--- README.md | 7 ++++- inst/CITATION | 3 +- inst/doc/nuts.R | 2 - inst/doc/nuts.Rmd | 36 +++++++++++------------------- inst/doc/nuts.html | 33 +++++++++++++--------------- man/all_nuts_codes.Rd | 2 - man/cross_walks.Rd | 2 - tests/testthat/test-nuts_aggregate.R | 41 ++++++++++++++++++++++++++++++++++- vignettes/nuts.Rmd | 36 +++++++++++------------------- 15 files changed, 125 insertions(+), 90 deletions(-)
Title: Computes Statistics from Discrimination Experimental Data
Description: In discrimination experiments candidates are sent on the same test (e.g. job, house rental) and one examines whether they receive the same outcome. The number of non negative answers are first examined in details looking for outcome differences. Then various answering rates and their exacts confidence intervals are computed. Last, exact and asymptotic discrimination tests are performed. Graphical methods are also available.
Author: Emmanuel Duguet [aut, cre] ,
David Gray [ctb] ,
Loic du Parquet [dtc],
Yannick L'Horty [ctb] ,
Remi Le Gall [dtc] ,
Noam Leandri [dtc],
Pascale Petit [ctb] ,
Florent Sari [ctb]
Maintainer: Emmanuel Duguet <emmanuel.duguet@u-pec.fr>
Diff between callback versions 0.1.0 dated 2024-05-07 and 0.1.1 dated 2024-07-13
callback-0.1.0/callback/R/callback_methods.R |only callback-0.1.0/callback/R/data_sets.R |only callback-0.1.0/callback/R/stat_comp.R |only callback-0.1.0/callback/R/stat_count.R |only callback-0.1.0/callback/R/stat_prop.R |only callback-0.1.0/callback/data/media1.RData |only callback-0.1.0/callback/man/media1.Rd |only callback-0.1.0/callback/man/print.stat_comp.Rd |only callback-0.1.0/callback/man/stat_comp.Rd |only callback-0.1.0/callback/man/stat_prop.Rd |only callback-0.1.1/callback/DESCRIPTION | 68 +- callback-0.1.1/callback/MD5 | 83 ++- callback-0.1.1/callback/NAMESPACE | 46 + callback-0.1.1/callback/R/callback.R | 265 ++++++----- callback-0.1.1/callback/R/callback_data.R |only callback-0.1.1/callback/R/callback_graph.R |only callback-0.1.1/callback/R/callback_misc.R |only callback-0.1.1/callback/R/callback_print.R |only callback-0.1.1/callback/R/callback_stat.R |only callback-0.1.1/callback/data/address1.RData |only callback-0.1.1/callback/data/gender2.RData |only callback-0.1.1/callback/data/gender3.RData |only callback-0.1.1/callback/data/gender4.RData |only callback-0.1.1/callback/data/labour1.RData |binary callback-0.1.1/callback/data/labour2.RData |binary callback-0.1.1/callback/inst/doc/getting-started.R | 29 + callback-0.1.1/callback/inst/doc/getting-started.Rmd | 74 ++- callback-0.1.1/callback/inst/doc/getting-started.html | 432 +++++++++--------- callback-0.1.1/callback/man/address1.Rd |only callback-0.1.1/callback/man/callback.Rd | 61 +- callback-0.1.1/callback/man/g_difp.Rd |only callback-0.1.1/callback/man/g_ecs.Rd |only callback-0.1.1/callback/man/g_prop.Rd |only callback-0.1.1/callback/man/g_tcs.Rd |only callback-0.1.1/callback/man/gender1.Rd | 54 +- callback-0.1.1/callback/man/gender2.Rd |only callback-0.1.1/callback/man/gender3.Rd |only callback-0.1.1/callback/man/gender4.Rd |only callback-0.1.1/callback/man/graph.Rd |only callback-0.1.1/callback/man/graph.stat_ecs.Rd |only callback-0.1.1/callback/man/graph.stat_glob.Rd |only callback-0.1.1/callback/man/graph.stat_mcr.Rd |only callback-0.1.1/callback/man/graph.stat_tcs.Rd |only callback-0.1.1/callback/man/inter1.Rd | 46 - callback-0.1.1/callback/man/is.calc.Rd |only callback-0.1.1/callback/man/labour1.Rd | 30 - callback-0.1.1/callback/man/labour2.Rd | 30 - callback-0.1.1/callback/man/mobility1.Rd | 42 - callback-0.1.1/callback/man/origin1.Rd | 66 +- callback-0.1.1/callback/man/origin2.Rd | 70 +- callback-0.1.1/callback/man/print.callback.Rd | 4 callback-0.1.1/callback/man/print.stat_count.Rd | 4 callback-0.1.1/callback/man/print.stat_ecs.Rd |only callback-0.1.1/callback/man/print.stat_glob.Rd |only callback-0.1.1/callback/man/print.stat_prop.Rd | 16 callback-0.1.1/callback/man/stat_colsums.Rd |only callback-0.1.1/callback/man/stat_count.Rd | 42 + callback-0.1.1/callback/man/stat_ecs.Rd |only callback-0.1.1/callback/man/stat_glob.Rd |only callback-0.1.1/callback/man/stat_mcr.Rd |only callback-0.1.1/callback/man/stat_signif.Rd |only callback-0.1.1/callback/man/stat_tcs.Rd |only callback-0.1.1/callback/vignettes/getting-started.Rmd | 74 ++- 63 files changed, 932 insertions(+), 604 deletions(-)
Title: Interface to the 'PubChem' Database for Chemical Data Retrieval
Description: Provides an interface to the 'PubChem' database via the PUG REST <https://pubchem.ncbi.nlm.nih.gov/docs/pug-rest> and
PUG View <https://pubchem.ncbi.nlm.nih.gov/docs/pug-view> services. This package allows users to automatically
access chemical and biological data from 'PubChem', including compounds, substances, assays, and various other data types.
Functions are available to retrieve data in different formats, perform searches, and access detailed annotations.
Author: Selcuk Korkmaz [aut, cre] ,
Bilge Eren Yamasan [aut] ,
Dincer Goksuluk [aut]
Maintainer: Selcuk Korkmaz <selcukorkmaz@gmail.com>
Diff between PubChemR versions 1.2 dated 2024-01-16 and 2.0 dated 2024-07-13
PubChemR-1.2/PubChemR/R/pubchem_summary.R |only PubChemR-1.2/PubChemR/README.md |only PubChemR-1.2/PubChemR/man/BondType.Rd |only PubChemR-1.2/PubChemR/man/CompoundIdType.Rd |only PubChemR-1.2/PubChemR/man/CoordinateType.Rd |only PubChemR-1.2/PubChemR/man/ELEMENTS.Rd |only PubChemR-1.2/PubChemR/man/ProjectCategory.Rd |only PubChemR-1.2/PubChemR/man/api_base.Rd |only PubChemR-1.2/PubChemR/man/get_json.Rd |only PubChemR-1.2/PubChemR/man/get_pubchem.Rd |only PubChemR-1.2/PubChemR/man/property_map.Rd |only PubChemR-1.2/PubChemR/man/pubchem_summary.Rd |only PubChemR-1.2/PubChemR/man/request.Rd |only PubChemR-2.0/PubChemR/DESCRIPTION | 21 + PubChemR-2.0/PubChemR/MD5 | 114 +++++--- PubChemR-2.0/PubChemR/NAMESPACE | 71 ++++- PubChemR-2.0/PubChemR/R/00_globals.R | 336 ++++++++++++++++++++------ PubChemR-2.0/PubChemR/R/01_all_classes.R |only PubChemR-2.0/PubChemR/R/download.R | 5 PubChemR-2.0/PubChemR/R/get_aids.R | 155 +++-------- PubChemR-2.0/PubChemR/R/get_assays.R | 79 +++--- PubChemR-2.0/PubChemR/R/get_cids.R | 97 ++----- PubChemR-2.0/PubChemR/R/get_compounds.R | 84 +++--- PubChemR-2.0/PubChemR/R/get_json.R | 75 +++-- PubChemR-2.0/PubChemR/R/get_properties.R | 157 +++++++----- PubChemR-2.0/PubChemR/R/get_pubchem.R | 14 - PubChemR-2.0/PubChemR/R/get_pug_rest.R | 330 ++++++++++++++----------- PubChemR-2.0/PubChemR/R/get_pug_view.R | 141 +++++----- PubChemR-2.0/PubChemR/R/get_sdf.R | 26 +- PubChemR-2.0/PubChemR/R/get_sids.R | 124 ++------- PubChemR-2.0/PubChemR/R/get_substances.R | 69 ++--- PubChemR-2.0/PubChemR/R/get_synonyms.R | 53 ++-- PubChemR-2.0/PubChemR/R/getter_functions.R |only PubChemR-2.0/PubChemR/R/printMethods.R |only PubChemR-2.0/PubChemR/R/request.R | 12 PubChemR-2.0/PubChemR/build |only PubChemR-2.0/PubChemR/inst |only PubChemR-2.0/PubChemR/man/AIDs-SIDs-CIDs.Rd |only PubChemR-2.0/PubChemR/man/PubChemR-classes.Rd |only PubChemR-2.0/PubChemR/man/PugView-classes.Rd |only PubChemR-2.0/PubChemR/man/download.Rd | 2 PubChemR-2.0/PubChemR/man/get_aids.Rd | 34 +- PubChemR-2.0/PubChemR/man/get_assays.Rd | 32 +- PubChemR-2.0/PubChemR/man/get_cids.Rd | 26 +- PubChemR-2.0/PubChemR/man/get_compounds.Rd | 30 +- PubChemR-2.0/PubChemR/man/get_properties.Rd | 106 +++++++- PubChemR-2.0/PubChemR/man/get_pug_rest.Rd | 26 +- PubChemR-2.0/PubChemR/man/get_pug_view.Rd | 4 PubChemR-2.0/PubChemR/man/get_sdf.Rd | 9 PubChemR-2.0/PubChemR/man/get_sids.Rd | 14 - PubChemR-2.0/PubChemR/man/get_substances.Rd | 19 + PubChemR-2.0/PubChemR/man/get_synonyms.Rd | 10 PubChemR-2.0/PubChemR/man/instance.Rd |only PubChemR-2.0/PubChemR/man/pubChemData.Rd |only PubChemR-2.0/PubChemR/man/request_args.Rd |only PubChemR-2.0/PubChemR/man/retrieve.Rd |only PubChemR-2.0/PubChemR/man/section.Rd |only PubChemR-2.0/PubChemR/man/sectionList.Rd |only PubChemR-2.0/PubChemR/man/synonyms.Rd |only PubChemR-2.0/PubChemR/tests |only PubChemR-2.0/PubChemR/vignettes |only 61 files changed, 1341 insertions(+), 934 deletions(-)
Title: Create Pivot Table Easily
Description: Pivot easily by specifying rows, columns, values and split.
Author: Toshikazu Matsumura [aut, cre]
Maintainer: Toshikazu Matsumura <matutosi@gmail.com>
Diff between pivotea versions 1.0.1 dated 2023-07-15 and 1.0.2 dated 2024-07-13
pivotea-1.0.1/pivotea/R/utils-pipe.R |only pivotea-1.0.1/pivotea/man/pipe.Rd |only pivotea-1.0.2/pivotea/DESCRIPTION | 14 pivotea-1.0.2/pivotea/MD5 | 45 pivotea-1.0.2/pivotea/NAMESPACE | 2 pivotea-1.0.2/pivotea/NEWS.md | 9 pivotea-1.0.2/pivotea/R/data.R | 2 pivotea-1.0.2/pivotea/R/pivot.R | 85 - pivotea-1.0.2/pivotea/R/utils.R | 16 pivotea-1.0.2/pivotea/README.md | 274 +--- pivotea-1.0.2/pivotea/build/vignette.rds |binary pivotea-1.0.2/pivotea/data/hogwarts.rda |binary pivotea-1.0.2/pivotea/inst/WORDLIST | 1 pivotea-1.0.2/pivotea/inst/doc/pivotea.R | 18 pivotea-1.0.2/pivotea/inst/doc/pivotea.Rmd | 16 pivotea-1.0.2/pivotea/inst/doc/pivotea.html | 1149 ++++++++---------- pivotea-1.0.2/pivotea/man/extract_col.Rd | 28 pivotea-1.0.2/pivotea/man/hogwarts.Rd | 2 pivotea-1.0.2/pivotea/man/na2empty.Rd | 28 pivotea-1.0.2/pivotea/man/omit_na_cols.Rd | 28 pivotea-1.0.2/pivotea/man/omit_na_rows.Rd | 28 pivotea-1.0.2/pivotea/man/pivot.Rd | 32 pivotea-1.0.2/pivotea/man/validate_col.Rd | 28 pivotea-1.0.2/pivotea/vignettes/file260835345145.html |only pivotea-1.0.2/pivotea/vignettes/pivotea.Rmd | 16 25 files changed, 850 insertions(+), 971 deletions(-)
Title: Group Elastic Net Regularized GLMs and GAMs
Description: Efficient algorithms for fitting generalized linear and additive models with group elastic net penalties as described in Helwig (2024) <doi:10.1080/10618600.2024.2362232>. Implements group LASSO, group MCP, and group SCAD with an optional group ridge penalty. Computes the regularization path for linear regression (gaussian), logistic regression (binomial), multinomial logistic regression (multinomial), log-linear count regression (poisson and negative.binomial), and log-linear continuous regression (gamma and inverse gaussian). Supports default and formula methods for model specification, k-fold cross-validation for tuning the regularization parameters, and nonparametric regression via tensor product reproducing kernel (smoothing spline) basis function expansion.
Author: Nathaniel E. Helwig [aut, cre]
Maintainer: Nathaniel E. Helwig <helwig@umn.edu>
Diff between grpnet versions 0.4 dated 2024-06-05 and 0.5 dated 2024-07-13
ChangeLog | 35 ++ DESCRIPTION | 8 MD5 | 48 +-- NAMESPACE | 5 R/R_grpnet_binomial.R |only R/R_grpnet_gamma.R |only R/R_grpnet_gaussian.R |only R/R_grpnet_invgaus.R |only R/R_grpnet_maxeigval.R |only R/R_grpnet_multinom.R |only R/R_grpnet_negbin.R |only R/R_grpnet_penalty.R |only R/R_grpnet_poisson.R |only R/cv.grpnet.default.R | 43 +- R/family.grpnet.R |only R/grpnet.default.R | 724 ++++++++++++++++++++++++++++------------------- R/grpnet.formula.R | 6 build/partial.rdb |binary man/cv.grpnet.Rd | 43 +- man/family.grpnet.Rd |only man/grpnet.Rd | 40 +- man/internals-grpnet.Rd |only man/predict.cv.grpnet.Rd | 145 ++++----- man/predict.grpnet.Rd | 78 ++--- src/grpnet_binomial.f90 | 2 src/grpnet_gamma.f90 | 4 src/grpnet_gaussian.f90 | 49 +-- src/grpnet_invgaus.f90 | 13 src/grpnet_multinom.f90 | 10 src/grpnet_negbin.f90 | 16 - src/grpnet_poisson.f90 | 17 - 31 files changed, 728 insertions(+), 558 deletions(-)
Title: Access, Retrieve, and Work with CMHC Data
Description: Wrapper around the Canadian Mortgage and Housing Corporation (CMHC) web interface. It enables programmatic and reproducible access to a wide variety of housing data from CMHC.
Author: Jens von Bergmann
Maintainer: Jens von Bergmann <jens@mountainmath.ca>
Diff between cmhc versions 0.2.7 dated 2023-12-13 and 0.2.8 dated 2024-07-12
DESCRIPTION | 8 ++++---- MD5 | 24 ++++++++++++------------ NEWS.md | 6 ++++++ R/cmhc.R | 12 +++++++++++- R/cmhc_geography.R | 9 +++++---- R/cmhc_tables.R | 19 +++++++++++++++---- R/helpers.R | 7 +++++++ README.md | 6 +++--- build/vignette.rds |binary data/cmhc_cma_translation_data.rda |binary inst/doc/basic_usage.html | 12 ++++++------ inst/doc/rental_universe.html | 11 ++++++----- man/get_cmhc.Rd | 3 +++ 13 files changed, 78 insertions(+), 39 deletions(-)
Title: Robust Linear Quantile Regression
Description: It fits a robust linear quantile regression model using a new family of zero-quantile distributions for the error term. Missing values and censored observations can be handled as well. This family of distribution includes skewed versions of the Normal, Student's t, Laplace, Slash and Contaminated Normal distribution. It also performs logistic quantile regression for bounded responses as shown in Galarza et.al.(2020) <doi:10.1007/s13571-020-00231-0>. It provides estimates and full inference. It also provides envelopes plots for assessing the fit and confidences bands when several quantiles are provided simultaneously.
Author: Christian E. Galarza <chedgala@espol.edu.ec>, Luis Benites <lbenitess@pucp.edu.pe>, Marcelo Bourguignon <m.p.bourguignon@gmail.com>, Victor H. Lachos <hlachos@uconn.edu>
Maintainer: Christian E. Galarza <cgalarza88@gmail.com>
Diff between lqr versions 5.1 dated 2024-06-28 and 5.2 dated 2024-07-12
DESCRIPTION | 8 ++++---- MD5 | 4 ++-- man/lqr-package.Rd | 9 --------- 3 files changed, 6 insertions(+), 15 deletions(-)
Title: Quantile Regression for Nonlinear Mixed-Effects Models
Description: Quantile regression (QR) for Nonlinear
Mixed-Effects Models via the asymmetric Laplace distribution (ALD).
It uses the Stochastic Approximation of the EM (SAEM) algorithm for
deriving exact maximum likelihood estimates and full inference results
for the fixed-effects and variance components.
It also provides prediction and graphical summaries for assessing the algorithm
convergence and fitting results.
Author: Christian E. Galarza <chedgala@espol.edu.ec> and Victor H. Lachos <hlachos@uconn.edu>
Maintainer: Christian E. Galarza <cgalarza88@gmail.com>
Diff between qrNLMM versions 3.3 dated 2022-08-18 and 3.4 dated 2024-07-12
DESCRIPTION | 8 ++++---- MD5 | 8 ++++---- R/QRNLMM.R | 12 +++++++----- R/QSAEM_NLMM.R | 29 +++++++++++++++++++---------- build/partial.rdb |binary 5 files changed, 34 insertions(+), 23 deletions(-)
Title: Fast Imputation of Missing Values
Description: Alternative implementation of the beautiful 'MissForest'
algorithm used to impute mixed-type data sets by chaining random
forests, introduced by Stekhoven, D.J. and Buehlmann, P. (2012)
<doi:10.1093/bioinformatics/btr597>. Under the hood, it uses the
lightning fast random forest package 'ranger'. Between the iterative
model fitting, we offer the option of using predictive mean matching.
This firstly avoids imputation with values not already present in the
original data (like a value 0.3334 in 0-1 coded variable). Secondly,
predictive mean matching tries to raise the variance in the resulting
conditional distributions to a realistic level. This would allow,
e.g., to do multiple imputation when repeating the call to
missRanger(). A formula interface allows to control which variables
should be imputed by which.
Author: Michael Mayer [aut, cre]
Maintainer: Michael Mayer <mayermichael79@gmail.com>
Diff between missRanger versions 2.4.0 dated 2023-11-19 and 2.5.0 dated 2024-07-12
DESCRIPTION | 32 +++++++--------- MD5 | 28 +++++++------- NEWS.md | 10 +++++ R/missRanger.R | 6 ++- README.md | 2 - build/vignette.rds |binary inst/doc/missRanger.R | 2 - inst/doc/missRanger.html | 26 ++++++------- inst/doc/multiple_imputation.R | 2 - inst/doc/multiple_imputation.Rmd | 29 +++++++-------- inst/doc/multiple_imputation.html | 66 +++++++++++++++-------------------- inst/doc/working_with_censoring.R | 2 - inst/doc/working_with_censoring.html | 4 +- tests/testthat/test-missRanger.R | 14 +++++++ vignettes/multiple_imputation.Rmd | 29 +++++++-------- 15 files changed, 134 insertions(+), 118 deletions(-)
Title: Computerized Adaptive Testing with Multidimensional Item
Response Theory
Description: Provides tools to generate HTML interfaces for adaptive
and non-adaptive tests using the shiny
package (Chalmers (2016) <doi:10.18637/jss.v071.i05>).
Suitable for applying unidimensional and multidimensional
computerized adaptive tests (CAT) using item response theory methodology and for
creating simple questionnaires forms to collect response data directly in R.
Additionally, optimal test designs (e.g., "shadow testing") are supported
for tests that contain a large number of item selection constraints.
Finally, package contains tools useful for performing Monte Carlo simulations
for studying test item banks.
Author: Phil Chalmers [aut, cre] ,
Magnus Nordmo [ctb]
Maintainer: Phil Chalmers <rphilip.chalmers@gmail.com>
Diff between mirtCAT versions 1.13 dated 2023-10-17 and 1.14 dated 2024-07-12
DESCRIPTION | 8 - MD5 | 44 ++++---- NEWS.md | 7 + R/ShinyGUIClass.R | 7 - R/createShinyGUI.R | 6 - R/extract.mirtCAT.R | 4 R/findNextCATItem.R | 6 - R/generate.mirt_object.R | 8 - R/mirtCAT-package.R | 1 R/mirtCAT.R | 73 ++++++++------ R/mirtCAT_preamble.R | 3 R/server.R | 19 ++- R/zzz-methods.R | 6 - build/partial.rdb |binary build/vignette.rds |binary inst/doc/mirtCAT-vignettes.html | 208 +++++++++++----------------------------- man/createShinyGUI.Rd | 6 - man/extract.mirtCAT.Rd | 4 man/findNextItem.Rd | 4 man/generate.mirt_object.Rd | 8 - man/mirtCAT-package.Rd | 1 man/mirtCAT.Rd | 81 +++++++++------ tests/GUI-tests/GUI-tests.R | 76 ++++++++------ 23 files changed, 277 insertions(+), 303 deletions(-)
Title: Kernel SHAP
Description: Efficient implementation of Kernel SHAP, see Lundberg and Lee
(2017), and Covert and Lee (2021)
<http://proceedings.mlr.press/v130/covert21a>. Furthermore, for up to
14 features, exact permutation SHAP values can be calculated. The
package plays well together with meta-learning packages like
'tidymodels', 'caret' or 'mlr3'. Visualizations can be done using the
R package 'shapviz'.
Author: Michael Mayer [aut, cre] ,
David Watson [aut] ,
Przemyslaw Biecek [ctb]
Maintainer: Michael Mayer <mayermichael79@gmail.com>
Diff between kernelshap versions 0.5.0 dated 2024-05-26 and 0.6.0 dated 2024-07-12
DESCRIPTION | 20 ++++--- MD5 | 24 ++++----- NEWS.md | 13 ++++ R/additive_shap.R | 16 ++++-- R/utils.R | 72 ++++----------------------- R/utils_kernelshap.R | 28 ---------- README.md | 23 +------- man/additive_shap.Rd | 16 ++++-- tests/testthat/test-additive_shap.R | 6 +- tests/testthat/test-kernelshap-multioutput.R | 14 ----- tests/testthat/test-kernelshap.R | 1 tests/testthat/test-permshap-multioutput.R | 13 ---- tests/testthat/test-utils.R | 31 +---------- 13 files changed, 87 insertions(+), 190 deletions(-)
Title: Generalized Convergence Diagnostics for Difficult MCMC
Algorithms
Description: Trace plots and convergence diagnostics for Markov Chain Monte Carlo (MCMC) algorithms on highly multivariate or unordered spaces. Methods outlined in a forthcoming paper.
Author: Luke Duttweiler [aut, cre, cph]
Maintainer: Luke Duttweiler <lduttweiler@hsph.harvard.edu>
Diff between genMCMCDiag versions 0.2.1 dated 2024-05-10 and 0.2.2 dated 2024-07-12
DESCRIPTION | 10 +++++----- MD5 | 8 ++++---- NEWS.md | 6 +++--- README.md | 2 ++ man/genMCMCDiag-package.Rd | 2 +- 5 files changed, 15 insertions(+), 13 deletions(-)
Title: A Fast 'WHATWG' Compliant URL Parser
Description: A wrapper for 'ada-url', a 'WHATWG' compliant and fast URL parser written in modern 'C++'. Also contains auxiliary functions such as a public suffix extractor.
Author: David Schoch [aut, cre] ,
Chung-hong Chan [aut] ,
Yagiz Nizipli [ctb, cph] ,
Daniel Lemire [ctb, cph]
Maintainer: David Schoch <david@schochastics.net>
Diff between adaR versions 0.3.2 dated 2024-02-08 and 0.3.3 dated 2024-07-12
DESCRIPTION | 6 MD5 | 16 +- NEWS.md | 4 README.md | 16 +- build/vignette.rds |binary inst/doc/adaR.html | 26 +-- src/ada/ada.cpp | 410 +++++++++++++++++++++++++++++------------------------ src/ada/ada.h | 333 ++++++++++++++++++++++++++++++++++--------- src/ada/ada_c.h | 2 9 files changed, 532 insertions(+), 281 deletions(-)
Title: Quantile Regression for Linear Mixed-Effects Models
Description: Quantile regression (QR) for Linear
Mixed-Effects Models via the asymmetric Laplace distribution (ALD).
It uses the Stochastic Approximation of the EM (SAEM) algorithm for
deriving exact maximum likelihood estimates and full inference results
for the fixed-effects and variance components.
It also provides graphical summaries for assessing the algorithm
convergence and fitting results.
Author: Christian E. Galarza <cgalarza88@gmail.com> and Victor H. Lachos <hlachos@ime.unicamp.br>
Maintainer: Christian E. Galarza <cgalarza88@gmail.com>
Diff between qrLMM versions 2.2 dated 2022-10-25 and 2.3 dated 2024-07-12
DESCRIPTION | 8 ++++---- MD5 | 4 ++-- R/QRLMM.R | 3 ++- 3 files changed, 8 insertions(+), 7 deletions(-)
Title: Kaya Identity Data for Nations and Regions
Description: Provides data for Kaya identity variables (population, gross
domestic product, primary energy consumption, and energy-related
CO2 emissions) for the world and for individual nations, and
utility functions for looking up data, plotting trends of
Kaya variables, and plotting the fuel mix for a given country
or region. The Kaya identity (Yoichi Kaya and Keiichi Yokobori,
"Environment, Energy, and Economy: Strategies for Sustainability"
(United Nations University Press, 1998) and
<https://en.wikipedia.org/wiki/Kaya_identity>) expresses a nation's
or region's greenhouse gas emissions in terms of its population,
per-capita Gross Domestic Product, the energy intensity of its
economy, and the carbon-intensity of its energy supply.
Author: Jonathan Gilligan [cre, aut]
Maintainer: Jonathan Gilligan <jonathan.gilligan@vanderbilt.edu>
Diff between kayadata versions 1.3.0 dated 2023-07-17 and 1.4.0 dated 2024-07-12
DESCRIPTION | 17 - LICENSE | 2 MD5 | 65 ++-- NAMESPACE | 16 - NEWS.md | 11 R/data.R | 6 R/kaya.R | 85 +++--- R/kayadata.R | 13 R/plot_kaya.R | 77 ++++- build/partial.rdb |binary build/vignette.rds |binary data/fuel_mix.rda |binary data/kaya_data.rda |binary data/td_trends.rda |binary data/td_values.rda |binary inst/WORDLIST | 1 inst/doc/kayadata.html | 37 +- inst/doc/policy_analysis.html | 86 +++--- man/figures/README-plot-fuel-mix-1.png |binary man/figures/README-plot-kaya-1.png |binary man/figures/README-plot-kaya-world-1.png |binary man/fuel_mix.Rd | 4 man/kaya_data.Rd | 2 man/kayadata-package.Rd | 17 + man/plot_fuel_mix.Rd | 2 man/plot_kaya.Rd | 7 man/project_top_down.Rd | 2 tests/testthat/_snaps/plot_kaya/fuel-mix-collapsed.svg | 20 - tests/testthat/_snaps/plot_kaya/fuel-mix-colors.svg | 24 - tests/testthat/_snaps/plot_kaya/fuel-mix-full.svg | 24 - tests/testthat/_snaps/plot_kaya/kaya-plot-with-colors.svg | 176 ++++++------ tests/testthat/_snaps/plot_kaya/kaya-plot.svg | 196 +++++++------- tests/testthat/test_consistency_fuel_mix.R | 5 tests/vdiffr.Rout.fail |only 34 files changed, 488 insertions(+), 407 deletions(-)
Title: Create an 'Area of Interest' Around a Constructed Dam for
Comparative Impact Evaluations
Description: Define a spatial 'Area of Interest' (AOI) around a constructed dam using hydrology data.
Dams have environmental and social impacts, both positive and negative.
Current analyses of dams have no consistent way to specify at what spatial extent we should evaluate these impacts.
'damAOI' implements methods to adjust reservoir polygons to match satellite-observed surface water areas, plot upstream and downstream rivers using elevation data and accumulated river flow, and draw buffers clipped by river basins around reservoirs and relevant rivers.
This helps to consistently determine the areas which could be impacted by dam construction, facilitating comparative analysis and informed infrastructure investments.
Author: Chris Littleboy [aut, cre] ,
Isabel Jones [ctb, fnd]
Maintainer: Chris Littleboy <chris.littleboy@stir.ac.uk>
Diff between damAOI versions 0.0 dated 2024-02-07 and 0.1 dated 2024-07-12
damAOI-0.0/damAOI/R/cropdata.R |only damAOI-0.0/damAOI/data/alqueva.rda |only damAOI-0.0/damAOI/data/basins_alqueva.rda |only damAOI-0.0/damAOI/inst/extdata/dem_alqueva.tif |only damAOI-0.0/damAOI/inst/extdata/fac_alqueva.tif |only damAOI-0.0/damAOI/inst/extdata/wb_alqueva.tif |only damAOI-0.0/damAOI/inst/extdata/wb_alqueva.tif.aux.json |only damAOI-0.0/damAOI/inst/extdata/wb_tehri.tif.aux.json |only damAOI-0.0/damAOI/man/alqueva.Rd |only damAOI-0.0/damAOI/man/basins_alqueva.rd |only damAOI-0.0/damAOI/man/basins_tehri.rd |only damAOI-0.0/damAOI/man/tehri.rd |only damAOI-0.1/damAOI/DESCRIPTION | 10 damAOI-0.1/damAOI/MD5 | 92 +- damAOI-0.1/damAOI/NAMESPACE | 2 damAOI-0.1/damAOI/R/adjustreservoirpolygon.R | 4 damAOI-0.1/damAOI/R/autogetpourpoints.R | 6 damAOI-0.1/damAOI/R/basinandbuffers.R | 9 damAOI-0.1/damAOI/R/getimpactedarea.R | 42 damAOI-0.1/damAOI/R/getnextpoint.R | 32 damAOI-0.1/damAOI/R/getriverpoints.R | 16 damAOI-0.1/damAOI/R/getshinyparams.R | 2 damAOI-0.1/damAOI/R/makesystem.R |only damAOI-0.1/damAOI/R/pointstolines.R | 12 damAOI-0.1/damAOI/R/preprocessing.R |only damAOI-0.1/damAOI/README.md | 383 ++++---- damAOI-0.1/damAOI/build/vignette.rds |binary damAOI-0.1/damAOI/data/system.rda |only damAOI-0.1/damAOI/inst/doc/damAOI.R | 197 ++-- damAOI-0.1/damAOI/inst/doc/damAOI.Rmd | 322 ++++--- damAOI-0.1/damAOI/inst/doc/damAOI.html | 434 +++++----- damAOI-0.1/damAOI/inst/extdata/dem_system.tif |only damAOI-0.1/damAOI/man/adjustreservoirpolygon.Rd | 2 damAOI-0.1/damAOI/man/basinandbuffers.Rd | 2 damAOI-0.1/damAOI/man/basins_tehri.Rd |only damAOI-0.1/damAOI/man/damAOI-package.Rd | 10 damAOI-0.1/damAOI/man/figures/README-adjust-1.png |only damAOI-0.1/damAOI/man/figures/README-basins-1.png |only damAOI-0.1/damAOI/man/figures/README-pourpoints-1.png |only damAOI-0.1/damAOI/man/figures/README-riverpoints-1.png |only damAOI-0.1/damAOI/man/figures/README-systems-1.png |only damAOI-0.1/damAOI/man/figures/README-systems-2.png |only damAOI-0.1/damAOI/man/figures/README-unnamed-chunk-2-1.png |binary damAOI-0.1/damAOI/man/figures/README-unnamed-chunk-3-1.png |binary damAOI-0.1/damAOI/man/figures/README-unnamed-chunk-4-1.png |binary damAOI-0.1/damAOI/man/getimpactedarea.Rd | 11 damAOI-0.1/damAOI/man/getshinyparams.Rd | 2 damAOI-0.1/damAOI/man/makesystem.Rd |only damAOI-0.1/damAOI/man/pointstolines.Rd | 4 damAOI-0.1/damAOI/man/preprocessing.Rd |only damAOI-0.1/damAOI/man/system.Rd |only damAOI-0.1/damAOI/man/tehri.Rd |only damAOI-0.1/damAOI/tests/testthat/Rplots.pdf |only damAOI-0.1/damAOI/tests/testthat/test-adjustreservoirpolygon.R | 14 damAOI-0.1/damAOI/tests/testthat/test-basinsandbuffers.R | 48 - damAOI-0.1/damAOI/tests/testthat/test-getimpactedarea.R | 40 damAOI-0.1/damAOI/tests/testthat/test-getriverpoints.R | 41 damAOI-0.1/damAOI/tests/testthat/test-makesystem.R |only damAOI-0.1/damAOI/vignettes/damAOI.Rmd | 322 ++++--- damAOI-0.1/damAOI/vignettes/man |only 60 files changed, 1161 insertions(+), 898 deletions(-)
More information about SmithWilsonYieldCurve at CRAN
Permanent link
Title: Moment Condition Based Estimation of Linear Dynamic Panel Data
Models
Description: Linear dynamic panel data modeling based on linear and
nonlinear moment conditions as proposed by
Holtz-Eakin, Newey, and Rosen (1988) <doi:10.2307/1913103>,
Ahn and Schmidt (1995) <doi:10.1016/0304-4076(94)01641-C>,
and Arellano and Bover (1995) <doi:10.1016/0304-4076(94)01642-D>.
Estimation of the model parameters relies on the Generalized
Method of Moments (GMM) and instrumental variables (IV) estimation,
numerical optimization (when nonlinear moment conditions are
employed) and the computation of closed form solutions (when
estimation is based on linear moment conditions). One-step,
two-step and iterated estimation is available. For inference
and specification
testing, Windmeijer (2005) <doi:10.1016/j.jeconom.2004.02.005>
and doubly corrected standard errors
(Hwang, Kang, Lee, 2021 <doi:10.1016/j.jeconom.2020.09.010>)
are available. Additionally, serial correlation tests, tests for
overidentification, and Wald tests are provided. Functions for
visualiz [...truncated...]
Author: Markus Fritsch [aut, cre],
Joachim Schnurbus [aut],
Andrew Adrian Yu Pua [aut]
Maintainer: Markus Fritsch <Markus.Fritsch@uni-Passau.de>
Diff between pdynmc versions 0.9.10 dated 2023-11-24 and 0.9.11 dated 2024-07-12
pdynmc-0.9.10/pdynmc/inst/tests/CopyOfcheck_incDemo.R |only pdynmc-0.9.11/pdynmc/DESCRIPTION | 28 pdynmc-0.9.11/pdynmc/MD5 | 38 pdynmc-0.9.11/pdynmc/NAMESPACE | 9 pdynmc-0.9.11/pdynmc/NEWS.md | 25 pdynmc-0.9.11/pdynmc/R/globals.R | 2 pdynmc-0.9.11/pdynmc/R/pdynmc_NLIV.R |only pdynmc-0.9.11/pdynmc/R/pdynmc_estFct.R | 550 +++++----- pdynmc-0.9.11/pdynmc/R/pdynmc_furtherHelperFcts.R | 272 ++++ pdynmc-0.9.11/pdynmc/R/pdynmc_instMatFcts.R | 200 ++- pdynmc-0.9.11/pdynmc/R/pdynmc_specTestFcst.R | 1 pdynmc-0.9.11/pdynmc/build/partial.rdb |binary pdynmc-0.9.11/pdynmc/build/vignette.rds |binary pdynmc-0.9.11/pdynmc/inst/CITATION | 6 pdynmc-0.9.11/pdynmc/inst/REFERENCES.bib | 11 pdynmc-0.9.11/pdynmc/inst/doc/pdynmc-introLong.pdf |binary pdynmc-0.9.11/pdynmc/inst/doc/pdynmc-pres-in-a-nutshell.pdf |binary pdynmc-0.9.11/pdynmc/inst/tests/arguments_for_StepByStepFunctionChecksABdata.R | 26 pdynmc-0.9.11/pdynmc/inst/tests/arguments_for_StepByStepFunctionChecksMigration.R |only pdynmc-0.9.11/pdynmc/man/FDLS.Rd |only pdynmc-0.9.11/pdynmc/man/NLIV.Rd |only pdynmc-0.9.11/pdynmc/man/NLIV.alt.Rd |only pdynmc-0.9.11/pdynmc/man/pdynmc.Rd | 17 23 files changed, 813 insertions(+), 372 deletions(-)
Title: Multiple Treatment Effects Regression
Description: Implements contamination bias diagnostics and alternative
estimators for regressions with multiple treatments. The implementation is
based on Goldsmith-Pinkham, Hull, and Kolesár (2024)
<doi:10.48550/arXiv.2106.05024>.
Author: Michal Kolesar [aut, cre] ,
Paul Goldsmith-Pinkham [ctb],
Peter Hull [ctb]
Maintainer: Michal Kolesar <kolesarmi@googlemail.com>
Diff between multe versions 1.0.1 dated 2024-06-19 and 1.1.0 dated 2024-07-12
DESCRIPTION | 8 ++++---- MD5 | 20 ++++++++++---------- NEWS.md | 8 ++++++++ R/functions.R | 4 ++-- R/multe.R | 17 ++++++++++++----- data/fl.rda |binary inst/doc/multe.Rmd | 2 +- inst/doc/multe.pdf |binary man/multe.Rd | 3 +++ tests/testthat/test-EHW-check.R | 4 ++++ vignettes/multe.Rmd | 2 +- 11 files changed, 45 insertions(+), 23 deletions(-)
Title: Resampling Algorithms for 'mlr3' Framework
Description: A supervised learning algorithm inputs a train set,
and outputs a prediction function, which can be used on a test set.
If each data point belongs to a group
(such as geographic region, year, etc), then
how do we know if it is possible to train on one group, and predict
accurately on another group? Cross-validation can be used to determine
the extent to which this is possible, by first assigning fold IDs from
1 to K to all data (possibly using stratification, usually by group
and label). Then we loop over test sets (group/fold combinations),
train sets (same group, other groups, all groups), and compute
test/prediction accuracy for each combination. Comparing
test/prediction accuracy between same and other, we can determine the
extent to which it is possible (perfect if same/other have similar
test accuracy for each group; other is usually somewhat less accurate
than same; other can be just as bad as featureless baseline when the
groups have different patterns).
For more information,
[...truncated...]
Author: Toby Hocking [aut, cre] ,
Michel Lang [ctb] ,
Bernd Bischl [ctb] ,
Jakob Richter [ctb] ,
Patrick Schratz [ctb] ,
Giuseppe Casalicchio [ctb] ,
Stefan Coors [ctb] ,
Quay Au [ctb] ,
Martin Binder [ctb],
Florian Pfisterer [ctb] ,
Raphael Sonabend [ctb] , [...truncated...]
Maintainer: Toby Hocking <toby.hocking@r-project.org>
Diff between mlr3resampling versions 2024.7.3 dated 2024-07-05 and 2024.7.7 dated 2024-07-12
DESCRIPTION | 6 MD5 | 16 - NEWS | 4 build/vignette.rds |binary inst/doc/Newer_resamplers.R | 6 inst/doc/Newer_resamplers.Rmd | 4 inst/doc/Newer_resamplers.html | 400 +++++++++++++++++++---------------------- inst/doc/Older_resamplers.html | 122 +++++------- vignettes/Newer_resamplers.Rmd | 4 9 files changed, 261 insertions(+), 301 deletions(-)
More information about mlr3resampling at CRAN
Permanent link
Title: Nested Cross Validation for the Relaxed Lasso and Other Machine
Learning Models
Description: Cross validation informed Relaxed LASSO, Artificial Neural Network (ANN), gradient boosting machine ('xgboost'), Random Forest ('RandomForestSRC'), Oblique Random Forest ('aorsf'), Recursive Partitioning ('RPART') or step wise regression models are fit. Cross validation leave out samples (leading to nested cross validation) or bootstrap out-of-bag samples are used to evaluate and compare performances between these models with results presented in tabular or graphical means. Calibration plots can also be generated, again based upon (outer nested) cross validation or bootstrap leave out (out of bag) samples.
For some datasets, for example when the design matrix is not of full rank, 'glmnet' may have very long run times when fitting the relaxed lasso model, from our experience when fitting Cox models on data with many predictors and many patients, making it difficult to get solutions from either glmnet() or cv.glmnet(). This may be remedied by using the 'path=TRUE' option when calling [...truncated...]
Author: Walter K Kremers [aut, cre] ,
Nicholas B Larson [ctb]
Maintainer: Walter K Kremers <kremers.walter@mayo.edu>
Diff between glmnetr versions 0.5-1 dated 2024-05-12 and 0.5-2 dated 2024-07-12
glmnetr-0.5-1/glmnetr/R/calplot_240509.R |only glmnetr-0.5-1/glmnetr/R/nested.cis_240510.R |only glmnetr-0.5-1/glmnetr/R/nested.compare_240510.R |only glmnetr-0.5-1/glmnetr/R/nested.glmnetr_240510.R |only glmnetr-0.5-1/glmnetr/R/perform_240510.R |only glmnetr-0.5-1/glmnetr/R/plot.cv.glmnetr_240410.R |only glmnetr-0.5-1/glmnetr/R/plot.perf.glmnetr_240422.R |only glmnetr-0.5-1/glmnetr/R/predict_240510.R |only glmnetr-0.5-1/glmnetr/R/summary.cv.glmnetr_240422.R |only glmnetr-0.5-1/glmnetr/R/summary.nested.glmnetr_240510.R |only glmnetr-0.5-1/glmnetr/R/tools_240423.R |only glmnetr-0.5-1/glmnetr/inst/doc/An_Overview_of_glmnetr_240510.pdf |only glmnetr-0.5-1/glmnetr/inst/doc/An_Overview_of_glmnetr_240510.pdf.asis |only glmnetr-0.5-1/glmnetr/inst/doc/Calibration_240510.pdf |only glmnetr-0.5-1/glmnetr/inst/doc/Calibration_240510.pdf.asis |only glmnetr-0.5-1/glmnetr/inst/doc/Using_ann_tab_cv_240510.pdf |only glmnetr-0.5-1/glmnetr/inst/doc/Using_ann_tab_cv_240510.pdf.asis |only glmnetr-0.5-1/glmnetr/inst/doc/Using_stepreg_240510.pdf |only glmnetr-0.5-1/glmnetr/inst/doc/Using_stepreg_240510.pdf.asis |only glmnetr-0.5-1/glmnetr/vignettes/An_Overview_of_glmnetr_240510.Rmd |only glmnetr-0.5-1/glmnetr/vignettes/An_Overview_of_glmnetr_240510.pdf.asis |only glmnetr-0.5-1/glmnetr/vignettes/Calibration_240510.Rmd |only glmnetr-0.5-1/glmnetr/vignettes/Calibration_240510.pdf.asis |only glmnetr-0.5-1/glmnetr/vignettes/Using_ann_tab_cv_240510.Rmd |only glmnetr-0.5-1/glmnetr/vignettes/Using_ann_tab_cv_240510.pdf.asis |only glmnetr-0.5-1/glmnetr/vignettes/Using_stepreg_240510.Rmd |only glmnetr-0.5-1/glmnetr/vignettes/Using_stepreg_240510.pdf.asis |only glmnetr-0.5-2/glmnetr/DESCRIPTION | 16 - glmnetr-0.5-2/glmnetr/MD5 | 111 +++++----- glmnetr-0.5-2/glmnetr/NAMESPACE | 3 glmnetr-0.5-2/glmnetr/R/calplot_240708.R |only glmnetr-0.5-2/glmnetr/R/nested.cis_240708.R |only glmnetr-0.5-2/glmnetr/R/nested.compare_240708.R |only glmnetr-0.5-2/glmnetr/R/nested.glmnetr_240708.R |only glmnetr-0.5-2/glmnetr/R/perform_240708.R |only glmnetr-0.5-2/glmnetr/R/plot.cv.glmnetr_240708.R |only glmnetr-0.5-2/glmnetr/R/plot.perf.glmnetr_240708.R |only glmnetr-0.5-2/glmnetr/R/predict_240608.R |only glmnetr-0.5-2/glmnetr/R/summary.cv.glmnetr_240608.R |only glmnetr-0.5-2/glmnetr/R/summary.nested.glmnetr_240708.R |only glmnetr-0.5-2/glmnetr/R/tools_240708.R |only glmnetr-0.5-2/glmnetr/build/vignette.rds |binary glmnetr-0.5-2/glmnetr/inst/doc/An_Overview_of_glmnetr_240710.pdf |only glmnetr-0.5-2/glmnetr/inst/doc/An_Overview_of_glmnetr_240710.pdf.asis |only glmnetr-0.5-2/glmnetr/inst/doc/Calibration_240710.pdf |only glmnetr-0.5-2/glmnetr/inst/doc/Calibration_240710.pdf.asis |only glmnetr-0.5-2/glmnetr/inst/doc/Using_ann_tab_cv_240710.pdf |only glmnetr-0.5-2/glmnetr/inst/doc/Using_ann_tab_cv_240710.pdf.asis |only glmnetr-0.5-2/glmnetr/inst/doc/Using_stepreg_240710.pdf |only glmnetr-0.5-2/glmnetr/inst/doc/Using_stepreg_240710.pdf.asis |only glmnetr-0.5-2/glmnetr/man/boot.factor.foldid.Rd |only glmnetr-0.5-2/glmnetr/man/calplot.Rd | 63 +++-- glmnetr-0.5-2/glmnetr/man/cox.sat.dev.Rd | 2 glmnetr-0.5-2/glmnetr/man/devrat_.Rd | 2 glmnetr-0.5-2/glmnetr/man/diff_time.Rd | 2 glmnetr-0.5-2/glmnetr/man/diff_time1.Rd | 2 glmnetr-0.5-2/glmnetr/man/factor.foldid.Rd | 2 glmnetr-0.5-2/glmnetr/man/get.foldid.Rd | 2 glmnetr-0.5-2/glmnetr/man/glmnetr.cis.Rd | 2 glmnetr-0.5-2/glmnetr/man/glmnetr.compcv.Rd | 2 glmnetr-0.5-2/glmnetr/man/glmnetr.simdata.Rd | 2 glmnetr-0.5-2/glmnetr/man/glmnetr_seed.Rd | 2 glmnetr-0.5-2/glmnetr/man/nested.cis.Rd | 2 glmnetr-0.5-2/glmnetr/man/nested.compare.Rd | 8 glmnetr-0.5-2/glmnetr/man/nested.glmnetr.Rd | 61 +++-- glmnetr-0.5-2/glmnetr/man/plot.cv.glmnetr.Rd | 2 glmnetr-0.5-2/glmnetr/man/plot.glmnetr.Rd | 2 glmnetr-0.5-2/glmnetr/man/plot.nested.glmnetr.Rd | 13 - glmnetr-0.5-2/glmnetr/man/plot_perf_glmnetr.Rd | 2 glmnetr-0.5-2/glmnetr/man/predict.cv.glmnetr.Rd | 2 glmnetr-0.5-2/glmnetr/man/predict.glmnetr.Rd | 2 glmnetr-0.5-2/glmnetr/man/predict.nested.glmnetr.Rd | 2 glmnetr-0.5-2/glmnetr/man/print.nested.glmnetr.Rd | 2 glmnetr-0.5-2/glmnetr/man/roundperf.Rd | 6 glmnetr-0.5-2/glmnetr/man/summary.cv.glmnetr.Rd | 2 glmnetr-0.5-2/glmnetr/man/summary.nested.glmnetr.Rd | 7 glmnetr-0.5-2/glmnetr/vignettes/An_Overview_of_glmnetr_240710.Rmd |only glmnetr-0.5-2/glmnetr/vignettes/An_Overview_of_glmnetr_240710.pdf.asis |only glmnetr-0.5-2/glmnetr/vignettes/Calibration_240710.Rmd |only glmnetr-0.5-2/glmnetr/vignettes/Calibration_240710.pdf.asis |only glmnetr-0.5-2/glmnetr/vignettes/Using_ann_tab_cv_240710.Rmd |only glmnetr-0.5-2/glmnetr/vignettes/Using_ann_tab_cv_240710.pdf.asis |only glmnetr-0.5-2/glmnetr/vignettes/Using_stepreg_240710.Rmd |only glmnetr-0.5-2/glmnetr/vignettes/Using_stepreg_240710.pdf.asis |only 84 files changed, 182 insertions(+), 144 deletions(-)
Title: Simple Bootstrap Routines
Description: Simple bootstrap routines.
Author: Roger D. Peng <roger.peng@austin.utexas.edu>
Maintainer: Roger D. Peng <roger.peng@austin.utexas.edu>
Diff between simpleboot versions 1.1-7 dated 2019-02-20 and 1.1-8 dated 2024-07-12
DESCRIPTION | 12 ++++++------ MD5 | 4 ++-- tests/reg-tests.Rout.save | 10 +++++----- 3 files changed, 13 insertions(+), 13 deletions(-)
Title: Spatial Objects of the Czech Republic
Description: Administrative regions and other spatial objects of the Czech Republic.
Author: Jindra Lacko [aut, cre] ,
Nick Bearman [rev]
Maintainer: Jindra Lacko <jindra.lacko@gmail.com>
Diff between RCzechia versions 1.12.0 dated 2023-10-29 and 1.12.2 dated 2024-07-12
DESCRIPTION | 10 +-- MD5 | 103 ++++++++++++++++--------------- NAMESPACE | 1 NEWS.md | 16 ++++ R/RCzechia.R | 24 +++++-- R/casti.R | 4 - R/helpers.R | 2 R/katastry.R |only R/kraje.R | 6 - R/obce_body.R | 4 - R/obce_polygony.R | 4 - R/okresy.R | 4 - R/orp_polygony.R | 6 - R/republika.R | 4 - R/sysdata.rda |binary README.md | 3 build/partial.rdb |binary build/vignette.rds |binary inst/doc/vignette.Rmd | 50 +++++++++------ inst/doc/vignette.html | 123 +++++++++++++++++++++++--------------- man/RCzechia-package.Rd | 38 +++++++++++ man/casti.Rd | 2 man/katastry.Rd |only man/kraje.Rd | 4 - man/obce_body.Rd | 2 man/obce_polygony.Rd | 2 man/okresy.Rd | 2 man/orp_polygony.Rd | 4 - man/republika.Rd | 2 man/set_home.Rd | 2 tests/testthat/test-1-casti.R | 2 tests/testthat/test-1-chr-uzemi.R | 2 tests/testthat/test-1-ctverce.R | 5 + tests/testthat/test-1-geomorfo.R | 16 ++++ tests/testthat/test-1-historie.R | 4 + tests/testthat/test-1-katastr.R |only tests/testthat/test-1-kraje.R | 3 tests/testthat/test-1-lesy.R | 2 tests/testthat/test-1-obce.R | 4 + tests/testthat/test-1-okresy.R | 4 + tests/testthat/test-1-orp.R | 2 tests/testthat/test-1-republika.R | 3 tests/testthat/test-1-transport.R | 5 + tests/testthat/test-1-vodstvo.R | 10 +++ tests/testthat/test-1-volby.R | 6 + tests/testthat/test-1-zip-codes.R | 3 tests/testthat/test-3-integrace.R | 9 ++ vignettes/brno-center-1.png |binary vignettes/census-1.png |binary vignettes/ctverce-1.png |binary vignettes/geocode-1.png |binary vignettes/relief-1.png |binary vignettes/senat-1.png |binary vignettes/vignette.Rmd | 50 +++++++++------ 54 files changed, 378 insertions(+), 174 deletions(-)
Title: Bayesian Meta-Analysis of Diagnostic Test Data
Description: Provides a new class of Bayesian meta-analysis models that incorporates a model for internal and external validity bias. In this way, it is possible to combine studies of diverse quality and different types. For example, we can combine the results of randomized control trials (RCTs) with the results of observational studies (OS).
Author: Pablo Emilio Verde [aut, cre]
Maintainer: Pablo Emilio Verde <pabloemilio.verde@hhu.de>
Diff between bamdit versions 3.4.0 dated 2022-04-04 and 3.4.1 dated 2024-07-12
ChangeLog | 25 ++++++++++++--- DESCRIPTION | 11 +++--- MD5 | 22 +++++++------ NAMESPACE | 2 + R/bamdit-package.R | 45 +++++++++++++++++++++++---- R/metadiag.R | 9 +++-- R/plotcredibility.R |only R/summary.metadiag.R | 2 + data/skin.rda |binary data/skin2.rda |only man/bamdit-package.Rd | 81 +++++++++++++++++++------------------------------ man/metadiag.Rd | 6 +-- man/plotcredibility.Rd |only man/skin2.Rd |only 14 files changed, 123 insertions(+), 80 deletions(-)
Title: Estimation in Optimal Adaptive Two-Stage Designs
Description: Methods to evaluate the performance characteristics of
various point and interval estimators for optimal adaptive two-stage designs as described
in Meis et al. (2024) <doi:10.1002/sim.10020>.
Specifically, this package is written to work with trial designs created by the 'adoptr' package
(Kunzmann et al. (2021) <doi:10.18637/jss.v098.i09>; Pilz et al. (2021) <doi:10.1002/sim.8953>)).
Apart from the a priori evaluation of performance characteristics, this package also allows for the
evaluation of the implemented estimators on real datasets, and it implements methods
to calculate p-values.
Author: Jan Meis [aut, cre] ,
Martin Maechler [cph] .)
Maintainer: Jan Meis <meis@imbi.uni-heidelberg.de>
Diff between adestr versions 0.5.0 dated 2023-09-27 and 1.0.0 dated 2024-07-12
adestr-0.5.0/adestr/man/Normal.Rd |only adestr-0.5.0/adestr/man/Student.Rd |only adestr-0.5.0/adestr/man/TwoStageDesign-class.Rd |only adestr-1.0.0/adestr/DESCRIPTION | 13 adestr-1.0.0/adestr/MD5 | 94 adestr-1.0.0/adestr/NAMESPACE | 6 adestr-1.0.0/adestr/NEWS.md | 14 adestr-1.0.0/adestr/R/adestr_package.R | 2 adestr-1.0.0/adestr/R/analyze.R | 4 adestr-1.0.0/adestr/R/estimators.R | 58 adestr-1.0.0/adestr/R/evaluate_estimator.R | 78 adestr-1.0.0/adestr/R/fastmonoHFC.R | 4 adestr-1.0.0/adestr/R/fisher_information.R | 2 adestr-1.0.0/adestr/R/n2c2_helpers.R | 7 adestr-1.0.0/adestr/R/plot.R | 6 adestr-1.0.0/adestr/R/reference_implementation.R | 10 adestr-1.0.0/adestr/R/twostagedesign_with_cache.R | 113 adestr-1.0.0/adestr/README.md | 43 adestr-1.0.0/adestr/build/partial.rdb |binary adestr-1.0.0/adestr/build/vignette.rds |binary adestr-1.0.0/adestr/inst/CITATION |only adestr-1.0.0/adestr/inst/doc/Introduction.R | 276 + adestr-1.0.0/adestr/inst/doc/Introduction.Rmd | 402 + adestr-1.0.0/adestr/inst/doc/Introduction.html | 2170 +++++++++- adestr-1.0.0/adestr/man/PValue-class.Rd | 3 adestr-1.0.0/adestr/man/TwoStageDesignWithCache.Rd | 32 adestr-1.0.0/adestr/man/analyze.Rd | 2 adestr-1.0.0/adestr/man/c-EstimatorScoreResult-method.Rd | 42 adestr-1.0.0/adestr/man/c-EstimatorScoreResultList-method.Rd | 42 adestr-1.0.0/adestr/man/evaluate_estimator-methods.Rd | 24 adestr-1.0.0/adestr/man/evaluate_estimator.Rd | 2 adestr-1.0.0/adestr/man/evaluate_scenarios_parallel.Rd | 184 adestr-1.0.0/adestr/man/figures/README-unnamed-chunk-4-1.svg |only adestr-1.0.0/adestr/man/get_stagewise_estimators.Rd | 10 adestr-1.0.0/adestr/man/plot-EstimatorScoreResult-method.Rd | 90 adestr-1.0.0/adestr/man/plot-EstimatorScoreResultList-method.Rd | 90 adestr-1.0.0/adestr/man/plot-list-method.Rd | 90 adestr-1.0.0/adestr/man/plot_p.Rd | 116 adestr-1.0.0/adestr/tests/testthat/setup_designs.R | 2 adestr-1.0.0/adestr/tests/testthat/test_LR_boundaries.R | 42 adestr-1.0.0/adestr/tests/testthat/test_against_reference.R | 221 - adestr-1.0.0/adestr/tests/testthat/test_analyze.R | 38 adestr-1.0.0/adestr/tests/testthat/test_densities.R | 1 adestr-1.0.0/adestr/tests/testthat/test_dsmean.R | 64 adestr-1.0.0/adestr/tests/testthat/test_estimators.R |only adestr-1.0.0/adestr/tests/testthat/test_evaluate_estimator.R | 122 adestr-1.0.0/adestr/tests/testthat/test_helpers.R |only adestr-1.0.0/adestr/tests/testthat/test_integrals.R | 68 adestr-1.0.0/adestr/tests/testthat/test_print.R |only adestr-1.0.0/adestr/tests/testthat/test_prior_integral.R | 67 adestr-1.0.0/adestr/tests/testthat/test_pseudo_rao_blackwell.R | 1 adestr-1.0.0/adestr/vignettes/Introduction.Rmd | 402 + 52 files changed, 4295 insertions(+), 762 deletions(-)
Title: Monitoring Rater Reliability
Description: Provides researchers with a simple set of diagnostic tools for monitoring the progress and reliability of raters conducting content coding tasks. Goehring (2024) <https://bengoehring.github.io/improving-content-analysis-tools-for-working-with-undergraduate-research-assistants.pdf> argues that supervisors---especially supervisors of small teams---should utilize computational tools to monitor reliability in real time. As such, this package provides easy-to-use functions for calculating inter-rater reliability statistics and measuring the reliability of one coder compared to the rest of the team.
Author: Benjamin Goehring [aut, cre]
Maintainer: Benjamin Goehring <bengoehr@umich.edu>
Diff between ura versions 1.0.0 dated 2023-09-13 and 1.0.1 dated 2024-07-12
DESCRIPTION | 10 +++++----- MD5 | 10 +++++----- NEWS.md | 4 +++- R/rater_agreement.R | 2 +- README.md | 18 +++++++++--------- man/ura-package.Rd | 2 +- 6 files changed, 24 insertions(+), 22 deletions(-)
Title: Spatially and Temporally Varying Coefficient Models Using
Generalized Additive Models
Description: A framework for specifying spatially, temporally and spatial-and-temporally varying coefficient models using Generalized Additive Models with Gaussian Process smooths. The smooths are parameterised with location and / or time attributes. Importantly the framework supports the investigation of the presence and nature of any space-time dependencies in the data, allows the user to evaluate different model forms (specifications) and to pick the most probable model or to combine multiple varying coefficient models using Bayesian Model Averaging. For more details see: Brunsdon et al (2023) <doi:10.4230/LIPIcs.GIScience.2023.17>, Comber et al (2023) <doi:10.4230/LIPIcs.GIScience.2023.22> and Comber et al (2024) <doi:10.1080/13658816.2023.2270285>.
Author: Lex Comber [aut, cre],
Paul Harris [ctb],
Chris Brunsdon [ctb]
Maintainer: Lex Comber <a.comber@leeds.ac.uk>
Diff between stgam versions 0.0.1.0 dated 2024-06-25 and 0.0.1.1 dated 2024-07-12
DESCRIPTION | 6 ++-- MD5 | 40 +++++++++++++-------------- NEWS.md | 7 ++++ R/calculate_vc.R | 19 ++++++------ R/data.R | 2 + R/do_bma.R | 24 ++++++++-------- R/evaluate_models.R | 18 ++++++------ R/gam_model_probs.R | 6 ++-- inst/doc/space-time-gam-intro.R | 7 ++-- inst/doc/space-time-gam-intro.Rmd | 9 +++--- inst/doc/space-time-gam-intro.html | 18 ++++++------ inst/doc/space-time-gam-model-probs-BMA.R | 8 ++--- inst/doc/space-time-gam-model-probs-BMA.Rmd | 10 +++--- inst/doc/space-time-gam-model-probs-BMA.html | 26 ++++++++--------- man/calculate_vcs.Rd | 13 ++++---- man/do_bma.Rd | 18 ++++++------ man/evaluate_models.Rd | 8 ++--- man/gam_model_probs.Rd | 6 ++-- man/productivity.Rd | 2 + vignettes/space-time-gam-intro.Rmd | 9 +++--- vignettes/space-time-gam-model-probs-BMA.Rmd | 10 +++--- 21 files changed, 141 insertions(+), 125 deletions(-)
Title: Interaction Statistics
Description: Fast, model-agnostic implementation of different H-statistics
introduced by Jerome H. Friedman and Bogdan E. Popescu (2008)
<doi:10.1214/07-AOAS148>. These statistics quantify interaction
strength per feature, feature pair, and feature triple. The package
supports multi-output predictions and can account for case weights.
In addition, several variants of the original statistics are provided.
The shape of the interactions can be explored through partial
dependence plots or individual conditional expectation plots. 'DALEX'
explainers, meta learners ('mlr3', 'tidymodels', 'caret') and most
other models work out-of-the-box.
Author: Michael Mayer [aut, cre] ,
Przemyslaw Biecek [ctb]
Maintainer: Michael Mayer <mayermichael79@gmail.com>
Diff between hstats versions 1.1.2 dated 2024-02-03 and 1.2.0 dated 2024-07-12
DESCRIPTION | 25 ++++--- MD5 | 42 ++++++------ NEWS.md | 29 ++++++-- R/average_loss.R | 15 +--- R/hstats.R | 2 R/ice.R | 1 R/losses.R | 113 +++++++++++++++++----------------- R/pd_raw.R | 5 - R/perm_importance.R | 13 ++- R/utils_calculate.R | 108 ++------------------------------ R/utils_input.R | 34 ++++++---- README.md | 85 +++++++++---------------- man/average_loss.Rd | 12 --- man/perm_importance.Rd | 15 +--- tests/testthat/test_average_loss.R | 42 ------------ tests/testthat/test_calculate.R | 100 ------------------------------ tests/testthat/test_hstats.R | 6 - tests/testthat/test_ice.R | 9 -- tests/testthat/test_input.R | 7 -- tests/testthat/test_losses.R | 30 --------- tests/testthat/test_partial_dep.R | 8 -- tests/testthat/test_perm_importance.R | 34 ---------- 22 files changed, 209 insertions(+), 526 deletions(-)
Title: Help to Fit of a Parametric Distribution to Non-Censored or
Censored Data
Description: Extends the fitdistr() function (of the MASS package) with several functions
to help the fit of a parametric distribution to non-censored or censored data.
Censored data may contain left censored, right censored and interval censored values,
with several lower and upper bounds. In addition to maximum likelihood estimation (MLE),
the package provides moment matching (MME), quantile matching (QME), maximum goodness-of-fit
estimation (MGE) and maximum spacing estimation (MSE) methods (available only for
non-censored data). Weighted versions of MLE, MME, QME and MSE are available. See e.g.
Casella & Berger (2002), Statistical inference, Pacific Grove, for a general introduction
to parametric estimation.
Author: Marie-Laure Delignette-Muller [aut]
,
Christophe Dutang [aut] ,
Regis Pouillot [ctb],
Jean-Baptiste Denis [ctb],
Aurelie Siberchicot [aut, cre]
Maintainer: Aurelie Siberchicot <aurelie.siberchicot@univ-lyon1.fr>
Diff between fitdistrplus versions 1.1-11 dated 2023-04-25 and 1.2-1 dated 2024-07-12
DESCRIPTION | 21 MD5 | 217 +++-- NAMESPACE | 21 NEWS.md | 183 ++-- R/AIC.R |only R/BIC.R |only R/CIcdfplot.R | 33 R/bootdist-graph.R | 27 R/bootdist.R | 454 +++++++---- R/bootdistcens.R | 418 ++++++---- R/cdfcomp.R | 45 - R/cdfcompcens.R | 40 - R/coef.R | 26 R/denscomp.R | 45 - R/descdist.R | 277 +++---- R/detectbound.R | 2 R/fitdist.R | 578 +++++++-------- R/fitdistcens.R | 343 ++++----- R/gofstat.R | 716 ++++++++++-------- R/logLik-surface.R | 38 R/logLik.R | 24 R/mgedist.R | 654 ++++++++--------- R/mledist.R | 698 +++++++++--------- R/mmedist.R | 888 +++++++++++++---------- R/msedist.R | 688 +++++++++--------- R/plotdist.R | 502 ++++++------- R/plotdistcens.R | 42 - R/ppcomp.R | 16 R/ppcompcens.R | 14 R/qmedist.R | 505 ++++++------- R/qqcomp.R | 19 R/qqcompcens.R | 14 R/quantiles.R | 352 ++++----- R/util-Turnbull-intervals.R | 2 R/util-cens2pseudo.R | 128 +-- R/util-check-NAInfNan.R |only R/util-checkparam.R | 19 R/util-checkparamlist.R | 19 R/util-getparam.R | 20 R/util-manageparam.R | 36 R/util-mledist-vcov.R |only R/util-mmedist-vcov.R |only R/util-npmle.R | 1 R/util-startarg.R | 589 +++++++++++++-- R/util-testdensity.R | 19 R/util-wtdstat.R | 1 R/vcov.R | 13 README.md | 47 - build/partial.rdb |binary build/vignette.rds |binary inst/doc/FAQ.R | 331 +++++++- inst/doc/FAQ.Rmd | 368 ++++++++- inst/doc/FAQ.html | 1027 +++++++++++++++++---------- inst/doc/Optimalgo.R | 94 +- inst/doc/Optimalgo.Rmd | 55 - inst/doc/Optimalgo.html | 258 +++--- inst/doc/fitdistrplus_vignette.R | 2 inst/doc/fitdistrplus_vignette.Rmd | 2 inst/doc/fitdistrplus_vignette.html | 152 ++- inst/doc/starting-values.R |only inst/doc/starting-values.Rmd |only inst/doc/starting-values.html |only man/CIcdfplot.Rd | 2 man/Surv2fitdistcens.Rd | 2 man/bootdist.Rd | 41 - man/bootdistcens.Rd | 32 man/descdist.Rd | 22 man/detectbound.Rd | 2 man/endosulfan.Rd | 6 man/fitdist.Rd | 37 man/fitdistcens.Rd | 29 man/fitdistrplus.Rd | 9 man/gofstat.Rd | 66 + man/graphcomp.Rd | 7 man/graphcompcens.Rd | 2 man/logLik-plot.Rd | 2 man/logLik-surface.Rd | 2 man/mgedist.Rd | 9 man/mledist.Rd | 7 man/mmedist.Rd | 23 man/msedist.Rd | 12 man/plotdist.Rd | 2 man/plotdistcens.Rd | 18 man/prefit.Rd | 2 man/qmedist.Rd | 11 man/quantile.Rd | 2 man/toxocara.Rd | 2 tests/t-bootdist.R | 20 tests/t-cdfcomp.R | 4 tests/t-denscomp.R | 10 tests/t-fitdist-hessianpb.R |only tests/t-fitdist-test-arguments.R |only tests/t-fitdist.R | 25 tests/t-fitdistcens.R | 24 tests/t-gofstat.R | 17 tests/t-logLik-vcov-coef.R | 9 tests/t-mgedist.R | 7 tests/t-mledist-asymptotic-vcov.R |only tests/t-mledist-cens.R | 126 +-- tests/t-mledist-nocens.R | 10 tests/t-mmedist-asymptotic-vcov.R |only tests/t-mmedist.R | 54 - tests/t-msedist.R | 12 tests/t-plotdist.R | 4 tests/t-plotdistcens.R | 122 +-- tests/t-ppcomp.R | 3 tests/t-qmedist.R | 10 tests/t-qqcomp.R | 3 tests/t-starting-value-scale-rate.R |only tests/t-startingvalues-fellerpareto-family.R |only tests/t-startingvalues-invtrgamma-family.R |only tests/t-startingvalues-othercont-family.R |only tests/t-startingvalues-trgamma-family.R |only tests/t-startingvalues-zeromod-family.R |only tests/t-startingvalues-zerotrunc-family.R |only tests/t-util-mmedist-vcov.R |only vignettes/FAQ.Rmd | 368 ++++++++- vignettes/Optimalgo.Rmd | 55 - vignettes/fitdistrplus_vignette.Rmd | 2 vignettes/starting-values.Rmd |only 120 files changed, 7484 insertions(+), 4833 deletions(-)
Title: A 'DuckDB'-Backed Version of 'dplyr'
Description: A drop-in replacement for 'dplyr', powered by 'DuckDB' for performance.
Also defines a set of generics that provide a low-level
implementer's interface for the high-level user interface of 'dplyr'.
Author: Hannes Muehleisen [aut] ,
Kirill Mueller [aut, cre] ,
Posit Software, PBC [cph, fnd]
Maintainer: Kirill Mueller <kirill@cynkra.com>
Diff between duckplyr versions 0.4.0 dated 2024-05-21 and 0.4.1 dated 2024-07-12
duckplyr-0.4.0/duckplyr/R/io.R |only duckplyr-0.4.1/duckplyr/DESCRIPTION | 10 duckplyr-0.4.1/duckplyr/MD5 | 69 +- duckplyr-0.4.1/duckplyr/NAMESPACE | 8 duckplyr-0.4.1/duckplyr/NEWS.md | 20 duckplyr-0.4.1/duckplyr/R/arrange.R | 7 duckplyr-0.4.1/duckplyr/R/as_duckplyr_df.R | 13 duckplyr-0.4.1/duckplyr/R/as_duckplyr_tibble.R |only duckplyr-0.4.1/duckplyr/R/construct_constant.R |only duckplyr-0.4.1/duckplyr/R/construct_function.R |only duckplyr-0.4.1/duckplyr/R/construct_reference.R |only duckplyr-0.4.1/duckplyr/R/construct_window.R |only duckplyr-0.4.1/duckplyr/R/dplyr.R | 1 duckplyr-0.4.1/duckplyr/R/duckplyr-package.R | 3 duckplyr-0.4.1/duckplyr/R/fallback.R | 25 - duckplyr-0.4.1/duckplyr/R/handle_desc.R |only duckplyr-0.4.1/duckplyr/R/io-.R |only duckplyr-0.4.1/duckplyr/R/io-csv.R | 4 duckplyr-0.4.1/duckplyr/R/join.R | 39 + duckplyr-0.4.1/duckplyr/R/join_ptype_common.R |only duckplyr-0.4.1/duckplyr/R/relational-duckdb.R | 8 duckplyr-0.4.1/duckplyr/R/relational-expr.R | 2 duckplyr-0.4.1/duckplyr/R/relational-rel.R | 8 duckplyr-0.4.1/duckplyr/R/relational.R | 250 ---------- duckplyr-0.4.1/duckplyr/R/translate.R |only duckplyr-0.4.1/duckplyr/README.md | 43 + duckplyr-0.4.1/duckplyr/man/as_duckplyr_df.Rd | 21 duckplyr-0.4.1/duckplyr/man/df_from_file.Rd | 67 +- duckplyr-0.4.1/duckplyr/man/new_relational.Rd | 7 duckplyr-0.4.1/duckplyr/tests/testthat/_snaps/fallback.md | 2 duckplyr-0.4.1/duckplyr/tests/testthat/_snaps/join.md | 11 duckplyr-0.4.1/duckplyr/tests/testthat/_snaps/relational.md | 16 duckplyr-0.4.1/duckplyr/tests/testthat/_snaps/translate.md |only duckplyr-0.4.1/duckplyr/tests/testthat/test-as_duckplyr_tibble.R |only duckplyr-0.4.1/duckplyr/tests/testthat/test-demo.R | 5 duckplyr-0.4.1/duckplyr/tests/testthat/test-dplyr.R | 3 duckplyr-0.4.1/duckplyr/tests/testthat/test-io-csv.R | 2 duckplyr-0.4.1/duckplyr/tests/testthat/test-io-parquet.R | 4 duckplyr-0.4.1/duckplyr/tests/testthat/test-join.R | 2 duckplyr-0.4.1/duckplyr/tests/testthat/test-rel_api.R | 45 - duckplyr-0.4.1/duckplyr/tests/testthat/test-relational.R | 20 duckplyr-0.4.1/duckplyr/tests/testthat/test-translate.R |only 42 files changed, 288 insertions(+), 427 deletions(-)
Title: Data-Driven Locally Weighted Regression for Trend and
Seasonality in TS
Description: Various methods for the identification of trend and seasonal
components in time series (TS) are provided. Among them is a data-driven locally
weighted regression approach with automatically selected bandwidth for
equidistant short-memory time series. The approach is a
combination / extension of the algorithms by
Feng (2013) <doi:10.1080/02664763.2012.740626> and Feng, Y., Gries, T.,
and Fritz, M. (2020) <doi:10.1080/10485252.2020.1759598> and a brief
description of this new method is provided in the package documentation.
Furthermore, the package allows its users to apply the base model of the
Berlin procedure, version 4.1, as described in Speth (2004) <https://www.destatis.de/DE/Methoden/Saisonbereinigung/BV41-methodenbericht-Heft3_2004.pdf?__blob=publicationFile>.
Permission to include this procedure was kindly provided by the Federal
Statistical Office of Germany.
Author: Yuanhua Feng [aut] ,
Dominik Schulz [aut, cre]
Maintainer: Dominik Schulz <dominik.schulz@uni-paderborn.de>
Diff between deseats versions 1.0.0 dated 2023-11-08 and 1.1.0 dated 2024-07-12
DESCRIPTION | 11 - MD5 | 68 +++++---- NAMESPACE | 5 NEWS.md |only R/RcppExports.R | 28 +-- R/arima_no_warn.R | 4 R/fitting_functions.R | 100 ++++++++++---- R/forecasting_functions.R | 32 +++- R/helper_functions.R | 27 ++- R/linear_filters.R | 4 R/seasonplot.R |only R/ts_conversion.R | 2 README.md | 14 - man/ENERGY.Rd | 56 +++---- man/GDP.Rd | 54 +++---- man/HOUSES.Rd | 54 +++---- man/RAINFALL.Rd | 52 +++---- man/RETAIL.Rd | 56 +++---- man/arma_to_ar.Rd | 2 man/arma_to_ma.Rd | 2 man/deseats.Rd | 28 +++ man/figures/README-example-1.png |binary man/figures/README-example2-1.png |binary man/figures/README-example4-1.png |binary man/figures/README-example5-1.png |binary man/llin_decomp.Rd | 162 +++++++++++------------ man/read_ts.Rd | 2 man/s_semiarma.Rd | 27 +++ man/seasonplot.Rd |only man/seasonplot_gg.Rd |only man/select_bwidth.Rd | 23 ++- src/LinearFilters.cpp | 6 src/RcppExports.cpp | 73 ++++++---- src/bootCast.cpp | 12 - src/deseatsCpp.cpp | 53 ++++--- tests/testthat/test-Cpp_arma_related_functions.R | 29 ++-- tests/testthat/test-linear_filters.R | 24 +-- 37 files changed, 587 insertions(+), 423 deletions(-)
Title: A 'Shiny' App for Weibull Analysis from 'WeibullR'
Description: A 'Shiny' web application for life data analysis that depends on 'WeibullR' by David Silkworth and Jurgen Symynck (2022)
<https://CRAN.R-project.org/package=WeibullR>, an R package for Weibull analysis.
Author: Paul Govan [aut, cre, cph]
Maintainer: Paul Govan <paul.govan2@gmail.com>
Diff between WeibullR.shiny versions 0.2.0 dated 2023-10-18 and 0.2.1 dated 2024-07-12
DESCRIPTION | 16 +++++++++------- MD5 | 4 ++-- inst/CITATION | 2 +- 3 files changed, 12 insertions(+), 10 deletions(-)
More information about WeibullR.shiny at CRAN
Permanent link
Title: Identify Relevant Clinical Codes and Evaluate Their Use
Description: Generate a candidate code list for the Observational Medical Outcomes Partnership (OMOP) common data model based on string matching. For a given search strategy, a candidate code list will be returned.
Author: Edward Burn [aut, cre] ,
Marti Catala [ctb] ,
Xihang Chen [ctb] ,
Mike Du [ctb] ,
Danielle Newby [ctb]
Maintainer: Edward Burn <edward.burn@ndorms.ox.ac.uk>
Diff between CodelistGenerator versions 3.0 dated 2024-05-31 and 3.1.0 dated 2024-07-12
CodelistGenerator-3.0/CodelistGenerator/man/achillesCodeUse.Rd |only CodelistGenerator-3.0/CodelistGenerator/man/figures/hexsticker.png |only CodelistGenerator-3.0/CodelistGenerator/man/findOrphanCodes.Rd |only CodelistGenerator-3.1.0/CodelistGenerator/DESCRIPTION | 25 CodelistGenerator-3.1.0/CodelistGenerator/MD5 | 146 CodelistGenerator-3.1.0/CodelistGenerator/NAMESPACE | 10 CodelistGenerator-3.1.0/CodelistGenerator/NEWS.md | 3 CodelistGenerator-3.1.0/CodelistGenerator/R/CodelistFromCodelistWithDetails.R |only CodelistGenerator-3.1.0/CodelistGenerator/R/codesFromConceptSet.R | 91 CodelistGenerator-3.1.0/CodelistGenerator/R/codesInUse.R | 192 CodelistGenerator-3.1.0/CodelistGenerator/R/data.R |only CodelistGenerator-3.1.0/CodelistGenerator/R/drugCodes.R | 156 CodelistGenerator-3.1.0/CodelistGenerator/R/getDoseUnit.R |only CodelistGenerator-3.1.0/CodelistGenerator/R/getICD10StandardCodes.R | 28 CodelistGenerator-3.1.0/CodelistGenerator/R/getRoutes.R |only CodelistGenerator-3.1.0/CodelistGenerator/R/mockVocabRef.R | 6 CodelistGenerator-3.1.0/CodelistGenerator/R/runSearch.R | 5 CodelistGenerator-3.1.0/CodelistGenerator/R/stratifyByConcept.R |only CodelistGenerator-3.1.0/CodelistGenerator/R/stratifyByDoseUnit.R |only CodelistGenerator-3.1.0/CodelistGenerator/R/stratifyByRoute.R |only CodelistGenerator-3.1.0/CodelistGenerator/R/subsetOnDoseUnit.R |only CodelistGenerator-3.1.0/CodelistGenerator/R/subsetOnRouteCategory.R |only CodelistGenerator-3.1.0/CodelistGenerator/R/summariseAchillesCodeUse.R | 38 CodelistGenerator-3.1.0/CodelistGenerator/R/summariseCodeUse.R | 43 CodelistGenerator-3.1.0/CodelistGenerator/R/summariseOrphanCodes.R | 451 CodelistGenerator-3.1.0/CodelistGenerator/R/tableAchillesCodeUse.R | 57 CodelistGenerator-3.1.0/CodelistGenerator/R/tableCodeUse.R | 22 CodelistGenerator-3.1.0/CodelistGenerator/R/vocabUtilities.R | 8 CodelistGenerator-3.1.0/CodelistGenerator/README.md | 57 CodelistGenerator-3.1.0/CodelistGenerator/build/vignette.rds |binary CodelistGenerator-3.1.0/CodelistGenerator/data |only CodelistGenerator-3.1.0/CodelistGenerator/inst/doc/a01_Introduction_to_CodelistGenerator.html | 2 CodelistGenerator-3.1.0/CodelistGenerator/inst/doc/a02_Candidate_codes_OA.html | 2 CodelistGenerator-3.1.0/CodelistGenerator/inst/doc/a03_Options_for_CodelistGenerator.Rmd | 434 CodelistGenerator-3.1.0/CodelistGenerator/inst/doc/a03_Options_for_CodelistGenerator.html | 18 CodelistGenerator-3.1.0/CodelistGenerator/inst/doc/a04_Vocab_based_codelists.R | 30 CodelistGenerator-3.1.0/CodelistGenerator/inst/doc/a04_Vocab_based_codelists.Rmd | 32 CodelistGenerator-3.1.0/CodelistGenerator/inst/doc/a04_Vocab_based_codelists.html | 156 CodelistGenerator-3.1.0/CodelistGenerator/inst/not_all_concept_sets/cohort_def.json | 5706 +++++----- CodelistGenerator-3.1.0/CodelistGenerator/man/CodelistGenerator-package.Rd | 6 CodelistGenerator-3.1.0/CodelistGenerator/man/codesFromCohort.Rd | 7 CodelistGenerator-3.1.0/CodelistGenerator/man/codesFromConceptSet.Rd | 7 CodelistGenerator-3.1.0/CodelistGenerator/man/codesInUse.Rd | 7 CodelistGenerator-3.1.0/CodelistGenerator/man/doseFormToRoute.Rd |only CodelistGenerator-3.1.0/CodelistGenerator/man/figures/logo.png |only CodelistGenerator-3.1.0/CodelistGenerator/man/getATCCodes.Rd | 23 CodelistGenerator-3.1.0/CodelistGenerator/man/getConceptClassId.Rd | 60 CodelistGenerator-3.1.0/CodelistGenerator/man/getDoseUnit.Rd |only CodelistGenerator-3.1.0/CodelistGenerator/man/getDrugIngredientCodes.Rd | 23 CodelistGenerator-3.1.0/CodelistGenerator/man/getICD10StandardCodes.Rd | 7 CodelistGenerator-3.1.0/CodelistGenerator/man/getRouteCategories.Rd |only CodelistGenerator-3.1.0/CodelistGenerator/man/restrictToCodesInUse.Rd | 11 CodelistGenerator-3.1.0/CodelistGenerator/man/sourceCodesInUse.Rd | 4 CodelistGenerator-3.1.0/CodelistGenerator/man/stratifyByConcept.Rd |only CodelistGenerator-3.1.0/CodelistGenerator/man/stratifyByDoseUnit.Rd |only CodelistGenerator-3.1.0/CodelistGenerator/man/stratifyByRouteCategory.Rd |only CodelistGenerator-3.1.0/CodelistGenerator/man/subsetOnDoseUnit.Rd |only CodelistGenerator-3.1.0/CodelistGenerator/man/subsetOnRouteCategory.Rd |only CodelistGenerator-3.1.0/CodelistGenerator/man/subsetToCodesInUse.Rd |only CodelistGenerator-3.1.0/CodelistGenerator/man/summariseOrphanCodes.Rd | 54 CodelistGenerator-3.1.0/CodelistGenerator/man/tableAchillesCodeUse.Rd | 4 CodelistGenerator-3.1.0/CodelistGenerator/man/tableCodeUse.Rd | 4 CodelistGenerator-3.1.0/CodelistGenerator/man/tableCohortCodeUse.Rd | 4 CodelistGenerator-3.1.0/CodelistGenerator/man/tableOrphanCodes.Rd | 10 CodelistGenerator-3.1.0/CodelistGenerator/tests/testthat/test-codesFrom.R | 44 CodelistGenerator-3.1.0/CodelistGenerator/tests/testthat/test-codesInUse.R | 10 CodelistGenerator-3.1.0/CodelistGenerator/tests/testthat/test-compareCodelists.R | 254 CodelistGenerator-3.1.0/CodelistGenerator/tests/testthat/test-data.R |only CodelistGenerator-3.1.0/CodelistGenerator/tests/testthat/test-dbms.R | 146 CodelistGenerator-3.1.0/CodelistGenerator/tests/testthat/test-drugCodes.R | 646 + CodelistGenerator-3.1.0/CodelistGenerator/tests/testthat/test-findUnmappedCodes.R | 1 CodelistGenerator-3.1.0/CodelistGenerator/tests/testthat/test-getCandidateCodes.R | 668 - CodelistGenerator-3.1.0/CodelistGenerator/tests/testthat/test-getDoseUnit.R |only CodelistGenerator-3.1.0/CodelistGenerator/tests/testthat/test-getICD10StandardCodes.R | 14 CodelistGenerator-3.1.0/CodelistGenerator/tests/testthat/test-getMappings.R | 148 CodelistGenerator-3.1.0/CodelistGenerator/tests/testthat/test-getRouteCategories.R |only CodelistGenerator-3.1.0/CodelistGenerator/tests/testthat/test-mockVocabRef.R | 26 CodelistGenerator-3.1.0/CodelistGenerator/tests/testthat/test-restrictToCodesInUse.R |only CodelistGenerator-3.1.0/CodelistGenerator/tests/testthat/test-stratifyByConcept.R |only CodelistGenerator-3.1.0/CodelistGenerator/tests/testthat/test-stratifyByDoseUnit.R |only CodelistGenerator-3.1.0/CodelistGenerator/tests/testthat/test-stratifyByRouteCategory.R |only CodelistGenerator-3.1.0/CodelistGenerator/tests/testthat/test-subsetOnDoseUnit.R |only CodelistGenerator-3.1.0/CodelistGenerator/tests/testthat/test-subsetOnRouteCategory.R |only CodelistGenerator-3.1.0/CodelistGenerator/tests/testthat/test-summariseCodeUse.R | 4 CodelistGenerator-3.1.0/CodelistGenerator/tests/testthat/test-summariseOrphanCodes.R | 119 CodelistGenerator-3.1.0/CodelistGenerator/tests/testthat/test-tableAchillesCodeUse.R | 142 CodelistGenerator-3.1.0/CodelistGenerator/tests/testthat/test-tableCodeUse.R | 19 CodelistGenerator-3.1.0/CodelistGenerator/tests/testthat/test-vocabUtilities.R | 2 CodelistGenerator-3.1.0/CodelistGenerator/vignettes/a03_Options_for_CodelistGenerator.Rmd | 434 CodelistGenerator-3.1.0/CodelistGenerator/vignettes/a04_Vocab_based_codelists.Rmd | 32 90 files changed, 5747 insertions(+), 4911 deletions(-)
More information about CodelistGenerator at CRAN
Permanent link
Title: Bayesian Network Modeling and Analysis
Description: A "Shiny"" web application for creating interactive Bayesian Network models,
learning the structure and parameters of Bayesian networks, and utilities for classic
network analysis.
Author: Paul Govan [aut, cre, cph]
Maintainer: Paul Govan <paul.govan2@gmail.com>
Diff between BayesianNetwork versions 0.3 dated 2023-06-26 and 0.3.2 dated 2024-07-12
BayesianNetwork-0.3.2/BayesianNetwork/DESCRIPTION | 15 +++--- BayesianNetwork-0.3.2/BayesianNetwork/MD5 | 25 +++------- BayesianNetwork-0.3.2/BayesianNetwork/NEWS.md | 6 ++ BayesianNetwork-0.3.2/BayesianNetwork/README.md |only BayesianNetwork-0.3.2/BayesianNetwork/inst/CITATION |only BayesianNetwork-0.3.2/BayesianNetwork/inst/images/Measures.PNG |only BayesianNetwork-0.3.2/BayesianNetwork/inst/images/Parameters.PNG |only BayesianNetwork-0.3.2/BayesianNetwork/inst/images/Simulation.PNG |only BayesianNetwork-0.3.2/BayesianNetwork/inst/images/Structure.PNG |only BayesianNetwork-0.3.2/BayesianNetwork/man/figures |only BayesianNetwork-0.3/BayesianNetwork/inst/bn/tests |only BayesianNetwork-0.3/BayesianNetwork/inst/images/Measures.png |only BayesianNetwork-0.3/BayesianNetwork/inst/images/Parameters.png |only BayesianNetwork-0.3/BayesianNetwork/inst/images/Simulation.png |only BayesianNetwork-0.3/BayesianNetwork/inst/images/Structure.png |only 15 files changed, 22 insertions(+), 24 deletions(-)
More information about BayesianNetwork at CRAN
Permanent link
Title: Ensemble Tool for Predictions from Species Distribution Models
Description: A tool which allows users to create and evaluate ensembles
of species distribution model (SDM) predictions.
Functionality is offered through R functions or a GUI (R Shiny app).
This tool can assist users in identifying spatial uncertainties and
making informed conservation and management decisions. The package is
further described in Woodman et al (2019) <doi:10.1111/2041-210X.13283>.
Author: Sam Woodman [aut, cre]
Maintainer: Sam Woodman <sam.woodman@noaa.gov>
Diff between eSDM versions 0.4.1 dated 2024-02-14 and 0.4.2 dated 2024-07-11
DESCRIPTION | 15 +++++++-------- MD5 | 22 +++++++++++----------- NEWS.md | 7 +++++++ R/eSDM-package.R | 4 ++-- R/eSDM_GUI.R | 2 -- build/vignette.rds |binary inst/doc/example-analysis.html | 8 ++++---- inst/shiny/app.R | 3 ++- inst/shiny/server_other/server_checks.R | 2 +- inst/shiny/server_other/server_reactiveValues.R | 4 ++-- man/eSDM-package.Rd | 3 ++- man/eSDM_GUI.Rd | 3 --- 12 files changed, 38 insertions(+), 35 deletions(-)
Title: Load and Process Passive Acoustic Data
Description: Tools for loading and processing passive acoustic data. Read in data
that has been processed in 'Pamguard' (<https://www.pamguard.org/>), apply a suite
processing functions, and export data for reports or external modeling tools. Parameter
calculations implement methods by Oswald et al (2007) <doi:10.1121/1.2743157>,
Griffiths et al (2020) <doi:10.1121/10.0001229> and Baumann-Pickering et al (2010)
<doi:10.1121/1.3479549>.
Author: Taiki Sakai [aut, cre],
Jay Barlow [ctb],
Emily Griffiths [ctb],
Michael Oswald [ctb],
Simone Baumann-Pickering [ctb],
Julie Oswald [ctb]
Maintainer: Taiki Sakai <taiki.sakai@noaa.gov>
Diff between PAMpal versions 1.0.0 dated 2023-08-11 and 1.2.1 dated 2024-07-11
DESCRIPTION | 18 +- MD5 | 77 +++++++----- NAMESPACE | 58 ++++++++- NEWS.md | 56 +++++++++ R/addAnnotation.R | 20 ++- R/addFPOD.R | 2 R/addHydrophoneDepth.R | 42 ++++-- R/addMeasures.R | 3 R/addNote.R | 7 - R/addRecordings.R | 3 R/addWaveHeight.R |only R/calculateAverageSpectra.R | 12 + R/calculateEchoDepth.R |only R/calculateICI.R | 4 R/filter.R | 102 ++++++++++++++-- R/filterEchoDepths.R |only R/getClipData.R | 111 ++++++++++++++---- R/loadPamguardXML.R | 92 +++++++-------- R/matchTimeData.R | 8 - R/plotDataExplorer.R | 207 +++++++++++++++++++++++----------- R/plotGram.R | 136 ++++++++++++++++++---- R/processPgDetections.R | 76 +++++++++--- R/runDepthReview.R |only R/setSpecies.R | 18 +- R/summariseDiveDepth.R |only R/utils.R | 73 ++++++++---- R/wavUtils.R | 59 ++++++++- R/writeEventClips.R | 243 +++++----------------------------------- man/addFPOD.Rd | 2 man/addHydrophoneDepth.Rd | 2 man/addWaveHeight.Rd |only man/calculateAverageSpectra.Rd | 4 man/calculateEchoDepth.Rd |only man/filter.Rd | 2 man/filterEchoDepths.Rd |only man/getClipData.Rd | 5 man/loadPamguardXML.Rd | 2 man/matchTimeData.Rd | 2 man/plotDataExplorer.Rd | 18 -- man/plotGram.Rd | 52 +++++++- man/runDepthReview.Rd |only man/summariseDiveDepth.Rd |only man/writeEventClips.Rd | 2 tests/testthat/test-utils.R |only tests/testthat/test-workStudy.R | 46 ++++--- 45 files changed, 1014 insertions(+), 550 deletions(-)
Title: Easy to Make (Lazy) Tables
Description: Constructs tables of counts and proportions out of data sets with possibility to insert tables to Excel, Word, HTML, and PDF documents. Transforms tables to data suitable for modelling. Features Gibbs sampling based log-linear (NB2) and power analyses (original by Oleksandr Ocheredko <doi:10.35566/isdsa2019c5>) for tabulated data.
Author: Ocheredko Oleksandr
Maintainer: Ocheredko Oleksandr <Ocheredko@yahoo.com>
Diff between ltable versions 2.0.3 dated 2023-08-16 and 2.0.4 dated 2024-07-11
ltable-2.0.3/ltable/inst/Doc/ltable2023Part1.pdf |only ltable-2.0.3/ltable/inst/Doc/ltable2023Part2.pdf |only ltable-2.0.3/ltable/inst/Doc/ltable2023Part3.pdf |only ltable-2.0.3/ltable/inst/Doc/ltable2023Part4.pdf |only ltable-2.0.4/ltable/DESCRIPTION | 14 +++++++------- ltable-2.0.4/ltable/MD5 | 21 ++++++++++++--------- ltable-2.0.4/ltable/NAMESPACE | 6 ++++-- ltable-2.0.4/ltable/R/Plot.R | 6 ++++-- ltable-2.0.4/ltable/R/Renewal.R |only ltable-2.0.4/ltable/inst/Doc/ltablePart1.pdf |only ltable-2.0.4/ltable/inst/Doc/ltablePart2.pdf |only ltable-2.0.4/ltable/inst/Doc/ltablePart3.pdf |only ltable-2.0.4/ltable/inst/Doc/ltablePart4.pdf |only ltable-2.0.4/ltable/inst/Doc/ltablePart5.pdf |only ltable-2.0.4/ltable/inst/NEWS.Rd | 4 ++-- ltable-2.0.4/ltable/man/BCdata.Rd | 2 +- ltable-2.0.4/ltable/man/renewal.Rd |only 17 files changed, 30 insertions(+), 23 deletions(-)
Title: Project GENIE BioPharma Collaborative Data Processing Pipeline
Description: The American Association Research (AACR) Project
Genomics Evidence Neoplasia Information Exchange (GENIE) BioPharma
Collaborative represents a multi-year, multi-institution effort
to build a pan-cancer repository of linked clinico-genomic data.
The genomic and clinical data are provided in multiple releases (separate
releases for each cancer cohort with updates following data corrections),
which are stored on the data sharing platform
'Synapse' <https://www.synapse.org/>.
The 'genieBPC' package provides a seamless way to obtain the
data corresponding to each release from 'Synapse' and to prepare
datasets for analysis.
Author: Jessica A. Lavery [aut, cre] ,
Michael A. Curry [aut] ,
Samantha Brown [aut] ,
Karissa Whiting [aut] ,
Hannah Fuchs [aut] ,
Axel Martin [aut],
Daniel D. Sjoberg [ctb]
Maintainer: Jessica A. Lavery <laveryj@mskcc.org>
Diff between genieBPC versions 1.1.1 dated 2024-03-29 and 2.0.1 dated 2024-07-11
genieBPC-1.1.1/genieBPC/tests/testthat/test-check_synapse_login.R |only genieBPC-2.0.1/genieBPC/DESCRIPTION | 8 genieBPC-2.0.1/genieBPC/MD5 | 105 genieBPC-2.0.1/genieBPC/NAMESPACE | 2 genieBPC-2.0.1/genieBPC/NEWS.md | 17 genieBPC-2.0.1/genieBPC/R/create_analytic_cohort.R | 21 genieBPC-2.0.1/genieBPC/R/data.R | 13 genieBPC-2.0.1/genieBPC/R/drug_regimen_sunburst.R | 18 genieBPC-2.0.1/genieBPC/R/pull_data_synapse.R | 49 genieBPC-2.0.1/genieBPC/R/select_unique_ngs.R | 8 genieBPC-2.0.1/genieBPC/R/synapse_authentication.R | 345 genieBPC-2.0.1/genieBPC/R/synapse_version.R | 20 genieBPC-2.0.1/genieBPC/README.md | 100 genieBPC-2.0.1/genieBPC/data/drug_regimen_list.rda |binary genieBPC-2.0.1/genieBPC/data/synapse_tables.rda |binary genieBPC-2.0.1/genieBPC/inst/WORDLIST | 9 genieBPC-2.0.1/genieBPC/inst/doc/clinical_data_structure_vignette.Rmd | 39 genieBPC-2.0.1/genieBPC/inst/doc/clinical_data_structure_vignette.html | 74 genieBPC-2.0.1/genieBPC/inst/doc/create_analytic_cohort_vignette.R | 94 genieBPC-2.0.1/genieBPC/inst/doc/create_analytic_cohort_vignette.Rmd | 20 genieBPC-2.0.1/genieBPC/inst/doc/create_analytic_cohort_vignette.html | 2378 - genieBPC-2.0.1/genieBPC/inst/doc/drug_regimen_sunburst_vignette.R | 70 genieBPC-2.0.1/genieBPC/inst/doc/drug_regimen_sunburst_vignette.Rmd | 20 genieBPC-2.0.1/genieBPC/inst/doc/drug_regimen_sunburst_vignette.html |12157 ---------- genieBPC-2.0.1/genieBPC/inst/doc/pull_data_synapse_vignette.R | 55 genieBPC-2.0.1/genieBPC/inst/doc/pull_data_synapse_vignette.Rmd | 45 genieBPC-2.0.1/genieBPC/inst/doc/pull_data_synapse_vignette.html | 660 genieBPC-2.0.1/genieBPC/inst/doc/select_unique_ngs_vignette.R | 83 genieBPC-2.0.1/genieBPC/inst/doc/select_unique_ngs_vignette.Rmd | 18 genieBPC-2.0.1/genieBPC/inst/doc/select_unique_ngs_vignette.html | 622 genieBPC-2.0.1/genieBPC/man/check_genie_access.Rd | 20 genieBPC-2.0.1/genieBPC/man/create_analytic_cohort.Rd | 4 genieBPC-2.0.1/genieBPC/man/dot-get_synapse_token.Rd | 14 genieBPC-2.0.1/genieBPC/man/dot-get_token_by_pat.Rd |only genieBPC-2.0.1/genieBPC/man/dot-get_token_by_username.Rd |only genieBPC-2.0.1/genieBPC/man/dot-is_connected_to_genie.Rd | 7 genieBPC-2.0.1/genieBPC/man/dot-pull_data_by_cohort.Rd | 2 genieBPC-2.0.1/genieBPC/man/dot-resolve_duplicates.Rd | 4 genieBPC-2.0.1/genieBPC/man/drug_regimen_list.Rd | 13 genieBPC-2.0.1/genieBPC/man/drug_regimen_sunburst.Rd | 2 genieBPC-2.0.1/genieBPC/man/pull_data_synapse.Rd | 17 genieBPC-2.0.1/genieBPC/man/select_unique_ngs.Rd | 6 genieBPC-2.0.1/genieBPC/man/set_synapse_credentials.Rd | 15 genieBPC-2.0.1/genieBPC/tests/testthat/test-check-genie-access.R |only genieBPC-2.0.1/genieBPC/tests/testthat/test-create_analytic_cohort.R | 79 genieBPC-2.0.1/genieBPC/tests/testthat/test-drug_regimen_sunburst.R | 45 genieBPC-2.0.1/genieBPC/tests/testthat/test-pull_data_synapse.R | 445 genieBPC-2.0.1/genieBPC/tests/testthat/test-select_unique_ngs.R | 7 genieBPC-2.0.1/genieBPC/tests/testthat/test-set_synapse_credentials.R |only genieBPC-2.0.1/genieBPC/tests/testthat/test-synapse_tables.R | 31 genieBPC-2.0.1/genieBPC/tests/testthat/test-synapse_version.R | 35 genieBPC-2.0.1/genieBPC/vignettes/clinical_data_structure_vignette.Rmd | 39 genieBPC-2.0.1/genieBPC/vignettes/create_analytic_cohort_vignette.Rmd | 20 genieBPC-2.0.1/genieBPC/vignettes/drug_regimen_sunburst_vignette.Rmd | 20 genieBPC-2.0.1/genieBPC/vignettes/pull_data_synapse_vignette.Rmd | 45 genieBPC-2.0.1/genieBPC/vignettes/select_unique_ngs_vignette.Rmd | 18 56 files changed, 1364 insertions(+), 16574 deletions(-)
Title: Shortest Paths Between Points in Grids
Description: Shortest paths between points in grids. Optional barriers and custom transition functions. Applications regarding planet Earth, as well as
generally spheres and planes. Optimized for computational performance, customizability, and user friendliness. Graph-theoretical implementation tailored
to gridded data. Currently focused on Dijkstra's (1959) <doi:10.1007/BF01386390> algorithm. Future updates broaden the scope to other least cost path
algorithms and to centrality measures.
Author: Christian Dueben [aut, cre]
Maintainer: Christian Dueben <cdueben.ml+cran@proton.me>
Diff between spaths versions 1.1.2 dated 2024-05-30 and 1.1.3 dated 2024-07-11
DESCRIPTION | 10 +++++----- MD5 | 8 ++++---- NEWS.md | 45 ++++++++++++++++++++++++--------------------- README.md | 2 +- build/vignette.rds |binary 5 files changed, 34 insertions(+), 31 deletions(-)
Title: Spatial Absorbing Markov Chains
Description: Implements functions for working with absorbing Markov chains. The
implementation is based on the framework described in "Toward a unified
framework for connectivity that disentangles movement and mortality in space
and time" by Fletcher et al. (2019) <doi:10.1111/ele.13333>, which applies
them to spatial ecology. This framework incorporates both resistance and
absorption with spatial absorbing Markov chains (SAMC) to provide several
short-term and long-term predictions for metrics related to connectivity in
landscapes. Despite the ecological context of the framework, this package
can be used in any application of absorbing Markov chains.
Author: Andrew Marx [aut, cre, cph] ,
Robert Fletcher [ctb] ,
Miguel Acevedo [ctb] ,
Jorge Sefair [ctb] ,
Chao Wang [ctb] ,
Hughes Josie [ctb] ,
Barrett Griffin [ctb]
Maintainer: Andrew Marx <ajm.rpackages@gmail.com>
Diff between samc versions 3.2.1 dated 2023-05-09 and 3.3.0 dated 2024-07-11
DESCRIPTION | 12 +- MD5 | 93 +++++++-------- NEWS.md | 18 +++ R/RcppExports.R | 56 ++------- R/absorption.R | 39 +++--- R/check.R | 10 + R/cond_passage.R | 89 ++++++++++---- R/data.R | 4 R/dispersal.R | 118 +++++++++++-------- R/distribution.R | 110 +++++++++++------- R/generics.R | 4 R/internal-classes.R | 4 R/internal-functions.R | 221 ++++++++++++++++++------------------- R/locate.R | 4 R/location-class.R | 4 R/map.R | 83 +++++++------ R/mortality.R | 148 +++++++++++++++++------- R/pairwise.R | 4 R/rasterize.R | 4 R/samc-class.R | 8 + R/samc.R | 23 ++- R/survival.R | 60 +++++----- R/utils-models.R |only R/visitation.R | 173 +++++++++++++++++++--------- R/zzz.R | 2 build/vignette.rds |binary inst/doc/overview.R | 20 +-- inst/doc/overview.Rmd | 1 inst/doc/overview.html | 29 ++-- man/cond_passage.Rd | 7 + man/dispersal.Rd | 3 man/distribution.Rd | 3 man/mortality.Rd | 6 + man/pairwise.Rd | 4 man/samc-class.Rd | 4 man/survival.Rd | 18 ++- src/RcppExports.cpp | 152 +++++-------------------- src/cond_passage.cpp | 22 +-- src/dispersal.cpp | 29 ---- src/distribution.cpp | 34 +---- src/mortality.cpp | 4 src/samc_types.h | 3 src/solver-cache.cpp | 4 src/solver-cache.h | 4 src/survival.cpp | 4 src/visitation.cpp | 98 +++------------- tests/testthat/test-cond_passage.R | 1 vignettes/overview.Rmd | 1 48 files changed, 908 insertions(+), 834 deletions(-)
Title: Data Preparation, Estimation and Prediction in Multi-State
Models
Description: Contains functions for data preparation, descriptives, hazard estimation and prediction with Aalen-Johansen or simulation in competing risks and multi-state models, see Putter, Fiocco, Geskus (2007) <doi:10.1002/sim.2712>.
Author: Hein Putter [aut, cre],
Liesbeth C. de Wreede [aut],
Marta Fiocco [aut],
Ronald B. Geskus [ctb],
Edouard F. Bonneville [aut],
Damjan Manevski [ctb]
Maintainer: Hein Putter <H.Putter@lumc.nl>
Diff between mstate versions 0.3.2 dated 2021-11-08 and 0.3.3 dated 2024-07-11
mstate-0.3.2/mstate/ChangeLog |only mstate-0.3.2/mstate/R/cuminc.R |only mstate-0.3.3/mstate/DESCRIPTION | 13 mstate-0.3.3/mstate/MD5 | 42 mstate-0.3.3/mstate/NEWS.md |only mstate-0.3.3/mstate/R/Cuminc.R |only mstate-0.3.3/mstate/R/crprep.R | 3 mstate-0.3.3/mstate/R/ggplot.probtrans.R | 47 - mstate-0.3.3/mstate/R/msfit.R | 15 mstate-0.3.3/mstate/R/msprep.R | 6 mstate-0.3.3/mstate/R/mssample.R | 2 mstate-0.3.3/mstate/R/plot.msfit.R | 4 mstate-0.3.3/mstate/R/relsurv.msfit.relsurv.R | 4 mstate-0.3.3/mstate/R/relsurv.rformulate.R | 4 mstate-0.3.3/mstate/R/vis.mirror.pt.R | 15 mstate-0.3.3/mstate/build/vignette.rds |binary mstate-0.3.3/mstate/inst/CITATION | 72 - mstate-0.3.3/mstate/inst/doc/Tutorial.Rnw | 2 mstate-0.3.3/mstate/inst/doc/Tutorial.pdf |binary mstate-0.3.3/mstate/inst/doc/visuals_demo.R | 2 mstate-0.3.3/mstate/inst/doc/visuals_demo.html | 1157 +++++++++++++++---------- mstate-0.3.3/mstate/man/Cuminc.Rd | 212 ++-- mstate-0.3.3/mstate/man/LMAJ.Rd | 2 mstate-0.3.3/mstate/vignettes/Tutorial.Rnw | 2 24 files changed, 956 insertions(+), 648 deletions(-)
Title: Helper Functions for Rmd Documents
Description: A series of functions to aid in repeated tasks for Rmd documents. All details are to my personal preference, though I am happy to add flexibility if there are use cases I am missing. I will continue updating with new functions as I add utility functions for myself.
Author: Mark Peterson
Maintainer: Mark Peterson <mark.phillip.peterson@gmail.com>
Diff between rmdHelpers versions 1.2 dated 2016-07-11 and 1.3.1 dated 2024-07-11
DESCRIPTION | 8 ++++---- MD5 | 8 ++++---- R/formatEffectTable.R | 21 ++++++++++++++++----- R/printList.R | 5 +++++ build/partial.rdb |binary 5 files changed, 29 insertions(+), 13 deletions(-)
Title: Check if an 'externalptr' is a Null Pointer
Description: Check if an 'externalptr' is a null pointer.
R does currently not have a native function for that purpose.
This package contains a C function that returns TRUE in case of a null pointer.
Author: Jonas Foerster [aut, cre]
Maintainer: Jonas Foerster <jonasfoerster@gmail.com>
Diff between isnullptr versions 1.0.1 dated 2017-09-28 and 1.0.2 dated 2024-07-11
DESCRIPTION | 9 ++++----- MD5 | 4 ++-- src/isnullptr.c | 2 +- 3 files changed, 7 insertions(+), 8 deletions(-)
Title: Load Data from Facebook API Marketing
Description: Load data by campaigns, ads, ad sets and insights, ad account and business manager
from Facebook Marketing API into R. For more details see official documents by Facebook
Marketing API <https://developers.facebook.com/docs/marketing-apis/>.
Author: Alexey Seleznev [aut, cre]
Maintainer: Alexey Seleznev <selesnow@gmail.com>
Diff between rfacebookstat versions 2.10.0 dated 2024-01-25 and 2.11.0 dated 2024-07-11
DESCRIPTION | 6 +++--- MD5 | 12 ++++++------ NEWS.md | 5 +++++ R/fbGetAdSets.R | 2 +- R/fbGetMarketingStat.R | 2 +- R/zzz.R | 2 +- build/partial.rdb |binary 7 files changed, 17 insertions(+), 12 deletions(-)
Title: Multivariate Time Series Plot
Description: A function for plotting multivariate time series data.
Author: Roger D. Peng <roger.peng@austin.utexas.edu>
Maintainer: Roger D. Peng <roger.peng@austin.utexas.edu>
Diff between mvtsplot versions 1.0-4 dated 2022-05-10 and 1.0-5 dated 2024-07-11
mvtsplot-1.0-4/mvtsplot/inst |only mvtsplot-1.0-5/mvtsplot/DESCRIPTION | 14 +++--- mvtsplot-1.0-5/mvtsplot/MD5 | 9 +--- mvtsplot-1.0-5/mvtsplot/NAMESPACE | 4 - mvtsplot-1.0-5/mvtsplot/R/mvtsplot.R | 68 ++++++++++++++++++++------------ mvtsplot-1.0-5/mvtsplot/man/mvtsplot.Rd | 27 +++++++++--- 6 files changed, 78 insertions(+), 44 deletions(-)
Title: Meta-Analysis of Significance Values
Description: The canonical way to perform meta-analysis involves using effect sizes.
When they are not available this package provides a number of methods for
meta-analysis of significance values including the methods of Edgington, Fisher,
Lancaster, Stouffer, Tippett, and Wilkinson; a number of data-sets to replicate published results;
and routines for graphical display.
Author: Michael Dewey [aut, cre]
Maintainer: Michael Dewey <lists@dewey.myzen.co.uk>
Diff between metap versions 1.10 dated 2024-04-15 and 1.11 dated 2024-07-11
DESCRIPTION | 9 +++++---- MD5 | 28 ++++++++++++++-------------- NEWS | 4 ++++ R/sumlog.R | 14 +++++++++++--- build/metap.pdf |binary build/partial.rdb |binary build/stage23.rdb |binary build/vignette.rds |binary inst/doc/compare.pdf |binary inst/doc/metap.pdf |binary inst/doc/plotmetap.pdf |binary man/plotp.Rd | 2 +- man/sumlog.Rd | 9 ++++++++- man/sumz.Rd | 5 +++++ man/truncated.Rd | 3 ++- 15 files changed, 50 insertions(+), 24 deletions(-)
Title: Clusterwise Independent Component Analysis
Description: Clustering multi-subject resting state functional Magnetic Resonance Imaging data. This methods enables the clustering of subjects based on multi-subject resting state functional Magnetic Resonance Imaging data. Objects are clustered based on similarities and differences in cluster-specific estimated components obtained by Independent Component Analysis.
Author: Jeffrey Durieux [aut, cre], Tom Wilderjans [aut], Juan Claramunt Gonzalez [ctb]
Maintainer: Jeffrey Durieux <durieux.jeffrey@gmail.com>
Diff between CICA versions 1.0.2 dated 2024-02-05 and 1.1.0 dated 2024-07-11
DESCRIPTION | 17 ++++++++--------- MD5 | 18 +++++++++--------- NAMESPACE | 2 ++ R/CICA.R | 38 +++++++++++++++++++++++++++++++------- R/ExtractICA.R | 19 ++++++++++++++----- R/FindRationalStarts.R | 3 +++ README.md | 4 +++- man/CICA.Rd | 11 +++++++---- man/ExtractICA.Rd | 8 ++++++-- man/FindRationalStarts.Rd | 2 +- 10 files changed, 84 insertions(+), 38 deletions(-)
Title: General Network (HTTP/FTP/...) Client Interface for R
Description: A wrapper for 'libcurl' <https://curl.se/libcurl/>
Provides functions to allow one to compose general HTTP requests
and provides convenient functions to fetch URIs, get & post
forms, etc. and process the results returned by the Web server.
This provides a great deal of control over the HTTP/FTP/...
connection and the form of the request while providing a
higher-level interface than is available just using R socket
connections. Additionally, the underlying implementation is
robust and extensive, supporting FTP/FTPS/TFTP (uploads and
downloads), SSL/HTTPS, telnet, dict, ldap, and also supports
cookies, redirects, authentication, etc.
Author: CRAN Team [ctb, cre] ,
Duncan Temple Lang [aut]
Maintainer: CRAN Team <CRAN@r-project.org>
Diff between RCurl versions 1.98-1.14 dated 2024-01-09 and 1.98-1.16 dated 2024-07-11
DESCRIPTION | 6 +++--- MD5 | 4 ++-- src/Makevars.ucrt | 10 +++++++++- 3 files changed, 14 insertions(+), 6 deletions(-)
Title: Getting Bibliographic Records from 'OpenAlex' Database Using
'DSL' API
Description: A set of tools to extract bibliographic content from
'OpenAlex' database using API <https://docs.openalex.org>.
Author: Massimo Aria [aut, cre, cph] ,
Corrado Cuccurullo [ctb] ,
Trang Le [aut] ,
June Choe [aut]
Maintainer: Massimo Aria <aria@unina.it>
Diff between openalexR versions 1.3.1 dated 2024-05-08 and 1.4.0 dated 2024-07-11
DESCRIPTION | 10 +-- MD5 | 36 +++++------ NAMESPACE | 1 NEWS.md | 5 + R/oa2df.R | 130 ++++++++++++++++++++++++++++++----------- R/oa_fetch.R | 8 +- R/oa_snowball.R | 9 ++ R/simplify.R | 10 +-- R/utils.R | 31 +++++++++ README.md | 115 +++++++++++++++++++++++------------- data/concept_abbrev.rda |binary man/oa2df.Rd | 2 man/oa_fetch.Rd | 2 man/oa_query.Rd | 2 man/oa_random.Rd | 2 man/oa_snowball.Rd | 9 ++ man/openalexR-package.Rd | 2 man/process_topics.Rd |only man/topics2df.Rd |only tests/testthat/test-oa_fetch.R | 2 20 files changed, 266 insertions(+), 110 deletions(-)
Title: Easy Data Wrangling and Statistical Transformations
Description: A lightweight package to assist in key steps involved in any data
analysis workflow: (1) wrangling the raw data to get it in the needed form,
(2) applying preprocessing steps and statistical transformations, and
(3) compute statistical summaries of data properties and distributions.
It is also the data wrangling backend for packages in 'easystats' ecosystem.
References: Patil et al. (2022) <doi:10.21105/joss.04684>.
Author: Indrajeet Patil [aut] ,
Etienne Bacher [aut, cre] ,
Dominique Makowski [aut] ,
Daniel Luedecke [aut] ,
Mattan S. Ben-Shachar [aut] ,
Brenton M. Wiernik [aut] ,
Remi Theriault [ctb] ,
Thomas J. Faulkenberry [rev],
Robert Garrett [rev]
Maintainer: Etienne Bacher <etienne.bacher@protonmail.com>
Diff between datawizard versions 0.11.0 dated 2024-06-05 and 0.12.0 dated 2024-07-11
DESCRIPTION | 13 MD5 | 94 +- NAMESPACE | 28 NEWS.md | 27 R/categorize.R | 1 R/data_arrange.R | 1 R/data_duplicated.R | 2 R/data_modify.R | 2 R/data_rescale.R | 2 R/data_reverse.R | 2 R/data_select.R | 6 R/data_summary.R | 22 R/data_tabulate.R | 150 +++- R/data_unique.R | 2 R/data_xtabulate.R | 45 - R/demean.R | 360 +++++----- R/extract_column_names.R | 7 R/normalize.R | 2 R/ranktransform.R | 2 R/reshape_ci.R | 2 R/row_means.R | 6 R/select_nse.R | 27 R/to_factor.R | 6 R/unnormalize.R | 20 R/unstandardize.R | 2 R/utils-rows.R | 2 R/utils_standardize_center.R | 2 README.md | 9 build/partial.rdb |binary build/vignette.rds |binary inst/WORDLIST | 4 inst/doc/selection_syntax.html | 416 ++++++------ inst/doc/standardize_data.html | 2 inst/doc/tidyverse_translation.R | 186 ++--- inst/doc/tidyverse_translation.Rmd | 149 ++-- inst/doc/tidyverse_translation.html | 143 ++-- man/data_summary.Rd | 8 man/data_tabulate.Rd | 53 + man/demean.Rd | 184 +++-- man/extract_column_names.Rd | 7 tests/testthat/_snaps/data_tabulate.md | 1128 ++++++++++++++++----------------- tests/testthat/_snaps/demean.md | 28 tests/testthat/test-center.R | 3 tests/testthat/test-data_select.R | 48 + tests/testthat/test-data_summary.R | 2 tests/testthat/test-data_tabulate.R | 106 ++- tests/testthat/test-demean.R | 125 +++ vignettes/tidyverse_translation.Rmd | 149 ++-- 48 files changed, 2064 insertions(+), 1521 deletions(-)
Title: Post-Estimation Functions for Generalized Linear Mixed Models
Description: Several functions for working with mixed effects regression models for limited dependent variables. The functions facilitate post-estimation of model predictions or margins, and comparisons between model predictions for assessing or probing moderation. Additional helper functions facilitate model comparisons and implements simulation-based inference for model predictions of alternative-specific outcome models. See also, Melamed and Doan (2024, ISBN: 978-1032509518).
Author: David Melamed [aut, cre]
Maintainer: David Melamed <dmmelamed@gmail.com>
Diff between catregs versions 0.2.0 dated 2024-06-11 and 0.2.1 dated 2024-07-11
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Title: MR Spectroscopy Analysis Tools
Description: Tools for reading, visualising and processing Magnetic Resonance
Spectroscopy data. The package includes methods for spectral fitting: Wilson
(2021) <DOI:10.1002/mrm.28385> and spectral alignment: Wilson (2018)
<DOI:10.1002/mrm.27605>.
Author: Martin Wilson [cre, aut] ,
Yong Wang [ctb],
John Muschelli [ctb]
Maintainer: Martin Wilson <martin@pipegrep.co.uk>
Diff between spant versions 2.21.0 dated 2024-05-30 and 2.22.0 dated 2024-07-11
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Title: Two-Steps Benchmarks for Time Series Disaggregation
Description: The twoStepsBenchmark() and threeRuleSmooth() functions allow you to
disaggregate a low-frequency time series with higher frequency time series,
using the French National Accounts methodology. The aggregated sum of the
resulting time series is strictly equal to the low-frequency time series within the
benchmarking window. Typically, the low-frequency time series is an annual one,
unknown for the last year, and the high frequency one is either quarterly or
monthly. See "Methodology of quarterly national accounts", Insee Méthodes
N°126, by Insee (2012, ISBN:978-2-11-068613-8, <https://www.insee.fr/en/information/2579410>).
Author: Arnaud Feldmann [aut] ,
Pauline Meinzel [cre],
Thomas Laurent [ctb] ,
Franck Arnaud [ctb] ,
Institut national de la statistique et des etudes economiques [cph]
Maintainer: Pauline Meinzel <pauline.meinzel@insee.fr>
Diff between disaggR versions 1.0.5.2 dated 2024-02-09 and 1.0.5.3 dated 2024-07-11
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More information about rnaCrosslinkOO at CRAN
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Title: R and C/C++ Wrappers to Run the Leiden find_partition() Function
Description: An R to C/C++ interface that runs the Leiden community
detection algorithm to find a basic partition (). It runs the
equivalent of the 'leidenalg' find_partition() function, which is
given in the 'leidenalg' distribution file
'leiden/src/functions.py'. This package includes the
required source code files from the official 'leidenalg'
distribution and functions from the R 'igraph'
package. The 'leidenalg' distribution is available from
<https://github.com/vtraag/leidenalg/>
and the R 'igraph' package is available from
<https://igraph.org/r/>.
The Leiden algorithm is described in the article by
Traag et al. (2019) <doi:10.1038/s41598-019-41695-z>.
Leidenbase includes code from the packages:
igraph version 0.9.8 with license GPL (>= 2),
leidenalg version 0.8.10 with license GPL 3.
Author: Brent Ewing [aut, cre],
Vincent Traag [ctb],
Gabor Csardi [ctb],
Tamas Nepusz [ctb],
Szabolcs Horvat [ctb],
Fabio Zanini [ctb]
Maintainer: Brent Ewing <bge@uw.edu>
Diff between leidenbase versions 0.1.27 dated 2023-12-01 and 0.1.30 dated 2024-07-10
DESCRIPTION | 10 ++-- MD5 | 16 +++--- NEWS.md | 4 + build/vignette.rds |binary src/Makevars.in | 1 src/Makevars.ucrt | 2 src/core/core/error.c | 2 src/leidenbase/leidenFindPartitionR2C.cpp | 74 +++++++++++++++--------------- src/vendor/uuid/R.c | 4 - 9 files changed, 59 insertions(+), 54 deletions(-)
Title: Estimating the Age using Auricular Surface by DNE
Description: The age is estimated by calculating the Dirichlet Normal Energy (DNE) on the whole auricular surface and the apex of the auricular surface. It involves three estimation methods: principal component discriminant analysis (PCQDA), principal component regression analysis (PCR), and principal component logistic regression analysis (PCLR) methods. The package is created with the data from the Louis Lopes Collection in Lisbon, the 21st Century Identified Human Remains Collection in Coimbra, and the CAL Milano Cemetery Skeletal Collection in Milan.
Author: Jisun Jang [aut, cre]
Maintainer: Jisun Jang <jisun.jang.19@ucl.ac.uk>
Diff between JSDNE versions 4.3.2 dated 2024-04-16 and 4.3.4 dated 2024-07-10
JSDNE-4.3.2/JSDNE/R/data_PCLR.R |only JSDNE-4.3.2/JSDNE/R/data_PCQDA.R |only JSDNE-4.3.2/JSDNE/R/data_PCR.R |only JSDNE-4.3.2/JSDNE/data/data_PCLR.rda |only JSDNE-4.3.2/JSDNE/data/data_PCQDA.rda |only JSDNE-4.3.2/JSDNE/data/data_PCR.rda |only JSDNE-4.3.2/JSDNE/man/data_PCLR.Rd |only JSDNE-4.3.2/JSDNE/man/data_PCQDA.Rd |only JSDNE-4.3.2/JSDNE/man/data_PCR.Rd |only JSDNE-4.3.4/JSDNE/DESCRIPTION | 6 JSDNE-4.3.4/JSDNE/MD5 | 48 +- JSDNE-4.3.4/JSDNE/NAMESPACE | 7 JSDNE-4.3.4/JSDNE/R/PCLR_Test.R |only JSDNE-4.3.4/JSDNE/R/PCLR_Train.R |only JSDNE-4.3.4/JSDNE/R/PCLR_result.R | 4 JSDNE-4.3.4/JSDNE/R/PCQDA_Test.R |only JSDNE-4.3.4/JSDNE/R/PCQDA_Train.R |only JSDNE-4.3.4/JSDNE/R/PCQDA_result.R | 6 JSDNE-4.3.4/JSDNE/R/PCR_Test.R |only JSDNE-4.3.4/JSDNE/R/PCR_Train.R |only JSDNE-4.3.4/JSDNE/R/PCR_result.R | 6 JSDNE-4.3.4/JSDNE/R/RawData.R |only JSDNE-4.3.4/JSDNE/data/PCLR_Test.rda |only JSDNE-4.3.4/JSDNE/data/PCLR_Train.rda |only JSDNE-4.3.4/JSDNE/data/PCQDA_Test.rda |only JSDNE-4.3.4/JSDNE/data/PCQDA_Train.rda |only JSDNE-4.3.4/JSDNE/data/PCR_Test.rda |only JSDNE-4.3.4/JSDNE/data/PCR_Train.rda |only JSDNE-4.3.4/JSDNE/data/RawData.rda |only JSDNE-4.3.4/JSDNE/inst/doc/introduction.R | 12 JSDNE-4.3.4/JSDNE/inst/doc/introduction.Rmd | 543 +++++++++++++++++++++++++ JSDNE-4.3.4/JSDNE/inst/doc/introduction.html | 570 +++++++++++++++++++++++++-- JSDNE-4.3.4/JSDNE/man/PCLR_Test.Rd |only JSDNE-4.3.4/JSDNE/man/PCLR_Train.Rd |only JSDNE-4.3.4/JSDNE/man/PCQDA_Test.Rd |only JSDNE-4.3.4/JSDNE/man/PCQDA_Train.Rd |only JSDNE-4.3.4/JSDNE/man/PCR_Test.Rd |only JSDNE-4.3.4/JSDNE/man/PCR_Train.Rd |only JSDNE-4.3.4/JSDNE/man/RawData.Rd |only JSDNE-4.3.4/JSDNE/vignettes/introduction.Rmd | 543 +++++++++++++++++++++++++ 40 files changed, 1676 insertions(+), 69 deletions(-)
Title: Automated Reporting of Results and Statistical Models
Description: The aim of the 'report' package is to bridge the gap between
R’s output and the formatted results contained in your manuscript.
This package converts statistical models and data frames into textual
reports suited for publication, ensuring standardization and quality
in results reporting.
Author: Dominique Makowski [aut] ,
Daniel Luedecke [aut] ,
Indrajeet Patil [aut] ,
Remi Theriault [aut, cre] ,
Mattan S. Ben-Shachar [aut] ,
Brenton M. Wiernik [aut] ,
Rudolf Siegel [ctb] ,
Camden Bock [ctb]
Maintainer: Remi Theriault <remi.theriault@mail.mcgill.ca>
Diff between report versions 0.5.8 dated 2023-12-07 and 0.5.9 dated 2024-07-10
report-0.5.8/report/tests/testthat/_snaps/windows/report.brmsfit.md |only report-0.5.9/report/DESCRIPTION | 42 report-0.5.9/report/MD5 | 77 - report-0.5.9/report/NAMESPACE | 13 report-0.5.9/report/NEWS.md | 22 report-0.5.9/report/R/report.BFBayesFactor.R |only report-0.5.9/report/R/report.compare.loo.R |only report-0.5.9/report/R/report.coxph.R |only report-0.5.9/report/R/report.htest.R | 2 report-0.5.9/report/R/report.lm.R | 22 report-0.5.9/report/R/report_htest_chi2.R | 75 - report-0.5.9/report/R/report_htest_fisher.R | 49 - report-0.5.9/report/R/report_htest_friedman.R | 2 report-0.5.9/report/R/report_htest_ttest.R | 20 report-0.5.9/report/R/report_htest_wilcox.R | 14 report-0.5.9/report/R/report_participants.R | 90 + report-0.5.9/report/R/report_sample.R | 102 +- report-0.5.9/report/R/report_text.R | 2 report-0.5.9/report/R/utils_misspelled_variables.R |only report-0.5.9/report/README.md | 74 - report-0.5.9/report/build/vignette.rds |binary report-0.5.9/report/inst/WORDLIST | 11 report-0.5.9/report/inst/doc/cite_packages.html | 6 report-0.5.9/report/inst/doc/report.html | 263 ++--- report-0.5.9/report/inst/doc/report_table.html | 16 report-0.5.9/report/man/report-package.Rd | 1 report-0.5.9/report/man/report.BFBayesFactor.Rd |only report-0.5.9/report/man/report.compare.loo.Rd |only report-0.5.9/report/man/report_participants.Rd | 11 report-0.5.9/report/man/report_sample.Rd | 11 report-0.5.9/report/tests/testthat/_snaps/windows/report.data.frame.md | 300 +++--- report-0.5.9/report/tests/testthat/_snaps/windows/report.htest-correlation.md | 10 report-0.5.9/report/tests/testthat/_snaps/windows/report.htest-t-test.md | 472 +++++----- report-0.5.9/report/tests/testthat/_snaps/windows/report.survreg.md | 72 - report-0.5.9/report/tests/testthat/_snaps/windows/report_performance.md | 9 report-0.5.9/report/tests/testthat/_snaps/windows/report_s.md | 40 report-0.5.9/report/tests/testthat/_snaps/windows/report_sample.md | 16 report-0.5.9/report/tests/testthat/test-report.brmsfit.R | 7 report-0.5.9/report/tests/testthat/test-report.htest-correlation.R | 10 report-0.5.9/report/tests/testthat/test-report.lm.R | 2 report-0.5.9/report/tests/testthat/test-report_participants.R | 4 report-0.5.9/report/tests/testthat/test-report_performance.R | 5 report-0.5.9/report/tests/testthat/test-report_sample.R | 28 43 files changed, 979 insertions(+), 921 deletions(-)
Title: Create Layout Plots of Biological Culture Plates and Microplates
Description: Enables users to create simple plots of biological culture plates as well as microplates. Both continuous and discrete values can be plotted onto the plate layout.
Author: Jan-Philipp Quast [aut, cre]
Maintainer: Jan-Philipp Quast <quast@imsb.biol.ethz.ch>
Diff between ggplate versions 0.1.2 dated 2024-06-14 and 0.1.4 dated 2024-07-10
DESCRIPTION | 6 +++--- MD5 | 6 +++--- NEWS.md | 8 ++++++++ R/plate_plot.R | 9 ++++++++- 4 files changed, 22 insertions(+), 7 deletions(-)
Title: Crew Launcher Plugins for Traditional High-Performance Computing
Clusters
Description: In computationally demanding analysis projects,
statisticians and data scientists asynchronously
deploy long-running tasks to distributed systems,
ranging from traditional clusters to cloud services.
The 'crew.cluster' package extends the 'mirai'-powered
'crew' package with worker launcher plugins for traditional
high-performance computing systems.
Inspiration also comes from packages 'mirai' by Gao (2023)
<https://github.com/shikokuchuo/mirai>,
'future' by Bengtsson (2021) <doi:10.32614/RJ-2021-048>,
'rrq' by FitzJohn and Ashton (2023) <https://github.com/mrc-ide/rrq>,
'clustermq' by Schubert (2019) <doi:10.1093/bioinformatics/btz284>),
and 'batchtools' by Lang, Bischl, and Surmann (2017).
<doi:10.21105/joss.00135>.
Author: William Michael Landau [aut, cre]
,
Michael Gilbert Levin [aut] ,
Brendan Furneaux [aut] ,
Eli Lilly and Company [cph]
Maintainer: William Michael Landau <will.landau.oss@gmail.com>
Diff between crew.cluster versions 0.3.1 dated 2024-04-24 and 0.3.2 dated 2024-07-10
DESCRIPTION | 8 ++++---- MD5 | 24 ++++++++++++------------ NEWS.md | 6 +++++- R/crew_controller_lsf.R | 4 +++- R/crew_controller_pbs.R | 4 +++- R/crew_controller_sge.R | 4 +++- R/crew_controller_slurm.R | 4 +++- R/crew_launcher_cluster.R | 3 ++- man/crew_class_launcher_cluster.Rd | 3 ++- man/crew_controller_lsf.Rd | 8 ++++++++ man/crew_controller_pbs.Rd | 8 ++++++++ man/crew_controller_sge.Rd | 8 ++++++++ man/crew_controller_slurm.Rd | 8 ++++++++ 13 files changed, 69 insertions(+), 23 deletions(-)
Title: A Crew Launcher Plugin for AWS Batch
Description: In computationally demanding analysis projects,
statisticians and data scientists asynchronously
deploy long-running tasks to distributed systems,
ranging from traditional clusters to cloud services.
The 'crew.aws.batch' package extends the 'mirai'-powered
'crew' package with a worker launcher plugin for AWS Batch.
Inspiration also comes from packages 'mirai' by Gao (2023)
<https://github.com/shikokuchuo/mirai>,
'future' by Bengtsson (2021) <doi:10.32614/RJ-2021-048>,
'rrq' by FitzJohn and Ashton (2023) <https://github.com/mrc-ide/rrq>,
'clustermq' by Schubert (2019) <doi:10.1093/bioinformatics/btz284>),
and 'batchtools' by Lang, Bischl, and Surmann (2017).
<doi:10.21105/joss.00135>.
Author: William Michael Landau [aut, cre]
,
Eli Lilly and Company [cph]
Maintainer: William Michael Landau <will.landau.oss@gmail.com>
Diff between crew.aws.batch versions 0.0.5 dated 2024-02-07 and 0.0.6 dated 2024-07-10
DESCRIPTION | 10 +++++----- MD5 | 16 ++++++++-------- NEWS.md | 4 ++++ R/crew_controller_aws_batch.R | 4 +++- R/crew_launcher_aws_batch.R | 3 ++- R/crew_package.R | 1 - man/crew.aws.batch-package.Rd | 1 - man/crew_class_launcher_aws_batch.Rd | 3 ++- man/crew_controller_aws_batch.Rd | 8 ++++++++ 9 files changed, 32 insertions(+), 18 deletions(-)
More information about crew.aws.batch at CRAN
Permanent link
Title: A Framework for Enterprise Shiny Applications
Description: A framework that supports creating and extending enterprise Shiny applications using best practices.
Author: Kamil Zyla [aut, cre],
Jakub Nowicki [aut],
Leszek Sieminski [aut],
Marek Rogala [aut],
Recle Vibal [aut],
Tymoteusz Makowski [aut],
Rodrigo Basa [aut],
Eduardo Almeida [ctb],
Appsilon Sp. z o.o. [cph]
Maintainer: Kamil Zyla <opensource+kamil@appsilon.com>
Diff between rhino versions 1.8.0 dated 2024-06-06 and 1.9.0 dated 2024-07-10
DESCRIPTION | 8 ++-- MD5 | 23 ++++++++----- NAMESPACE | 2 + NEWS.md | 10 +++++- R/app.R | 37 +++++++++++++--------- R/config.R | 2 - R/tools.R | 53 ++++++++++++++++++++++++++++++++ inst/WORDLIST | 6 +++ inst/templates/node/package-lock.json | 22 +++++++++++++ inst/templates/node/package.json | 3 + inst/templates/node/prettier.config.mjs |only man/format_js.Rd |only man/format_sass.Rd |only tests/e2e/test-format-js.R |only tests/e2e/test-format-sass.R |only 15 files changed, 135 insertions(+), 31 deletions(-)
Title: An R Interface for Downloading, Reading, and Handling IPUMS Data
Description: An easy way to work with census, survey, and geographic data
provided by IPUMS in R. Generate and download data through the IPUMS
API and load IPUMS files into R with their associated metadata to
make analysis easier. IPUMS data describing 1.4 billion individuals
drawn from over 750 censuses and surveys is available free of charge
from the IPUMS website <https://www.ipums.org>.
Author: Greg Freedman Ellis [aut],
Derek Burk [aut, cre],
Finn Roberts [aut],
Joe Grover [ctb],
Dan Ehrlich [ctb],
Renae Rodgers [ctb],
Institute for Social Research and Data Innovation [cph]
Maintainer: Derek Burk <ipums+cran@umn.edu>
Diff between ipumsr versions 0.7.2 dated 2024-03-12 and 0.8.0 dated 2024-07-10
ipumsr-0.7.2/ipumsr/man/define_extract-micro.Rd |only ipumsr-0.7.2/ipumsr/man/define_extract.Rd |only ipumsr-0.7.2/ipumsr/tests/fixtures/nhgis-metadata-summary-filtered.yml |only ipumsr-0.8.0/ipumsr/DESCRIPTION | 8 ipumsr-0.8.0/ipumsr/MD5 | 177 ipumsr-0.8.0/ipumsr/NAMESPACE | 4 ipumsr-0.8.0/ipumsr/NEWS.md | 666 +- ipumsr-0.8.0/ipumsr/R/api_define_extract.R | 619 +- ipumsr-0.8.0/ipumsr/R/api_extract_info.R | 9 ipumsr-0.8.0/ipumsr/R/api_helpers.R | 222 ipumsr-0.8.0/ipumsr/R/api_metadata.R | 17 ipumsr-0.8.0/ipumsr/R/api_process_extract.R | 44 ipumsr-0.8.0/ipumsr/R/deprec-extract-info.R | 67 ipumsr-0.8.0/ipumsr/R/proj_config.R | 5 ipumsr-0.8.0/ipumsr/README.md | 720 +- ipumsr-0.8.0/ipumsr/build/vignette.rds |binary ipumsr-0.8.0/ipumsr/inst/doc/ipums-api-micro.R | 366 - ipumsr-0.8.0/ipumsr/inst/doc/ipums-api-micro.Rmd | 1002 ++- ipumsr-0.8.0/ipumsr/inst/doc/ipums-api-micro.html | 1667 +++--- ipumsr-0.8.0/ipumsr/inst/doc/ipums-api-nhgis.R | 420 - ipumsr-0.8.0/ipumsr/inst/doc/ipums-api-nhgis.Rmd | 902 +-- ipumsr-0.8.0/ipumsr/inst/doc/ipums-api-nhgis.html | 1564 ++--- ipumsr-0.8.0/ipumsr/inst/doc/ipums-api.R | 540 +- ipumsr-0.8.0/ipumsr/inst/doc/ipums-api.Rmd | 1259 ++-- ipumsr-0.8.0/ipumsr/inst/doc/ipums-api.html | 1675 +++--- ipumsr-0.8.0/ipumsr/inst/doc/ipums-bigdata.R | 556 +- ipumsr-0.8.0/ipumsr/inst/doc/ipums-bigdata.Rmd | 1329 ++--- ipumsr-0.8.0/ipumsr/inst/doc/ipums-bigdata.html | 2122 ++++---- ipumsr-0.8.0/ipumsr/inst/doc/ipums-read.R | 252 ipumsr-0.8.0/ipumsr/inst/doc/ipums-read.Rmd | 768 +- ipumsr-0.8.0/ipumsr/inst/doc/ipums-read.html | 1846 +++---- ipumsr-0.8.0/ipumsr/inst/doc/ipums.R | 162 ipumsr-0.8.0/ipumsr/inst/doc/ipums.Rmd | 582 +- ipumsr-0.8.0/ipumsr/inst/doc/ipums.html | 1331 ++--- ipumsr-0.8.0/ipumsr/inst/doc/value-labels.R | 341 - ipumsr-0.8.0/ipumsr/inst/doc/value-labels.Rmd | 29 ipumsr-0.8.0/ipumsr/inst/doc/value-labels.html | 1889 +++---- ipumsr-0.8.0/ipumsr/man/add_to_extract.Rd | 17 ipumsr-0.8.0/ipumsr/man/add_to_extract.nhgis_extract.Rd | 5 ipumsr-0.8.0/ipumsr/man/add_to_extract_micro.Rd | 46 ipumsr-0.8.0/ipumsr/man/define_extract_micro.Rd |only ipumsr-0.8.0/ipumsr/man/define_extract_nhgis.Rd | 10 ipumsr-0.8.0/ipumsr/man/download_extract.Rd | 10 ipumsr-0.8.0/ipumsr/man/extract_tbl_to_list.Rd | 31 ipumsr-0.8.0/ipumsr/man/get_extract_history.Rd | 6 ipumsr-0.8.0/ipumsr/man/get_extract_info.Rd | 3 ipumsr-0.8.0/ipumsr/man/get_recent_extracts_info_list.Rd | 8 ipumsr-0.8.0/ipumsr/man/get_sample_info.Rd | 6 ipumsr-0.8.0/ipumsr/man/ipums_data_collections.Rd | 2 ipumsr-0.8.0/ipumsr/man/ipums_extract-class.Rd | 31 ipumsr-0.8.0/ipumsr/man/lbl_add.Rd | 2 ipumsr-0.8.0/ipumsr/man/lbl_clean.Rd | 2 ipumsr-0.8.0/ipumsr/man/lbl_define.Rd | 2 ipumsr-0.8.0/ipumsr/man/lbl_na_if.Rd | 2 ipumsr-0.8.0/ipumsr/man/lbl_relabel.Rd | 2 ipumsr-0.8.0/ipumsr/man/remove_from_extract.Rd | 11 ipumsr-0.8.0/ipumsr/man/remove_from_extract.micro_extract.Rd | 43 ipumsr-0.8.0/ipumsr/man/remove_from_extract.nhgis_extract.Rd | 5 ipumsr-0.8.0/ipumsr/man/save_extract_as_json.Rd | 14 ipumsr-0.8.0/ipumsr/man/submit_extract.Rd | 9 ipumsr-0.8.0/ipumsr/man/var_spec.Rd | 52 ipumsr-0.8.0/ipumsr/man/wait_for_extract.Rd | 3 ipumsr-0.8.0/ipumsr/man/zap_ipums_attributes.Rd | 4 ipumsr-0.8.0/ipumsr/tests/fixtures/api-errors-authorization.yml | 15 ipumsr-0.8.0/ipumsr/tests/fixtures/api-errors-invalid-metadata.yml | 56 ipumsr-0.8.0/ipumsr/tests/fixtures/atus-submission-error.yml |only ipumsr-0.8.0/ipumsr/tests/fixtures/download-extract-not-ready.yml | 170 ipumsr-0.8.0/ipumsr/tests/fixtures/get-atus-extract-info.yml |only ipumsr-0.8.0/ipumsr/tests/fixtures/micro-metadata-summary.yml | 40 ipumsr-0.8.0/ipumsr/tests/fixtures/nhgis-metadata-single-dataset.yml | 1033 ++- ipumsr-0.8.0/ipumsr/tests/fixtures/nhgis-metadata-single-source.yml | 14 ipumsr-0.8.0/ipumsr/tests/fixtures/nhgis-metadata-single-tst.yml | 34 ipumsr-0.8.0/ipumsr/tests/fixtures/nhgis-metadata-summary-paged.yml | 99 ipumsr-0.8.0/ipumsr/tests/fixtures/nhgis-metadata-summary.yml | 2617 +++++----- ipumsr-0.8.0/ipumsr/tests/fixtures/ready-atus-extract.yml |only ipumsr-0.8.0/ipumsr/tests/fixtures/submitted-atus-extract.yml |only ipumsr-0.8.0/ipumsr/tests/fixtures/submitted-household-only-usa-extract.yml |only ipumsr-0.8.0/ipumsr/tests/testthat/helper_api.R | 108 ipumsr-0.8.0/ipumsr/tests/testthat/test_api_define_extract.R | 351 + ipumsr-0.8.0/ipumsr/tests/testthat/test_api_extract_info.R | 323 - ipumsr-0.8.0/ipumsr/tests/testthat/test_api_helpers.R | 43 ipumsr-0.8.0/ipumsr/tests/testthat/test_api_metadata.R | 342 - ipumsr-0.8.0/ipumsr/tests/testthat/test_api_process_extract.R | 60 ipumsr-0.8.0/ipumsr/vignettes/fixtures/micro-sample-ids.yml | 310 - ipumsr-0.8.0/ipumsr/vignettes/fixtures/nhgis-metadata-detailed.yml | 174 ipumsr-0.8.0/ipumsr/vignettes/fixtures/nhgis-metadata-summary.yml | 119 ipumsr-0.8.0/ipumsr/vignettes/fixtures/wait-for-extract.yml | 170 ipumsr-0.8.0/ipumsr/vignettes/ipums-api-micro.Rmd | 1002 ++- ipumsr-0.8.0/ipumsr/vignettes/ipums-api-nhgis.Rmd | 902 +-- ipumsr-0.8.0/ipumsr/vignettes/ipums-api.Rmd | 1259 ++-- ipumsr-0.8.0/ipumsr/vignettes/ipums-bigdata.Rmd | 1329 ++--- ipumsr-0.8.0/ipumsr/vignettes/ipums-read.Rmd | 768 +- ipumsr-0.8.0/ipumsr/vignettes/ipums.Rmd | 582 +- ipumsr-0.8.0/ipumsr/vignettes/value-labels.Rmd | 29 94 files changed, 18385 insertions(+), 17050 deletions(-)
Title: Finite Mixture Modeling, Clustering & Classification
Description: Random univariate and multivariate finite mixture model generation, estimation, clustering, latent class analysis and classification. Variables can be continuous, discrete, independent or dependent and may follow normal, lognormal, Weibull, gamma, Gumbel, binomial, Poisson, Dirac, uniform or circular von Mises parametric families.
Author: Marko Nagode [aut, cre] ,
Branislav Panic [ctb] ,
Jernej Klemenc [ctb] ,
Simon Oman [ctb]
Maintainer: Marko Nagode <marko.nagode@fs.uni-lj.si>
Diff between rebmix versions 2.15.0 dated 2023-07-16 and 2.16.0 dated 2024-07-10
DESCRIPTION | 6 MD5 | 117 - R/AllClasses.R | 15 R/AllGenerics.R | 3 R/EMMIX.R | 35 R/IC.R | 162 + R/RCLRMIX.R | 66 R/RCLSMIX.R | 36 R/REBMIX.R | 61 R/RNGMIX.R | 34 R/bins.R | 16 R/boot.REBMIX.R | 6 R/defaults.R | 9 R/demix.R | 128 + R/densHistogram.x.R | 16 R/densHistogram.xy.R | 16 R/densK.x.R | 16 R/densK.xy.R | 16 R/densKDE.x.R | 16 R/densKDE.xy.R | 16 R/densKNearestNeighbour.x.R | 16 R/densKNearestNeighbour.xy.R | 16 R/dfmix.R | 15 R/error.to.string.R |only R/histogram.R | 32 R/labelmoments.R | 32 R/mapclusters.R | 32 R/mergelabels.R | 16 R/optbins.R | 16 R/pfmix.R | 15 R/pfmix.x.R | 15 R/pfmix.xy.R | 30 R/zaccessors.R | 2 build/partial.rdb |binary build/vignette.rds |binary inst/NEWS.Rd | 9 inst/doc/rebmix.Rnw | 6 inst/doc/rebmix.pdf |binary man/REBMIX-class.Rd | 15 man/REBMIX.Rd | 10 man/rebmix-internal.Rd | 6 man/wine.Rd | 3 src/Rmisc.cpp | 78 src/Rrebmix.cpp | 1258 ++++++++------ src/Rrebmvnorm.cpp | 934 +++++----- src/base.cpp | 653 +++++-- src/base.h | 80 src/emf.cpp | 521 ++--- src/emf.h | 6 src/init.c | 16 src/rebmix.cpp | 26 src/rebmixf.cpp | 3743 +++++++++++++++++++++++-------------------- src/rebmixf.h | 30 src/rebmvnormf.cpp | 691 ++++--- src/rebmvnormf.h | 9 src/rngmixf.cpp | 195 +- src/rngmixf.h | 2 src/rngmvnormf.cpp | 22 src/rngmvnormf.h | 2 vignettes/rebmix.Rnw | 6 60 files changed, 5450 insertions(+), 3898 deletions(-)
Title: Create Credit State Migration (Transition) Matrices
Description: Tools to help convert credit risk data at two timepoints
into traditional credit state migration (aka, "transition") matrices.
At a higher level, 'migrate' is intended to help an analyst understand
how risk moved in their credit portfolio over a time interval.
References to this methodology include:
1. Schuermann, T. (2008) <doi:10.1002/9780470061596.risk0409>.
2. Perederiy, V. (2017) <doi:10.48550/arXiv.1708.00062>.
Author: Michael Thomas [aut, cre],
Brad Lindblad [ctb],
Ivan Millanes [ctb]
Maintainer: Michael Thomas <mthomas@ketchbrookanalytics.com>
Diff between migrate versions 0.4.0 dated 2021-10-15 and 0.5.0 dated 2024-07-10
migrate-0.4.0/migrate/R/utils-pipe.R |only migrate-0.4.0/migrate/man/pipe.Rd |only migrate-0.5.0/migrate/DESCRIPTION | 50 - migrate-0.5.0/migrate/LICENSE | 4 migrate-0.5.0/migrate/MD5 | 34 - migrate-0.5.0/migrate/NAMESPACE | 16 migrate-0.5.0/migrate/NEWS.md | 29 migrate-0.5.0/migrate/R/build_matrix.R | 502 +++++++-------- migrate-0.5.0/migrate/R/globals.R | 4 migrate-0.5.0/migrate/R/migrate.R | 806 ++++++++++++++----------- migrate-0.5.0/migrate/README.md | 383 ++++++------ migrate-0.5.0/migrate/build/vignette.rds |binary migrate-0.5.0/migrate/inst/doc/migrate.R | 166 +++-- migrate-0.5.0/migrate/inst/doc/migrate.Rmd | 271 +++++--- migrate-0.5.0/migrate/inst/doc/migrate.html | 882 ++++++++++++++++++---------- migrate-0.5.0/migrate/man/build_matrix.Rd | 146 ++-- migrate-0.5.0/migrate/man/migrate.Rd | 174 ++--- migrate-0.5.0/migrate/man/mock_credit.Rd | 72 +- migrate-0.5.0/migrate/vignettes/migrate.Rmd | 271 +++++--- 19 files changed, 2258 insertions(+), 1552 deletions(-)
Title: Fitting Latent Class Vector-Autoregressive (VAR) Models
Description: Estimates latent class vector-autoregressive models via EM algorithm on time-series data for model-based clustering and classification. Includes model selection criteria for selecting the number of lags and clusters.
Author: Anja Ernst [aut, cre],
Jonas Haslbeck [aut]
Maintainer: Anja Ernst <a.f.ernst@rug.nl>
Diff between ClusterVAR versions 0.0.6 dated 2024-06-06 and 0.0.7 dated 2024-07-10
DESCRIPTION | 6 ++-- MD5 | 22 +++++++++-------- NAMESPACE | 2 + NEWS | 12 ++++----- R/DetPredSubj.R | 44 ++++++++++++++++++----------------- R/LCVAR.R | 3 +- R/checkPosteriorsNA.R | 4 ++- R/checkSingularitySigma.R | 14 +++++------ R/numberPredictableObservations.R | 25 +++++++++++++++---- R/print.PredictableObs.R |only build/partial.rdb |binary man/numberPredictableObservations.Rd | 18 ++++++++++---- man/print.PredictableObs.Rd |only 13 files changed, 91 insertions(+), 59 deletions(-)
Title: Working with netCDF for Essential Biodiversity Variables
Description: The concept of Essential Biodiversity Variables (EBV, <https://geobon.org/ebvs/what-are-ebvs/>)
comes with a data structure based on the Network Common Data Form (netCDF).
The 'ebvcube' 'R' package provides functionality to easily create, access and
visualise this data. The EBV netCDFs can be downloaded from the EBV Data
Portal: Christian Langer/ iDiv (2020) <https://portal.geobon.org/>.
Author: Luise Quoss [aut, cre] ,
Nestor Fernandez [aut] ,
Christian Langer [aut] ,
Jose Valdez [aut] ,
Henrique Miguel Pereira [aut]
Maintainer: Luise Quoss <luise.quoss@idiv.de>
Diff between ebvcube versions 0.2.1 dated 2024-06-11 and 0.2.3 dated 2024-07-10
ebvcube-0.2.1/ebvcube/inst/docs/ebvcube_0.2.1.pdf |only ebvcube-0.2.3/ebvcube/DESCRIPTION | 8 ebvcube-0.2.3/ebvcube/MD5 | 67 ebvcube-0.2.3/ebvcube/NEWS.md | 5 ebvcube-0.2.3/ebvcube/R/data.R | 18 ebvcube-0.2.3/ebvcube/R/ebv_add_data.R | 724 +-- ebvcube-0.2.3/ebvcube/R/ebv_analyse.R | 450 - ebvcube-0.2.3/ebvcube/R/ebv_attribute.R | 1020 ++-- ebvcube-0.2.3/ebvcube/R/ebv_create.R | 2160 ++++----- ebvcube-0.2.3/ebvcube/R/ebv_create_taxonomy.R | 2264 +++++----- ebvcube-0.2.3/ebvcube/R/ebv_datacubepaths.R | 548 +- ebvcube-0.2.3/ebvcube/R/ebv_download.R | 387 - ebvcube-0.2.3/ebvcube/R/ebv_map.R | 794 +-- ebvcube-0.2.3/ebvcube/R/ebv_properties.R | 938 ++-- ebvcube-0.2.3/ebvcube/R/ebv_read.R | 546 +- ebvcube-0.2.3/ebvcube/R/ebv_read_bb.R | 710 +-- ebvcube-0.2.3/ebvcube/R/ebv_read_shp.R | 486 +- ebvcube-0.2.3/ebvcube/R/ebv_resample.R | 666 +- ebvcube-0.2.3/ebvcube/R/ebv_trend.R | 806 +-- ebvcube-0.2.3/ebvcube/R/ebv_utils.R | 1801 ++++--- ebvcube-0.2.3/ebvcube/R/ebv_write.R | 436 - ebvcube-0.2.3/ebvcube/inst/docs/ebvcube_0.2.2.pdf |only ebvcube-0.2.3/ebvcube/man/ebv_create_taxonomy.Rd | 236 - ebvcube-0.2.3/ebvcube/man/ebv_download.Rd | 5 ebvcube-0.2.3/ebvcube/tests/testthat/test-analyse.R | 110 ebvcube-0.2.3/ebvcube/tests/testthat/test-data.R |only ebvcube-0.2.3/ebvcube/tests/testthat/test-download.R | 47 ebvcube-0.2.3/ebvcube/tests/testthat/test-ebv-read.R | 154 ebvcube-0.2.3/ebvcube/tests/testthat/test-ebv_create_taxonomy.R | 280 - ebvcube-0.2.3/ebvcube/tests/testthat/test-ebv_datacubepaths.R | 58 ebvcube-0.2.3/ebvcube/tests/testthat/test-ebv_manipulate.R | 314 - ebvcube-0.2.3/ebvcube/tests/testthat/test-ebv_properties.R | 200 ebvcube-0.2.3/ebvcube/tests/testthat/test-ebv_utils.R | 438 - ebvcube-0.2.3/ebvcube/tests/testthat/test-plots.R | 199 ebvcube-0.2.3/ebvcube/tests/testthat/test-resample.R | 68 ebvcube-0.2.3/ebvcube/tests/testthat/test-write.R | 128 36 files changed, 8559 insertions(+), 8512 deletions(-)
Title: Secondary Structure Plotting for RNA
Description: Functions for creating and manipulating RNA secondary structure plots.
Author: JP Bida [aut],
Jonathan Price [cre, ctb]
Maintainer: Jonathan Price <jlp76@cam.ac.uk>
Diff between RRNA versions 1.1 dated 2024-05-15 and 1.2 dated 2024-07-10
DESCRIPTION | 8 ++++---- MD5 | 2 +- 2 files changed, 5 insertions(+), 5 deletions(-)
Title: Statistical Analysis in Epidemiology
Description: Functions for demographic and epidemiological analysis in
the Lexis diagram, i.e. register and cohort follow-up data. In
particular representation, manipulation, rate estimation and
simulation for multistate data - the Lexis suite of functions, which
includes interfaces to 'mstate', 'etm' and 'cmprsk' packages.
Contains functions for Age-Period-Cohort and Lee-Carter modeling and
a function for interval censored data and some useful functions for
tabulation and plotting, as well as a number of epidemiological data
sets.
Author: Bendix Carstensen [aut, cre],
Martyn Plummer [aut],
Esa Laara [ctb],
Michael Hills [ctb]
Maintainer: Bendix Carstensen <b@bxc.dk>
Diff between Epi versions 2.51 dated 2024-06-12 and 2.52 dated 2024-07-10
CHANGES | 4 DESCRIPTION | 8 MD5 | 52 R/ci.eta.R |only R/ci.lin.R | 2 build/vignette.rds |binary inst/doc/addLexis.pdf |binary inst/doc/addLexis.rnw | 2 inst/doc/crisk.R | 63 inst/doc/crisk.pdf |binary inst/doc/crisk.rnw | 3 inst/doc/flup.R | 86 inst/doc/flup.pdf | 9642 ++++++++++++++++++++++++------------------------- inst/doc/flup.rnw | 52 inst/doc/simLexis.pdf |binary inst/doc/simLexis.rnw | 2 inst/doc/yll.R | 19 inst/doc/yll.pdf |binary inst/doc/yll.rnw | 40 man/ci.eta.Rd |only man/ci.lin.Rd | 8 man/mod.Lexis.Rd | 4 man/plotCIF.Rd | 8 vignettes/addLexis.rnw | 2 vignettes/crisk.rnw | 3 vignettes/flup.rnw | 52 vignettes/simLexis.rnw | 2 vignettes/yll.rnw | 40 28 files changed, 5101 insertions(+), 4993 deletions(-)
Title: Time Series and Econometric Modeling
Description: Time series analysis, (dis)aggregation and manipulation, e.g. time series extension, merge, projection, lag, lead, delta, moving and cumulative average and product, selection by index, date and year-period, conversion to daily, monthly, quarterly, (semi)annually. Simultaneous equation models definition, estimation, simulation and forecasting with coefficient restrictions, error autocorrelation, exogenization, add-factors, impact and interim multipliers analysis, conditional equation evaluation, rational expectations, endogenous targeting and model renormalization, structural stability, stochastic simulation and forecast, optimal control.
Author: Andrea Luciani [aut, cre] ,
Roberto Stok [aut],
Bank of Italy [cph]
Maintainer: Andrea Luciani <andrea.luciani@bancaditalia.it>
Diff between bimets versions 3.0.2 dated 2023-12-13 and 4.0.1 dated 2024-07-10
bimets-3.0.2/bimets/data/bimets_12F_YP2D__.RData |only bimets-3.0.2/bimets/data/bimets_12L_YP2D__.RData |only bimets-3.0.2/bimets/data/bimets_12_D2YP__.RData |only bimets-3.0.2/bimets/data/bimets_1F_YP2D__.RData |only bimets-3.0.2/bimets/data/bimets_1L_YP2D__.RData |only bimets-3.0.2/bimets/data/bimets_1_D2YP__.RData |only bimets-3.0.2/bimets/data/bimets_24F_YP2D__.RData |only bimets-3.0.2/bimets/data/bimets_24L_YP2D__.RData |only bimets-3.0.2/bimets/data/bimets_24_D2YP__.RData |only bimets-3.0.2/bimets/data/bimets_2F_YP2D__.RData |only bimets-3.0.2/bimets/data/bimets_2L_YP2D__.RData |only bimets-3.0.2/bimets/data/bimets_2_D2YP__.RData |only bimets-3.0.2/bimets/data/bimets_366_D2YP__.RData |only bimets-3.0.2/bimets/data/bimets_366_YP2D__.RData |only bimets-3.0.2/bimets/data/bimets_36F_YP2D__.RData |only bimets-3.0.2/bimets/data/bimets_36L_YP2D__.RData |only bimets-3.0.2/bimets/data/bimets_36_D2YP__.RData |only bimets-3.0.2/bimets/data/bimets_3F_YP2D__.RData |only bimets-3.0.2/bimets/data/bimets_3L_YP2D__.RData |only bimets-3.0.2/bimets/data/bimets_3_D2YP__.RData |only bimets-3.0.2/bimets/data/bimets_4F_YP2D__.RData |only bimets-3.0.2/bimets/data/bimets_4L_YP2D__.RData |only bimets-3.0.2/bimets/data/bimets_4_D2YP__.RData |only bimets-3.0.2/bimets/data/bimets_53F_YP2D__.RData |only bimets-3.0.2/bimets/data/bimets_53L_YP2D__.RData |only bimets-3.0.2/bimets/data/bimets_53_D2YP__.RData |only bimets-3.0.2/bimets/data/bimets_static_G90__.RData |only bimets-3.0.2/bimets/data/bimets_static_TD90__.RData |only bimets-3.0.2/bimets/data/bimets_static_startYear___.RData |only bimets-3.0.2/bimets/data/bimets_static_totalLength___.RData |only bimets-4.0.1/bimets/DESCRIPTION | 10 bimets-4.0.1/bimets/MD5 | 99 bimets-4.0.1/bimets/NEWS.md | 542 bimets-4.0.1/bimets/R/bimets_model_functions.R | 7539 ++++++---- bimets-4.0.1/bimets/R/bimets_ts_functions.R | 8257 ++++++------ bimets-4.0.1/bimets/R/sysdata.rda |only bimets-4.0.1/bimets/README.md | 157 bimets-4.0.1/bimets/build/vignette.rds |binary bimets-4.0.1/bimets/data/FRB__MCAP__WP__MODEL.rda |only bimets-4.0.1/bimets/data/FRB__MODEL.rda |only bimets-4.0.1/bimets/data/LONGBASE.rda |only bimets-4.0.1/bimets/inst/doc/bimets.R | 152 bimets-4.0.1/bimets/inst/doc/bimets.Rnw | 166 bimets-4.0.1/bimets/inst/doc/bimets.pdf |binary bimets-4.0.1/bimets/inst/doc/frb2bimets.R |only bimets-4.0.1/bimets/inst/doc/frb2bimets.Rnw |only bimets-4.0.1/bimets/inst/doc/frb2bimets.pdf |only bimets-4.0.1/bimets/man/CUMPROD.Rd | 3 bimets-4.0.1/bimets/man/CUMSUM.Rd | 5 bimets-4.0.1/bimets/man/LOAD_MODEL.Rd | 32 bimets-4.0.1/bimets/man/LOAD_MODEL_DATA.Rd | 2 bimets-4.0.1/bimets/man/MDL.Rd | 918 - bimets-4.0.1/bimets/man/MOVAVG.Rd | 5 bimets-4.0.1/bimets/man/MOVTOT.Rd | 5 bimets-4.0.1/bimets/man/MULTMATRIX.Rd | 4 bimets-4.0.1/bimets/man/OPTIMIZE.Rd | 8 bimets-4.0.1/bimets/man/RENORM.Rd | 5 bimets-4.0.1/bimets/man/SIMULATE.Rd | 454 bimets-4.0.1/bimets/man/STOCHSIMULATE.Rd | 112 bimets-4.0.1/bimets/man/TABIT.Rd | 15 bimets-4.0.1/bimets/man/bimets-package.Rd | 112 bimets-4.0.1/bimets/man/bimetsDataset.Rd | 47 bimets-4.0.1/bimets/man/figures/Reordering.png |binary bimets-4.0.1/bimets/man/idxOver.Rd | 107 bimets-4.0.1/bimets/vignettes/FRB_python_1.png |only bimets-4.0.1/bimets/vignettes/FRB_python_2.png |only bimets-4.0.1/bimets/vignettes/FRB_python_3.png |only bimets-4.0.1/bimets/vignettes/FRB_python_4.png |only bimets-4.0.1/bimets/vignettes/FRB_python_5.png |only bimets-4.0.1/bimets/vignettes/Reordering.png |binary bimets-4.0.1/bimets/vignettes/bimets.Rnw | 166 bimets-4.0.1/bimets/vignettes/frb2bimets.Rnw |only 72 files changed, 11004 insertions(+), 7918 deletions(-)
Title: Sotkanet Open Data Access and Analysis
Description: Access statistical information on welfare and health in Finland
from the Sotkanet open data portal <https://sotkanet.fi/sotkanet/fi/index>.
Author: Leo Lahti [aut, cre] ,
Einari Happonen [aut],
Joona Lehtomaki [ctb],
Juuso Parkkinen [ctb],
Vesa Saaristo [ctb],
Pyry Kantanen [aut] ,
Aleksi Lahtinen [aut]
Maintainer: Leo Lahti <leo.lahti@iki.fi>
Diff between sotkanet versions 0.9.79 dated 2022-02-01 and 0.10.1 dated 2024-07-10
sotkanet-0.10.1/sotkanet/DESCRIPTION | 28 sotkanet-0.10.1/sotkanet/LICENSE | 4 sotkanet-0.10.1/sotkanet/MD5 | 89 +- sotkanet-0.10.1/sotkanet/NAMESPACE | 43 - sotkanet-0.10.1/sotkanet/NEWS.md | 23 sotkanet-0.10.1/sotkanet/R/GetDataSotkanet.R | 109 +-- sotkanet-0.10.1/sotkanet/R/SotkanetIndicatorMetadata.R | 10 sotkanet-0.10.1/sotkanet/R/SotkanetIndicators.R | 73 +- sotkanet-0.10.1/sotkanet/R/SotkanetRegions.R | 21 sotkanet-0.10.1/sotkanet/R/csv.R | 40 - sotkanet-0.10.1/sotkanet/R/firstlib.R | 2 sotkanet-0.10.1/sotkanet/R/get_sotkanet.R |only sotkanet-0.10.1/sotkanet/R/http_funs.R | 68 -- sotkanet-0.10.1/sotkanet/R/json.R | 46 - sotkanet-0.10.1/sotkanet/R/sotkanet.R | 4 sotkanet-0.10.1/sotkanet/R/sotkanet_cite.R |only sotkanet-0.10.1/sotkanet/R/sotkanet_clean_cache.R |only sotkanet-0.10.1/sotkanet/R/sotkanet_collect.R |only sotkanet-0.10.1/sotkanet/R/sotkanet_fixity.R |only sotkanet-0.10.1/sotkanet/R/sotkanet_indicator_metadata.R |only sotkanet-0.10.1/sotkanet/R/sotkanet_indicators.R |only sotkanet-0.10.1/sotkanet/R/sotkanet_interactive.R |only sotkanet-0.10.1/sotkanet/R/sotkanet_read_cache.R |only sotkanet-0.10.1/sotkanet/R/sotkanet_regions.R |only sotkanet-0.10.1/sotkanet/R/sotkanet_write_cache.R |only sotkanet-0.10.1/sotkanet/R/utils-pipe.R |only sotkanet-0.10.1/sotkanet/R/write_frictionless_metadata.R |only sotkanet-0.10.1/sotkanet/README.md | 82 +- sotkanet-0.10.1/sotkanet/build/vignette.rds |binary sotkanet-0.10.1/sotkanet/inst/CITATION | 11 sotkanet-0.10.1/sotkanet/inst/doc/tutorial.R | 5 sotkanet-0.10.1/sotkanet/inst/doc/tutorial.Rmd | 242 +++---- sotkanet-0.10.1/sotkanet/inst/doc/tutorial.html | 339 +++++----- sotkanet-0.10.1/sotkanet/inst/extdata |only sotkanet-0.10.1/sotkanet/man/GetDataSotkanet.Rd | 22 sotkanet-0.10.1/sotkanet/man/SotkanetIndicatorMetadata.Rd | 5 sotkanet-0.10.1/sotkanet/man/SotkanetIndicators.Rd | 7 sotkanet-0.10.1/sotkanet/man/SotkanetRegions.Rd | 7 sotkanet-0.10.1/sotkanet/man/figures/README-sotkanet_example-1.png |binary sotkanet-0.10.1/sotkanet/man/get_sotkanet.Rd |only sotkanet-0.10.1/sotkanet/man/pipe.Rd |only sotkanet-0.10.1/sotkanet/man/sotkanet-package.Rd | 5 sotkanet-0.10.1/sotkanet/man/sotkanet.csv_query.Rd | 4 sotkanet-0.10.1/sotkanet/man/sotkanet.json_query.Rd | 11 sotkanet-0.10.1/sotkanet/man/sotkanet_cite.Rd |only sotkanet-0.10.1/sotkanet/man/sotkanet_clean_cache.Rd |only sotkanet-0.10.1/sotkanet/man/sotkanet_fixity.Rd |only sotkanet-0.10.1/sotkanet/man/sotkanet_indicator_metadata.Rd |only sotkanet-0.10.1/sotkanet/man/sotkanet_indicators.Rd |only sotkanet-0.10.1/sotkanet/man/sotkanet_interactive.Rd |only sotkanet-0.10.1/sotkanet/man/sotkanet_read_cache.Rd |only sotkanet-0.10.1/sotkanet/man/sotkanet_regions.Rd |only sotkanet-0.10.1/sotkanet/man/sotkanet_write_cache.Rd |only sotkanet-0.10.1/sotkanet/man/test_connection.Rd | 6 sotkanet-0.10.1/sotkanet/man/write_frictionless_metadata.Rd |only sotkanet-0.10.1/sotkanet/tests/testthat/test-SotkanetCite.R |only sotkanet-0.10.1/sotkanet/tests/testthat/test-all.R | 2 sotkanet-0.10.1/sotkanet/vignettes/tutorial.Rmd | 242 +++---- sotkanet-0.10.1/sotkanet/vignettes/tutorial.md |only sotkanet-0.9.79/sotkanet/man/try_GET.Rd |only 60 files changed, 857 insertions(+), 693 deletions(-)
Title: Create Music with Ease
Description: Provides a simple and intuitive high-level language for music
representation. Generates and embeds music scores and audio files in
'RStudio', 'R Markdown' documents, and R 'Jupyter Notebooks'.
Internally, uses 'MusicXML' <https://github.com/w3c/musicxml> to represent
music, and 'MuseScore' <https://musescore.org/> to convert 'MusicXML'.
Author: Renfei Mao
Maintainer: Renfei Mao <renfeimao@gmail.com>
Diff between gm versions 1.0.2 dated 2021-04-17 and 2.0.0 dated 2024-07-10
gm-1.0.2/gm/R/clef.R |only gm-1.0.2/gm/R/condition.R |only gm-1.0.2/gm/R/duration.R |only gm-1.0.2/gm/R/element.R |only gm-1.0.2/gm/R/gm.R |only gm-1.0.2/gm/R/key.R |only gm-1.0.2/gm/R/line.R |only gm-1.0.2/gm/R/meter.R |only gm-1.0.2/gm/R/music.R |only gm-1.0.2/gm/R/pitch.R |only gm-1.0.2/gm/R/position.R |only gm-1.0.2/gm/R/show.R |only gm-1.0.2/gm/R/tempo.R |only gm-1.0.2/gm/R/tie.R |only gm-1.0.2/gm/inst/doc/cn.R |only gm-1.0.2/gm/inst/doc/cn.Rmd |only gm-1.0.2/gm/inst/doc/cn.html |only gm-1.0.2/gm/man/Tupler.Rd |only gm-1.0.2/gm/man/export.Rd |only gm-1.0.2/gm/man/figures/alipay.jpeg |only gm-1.0.2/gm/man/figures/cn |only gm-1.0.2/gm/man/figures/nested_tuplets_finale.png |only gm-1.0.2/gm/man/gm.Rd |only gm-1.0.2/gm/man/inspect_errors.Rd |only gm-1.0.2/gm/man/show.Rd |only gm-1.0.2/gm/man/tuplet.Rd |only gm-1.0.2/gm/tests/testthat/test_duration.R |only gm-1.0.2/gm/tests/testthat/test_element.R |only gm-1.0.2/gm/tests/testthat/test_export.R |only gm-1.0.2/gm/tests/testthat/test_number.R |only gm-1.0.2/gm/tests/testthat/test_pitch.R |only gm-1.0.2/gm/tests/testthat/test_tie.R |only gm-1.0.2/gm/vignettes/cn.Rmd |only gm-2.0.0/gm/DESCRIPTION | 29 gm-2.0.0/gm/LICENSE | 2 gm-2.0.0/gm/MD5 | 254 + gm-2.0.0/gm/NAMESPACE | 214 - gm-2.0.0/gm/NEWS.md | 30 gm-2.0.0/gm/R/1-construct-accidental.R |only gm-2.0.0/gm/R/1-construct-articulation.R |only gm-2.0.0/gm/R/1-construct-breath.R |only gm-2.0.0/gm/R/1-construct-clef-.R |only gm-2.0.0/gm/R/1-construct-clef-check.R |only gm-2.0.0/gm/R/1-construct-dynamic-.R |only gm-2.0.0/gm/R/1-construct-dynamic-dynamics.R |only gm-2.0.0/gm/R/1-construct-fermata.R |only gm-2.0.0/gm/R/1-construct-grace.R |only gm-2.0.0/gm/R/1-construct-hairpin.R |only gm-2.0.0/gm/R/1-construct-instrument-.R |only gm-2.0.0/gm/R/1-construct-instrument-instruments.R |only gm-2.0.0/gm/R/1-construct-key.R |only gm-2.0.0/gm/R/1-construct-line-.R |only gm-2.0.0/gm/R/1-construct-line-check.R |only 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|only gm-2.0.0/gm/R/2-add-pedal.R |only gm-2.0.0/gm/R/2-add-slur.R |only gm-2.0.0/gm/R/2-add-stem.R |only gm-2.0.0/gm/R/2-add-tempo.R |only gm-2.0.0/gm/R/2-add-tie-.R |only gm-2.0.0/gm/R/2-add-tie-check.R |only gm-2.0.0/gm/R/2-add-velocity.R |only gm-2.0.0/gm/R/2-utils-.R |only gm-2.0.0/gm/R/2-utils-check.R |only gm-2.0.0/gm/R/2-utils-update-.R |only gm-2.0.0/gm/R/2-utils-update-chordal.R |only gm-2.0.0/gm/R/3-prepare.R |only gm-2.0.0/gm/R/3-utils-.R |only gm-2.0.0/gm/R/3-utils-delimit.R |only gm-2.0.0/gm/R/3-utils-duration.R |only gm-2.0.0/gm/R/3-utils-grace.R |only gm-2.0.0/gm/R/3-utils-key.R |only gm-2.0.0/gm/R/3-utils-metricalize-.R |only gm-2.0.0/gm/R/3-utils-metricalize-fill.R |only gm-2.0.0/gm/R/3-utils-metricalize-note.R |only gm-2.0.0/gm/R/3-utils-offset.R |only gm-2.0.0/gm/R/3-utils-pitch.R |only gm-2.0.0/gm/R/3-utils-segment.R |only gm-2.0.0/gm/R/3-utils-tie.R |only gm-2.0.0/gm/R/3-utils-tuplet-check.R |only gm-2.0.0/gm/R/3-utils-tuplet-group.R |only gm-2.0.0/gm/R/3-utils-tuplet-indicate.R |only gm-2.0.0/gm/R/4-musicxml-.R |only gm-2.0.0/gm/R/4-musicxml-accidental.R |only gm-2.0.0/gm/R/4-musicxml-articulation.R |only gm-2.0.0/gm/R/4-musicxml-attributes.R |only gm-2.0.0/gm/R/4-musicxml-breath.R |only gm-2.0.0/gm/R/4-musicxml-clef.R |only gm-2.0.0/gm/R/4-musicxml-divisions.R |only gm-2.0.0/gm/R/4-musicxml-duration.R |only gm-2.0.0/gm/R/4-musicxml-dynamic.R |only gm-2.0.0/gm/R/4-musicxml-fermata.R |only gm-2.0.0/gm/R/4-musicxml-hairpin.R |only gm-2.0.0/gm/R/4-musicxml-instrument.R |only gm-2.0.0/gm/R/4-musicxml-key.R |only gm-2.0.0/gm/R/4-musicxml-lyric.R |only gm-2.0.0/gm/R/4-musicxml-meter.R |only gm-2.0.0/gm/R/4-musicxml-music.R |only gm-2.0.0/gm/R/4-musicxml-note.R |only gm-2.0.0/gm/R/4-musicxml-notehead.R |only gm-2.0.0/gm/R/4-musicxml-ornament.R |only gm-2.0.0/gm/R/4-musicxml-pedal.R |only gm-2.0.0/gm/R/4-musicxml-pitch.R |only gm-2.0.0/gm/R/4-musicxml-score.R |only gm-2.0.0/gm/R/4-musicxml-slur.R |only gm-2.0.0/gm/R/4-musicxml-stem.R |only gm-2.0.0/gm/R/4-musicxml-tempo.R |only gm-2.0.0/gm/R/4-utils-insert-.R |only gm-2.0.0/gm/R/4-utils-insert-attribute.R |only gm-2.0.0/gm/R/4-utils-insert-direction.R |only gm-2.0.0/gm/R/4-utils-insert-notation.R |only gm-2.0.0/gm/R/4-utils-insert-note.R |only gm-2.0.0/gm/R/4-utils-insert-sub-notation.R |only gm-2.0.0/gm/R/4-utils-musicxml.R |only gm-2.0.0/gm/R/5-export-.R |only gm-2.0.0/gm/R/5-export-music.R |only gm-2.0.0/gm/R/5-export-musicxml.R |only gm-2.0.0/gm/R/5-show-.R |only gm-2.0.0/gm/R/5-show-music.R |only gm-2.0.0/gm/R/5-show-musicxml.R |only gm-2.0.0/gm/R/5-utils-context.R |only gm-2.0.0/gm/R/5-utils-musescore.R |only gm-2.0.0/gm/R/gm-internal.R |only gm-2.0.0/gm/R/options.R |only gm-2.0.0/gm/R/utils.R |only gm-2.0.0/gm/README.md | 36 gm-2.0.0/gm/build/vignette.rds |binary gm-2.0.0/gm/inst/doc/gm.R | 617 ++- gm-2.0.0/gm/inst/doc/gm.Rmd | 1221 +++--- gm-2.0.0/gm/inst/doc/gm.html | 2391 ++++++++----- gm-2.0.0/gm/man/Accidental.Rd |only gm-2.0.0/gm/man/Articulation.Rd |only gm-2.0.0/gm/man/Breath.Rd |only gm-2.0.0/gm/man/Clef.Rd | 74 gm-2.0.0/gm/man/Dynamic.Rd |only gm-2.0.0/gm/man/Fermata.Rd |only gm-2.0.0/gm/man/Grace.Rd |only gm-2.0.0/gm/man/Hairpin.Rd |only gm-2.0.0/gm/man/Instrument.Rd |only gm-2.0.0/gm/man/Key.Rd | 73 gm-2.0.0/gm/man/Line.Rd | 140 gm-2.0.0/gm/man/Lyric.Rd |only gm-2.0.0/gm/man/Meter.Rd | 67 gm-2.0.0/gm/man/Mordent.Rd |only gm-2.0.0/gm/man/Music.Rd | 31 gm-2.0.0/gm/man/Notehead.Rd |only gm-2.0.0/gm/man/Pedal.Rd |only gm-2.0.0/gm/man/Schleifer.Rd |only gm-2.0.0/gm/man/Slur.Rd |only gm-2.0.0/gm/man/Stem.Rd |only gm-2.0.0/gm/man/Tempo.Rd | 81 gm-2.0.0/gm/man/Tie.Rd |only gm-2.0.0/gm/man/Tremolo.Rd |only gm-2.0.0/gm/man/Trill.Rd |only gm-2.0.0/gm/man/Turn.Rd |only gm-2.0.0/gm/man/Velocity.Rd |only gm-2.0.0/gm/man/export.Music.Rd |only gm-2.0.0/gm/man/figures/readme.png |binary gm-2.0.0/gm/man/gm-internal.Rd | 181 gm-2.0.0/gm/man/plus-.Music.Rd | 48 gm-2.0.0/gm/man/show.Music.Rd |only gm-2.0.0/gm/tests/testthat/test-1-construct-line-.R |only gm-2.0.0/gm/tests/testthat/test-1-duration-normalize.R |only gm-2.0.0/gm/tests/testthat/test-1-duration-predicate.R |only gm-2.0.0/gm/tests/testthat/test-1-duration-to-string.R |only gm-2.0.0/gm/tests/testthat/test-1-duration-to-value.R |only gm-2.0.0/gm/tests/testthat/test-1-duration-types.R |only gm-2.0.0/gm/tests/testthat/test-2-add-tie-.R |only gm-2.0.0/gm/tests/testthat/test-3-utils-delimit.R |only gm-2.0.0/gm/tests/testthat/test-3-utils-duration.R |only gm-2.0.0/gm/tests/testthat/test-3-utils-key.R |only gm-2.0.0/gm/tests/testthat/test-3-utils-metricalize-.R |only gm-2.0.0/gm/tests/testthat/test-3-utils-metricalize-fill.R |only gm-2.0.0/gm/tests/testthat/test-3-utils-metricalize-note.R |only gm-2.0.0/gm/tests/testthat/test-3-utils-offset.R |only gm-2.0.0/gm/tests/testthat/test-3-utils-pitch.R |only gm-2.0.0/gm/tests/testthat/test-3-utils-tie.R |only gm-2.0.0/gm/tests/testthat/test-3-utils-tuplet-group.R |only gm-2.0.0/gm/tests/testthat/test-3-utils-tuplet-indicate.R |only gm-2.0.0/gm/tests/testthat/test-4-musicxml-.R |only gm-2.0.0/gm/tests/testthat/test-4-musicxml-divisions.R |only gm-2.0.0/gm/tests/testthat/test-4-musicxml-lyric.R |only gm-2.0.0/gm/vignettes/gm.Rmd | 1221 +++--- 232 files changed, 4105 insertions(+), 2605 deletions(-)
Title: An Interface to Rust's 'geo' Library
Description: An R interface to the GeoRust crates 'geo' and 'geo-types' providing
access to geometry primitives and algorithms.
Author: Josiah Parry [aut, cre]
Maintainer: Josiah Parry <josiah.parry@gmail.com>
Diff between rsgeo versions 0.1.6 dated 2023-09-08 and 0.1.7 dated 2024-07-10
DESCRIPTION | 6 MD5 | 78 - NAMESPACE | 9 NEWS.md | 11 R/constructors.R | 12 R/coords-utils.R |only R/explode.R |only R/extendr-wrappers.R | 563 +++++--- R/segmentize.R | 23 README.md | 1 configure.ac |only configure.win | 2511 +++++++++++++++++++++++++++++++++++++++- man/construction.Rd | 12 man/coord_utils.Rd |only man/densify.Rd |only man/explode_lines.Rd |only man/line_segmentize.Rd | 10 man/rsgeo-package.Rd |only man/topology.Rd | 2 src/Makevars | 33 src/Makevars.webr |only src/Makevars.win | 42 src/rust/Cargo.lock | 740 +++++++++-- src/rust/Cargo.toml | 15 src/rust/src/area.rs | 34 src/rust/src/boundary.rs | 94 - src/rust/src/casting/cast.rs | 14 src/rust/src/casting/expand.rs | 44 src/rust/src/casting/explode.rs |only src/rust/src/casting/mod.rs | 2 src/rust/src/construction.rs | 73 - src/rust/src/coord_utils.rs |only src/rust/src/coords.rs | 84 - src/rust/src/densify.rs |only src/rust/src/distance.rs | 361 ++--- src/rust/src/length.rs | 72 - src/rust/src/lib.rs | 71 - src/rust/src/query.rs | 123 - src/rust/src/segmentize.rs |only src/rust/src/similarity.rs | 16 src/rust/src/simplification.rs | 19 src/rust/src/spatial_index.rs | 3 src/rust/src/topology.rs | 146 -- src/rust/src/union.rs | 100 - src/rust/vendor-config.toml | 12 src/rust/vendor.tar.xz |binary 46 files changed, 4158 insertions(+), 1178 deletions(-)
Title: Tool for Diagnosis of Tables Joins and Complementary Join
Features
Description: Tool for diagnosing table joins. It combines the speed of `collapse`
and `data.table`, the flexibility of `dplyr`, and the diagnosis and features
of the `merge` command in `Stata`.
Author: R.Andres Castaneda [aut, cre],
Zander Prinsloo [aut],
Rossana Tatulli [aut]
Maintainer: R.Andres Castaneda <acastanedaa@worldbank.org>
Diff between joyn versions 0.2.0 dated 2024-03-29 and 0.2.2 dated 2024-07-10
DESCRIPTION | 10 MD5 | 86 ++-- NAMESPACE | 1 NEWS.md | 149 +++++--- R/checks.R | 149 +++----- R/dplyr-joins.R | 345 +++++++++++++++---- R/freq_table.R | 80 ++-- R/info_display.R | 122 ++++++ R/joyn-merge.R | 303 +++++++++-------- R/joyn-package.R | 3 R/joyn_workhorse.R | 162 +++------ R/merge-data.table.R | 8 R/update_na_vals.R | 25 - R/utils.R | 34 + R/zzz.R | 35 + README.md | 184 ++++------ build/vignette.rds |binary inst/doc/adv-functionalities.html | 258 ++++++-------- inst/doc/aux-functions.R | 4 inst/doc/aux-functions.Rmd | 7 inst/doc/aux-functions.html | 85 ++-- inst/doc/dplyr-joins.html | 282 +++++++--------- inst/doc/main-functionalities.html | 300 ++++++++--------- inst/doc/merge-wrapper.html | 172 ++++----- inst/doc/messages.html | 580 ++++++++++++++++----------------- man/anti_join.Rd |only man/check_match_type.Rd | 2 man/correct_names.Rd |only man/freq_table.Rd | 4 man/full_join.Rd | 5 man/inner_join.Rd | 5 man/joyn-package.Rd | 2 man/joyn.Rd | 15 man/joyn_workhorse.Rd | 15 man/left_join.Rd | 5 man/report_from_attr.Rd |only man/right_join.Rd | 5 man/store_joyn_msg.Rd |only man/type_choices.Rd | 52 +- tests/testthat/test-dplyr-joins.R | 469 ++++++++++++++++++++++++-- tests/testthat/test-freq_table.R | 26 - tests/testthat/test-joyn.R | 207 ++++++++++- tests/testthat/test-joyn_workhorse.R | 43 -- tests/testthat/test-merge-data.table.R | 49 +- tests/testthat/test-update_na_vals.R | 10 vignettes/aux-functions.Rmd | 7 46 files changed, 2610 insertions(+), 1695 deletions(-)
Title: Automatic Generation of Exams in R
Description: Automatic generation of exams based on exercises in Markdown or LaTeX format,
possibly including R code for dynamic generation of exercise elements.
Exercise types include single-choice and multiple-choice questions, arithmetic problems,
string questions, and combinations thereof (cloze). Output formats include standalone
files (PDF, HTML, Docx, ODT, ...), Moodle XML, QTI 1.2, QTI 2.1, Blackboard, Canvas, OpenOlat, ILIAS, TestVision,
Particify, ARSnova, Kahoot!, Grasple, and TCExam. In addition to fully customizable PDF exams, a standardized PDF format
(NOPS) is provided that can be printed, scanned, and automatically evaluated.
Author: Achim Zeileis [aut, cre] ,
Bettina Gruen [aut] ,
Friedrich Leisch [aut] ,
Nikolaus Umlauf [aut],
Mirko Birbaumer [ctb],
Dominik Ernst [ctb],
Patrik Keller [ctb],
Niels Smits [ctb] ,
Reto Stauffer [ctb],
Kenji Sato [ctb],
Florian Wickelmaier [ctb]
Maintainer: Achim Zeileis <Achim.Zeileis@R-project.org>
Diff between exams versions 2.4-0 dated 2022-10-17 and 2.4-1 dated 2024-07-10
DESCRIPTION | 12 - MD5 | 142 ++++++++------- NAMESPACE | 3 NEWS.md | 190 +++++++++++++++++++- R/exams2arsnova.R | 6 R/exams2blackboard.R | 66 ++----- R/exams2canvas.R | 4 R/exams2evaexam.R |only R/exams2grasple.R | 7 R/exams2html.R | 5 R/exams2lops.R | 6 R/exams2moodle.R | 29 +-- R/exams2nops.R | 51 +++-- R/exams2openolat.R | 2 R/exams2pandoc.R | 6 R/exams2particify.R | 10 - R/exams2qti12.R | 83 +++++--- R/exams2qti21.R | 404 +++++++++++++++++++++++++++++++------------ R/exams2testvision.R | 247 +++++++++++++------------- R/exams_metainfo.R |only R/fileURI.R | 1 R/nops_eval.R | 17 + R/nops_fix.R |only R/nops_scan.R | 213 +++++++++++++--------- R/pandoc.R | 15 - R/read_exercise.R | 23 ++ R/read_metainfo.R | 41 +++- R/search_files.R | 2 R/testvision2exams.R | 72 +++++++ R/to_choice.R | 12 - R/xexams.R | 56 ++--- build/partial.rdb |binary build/vignette.rds |binary inst/CITATION | 57 ++---- inst/css/table_grid.css |only inst/css/table_rule.css |only inst/css/table_shade.css |only inst/doc/exams.pdf |binary inst/doc/exams2.pdf |binary inst/exercises/essayreg.Rmd | 2 inst/exercises/essayreg.Rnw | 2 inst/exercises/essayreg2.Rmd | 7 inst/exercises/essayreg2.Rnw | 7 inst/exercises/vowels2.Rmd |only inst/exercises/vowels2.Rnw |only inst/nops/bg.dcf |only inst/nops/es.dcf | 4 inst/nops/fr.dcf | 4 inst/nops/pl.dcf |only inst/nops/ru.dcf | 14 + inst/nops/uibk-logo-bw.png |only inst/tex/exam.tex | 1 inst/tex/form.tex | 1 inst/tex/plain-highlight.tex | 2 inst/tex/plain.tex | 2 inst/tex/plain8.tex | 2 inst/tex/solution.tex | 1 inst/xml/canvas_meta.xml | 2 man/exams2arsnova.Rd | 9 man/exams2blackboard.Rd | 12 - man/exams2canvas.Rd | 11 - man/exams2grasple.Rd | 60 +++--- man/exams2html.Rd | 4 man/exams2lops.Rd | 7 man/exams2moodle.Rd | 101 ++++++---- man/exams2nops.Rd | 10 - man/exams2pandoc.Rd | 9 man/exams2particify.Rd | 17 + man/exams2qti12.Rd | 13 - man/exams2qti21.Rd | 37 ++- man/exams2testvision.Rd | 28 ++ man/match_exams_call.Rd | 9 man/matrix_to_schoice.Rd | 5 man/nops_fix.Rd |only man/nops_scan.Rd | 21 +- man/num_to_schoice.Rd | 12 + man/testvision2exams.Rd | 29 +-- man/xexams.Rd | 24 +- 78 files changed, 1461 insertions(+), 790 deletions(-)
Title: Process ArcGIS Protocol Buffer FeatureCollections
Description: Fast processing of ArcGIS FeatureCollection protocol buffers in R.
It is designed to work seamlessly with 'httr2' and integrates with 'sf'.
Author: Josiah Parry [aut, cre]
Maintainer: Josiah Parry <josiah.parry@gmail.com>
Diff between arcpbf versions 0.1.2 dated 2024-07-05 and 0.1.3 dated 2024-07-10
DESCRIPTION | 11 - MD5 | 14 +- NEWS.md | 5 R/post-process.R | 20 --- src/rust/Cargo.lock | 240 +++++++++++++++++++++++++++++++++++++++++++ src/rust/arcpbf/Cargo.toml | 1 src/rust/arcpbf/src/parse.rs | 42 +++++-- src/rust/vendor.tar.xz |binary 8 files changed, 292 insertions(+), 41 deletions(-)
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2023-08-22 0.3.2
2020-07-09 0.3.1
2020-03-04 0.3.0
2018-11-17 0.2.5
2018-08-15 0.2.4
2018-01-31 0.2.3
2017-04-12 0.2.2
2017-01-01 0.2.1
2016-05-06 0.2.0
2016-04-02 0.1.2
2016-01-11 0.1.1
2015-10-19 0.1.0
2015-08-21 0.0.1
Title: Prioritize and Delete Erroneous Taxa in a Large Phylogenetic
Tree
Description: Finds, prioritizes and deletes erroneous taxa in a phylogenetic tree. This package calculates scores for taxa in a tree. Higher score means the taxon is more erroneous. If the score is zero for a taxon, the taxon is not erroneous. This package also can remove all erroneous taxa automatically by iterating score calculation and pruning taxa with the highest score.
Author: Satoshi Aoki [aut, cph, cre],
Keita Fukasawa [ctb]
Maintainer: Satoshi Aoki <aokis1ll1@gmail.com>
Diff between Apoderoides versions 2.0.1 dated 2024-06-19 and 3.0.0 dated 2024-07-10
DESCRIPTION | 13 +-- MD5 | 18 ++-- NEWS | 3 R/Apoderoides.R | 200 ++++++++++++++++++++++++++++++++++++++++--------- inst/doc/vignette.Rmd | 2 inst/doc/vignette.html | 34 ++++---- man/autoDeletion.Rd | 15 ++- man/calc.Score.Rd | 13 +-- man/deleteAnomaly.Rd | 2 vignettes/vignette.Rmd | 2 10 files changed, 221 insertions(+), 81 deletions(-)
Title: DBI Package for the DuckDB Database Management System
Description: The DuckDB project is an embedded analytical data management
system with support for the Structured Query Language (SQL). This
package includes all of DuckDB and a R Database Interface (DBI)
connector.
Author: Hannes Muehleisen [aut] ,
Mark Raasveldt [aut] ,
Kirill Mueller [cre] ,
Stichting DuckDB Foundation [cph],
Apache Software Foundation [cph],
PostgreSQL Global Development Group [cph],
The Regents of the University of California [cph],
Cameron Desrocher [...truncated...]
Maintainer: Kirill Mueller <kirill@cynkra.com>
Diff between duckdb versions 1.0.0 dated 2024-06-13 and 1.0.0-1 dated 2024-07-09
duckdb-1.0.0-1/duckdb/DESCRIPTION | 8 duckdb-1.0.0-1/duckdb/MD5 | 82 +- duckdb-1.0.0-1/duckdb/NEWS.md | 9 duckdb-1.0.0-1/duckdb/R/Connection.R | 4 duckdb-1.0.0-1/duckdb/R/Driver.R | 2 duckdb-1.0.0-1/duckdb/R/Result.R | 2 duckdb-1.0.0-1/duckdb/R/dbConnect__duckdb_driver.R | 3 duckdb-1.0.0-1/duckdb/R/dbExistsTable__duckdb_connection_ANY.R |only duckdb-1.0.0-1/duckdb/R/dbGetInfo__duckdb_connection.R | 1 duckdb-1.0.0-1/duckdb/R/dbGetInfo__duckdb_driver.R | 1 duckdb-1.0.0-1/duckdb/R/dbGetInfo__duckdb_result.R | 1 duckdb-1.0.0-1/duckdb/R/dbWriteTable__duckdb_connection_character_data.frame.R | 1 duckdb-1.0.0-1/duckdb/inst/include/cpp11.hpp | 4 duckdb-1.0.0-1/duckdb/inst/include/cpp11/R.hpp | 23 duckdb-1.0.0-1/duckdb/inst/include/cpp11/altrep.hpp | 4 duckdb-1.0.0-1/duckdb/inst/include/cpp11/as.hpp | 331 +++++----- duckdb-1.0.0-1/duckdb/inst/include/cpp11/attribute_proxy.hpp | 4 duckdb-1.0.0-1/duckdb/inst/include/cpp11/data_frame.hpp | 4 duckdb-1.0.0-1/duckdb/inst/include/cpp11/declarations.hpp | 15 duckdb-1.0.0-1/duckdb/inst/include/cpp11/doubles.hpp | 27 duckdb-1.0.0-1/duckdb/inst/include/cpp11/environment.hpp | 4 duckdb-1.0.0-1/duckdb/inst/include/cpp11/external_pointer.hpp | 4 duckdb-1.0.0-1/duckdb/inst/include/cpp11/function.hpp | 4 duckdb-1.0.0-1/duckdb/inst/include/cpp11/integers.hpp | 29 duckdb-1.0.0-1/duckdb/inst/include/cpp11/list.hpp | 6 duckdb-1.0.0-1/duckdb/inst/include/cpp11/list_of.hpp | 12 duckdb-1.0.0-1/duckdb/inst/include/cpp11/logicals.hpp | 19 duckdb-1.0.0-1/duckdb/inst/include/cpp11/matrix.hpp | 4 duckdb-1.0.0-1/duckdb/inst/include/cpp11/named_arg.hpp | 4 duckdb-1.0.0-1/duckdb/inst/include/cpp11/protect.hpp | 193 +---- duckdb-1.0.0-1/duckdb/inst/include/cpp11/r_bool.hpp | 11 duckdb-1.0.0-1/duckdb/inst/include/cpp11/r_string.hpp | 11 duckdb-1.0.0-1/duckdb/inst/include/cpp11/r_vector.hpp | 30 duckdb-1.0.0-1/duckdb/inst/include/cpp11/raws.hpp | 21 duckdb-1.0.0-1/duckdb/inst/include/cpp11/sexp.hpp | 15 duckdb-1.0.0-1/duckdb/inst/include/cpp11/strings.hpp | 7 duckdb-1.0.0-1/duckdb/man/duckdb.Rd | 5 duckdb-1.0.0-1/duckdb/man/duckdb_connection-class.Rd | 16 duckdb-1.0.0-1/duckdb/man/duckdb_driver-class.Rd | 6 duckdb-1.0.0-1/duckdb/man/duckdb_read_csv.Rd | 2 duckdb-1.0.0-1/duckdb/man/duckdb_result-class.Rd | 6 duckdb-1.0.0-1/duckdb/src/rfuns.cpp | 6 duckdb-1.0.0/duckdb/R/dbExistsTable__duckdb_connection_character.R |only 43 files changed, 454 insertions(+), 487 deletions(-)
Title: Easily Create Presentation-Ready Display Tables
Description: Build display tables from tabular data with an easy-to-use
set of functions. With its progressive approach, we can construct
display tables with a cohesive set of table parts. Table values can be
formatted using any of the included formatting functions. Footnotes
and cell styles can be precisely added through a location targeting
system. The way in which 'gt' handles things for you means that you
don't often have to worry about the fine details.
Author: Richard Iannone [aut, cre] ,
Joe Cheng [aut],
Barret Schloerke [aut] ,
Ellis Hughes [aut] ,
Alexandra Lauer [aut] ,
JooYoung Seo [aut] ,
Ken Brevoort [aut] ,
Olivier Roy [aut],
Posit Software, PBC [cph, fnd]
Maintainer: Richard Iannone <rich@posit.co>
Diff between gt versions 0.10.1 dated 2024-01-17 and 0.11.0 dated 2024-07-09
gt-0.10.1/gt/man/define_units.Rd |only gt-0.10.1/gt/man/print.gt_group.Rd |only gt-0.10.1/gt/man/print.rtf_text.Rd |only gt-0.11.0/gt/DESCRIPTION | 87 gt-0.11.0/gt/LICENSE | 2 gt-0.11.0/gt/MD5 | 609 - gt-0.11.0/gt/NAMESPACE | 62 gt-0.11.0/gt/NEWS.md | 128 gt-0.11.0/gt/R/build_data.R | 2 gt-0.11.0/gt/R/compile_scss.R | 4 gt-0.11.0/gt/R/data_color.R | 176 gt-0.11.0/gt/R/datasets.R | 410 + gt-0.11.0/gt/R/dt_boxhead.R | 7 gt-0.11.0/gt/R/dt_data.R | 25 gt-0.11.0/gt/R/dt_footnotes.R | 18 gt-0.11.0/gt/R/dt_groups_rows.R | 17 gt-0.11.0/gt/R/dt_heading.R | 2 gt-0.11.0/gt/R/dt_options.R | 3 gt-0.11.0/gt/R/dt_row_groups.R | 6 gt-0.11.0/gt/R/dt_spanners.R | 63 gt-0.11.0/gt/R/dt_stub_df.R | 29 gt-0.11.0/gt/R/dt_stubhead.R | 2 gt-0.11.0/gt/R/dt_styles.R | 14 gt-0.11.0/gt/R/dt_summary.R | 123 gt-0.11.0/gt/R/export.R | 559 + gt-0.11.0/gt/R/format_data.R | 4660 ++++++++++---- gt-0.11.0/gt/R/format_vec.R | 967 -- gt-0.11.0/gt/R/gt-package.R | 9 gt-0.11.0/gt/R/gt.R | 38 gt-0.11.0/gt/R/gt_group.R | 135 gt-0.11.0/gt/R/gt_preview.R | 8 gt-0.11.0/gt/R/gt_split.R | 26 gt-0.11.0/gt/R/helpers.R | 1557 +--- gt-0.11.0/gt/R/image.R | 74 gt-0.11.0/gt/R/import-standalone-obj-type.R |only gt-0.11.0/gt/R/import-standalone-types-check.R |only gt-0.11.0/gt/R/info_tables.R | 863 +- gt-0.11.0/gt/R/knitr-utils.R | 8 gt-0.11.0/gt/R/location_methods.R | 52 gt-0.11.0/gt/R/modify_columns.R | 626 + gt-0.11.0/gt/R/modify_rows.R | 15 gt-0.11.0/gt/R/opts.R | 115 gt-0.11.0/gt/R/print.R | 26 gt-0.11.0/gt/R/render_as_html.R | 2 gt-0.11.0/gt/R/render_as_i_html.R | 545 + gt-0.11.0/gt/R/resolver.R | 212 gt-0.11.0/gt/R/rows_add.R | 55 gt-0.11.0/gt/R/shiny.R | 32 gt-0.11.0/gt/R/substitution.R | 225 gt-0.11.0/gt/R/summary_rows.R | 71 gt-0.11.0/gt/R/sysdata.rda |binary gt-0.11.0/gt/R/tab_create_modify.R | 824 +- gt-0.11.0/gt/R/tab_info.R | 98 gt-0.11.0/gt/R/tab_remove.R | 112 gt-0.11.0/gt/R/tab_style_body.R | 42 gt-0.11.0/gt/R/text_transform.R | 171 gt-0.11.0/gt/R/topics.R |only gt-0.11.0/gt/R/utils.R | 894 +- gt-0.11.0/gt/R/utils_examples.R | 111 gt-0.11.0/gt/R/utils_formatters.R | 96 gt-0.11.0/gt/R/utils_general_str_formatting.R | 85 gt-0.11.0/gt/R/utils_plots.R | 107 gt-0.11.0/gt/R/utils_render_common.R | 57 gt-0.11.0/gt/R/utils_render_grid.R |only gt-0.11.0/gt/R/utils_render_html.R | 99 gt-0.11.0/gt/R/utils_render_latex.R | 865 ++ gt-0.11.0/gt/R/utils_render_rtf.R | 84 gt-0.11.0/gt/R/utils_render_xml.R | 434 - gt-0.11.0/gt/R/utils_units.R | 408 + gt-0.11.0/gt/R/z_utils_render_footnotes.R | 176 gt-0.11.0/gt/R/zzz.R | 57 gt-0.11.0/gt/data/constants.rda |binary gt-0.11.0/gt/data/countrypops.rda |binary gt-0.11.0/gt/data/exibble.rda |binary gt-0.11.0/gt/data/films.rda |only gt-0.11.0/gt/data/gibraltar.rda |only gt-0.11.0/gt/data/gtcars.rda |binary gt-0.11.0/gt/data/illness.rda |binary gt-0.11.0/gt/data/metro.rda |binary gt-0.11.0/gt/data/nuclides.rda |only gt-0.11.0/gt/data/peeps.rda |only gt-0.11.0/gt/data/photolysis.rda |only gt-0.11.0/gt/data/pizzaplace.rda |binary gt-0.11.0/gt/data/reactions.rda |only gt-0.11.0/gt/data/rx_addv.rda |binary gt-0.11.0/gt/data/rx_adsl.rda |binary gt-0.11.0/gt/data/sp500.rda |binary gt-0.11.0/gt/data/sza.rda |binary gt-0.11.0/gt/data/towny.rda |binary gt-0.11.0/gt/inst/css/gt_styles_default.scss | 10 gt-0.11.0/gt/inst/gt_tables/fa_icons_vec.rds |only gt-0.11.0/gt/inst/gt_tables/info_conversions.rds |only gt-0.11.0/gt/inst/gt_tables/info_flags.rds |binary gt-0.11.0/gt/inst/gt_tables/info_icons.rds |binary gt-0.11.0/gt/inst/gt_tables/info_paletteer.rds |binary gt-0.11.0/gt/man/adjust_luminance.Rd | 20 gt-0.11.0/gt/man/as_gtable.Rd |only gt-0.11.0/gt/man/as_latex.Rd | 3 gt-0.11.0/gt/man/as_raw_html.Rd | 5 gt-0.11.0/gt/man/as_rtf.Rd | 1 gt-0.11.0/gt/man/as_word.Rd | 5 gt-0.11.0/gt/man/cell_borders.Rd | 33 gt-0.11.0/gt/man/cell_fill.Rd | 27 gt-0.11.0/gt/man/cell_text.Rd | 36 gt-0.11.0/gt/man/cells_body.Rd | 92 gt-0.11.0/gt/man/cells_column_labels.Rd | 80 gt-0.11.0/gt/man/cells_column_spanners.Rd | 89 gt-0.11.0/gt/man/cells_footnotes.Rd | 87 gt-0.11.0/gt/man/cells_grand_summary.Rd | 93 gt-0.11.0/gt/man/cells_group.Rd | 7 gt-0.11.0/gt/man/cells_row_groups.Rd | 90 gt-0.11.0/gt/man/cells_source_notes.Rd | 81 gt-0.11.0/gt/man/cells_stub.Rd | 81 gt-0.11.0/gt/man/cells_stub_grand_summary.Rd | 90 gt-0.11.0/gt/man/cells_stub_summary.Rd | 92 gt-0.11.0/gt/man/cells_stubhead.Rd | 73 gt-0.11.0/gt/man/cells_summary.Rd | 104 gt-0.11.0/gt/man/cells_title.Rd | 75 gt-0.11.0/gt/man/cols_add.Rd | 34 gt-0.11.0/gt/man/cols_align.Rd | 15 gt-0.11.0/gt/man/cols_align_decimal.Rd | 23 gt-0.11.0/gt/man/cols_hide.Rd | 46 gt-0.11.0/gt/man/cols_label.Rd | 30 gt-0.11.0/gt/man/cols_label_with.Rd | 13 gt-0.11.0/gt/man/cols_merge.Rd | 27 gt-0.11.0/gt/man/cols_merge_n_pct.Rd | 32 gt-0.11.0/gt/man/cols_merge_range.Rd | 45 gt-0.11.0/gt/man/cols_merge_uncert.Rd | 34 gt-0.11.0/gt/man/cols_move.Rd | 18 gt-0.11.0/gt/man/cols_move_to_end.Rd | 31 gt-0.11.0/gt/man/cols_move_to_start.Rd | 31 gt-0.11.0/gt/man/cols_nanoplot.Rd | 170 gt-0.11.0/gt/man/cols_unhide.Rd | 30 gt-0.11.0/gt/man/cols_units.Rd | 25 gt-0.11.0/gt/man/cols_width.Rd | 22 gt-0.11.0/gt/man/constants.Rd | 8 gt-0.11.0/gt/man/countrypops.Rd | 6 gt-0.11.0/gt/man/currency.Rd | 18 gt-0.11.0/gt/man/data_color.Rd | 85 gt-0.11.0/gt/man/default_fonts.Rd | 37 gt-0.11.0/gt/man/escape_latex.Rd | 26 gt-0.11.0/gt/man/exibble.Rd | 6 gt-0.11.0/gt/man/extract_body.Rd | 13 gt-0.11.0/gt/man/extract_cells.Rd | 21 gt-0.11.0/gt/man/extract_summary.Rd | 9 gt-0.11.0/gt/man/films.Rd |only gt-0.11.0/gt/man/fmt.Rd | 29 gt-0.11.0/gt/man/fmt_auto.Rd | 53 gt-0.11.0/gt/man/fmt_bins.Rd | 51 gt-0.11.0/gt/man/fmt_bytes.Rd | 71 gt-0.11.0/gt/man/fmt_chem.Rd |only gt-0.11.0/gt/man/fmt_country.Rd |only gt-0.11.0/gt/man/fmt_currency.Rd | 81 gt-0.11.0/gt/man/fmt_date.Rd | 70 gt-0.11.0/gt/man/fmt_datetime.Rd | 70 gt-0.11.0/gt/man/fmt_duration.Rd | 47 gt-0.11.0/gt/man/fmt_email.Rd |only gt-0.11.0/gt/man/fmt_engineering.Rd | 145 gt-0.11.0/gt/man/fmt_flag.Rd | 141 gt-0.11.0/gt/man/fmt_fraction.Rd | 74 gt-0.11.0/gt/man/fmt_icon.Rd | 127 gt-0.11.0/gt/man/fmt_image.Rd | 66 gt-0.11.0/gt/man/fmt_index.Rd | 67 gt-0.11.0/gt/man/fmt_integer.Rd | 74 gt-0.11.0/gt/man/fmt_markdown.Rd | 124 gt-0.11.0/gt/man/fmt_missing.Rd | 16 gt-0.11.0/gt/man/fmt_number.Rd | 88 gt-0.11.0/gt/man/fmt_partsper.Rd | 67 gt-0.11.0/gt/man/fmt_passthrough.Rd | 47 gt-0.11.0/gt/man/fmt_percent.Rd | 75 gt-0.11.0/gt/man/fmt_roman.Rd | 49 gt-0.11.0/gt/man/fmt_scientific.Rd | 168 gt-0.11.0/gt/man/fmt_spelled_num.Rd | 131 gt-0.11.0/gt/man/fmt_tf.Rd |only gt-0.11.0/gt/man/fmt_time.Rd | 69 gt-0.11.0/gt/man/fmt_units.Rd | 32 gt-0.11.0/gt/man/fmt_url.Rd | 120 gt-0.11.0/gt/man/from_column.Rd | 33 gt-0.11.0/gt/man/ggplot_image.Rd | 12 gt-0.11.0/gt/man/gibraltar.Rd |only gt-0.11.0/gt/man/google_font.Rd | 46 gt-0.11.0/gt/man/grand_summary_rows.Rd | 15 gt-0.11.0/gt/man/grp_add.Rd | 6 gt-0.11.0/gt/man/grp_clone.Rd | 4 gt-0.11.0/gt/man/grp_options.Rd | 10 gt-0.11.0/gt/man/grp_pull.Rd | 14 gt-0.11.0/gt/man/grp_replace.Rd | 17 gt-0.11.0/gt/man/grp_rm.Rd | 4 gt-0.11.0/gt/man/gt-package.Rd | 3 gt-0.11.0/gt/man/gt.Rd | 38 gt-0.11.0/gt/man/gt_group.Rd | 2 gt-0.11.0/gt/man/gt_latex_dependencies.Rd | 33 gt-0.11.0/gt/man/gt_output.Rd | 14 gt-0.11.0/gt/man/gt_split.Rd | 7 gt-0.11.0/gt/man/gtcars.Rd | 6 gt-0.11.0/gt/man/gtsave.Rd | 3 gt-0.11.0/gt/man/html.Rd | 22 gt-0.11.0/gt/man/illness.Rd | 8 gt-0.11.0/gt/man/info_currencies.Rd | 25 gt-0.11.0/gt/man/info_date_style.Rd | 26 gt-0.11.0/gt/man/info_flags.Rd | 11 gt-0.11.0/gt/man/info_google_fonts.Rd | 3 gt-0.11.0/gt/man/info_icons.Rd | 8 gt-0.11.0/gt/man/info_locales.Rd | 18 gt-0.11.0/gt/man/info_paletteer.Rd | 27 gt-0.11.0/gt/man/info_time_style.Rd | 26 gt-0.11.0/gt/man/info_unit_conversions.Rd |only gt-0.11.0/gt/man/local_image.Rd | 18 gt-0.11.0/gt/man/location-helper.Rd |only gt-0.11.0/gt/man/md.Rd | 24 gt-0.11.0/gt/man/metro.Rd | 44 gt-0.11.0/gt/man/nanoplot_options.Rd | 22 gt-0.11.0/gt/man/nuclides.Rd |only gt-0.11.0/gt/man/opt_css.Rd | 10 gt-0.11.0/gt/man/opt_horizontal_padding.Rd | 2 gt-0.11.0/gt/man/opt_interactive.Rd | 8 gt-0.11.0/gt/man/opt_row_striping.Rd | 2 gt-0.11.0/gt/man/opt_stylize.Rd | 4 gt-0.11.0/gt/man/opt_table_font.Rd | 22 gt-0.11.0/gt/man/opt_table_lines.Rd | 4 gt-0.11.0/gt/man/opt_vertical_padding.Rd | 2 gt-0.11.0/gt/man/pct.Rd | 18 gt-0.11.0/gt/man/peeps.Rd |only gt-0.11.0/gt/man/photolysis.Rd |only gt-0.11.0/gt/man/pizzaplace.Rd | 16 gt-0.11.0/gt/man/print.gt_tbl.Rd | 11 gt-0.11.0/gt/man/px.Rd | 18 gt-0.11.0/gt/man/random_id.Rd | 25 gt-0.11.0/gt/man/reactions.Rd |only gt-0.11.0/gt/man/render_gt.Rd | 16 gt-0.11.0/gt/man/rm_caption.Rd | 8 gt-0.11.0/gt/man/rm_footnotes.Rd | 12 gt-0.11.0/gt/man/rm_header.Rd | 6 gt-0.11.0/gt/man/rm_source_notes.Rd | 18 gt-0.11.0/gt/man/rm_spanners.Rd | 12 gt-0.11.0/gt/man/rm_stubhead.Rd | 10 gt-0.11.0/gt/man/row_group.Rd |only gt-0.11.0/gt/man/row_group_order.Rd | 13 gt-0.11.0/gt/man/rows_add.Rd | 30 gt-0.11.0/gt/man/rx_addv.Rd | 8 gt-0.11.0/gt/man/rx_adsl.Rd | 8 gt-0.11.0/gt/man/sp500.Rd | 6 gt-0.11.0/gt/man/stub.Rd | 18 gt-0.11.0/gt/man/sub_large_vals.Rd | 34 gt-0.11.0/gt/man/sub_missing.Rd | 37 gt-0.11.0/gt/man/sub_small_vals.Rd | 42 gt-0.11.0/gt/man/sub_values.Rd | 33 gt-0.11.0/gt/man/sub_zero.Rd | 33 gt-0.11.0/gt/man/summary_rows.Rd | 26 gt-0.11.0/gt/man/system_fonts.Rd | 37 gt-0.11.0/gt/man/sza.Rd | 6 gt-0.11.0/gt/man/tab_caption.Rd | 10 gt-0.11.0/gt/man/tab_footnote.Rd | 31 gt-0.11.0/gt/man/tab_header.Rd | 83 gt-0.11.0/gt/man/tab_info.Rd | 15 gt-0.11.0/gt/man/tab_options.Rd | 18 gt-0.11.0/gt/man/tab_row_group.Rd | 39 gt-0.11.0/gt/man/tab_source_note.Rd | 12 gt-0.11.0/gt/man/tab_spanner.Rd | 64 gt-0.11.0/gt/man/tab_spanner_delim.Rd | 82 gt-0.11.0/gt/man/tab_stub_indent.Rd | 111 gt-0.11.0/gt/man/tab_stubhead.Rd | 86 gt-0.11.0/gt/man/tab_style.Rd | 96 gt-0.11.0/gt/man/tab_style_body.Rd | 44 gt-0.11.0/gt/man/text_case_match.Rd | 23 gt-0.11.0/gt/man/text_case_when.Rd | 32 gt-0.11.0/gt/man/text_replace.Rd | 38 gt-0.11.0/gt/man/text_transform.Rd | 21 gt-0.11.0/gt/man/towny.Rd | 6 gt-0.11.0/gt/man/unit_conversion.Rd |only gt-0.11.0/gt/man/vec_fmt_bytes.Rd | 17 gt-0.11.0/gt/man/vec_fmt_currency.Rd | 56 gt-0.11.0/gt/man/vec_fmt_date.Rd | 11 gt-0.11.0/gt/man/vec_fmt_datetime.Rd | 17 gt-0.11.0/gt/man/vec_fmt_duration.Rd | 9 gt-0.11.0/gt/man/vec_fmt_engineering.Rd | 23 gt-0.11.0/gt/man/vec_fmt_fraction.Rd | 9 gt-0.11.0/gt/man/vec_fmt_index.Rd | 9 gt-0.11.0/gt/man/vec_fmt_integer.Rd | 16 gt-0.11.0/gt/man/vec_fmt_markdown.Rd | 8 gt-0.11.0/gt/man/vec_fmt_number.Rd | 20 gt-0.11.0/gt/man/vec_fmt_partsper.Rd | 15 gt-0.11.0/gt/man/vec_fmt_percent.Rd | 17 gt-0.11.0/gt/man/vec_fmt_roman.Rd | 2 gt-0.11.0/gt/man/vec_fmt_scientific.Rd | 23 gt-0.11.0/gt/man/vec_fmt_spelled_num.Rd | 9 gt-0.11.0/gt/man/vec_fmt_time.Rd | 13 gt-0.11.0/gt/man/web_image.Rd | 29 gt-0.11.0/gt/tests/testthat/Rplots.pdf |only gt-0.11.0/gt/tests/testthat/_snaps |only gt-0.11.0/gt/tests/testthat/helper-gt_attr_expectations.R | 2 gt-0.11.0/gt/tests/testthat/helper-render_formats.R | 2 gt-0.11.0/gt/tests/testthat/helper-tab_info.R |only gt-0.11.0/gt/tests/testthat/helper-tab_style.R |only gt-0.11.0/gt/tests/testthat/helper.R |only gt-0.11.0/gt/tests/testthat/test-as_latex.R | 104 gt-0.11.0/gt/tests/testthat/test-cols_align.R | 6 gt-0.11.0/gt/tests/testthat/test-cols_hide.R | 11 gt-0.11.0/gt/tests/testthat/test-cols_move.R | 10 gt-0.11.0/gt/tests/testthat/test-cols_units.R |only gt-0.11.0/gt/tests/testthat/test-conditional_fmt.R | 30 gt-0.11.0/gt/tests/testthat/test-gt_preview.R | 59 gt-0.11.0/gt/tests/testthat/test-l_cols_align.R | 5 gt-0.11.0/gt/tests/testthat/test-l_cols_merge.R | 9 gt-0.11.0/gt/tests/testthat/test-l_cols_move.R | 9 gt-0.11.0/gt/tests/testthat/test-l_conditional_fmt.R | 46 gt-0.11.0/gt/tests/testthat/test-l_fmt_currency.R | 108 gt-0.11.0/gt/tests/testthat/test-l_fmt_date_time.R | 262 gt-0.11.0/gt/tests/testthat/test-l_fmt_engineering.R | 216 gt-0.11.0/gt/tests/testthat/test-l_fmt_integer.R | 64 gt-0.11.0/gt/tests/testthat/test-l_fmt_markdown.R | 2 gt-0.11.0/gt/tests/testthat/test-l_fmt_missing.R | 6 gt-0.11.0/gt/tests/testthat/test-l_fmt_number.R | 82 gt-0.11.0/gt/tests/testthat/test-l_fmt_passthrough.R | 2 gt-0.11.0/gt/tests/testthat/test-l_fmt_percent.R | 86 gt-0.11.0/gt/tests/testthat/test-l_fmt_scientific.R | 74 gt-0.11.0/gt/tests/testthat/test-l_row_group_order.R | 2 gt-0.11.0/gt/tests/testthat/test-l_tab_spanner_delim.R | 5 gt-0.11.0/gt/tests/testthat/test-render_as_gtable.R |only gt-0.11.0/gt/tests/testthat/test-resolver.R | 24 gt-0.11.0/gt/tests/testthat/test-row_group_order.R | 14 gt-0.11.0/gt/tests/testthat/test-tab_caption.R | 14 322 files changed, 14319 insertions(+), 10823 deletions(-)
Title: Clinical Trial Registry History
Description: Retrieves historical versions of clinical trial registry
entries from <https://ClinicalTrials.gov>. Package functionality
and implementation for v 1.0.0 is documented in Carlisle (2022)
<DOI:10.1371/journal.pone.0270909>.
Author: Benjamin Gregory Carlisle [aut, cre]
Maintainer: Benjamin Gregory Carlisle <murph@bgcarlisle.com>
Diff between cthist versions 2.1.9 dated 2024-06-01 and 2.1.10 dated 2024-07-09
DESCRIPTION | 8 ++++---- MD5 | 12 ++++++------ NEWS.md | 8 ++++++++ R/clinicaltrials_gov_download.R | 30 ++++++++++++++++++------------ build/partial.rdb |binary man/clinicaltrials_gov_download.Rd | 9 ++++++++- man/clinicaltrials_gov_version.Rd | 8 ++++---- 7 files changed, 48 insertions(+), 27 deletions(-)
Title: Compute and Plot Zonohedra from Vector Generators
Description: Computes a zonohedron from real vector generators. The package also computes zonogons (2D zonotopes) and zonosegs (1D zonotopes). An elementary S3 class for matroids is included, which supports matroids with rank 3, 2, and 1. Optimization methods are taken from Heckbert (1985) <https://www.cs.cmu.edu/~ph/zono.ps.gz>.
Author: Glenn Davis [aut, cre]
Maintainer: Glenn Davis <gdavis@gluonics.com>
Diff between zonohedra versions 0.2-2 dated 2023-05-31 and 0.3-0 dated 2024-07-09
DESCRIPTION | 8 MD5 | 80 +++++---- NEWS.md | 12 + R/matroid.R | 47 ++++- R/trans2.R | 40 ++++ build/vignette.rds |binary inst/doc/matroids.R | 2 inst/doc/matroids.html | 22 +- inst/doc/raytrace.R | 32 +-- inst/doc/raytrace.Rmd | 16 - inst/doc/raytrace.html | 53 +++--- inst/doc/transitions.R | 18 +- inst/doc/transitions.Rmd | 11 - inst/doc/transitions.html | 156 ++++++++++++------- inst/doc/zonohedra-guide.R | 18 +- inst/doc/zonohedra-guide.Rmd | 8 inst/doc/zonohedra-guide.html | 156 ++++++++++++------- inst/doc/zonotopes.R | 8 inst/doc/zonotopes.Rmd | 19 +- inst/doc/zonotopes.html | 46 ++--- man/inside2trans.Rd | 36 ++-- src/CharSEXP.h | 2 src/area.c |only src/area.h |only src/clipping.c |only src/clipping.h |only src/dbl_dig.c | 2 src/dupAtomMatHash.cpp | 28 +-- src/init.c | 7 src/linking.c | 343 ------------------------------------------ src/linking2.c |only src/linking3.c |only src/matdat.c | 2 src/matroid.c | 223 ++++++++++++++------------- src/pgram.c | 59 +++---- src/trans2.c | 20 +- src/transitions.c | 10 - src/utils.c | 16 - src/zonohedron.c | 88 ++++++---- vignettes/bibliography.bib | 15 + vignettes/raytrace.Rmd | 16 - vignettes/transitions.Rmd | 11 - vignettes/zonohedra-guide.Rmd | 8 vignettes/zonotopes.Rmd | 19 +- 44 files changed, 779 insertions(+), 878 deletions(-)
Title: Tools for Summarising and Analysing Soundscape Data
Description: A variety of tools relevant to the analysis
of marine soundscape data. There are tools for downloading AIS (automatic identification system)
data from Marine Cadastre <https://marinecadastre.gov/ais/>,
connecting AIS data to GPS coordinates, plotting summaries of various soundscape
measurements, and downloading relevant environmental variables (wind, swell height) from the
National Center for Atmospheric Research data server <https://rda.ucar.edu/datasets/ds084.1/>.
Most tools were developed to work well with output from 'Triton' software, but can be adapted
to work with any similar measurements.
Author: Taiki Sakai [aut, cre],
Anne Simonis [ctb],
Shannon Rankin [ctb],
Megan McKenna [ctb],
Kaitlin Palmer [ctb]
Maintainer: Taiki Sakai <taiki.sakai@noaa.gov>
Diff between PAMscapes versions 0.5.8 dated 2024-06-11 and 0.6.0 dated 2024-07-09
DESCRIPTION | 6 ++-- MD5 | 36 +++++++++++++------------- NAMESPACE | 4 ++ NEWS.md | 8 +++++ R/checkSoundscapeInput.R | 4 +- R/downloadMarCadAIS.R | 7 ++--- R/loadMantaNc.R | 56 +++++++++++++++++++++++++++++++++++++---- R/matchGFS.R | 5 ++- R/plotAcousticScene.R | 9 +++++- R/plotHourlyLevel.R | 13 ++++++--- R/plotLTSA.R |only R/plotPSD.R | 23 ++++++++++------ R/plotTimeseries.R | 47 +++++++++++++--------------------- R/utils.R | 55 ++++++++++++++++++++++++++-------------- man/downloadMarCadAIS.Rd | 7 ++--- man/plotAcousticScene.Rd | 3 ++ man/plotHourlyLevel.Rd | 2 - man/plotLTSA.Rd |only man/plotTimeseries.Rd | 2 - tests/testthat/test-dataprep.R | 3 ++ 20 files changed, 190 insertions(+), 100 deletions(-)
Title: Stable Balancing Weights for Causal Inference and Missing Data
Description: Implements the Stable Balancing Weights by Zubizarreta (2015) <DOI:10.1080/01621459.2015.1023805>. These are the weights of minimum variance that approximately balance the empirical distribution of the observed covariates. For an overview, see Chattopadhyay, Hase and Zubizarreta (2020) <DOI:10.1002/sim.8659>. To solve the optimization problem in 'sbw', the default solver is 'quadprog', which is readily available through CRAN. The solver 'osqp' is also posted on CRAN. To enhance the performance of 'sbw', users are encouraged to install other solvers such as 'gurobi' and 'Rmosek', which require special installation. For the installation of gurobi and pogs, please follow the instructions at <https://www.gurobi.com/documentation/current/refman/r_ins_the_r_package.html> and <http://foges.github.io/pogs/stp/r>.
Author: Jose R. Zubizarreta [aut, cre],
Yige Li [aut],
Kwangho Kim [aut],
Amine Allouah [ctb],
Noah Greifer [ctb]
Maintainer: Jose R. Zubizarreta <zubizarreta@hcp.med.harvard.edu>
Diff between sbw versions 1.1.5 dated 2021-09-22 and 1.1.8 dated 2024-07-09
DESCRIPTION | 15 ++++++------ MD5 | 34 ++++++++++++++--------------- NAMESPACE | 2 - R/data.R | 4 +-- R/estimate.R | 42 ++++++++++++++++++------------------ R/propar.R | 8 ++++-- R/sbw.R | 64 +++++++++++++++++++++++++++++++------------------------ R/sbwauxfix.R | 16 +++++++------ R/sbwcaufix.R | 8 +++--- R/sbwcautun.R | 8 +++--- R/sbwfix.R | 2 - R/sbwpri.R | 43 ++++++++++++++++++------------------ R/sbwtun.R | 2 - R/summarize.R | 22 +++++++++--------- R/visualize.R | 22 +++++++++--------- man/lalonde.Rd | 8 ++++-- man/sbw.Rd | 49 ++++++++++++++++++++++-------------------- man/summarize.Rd | 10 ++++---- 18 files changed, 189 insertions(+), 170 deletions(-)
Title: Automated Cleaning of Fossil Occurrence Data
Description: Functions to automate the detection and resolution of taxonomic and stratigraphic errors in fossil occurrence datasets. Functions were developed using data from the Paleobiology Database.
Author: Joe Flannery-Sutherland [aut, cre]
,
Nussaibah Raja-Schoob [aut, ctb],
Adam Kocsis [aut, ctb],
Wolfgang Kiessling [aut]
Maintainer: Joe Flannery-Sutherland <jf15558@bristol.ac.uk>
Diff between fossilbrush versions 1.0.3 dated 2022-07-21 and 1.0.5 dated 2024-07-09
fossilbrush-1.0.3/fossilbrush/R/GTS2020.R |only fossilbrush-1.0.3/fossilbrush/R/GTS2020_changelog.R |only fossilbrush-1.0.3/fossilbrush/R/get_pbdb.R |only fossilbrush-1.0.3/fossilbrush/data/GTS2020.rda |only fossilbrush-1.0.3/fossilbrush/data/GTS2020_changelog.rda |only fossilbrush-1.0.3/fossilbrush/man/GTS2020.Rd |only fossilbrush-1.0.3/fossilbrush/man/GTS2020_changelog.Rd |only fossilbrush-1.0.3/fossilbrush/man/get_pbdb.Rd |only fossilbrush-1.0.5/fossilbrush/DESCRIPTION | 12 fossilbrush-1.0.5/fossilbrush/MD5 | 49 fossilbrush-1.0.5/fossilbrush/NAMESPACE | 4 fossilbrush-1.0.5/fossilbrush/R/GTS_2020.R |only fossilbrush-1.0.5/fossilbrush/R/GTS_2020_changelog.R |only fossilbrush-1.0.5/fossilbrush/R/add_itp.R | 144 - fossilbrush-1.0.5/fossilbrush/R/age_ranges.R | 210 +- fossilbrush-1.0.5/fossilbrush/R/check_taxonomy.R | 1005 +++++----- fossilbrush-1.0.5/fossilbrush/R/chrono_scale.R | 337 +-- fossilbrush-1.0.5/fossilbrush/R/densify.R | 4 fossilbrush-1.0.5/fossilbrush/R/format_check.R | 154 - fossilbrush-1.0.5/fossilbrush/R/spell_check.R | 519 ++--- fossilbrush-1.0.5/fossilbrush/build/vignette.rds |binary fossilbrush-1.0.5/fossilbrush/data/GTS_2020.rda |only fossilbrush-1.0.5/fossilbrush/data/GTS_2020_changelog.rda |only fossilbrush-1.0.5/fossilbrush/inst/CITATION |only fossilbrush-1.0.5/fossilbrush/inst/doc/fossilbrush_vignette.R | 6 fossilbrush-1.0.5/fossilbrush/inst/doc/fossilbrush_vignette.Rmd | 14 fossilbrush-1.0.5/fossilbrush/inst/doc/fossilbrush_vignette.pdf |binary fossilbrush-1.0.5/fossilbrush/man/GTS_2020.Rd |only fossilbrush-1.0.5/fossilbrush/man/GTS_2020_changelog.Rd |only fossilbrush-1.0.5/fossilbrush/man/add_itp.Rd | 2 fossilbrush-1.0.5/fossilbrush/man/check_taxonomy.Rd | 8 fossilbrush-1.0.5/fossilbrush/man/chrono_scale.Rd | 6 fossilbrush-1.0.5/fossilbrush/vignettes/fossilbrush_vignette.Rmd | 14 33 files changed, 1255 insertions(+), 1233 deletions(-)
Title: Causal Effect Identification from Multiple Incomplete Data
Sources
Description: Identification of causal effects from arbitrary observational and
experimental probability distributions via do-calculus and standard
probability manipulations using a search-based algorithm by
Tikka, Hyttinen and Karvanen (2021) <doi:10.18637/jss.v099.i05>.
Allows for the presence of mechanisms related to selection bias
(Bareinboim and Tian, 2015) <doi:10.1609/aaai.v29i1.9679>,
transportability (Bareinboim and Pearl, 2014)
<http://ftp.cs.ucla.edu/pub/stat_ser/r443.pdf>,
missing data (Mohan, Pearl, and Tian, 2013)
<http://ftp.cs.ucla.edu/pub/stat_ser/r410.pdf>) and arbitrary combinations
of these. Also supports identification in the presence of context-specific
independence (CSI) relations through labeled directed acyclic graphs
(LDAG). For details on CSIs see (Corander et al., 2019)
<doi:10.1016/j.apal.2019.04.004>.
Author: Santtu Tikka [aut, cre] ,
Antti Hyttinen [ctb] ,
Juha Karvanen [ctb]
Maintainer: Santtu Tikka <santtuth@gmail.com>
Diff between dosearch versions 1.0.8 dated 2021-08-19 and 1.0.10 dated 2024-07-09
dosearch-1.0.10/dosearch/DESCRIPTION | 39 dosearch-1.0.10/dosearch/MD5 | 75 dosearch-1.0.10/dosearch/NAMESPACE | 19 dosearch-1.0.10/dosearch/NEWS.md |only dosearch-1.0.10/dosearch/R/RcppExports.R | 54 dosearch-1.0.10/dosearch/R/dosearch-package.R |only dosearch-1.0.10/dosearch/R/dosearch.R | 951 +++++++-- dosearch-1.0.10/dosearch/R/internal.R | 1346 +++--------- dosearch-1.0.10/dosearch/R/internal_dag.R |only dosearch-1.0.10/dosearch/R/internal_ldag.R |only dosearch-1.0.10/dosearch/R/srr-stats-standards.R |only dosearch-1.0.10/dosearch/build |only dosearch-1.0.10/dosearch/data/bivariate_missingness.rda |only dosearch-1.0.10/dosearch/inst/doc |only dosearch-1.0.10/dosearch/man/bivariate_missingness.Rd | 45 dosearch-1.0.10/dosearch/man/dosearch-package.Rd | 151 - dosearch-1.0.10/dosearch/man/dosearch.Rd | 497 +++- dosearch-1.0.10/dosearch/man/print.summary.dosearch.Rd |only dosearch-1.0.10/dosearch/src/csisearch.cpp | 1261 +++++------- dosearch-1.0.10/dosearch/src/csisearch.h | 83 dosearch-1.0.10/dosearch/src/dcongraph.cpp | 290 +- dosearch-1.0.10/dosearch/src/dcongraph.h | 89 dosearch-1.0.10/dosearch/src/derivation.cpp | 32 dosearch-1.0.10/dosearch/src/derivation.h | 20 dosearch-1.0.10/dosearch/src/dosearch.cpp | 1564 ++++++--------- dosearch-1.0.10/dosearch/src/dosearch.h | 87 dosearch-1.0.10/dosearch/src/initialize_csisearch.cpp | 226 +- dosearch-1.0.10/dosearch/src/initialize_dosearch.cpp | 194 - dosearch-1.0.10/dosearch/src/ldag.cpp | 537 ++--- dosearch-1.0.10/dosearch/src/ldag.h | 108 - dosearch-1.0.10/dosearch/src/search.cpp | 462 ++-- dosearch-1.0.10/dosearch/src/search.h | 123 - dosearch-1.0.10/dosearch/src/set.cpp | 54 dosearch-1.0.10/dosearch/src/set.h | 2 dosearch-1.0.10/dosearch/tests |only dosearch-1.0.10/dosearch/vignettes |only dosearch-1.0.8/dosearch/NEWS |only dosearch-1.0.8/dosearch/data/bivariate_missingness.RData |only dosearch-1.0.8/dosearch/man/get_benchmark.Rd |only dosearch-1.0.8/dosearch/man/get_derivation.Rd |only dosearch-1.0.8/dosearch/man/get_formula.Rd |only dosearch-1.0.8/dosearch/man/is_identifiable.Rd |only dosearch-1.0.8/dosearch/src/Makevars |only dosearch-1.0.8/dosearch/src/Makevars.win |only 44 files changed, 4102 insertions(+), 4207 deletions(-)
Title: Multiple Imputation for Recurrent Events
Description: Performs reference based multiple imputation of recurrent event data
based on a negative binomial regression model, as described
by Keene et al (2014) <doi:10.1002/pst.1624>.
Author: Nikolas Burkoff [aut],
Paul Metcalfe [aut],
Jonathan Bartlett [aut, cre],
David Ruau [aut]
Maintainer: Jonathan Bartlett <jonathan.bartlett1@lshtm.ac.uk>
Diff between dejaVu versions 0.3.0 dated 2021-04-27 and 0.3.1 dated 2024-07-09
DESCRIPTION | 12 MD5 | 148 ++-- NAMESPACE | 92 +- NEWS.md | 22 R/DropoutMechanism.R | 152 ++-- R/ImputeMechanism.R | 140 ++-- R/ImputeSim.R | 200 ++--- R/ImputeSimFit.R | 256 +++---- R/SingleSim.R | 492 +++++++------- R/SingleSimFit.R | 306 ++++---- R/common.R | 202 ++--- R/copyRefImpute.r | 152 ++-- R/data.r | 32 R/dejaData.R | 202 ++--- R/expander.R | 100 +- R/import.R | 436 ++++++------ R/internalSingleSim.R | 178 ++--- R/scenario.R | 362 +++++----- R/specificDropoutMechanisms.R | 222 +++--- R/specificImputeMechanisms.R | 250 +++---- R/uncertainty.R | 166 ++-- R/validate.R | 258 +++---- README.md | 67 - build/vignette.rds |binary inst/data-raw/genExampleData.r | 102 +- inst/doc/UserGuide.R | 696 +++++++++---------- inst/doc/UserGuide.Rnw | 1120 ++++++++++++++++---------------- inst/doc/UserGuide.pdf |binary inst/doc/analysingExistingDatasets.R | 82 +- inst/doc/analysingExistingDatasets.Rnw | 222 +++--- inst/doc/analysingExistingDatasets.pdf |binary man/ConstantRateDrop.Rd | 58 - man/CreateNewDropoutMechanism.Rd | 76 +- man/CreateNewImputeMechanism.Rd | 74 +- man/CreateScenario.Rd | 48 - man/DejaData.object.Rd | 46 - man/DropoutMechanism.object.Rd | 82 +- man/GetImputedDataSet.Rd | 66 - man/ImportSim.Rd | 150 ++-- man/Impute.Rd | 64 - man/ImputeMechanism.object.Rd | 80 +- man/ImputeSim.object.Rd | 60 - man/ImputeSimFit.object.Rd | 50 - man/LinearRateChangeDrop.Rd | 66 - man/MakeDejaData.Rd | 76 +- man/Scenario.object.Rd | 42 - man/Simfit.Rd | 84 +- man/SimulateComplete.Rd | 104 +- man/SimulateDropout.Rd | 66 - man/SingleSim.object.Rd | 86 +- man/SingleSimFit.object.Rd | 50 - man/copy_reference.Rd | 70 +- man/expandEventCount.Rd | 60 - man/extract_results.Rd | 52 - man/numberSubjects.Rd | 44 - man/simData.Rd | 56 - man/subjectsPerArm.Rd | 44 - man/summary.ImputeSimFit.object.Rd | 68 - man/summary.Scenario.object.Rd | 64 - man/summary.SingleSim.object.Rd | 50 - man/summary.SingleSimFit.Rd | 92 +- man/weighted_j2r.Rd | 110 +-- tests/classdiagram.Rmd | 82 +- tests/testthat.R | 6 tests/testthat/test-CopyReference.R | 266 +++---- tests/testthat/test-Impute.R | 492 +++++++------- tests/testthat/test-Scenario.R | 310 ++++---- tests/testthat/test-SimFit.R | 434 ++++++------ tests/testthat/test-SingleSim.R | 358 +++++----- tests/testthat/test-dejaData.R | 164 ++-- tests/testthat/test-expandEventCount.R | 172 ++-- tests/testthat/test-uncertainty.R | 154 ++-- vignettes/UserGuide.Rnw | 1120 ++++++++++++++++---------------- vignettes/analysingExistingDatasets.Rnw | 222 +++--- vignettes/userguide.bib | 10 75 files changed, 6304 insertions(+), 6293 deletions(-)
Title: Check User-Supplied Function Arguments
Description: For developers to check user-supplied function arguments. It
is designed to be simple, fast and customizable. Error messages
follow the tidyverse style guide.
Author: Joe Thorley [aut, cre] ,
Kirill Mueller [aut] ,
Ayla Pearson [aut] ,
Nadine Hussein [ctb] ,
Evan Amies-Galonski [ctb] ,
Poisson Consulting [cph, fnd]
Maintainer: Joe Thorley <joe@poissonconsulting.ca>
Diff between chk versions 0.9.1 dated 2023-10-05 and 0.9.2 dated 2024-07-09
DESCRIPTION | 8 +- LICENSE | 2 MD5 | 62 ++++++++++---------- NEWS.md | 6 + R/check-key.R | 4 - R/chk-join.R | 1 README.md | 11 ++- build/vignette.rds |binary inst/WORDLIST | 1 inst/doc/chk-families.html | 136 ++++++++++++++++++++++----------------------- inst/doc/chk.html | 4 - man/chk_all_equal.Rd | 4 - man/chk_all_equivalent.Rd | 4 - man/chk_all_identical.Rd | 4 - man/chk_count.Rd | 2 man/chk_double.Rd | 2 man/chk_environment.Rd | 2 man/chk_factor.Rd | 2 man/chk_gt.Rd | 2 man/chk_gte.Rd | 2 man/chk_integer.Rd | 2 man/chk_list.Rd | 2 man/chk_logical.Rd | 2 man/chk_lt.Rd | 2 man/chk_lte.Rd | 2 man/chk_number.Rd | 2 man/chk_range.Rd | 6 - man/chk_scalar.Rd | 2 man/chk_string.Rd | 2 man/chk_tz.Rd | 2 man/chk_whole_number.Rd | 2 man/p.Rd | 3 32 files changed, 151 insertions(+), 137 deletions(-)
Title: Query 'SWI'-'Prolog' from R
Description: This R package connects to SWI-Prolog, <https://www.swi-prolog.org/>, so that R can send deterministic and non-deterministic queries to prolog (consult, query/submit, once, findall).
Author: Matthias Gondan [aut, com, cre] ,
European Commission [fnd]
Maintainer: Matthias Gondan <Matthias.Gondan-Rochon@uibk.ac.at>
Diff between rolog versions 0.9.17 dated 2024-05-01 and 0.9.18 dated 2024-07-09
DESCRIPTION | 8 - MD5 | 10 +- NEWS.md | 6 + inst/doc/rolog.html | 34 +++---- src/Makevars | 2 src/crolog.cpp | 225 ++++++++++++++++++++++++++++------------------------ 6 files changed, 155 insertions(+), 130 deletions(-)
Title: Power Analyses for Interaction Effects in Cross-Sectional
Regressions
Description: Power analysis for regression models which test the interaction of
two or three independent variables on a single dependent variable. Includes options
for correlated interacting variables and specifying variable reliability.
Two-way interactions can include continuous, binary, or ordinal variables.
Power analyses can be done either analytically or via simulation. Includes
tools for simulating single data sets and visualizing power analysis results.
The primary functions are power_interaction_r2() and power_interaction() for two-way
interactions, and power_interaction_3way_r2() for three-way interactions.
Please cite as: Baranger DAA, Finsaas MC, Goldstein BL, Vize CE, Lynam DR,
Olino TM (2023). "Tutorial: Power analyses for interaction effects in
cross-sectional regressions." <doi:10.1177/25152459231187531>.
Author: David Baranger [aut, cre] ,
Brandon Goldstein [ctb],
Megan Finsaas [ctb],
Thomas Olino [ctb],
Colin Vize [ctb],
Don Lynam [ctb]
Maintainer: David Baranger <dbaranger@gmail.com>
Diff between InteractionPoweR versions 0.2.1 dated 2023-04-18 and 0.2.2 dated 2024-07-09
DESCRIPTION | 25 +++++++++-------- MD5 | 30 +++++++++++++-------- NAMESPACE | 41 ++++++++++++++++------------- NEWS.md | 14 +++++++++ R/generate_interaction.R | 24 ++++++++++++++++- R/plot_power_curve.R | 15 ++++++++++ R/plots.3way.R |only R/power_estimate.R | 46 +++++++++++++++++++++----------- R/power_interaction.R | 4 +- R/power_interaction_3way_r2.R |only R/power_interaction_r2.R | 48 +++++++++++++++++++++++----------- R/power_interaction_r2_covs.R |only README.md | 45 +++++++++++++++++-------------- inst/CITATION | 8 +++-- man/cor.mat.3way.Rd |only man/generate.interaction.cov.input.Rd |only man/power_interaction_3way_r2.Rd |only man/power_interaction_r2.Rd | 8 ++--- man/power_interaction_r2_covs.Rd |only man/simple.slopes.3way.Rd |only 20 files changed, 205 insertions(+), 103 deletions(-)
More information about InteractionPoweR at CRAN
Permanent link
Title: Wrangle and Analyze Growth Curve Data
Description: Easy wrangling and model-free analysis of
microbial growth curve data, as commonly output by plate readers.
Tools for reshaping common plate reader outputs into 'tidy' formats and
merging them with design information, making data easy to work with using
'gcplyr' and other packages. Also streamlines common growth curve
processing steps, like smoothing and calculating derivatives, and
facilitates model-free characterization and analysis of growth data.
See methods at <https://mikeblazanin.github.io/gcplyr/>.
Author: Mike Blazanin [aut, cre]
Maintainer: Mike Blazanin <mikeblazanin@gmail.com>
Diff between gcplyr versions 1.9.0 dated 2024-03-11 and 1.10.0 dated 2024-07-09
DESCRIPTION | 10 MD5 | 115 - NAMESPACE | 4 NEWS.md | 14 R/functions.R | 594 ++++++---- R/utility_functions.R | 5 README.md | 7 inst/CITATION | 12 inst/doc/gc01_gcplyr.pdf |binary inst/doc/gc02_import_reshape.pdf |binary inst/doc/gc03_incorporate_designs.pdf |binary inst/doc/gc04_preprocess_plot.pdf |binary inst/doc/gc05_process.pdf |binary inst/doc/gc06_analyze.R | 14 inst/doc/gc06_analyze.Rmd | 30 inst/doc/gc06_analyze.pdf |binary inst/doc/gc07_noise.pdf |binary inst/doc/gc08_conclusion.Rmd | 12 inst/doc/gc08_conclusion.pdf |binary inst/doc/gc09_multiple_plates.Rmd | 1 inst/doc/gc09_multiple_plates.pdf |binary inst/doc/gc10_using_make_design.pdf |binary man/CentroidFunctions.Rd |only man/ExtremaFunctions.Rd | 2 man/block_tidydesign.Rd | 2 man/calc_deriv.Rd | 4 man/first_peak.Rd | 4 man/gc_smooth.spline.Rd | 8 man/import_blockdesigns.Rd | 104 + man/import_blockmeasures.Rd | 20 man/make_design.Rd | 4 man/make_designpattern.Rd | 2 man/makemethod_train_smooth_data.Rd | 14 man/merge_dfs.Rd | 11 man/paste_blocks.Rd | 4 man/read_blocks.Rd | 40 man/read_tidys.Rd | 36 man/read_wides.Rd | 32 man/separate_tidy.Rd | 14 man/smooth_data.Rd | 27 man/train_smooth_data.Rd | 27 man/trans_block_to_wide.Rd | 4 man/trans_wide_to_tidy.Rd | 4 man/write_blocks.Rd | 4 tests/testthat/allfunctions_argumentsmatching_files/full_matches_ref.csv | 2 tests/testthat/allfunctions_argumentsmatching_files/gcplyr_function_subfunction_calls.csv | 4 tests/testthat/test_analysisfunctions.R | 48 tests/testthat/test_importfunctions.R | 30 vignettes/gc01_gcplyr.html | 60 - vignettes/gc02_import_reshape.html | 14 vignettes/gc03_incorporate_designs.html | 90 - vignettes/gc06_analyze.Rmd | 30 vignettes/gc06_analyze.html | 312 +++-- vignettes/gc07_noise.html | 16 vignettes/gc08_conclusion.Rmd | 12 vignettes/gc08_conclusion.html | 38 vignettes/gc09_multiple_plates.Rmd | 1 vignettes/gc09_multiple_plates.html | 90 - vignettes/gc10_using_make_design.html | 47 59 files changed, 1218 insertions(+), 761 deletions(-)
Title: Recursive Non-Additive Emulator for Multi-Fidelity Data
Description: Performs RNA emulation and active learning proposed by Heo and Sung (2024) <doi:10.1080/00401706.2024.2376173> for multi-fidelity computer experiments. The RNA emulator is particularly useful when the simulations with different fidelity level are nonlinearly correlated. The hyperparameters in the model are estimated by maximum likelihood estimation.
Author: Junoh Heo [aut, cre],
Chih-Li Sung [aut]
Maintainer: Junoh Heo <heojunoh@msu.edu>
Diff between RNAmf versions 0.1.2 dated 2024-03-22 and 1.0.0 dated 2024-07-09
DESCRIPTION | 8 +- MD5 | 39 +++++++------- NAMESPACE | 2 R/ALC.R | 48 ++++++++--------- R/ALD.R |only R/ALM.R | 61 ++++++++++------------ R/ALMC.R | 70 +++++++++++--------------- R/GP.R | 13 ++-- R/NestedX.R | 2 R/RNAmf_three_level.R | 2 R/RNAmf_two_level.R | 2 R/matGP.R | 12 ++-- R/predict.RNAmf.R | 126 +++++++++++++++++++++++------------------------ build |only man/ALC_RNAmf.Rd | 6 +- man/ALD_RNAmf.Rd |only man/ALMC_RNAmf.Rd | 8 +- man/ALM_RNAmf.Rd | 7 +- man/NestedX.Rd | 2 man/RNAmf_three_level.Rd | 2 man/RNAmf_two_level.Rd | 2 man/predict.Rd | 2 22 files changed, 206 insertions(+), 208 deletions(-)
Title: A Shiny App for Design of Experiments in Life Sciences
Description: A shiny design of experiments (DOE) app that aids in the creation of traditional,
un-replicated, augmented and partially-replicated designs applied to agriculture,
plant breeding, forestry, animal and biological sciences.
Author: Didier Murillo [cre, aut],
Salvador Gezan [aut],
Ana Heilman [ctb],
Thomas Walk [ctb],
Johan Aparicio [ctb],
Matthew Seefeldt [ctb],
Jean-Marc Montpetit [ctb],
Richard Horsley [ctb],
North Dakota State University [cph]
Maintainer: Didier Murillo <didier.murilloflorez@ndsu.edu>
Diff between FielDHub versions 1.3.7 dated 2024-03-28 and 1.4.0 dated 2024-07-09
FielDHub-1.3.7/FielDHub/inst/doc/incomplete_blocks.R |only FielDHub-1.3.7/FielDHub/inst/doc/incomplete_blocks.Rmd |only FielDHub-1.3.7/FielDHub/inst/doc/incomplete_blocks.html |only FielDHub-1.3.7/FielDHub/inst/doc/rectangular_lattice.R |only FielDHub-1.3.7/FielDHub/inst/doc/rectangular_lattice.Rmd |only FielDHub-1.3.7/FielDHub/inst/doc/rectangular_lattice.html |only FielDHub-1.3.7/FielDHub/inst/doc/square_lattice.R |only FielDHub-1.3.7/FielDHub/inst/doc/square_lattice.Rmd |only FielDHub-1.3.7/FielDHub/inst/doc/square_lattice.html |only FielDHub-1.3.7/FielDHub/vignettes/incomplete_blocks.Rmd |only FielDHub-1.3.7/FielDHub/vignettes/rectangular_lattice.Rmd |only FielDHub-1.3.7/FielDHub/vignettes/square_lattice.Rmd |only FielDHub-1.4.0/FielDHub/DESCRIPTION | 8 FielDHub-1.4.0/FielDHub/MD5 | 85 ++-- FielDHub-1.4.0/FielDHub/R/app_ui.R | 2 FielDHub-1.4.0/FielDHub/R/fct_alpha_lattice.R | 3 FielDHub-1.4.0/FielDHub/R/fct_do_optim.R | 17 FielDHub-1.4.0/FielDHub/R/fct_incomplete_blocks.R | 54 -- FielDHub-1.4.0/FielDHub/R/fct_rectangular_lattice.R | 3 FielDHub-1.4.0/FielDHub/R/fct_square_lattice.R | 7 FielDHub-1.4.0/FielDHub/R/globals.R | 2 FielDHub-1.4.0/FielDHub/R/ibd_reorder_treatments.R |only FielDHub-1.4.0/FielDHub/R/mod_Alpha_Lattice.R | 16 FielDHub-1.4.0/FielDHub/R/mod_IBD.R | 17 FielDHub-1.4.0/FielDHub/R/mod_RCBD_augmented.R | 218 ++++++++---- FielDHub-1.4.0/FielDHub/R/mod_Rectangular_Lattice.R | 16 FielDHub-1.4.0/FielDHub/R/mod_Square_Lattice.R | 18 FielDHub-1.4.0/FielDHub/R/mod_pREPS.R | 15 FielDHub-1.4.0/FielDHub/R/run_app.R | 5 FielDHub-1.4.0/FielDHub/R/utils_S3_methods.R | 22 + FielDHub-1.4.0/FielDHub/R/utils_diagonals_checks.R | 34 - FielDHub-1.4.0/FielDHub/R/utils_names_layout.R | 21 - FielDHub-1.4.0/FielDHub/R/utils_plot_RCBD.R | 14 FielDHub-1.4.0/FielDHub/R/utils_plot_diagonal_arrangement.R | 21 + FielDHub-1.4.0/FielDHub/R/utils_plot_iblocks_1.R | 32 + FielDHub-1.4.0/FielDHub/R/utils_plot_latinSQ.R | 9 FielDHub-1.4.0/FielDHub/R/utils_plot_layout.R | 2 FielDHub-1.4.0/FielDHub/R/utils_plot_splitPlots.R | 35 - FielDHub-1.4.0/FielDHub/build/vignette.rds |binary FielDHub-1.4.0/FielDHub/inst/doc/RCBD_augmented.html | 4 FielDHub-1.4.0/FielDHub/inst/doc/alpha_lattice.html | 47 +- FielDHub-1.4.0/FielDHub/inst/doc/diagonal_arrangement.html | 4 FielDHub-1.4.0/FielDHub/inst/doc/full_factorial.html | 2 FielDHub-1.4.0/FielDHub/inst/doc/multi_location_prep.html | 68 +-- FielDHub-1.4.0/FielDHub/inst/doc/optimized_arrangement.html | 46 +- FielDHub-1.4.0/FielDHub/inst/doc/partially_replicated.html | 5 FielDHub-1.4.0/FielDHub/inst/doc/rcbd.html | 2 FielDHub-1.4.0/FielDHub/inst/doc/row_column.html | 42 +- FielDHub-1.4.0/FielDHub/inst/doc/sparse_allocation.html | 26 - FielDHub-1.4.0/FielDHub/inst/doc/split_plot.html | 2 50 files changed, 556 insertions(+), 368 deletions(-)
Title: Multivariate t Distribution
Description: Distance between multivariate t distributions, as presented by N. Bouhlel and D. Rousseau (2023) <doi:10.1109/LSP.2023.3324594>.
Author: Pierre Santagostini [aut, cre],
Nizar Bouhlel [aut]
Maintainer: Pierre Santagostini <pierre.santagostini@agrocampus-ouest.fr>
Diff between mstudentd versions 1.0.0 dated 2024-03-22 and 1.1.1 dated 2024-07-09
mstudentd-1.0.0/mstudentd/README.md |only mstudentd-1.1.1/mstudentd/DESCRIPTION | 10 mstudentd-1.1.1/mstudentd/MD5 | 25 - mstudentd-1.1.1/mstudentd/NAMESPACE | 1 mstudentd-1.1.1/mstudentd/R/dlauricella.R |only mstudentd-1.1.1/mstudentd/R/kldstudent.R | 486 ++++------------------------ mstudentd-1.1.1/mstudentd/R/lauricella.R | 145 ++++++-- mstudentd-1.1.1/mstudentd/R/plotmtd.R | 8 mstudentd-1.1.1/mstudentd/R/rmtd.R | 2 mstudentd-1.1.1/mstudentd/build/partial.rdb |binary mstudentd-1.1.1/mstudentd/man/kldstudent.Rd | 10 mstudentd-1.1.1/mstudentd/man/plotmtd.Rd | 8 mstudentd-1.1.1/mstudentd/man/rmtd.Rd | 2 mstudentd-1.1.1/mstudentd/tests |only 14 files changed, 225 insertions(+), 472 deletions(-)
Title: Topographic and Geologic Mapping
Description: Set of routines for making map projections (forward and inverse), topographic maps, perspective plots, geological maps, geological map symbols, geological databases, interactive plotting and selection of focus regions.
Author: Jonathan M. Lees [aut, cre]
Maintainer: Jonathan M. Lees <jonathan.lees@unc.edu>
Diff between GEOmap versions 2.5-5 dated 2023-09-01 and 2.5-11 dated 2024-07-09
DESCRIPTION | 8 +-- MD5 | 100 ++++++++++++++++++++++++----------------------- R/DUMPLOC.R | 17 ++++--- R/Ellipsoidal.Distance.R | 4 - R/ExplodeSymbols.R | 61 +++++++++++++++++----------- R/GEOTOPO.R | 6 +- R/GEOmap.cat.R | 2 R/GEOmap.limit.R | 4 - R/GLOB.XY.R | 2 R/GlobeView.R | 2 R/KINOUT.R | 2 R/LLsmallcircMap.R |only R/LOCPOLIMAP.R | 6 +- R/LandSeaCol.R | 2 R/NoOverlap.R | 35 ++++++++-------- R/SELGEOmap.R | 9 ++-- R/XSECDEMg.R | 12 ++--- R/XSECEQ.R | 23 +++++----- R/XSECwin.R | 4 - R/XY.GLOB.R | 2 R/addLLXY.R | 2 R/addTIX.R | 4 - R/antipolygon.R | 46 +++++++++++++++++---- R/fixCoastwrap.R | 14 +++--- R/geoLEGEND.R | 2 R/insertNA.R | 4 - R/inside.R | 4 - R/jarea.R |only R/lambert.cc.ll.R | 10 ++-- R/lambert.cc.xy.R | 6 +- R/lambert.ea.ll.R | 10 ++-- R/lambert.ea.xy.R | 6 +- R/locworld.R | 2 R/mapTeleSeis.R | 10 ++-- R/maps2GEOmap.R | 3 - R/niceLLtix.R | 6 +- R/plotGEOmap.R | 12 ++--- R/plotGEOmapXY.R | 34 +++++++-------- R/plotworldmap.R | 2 R/polyintern.R | 2 R/printGEOinfo.R | 4 + R/printGEOmap.R | 6 +- R/projtype.R | 24 +++++------ R/rose.R | 8 +++ R/setMarkup.R | 8 +-- R/sqrTICXY.R | 6 +- R/stereo.sphr.ll.R | 2 R/stereo.sphr.xy.R | 4 - R/subsetTOPO.R | 4 - R/targetLL.R | 12 +++-- R/utmbox.R | 2 man/LLsmallcircMap.Rd |only man/jarea.Rd |only 53 files changed, 314 insertions(+), 246 deletions(-)
Title: Access and Harmonize Childfree Demographic Data
Description: Reads demographic data from a variety of public data sources, extracting and harmonizing variables useful for the study of childfree individuals. The identification of childfree individuals and those with other family statuses uses Neal & Neal's (2024) "A Framework for Studying Adults who Neither have Nor Want Children" <doi:10.1177/10664807231198869>; A pre-print is available at <doi:10.31234/osf.io/fa89m>.
Author: Zachary Neal [aut, cre] ,
Jennifer Watling Neal [aut]
Maintainer: Zachary Neal <zpneal@msu.edu>
Diff between childfree versions 0.0.1 dated 2024-04-05 and 0.0.2 dated 2024-07-09
DESCRIPTION | 8 MD5 | 40 ++-- NEWS.md | 5 R/childfree.R | 4 R/dhs.R | 129 ++++++++------ R/nsfg.R | 428 ++++++++++++++++++++++++++++++++++++++++++++++-- R/soss.R | 17 + README.md | 9 - build/partial.rdb |binary build/vignette.rds |binary inst/doc/childfree.Rmd | 4 inst/doc/childfree.html | 73 +++----- inst/doc/codebooks.Rmd | 51 +++-- inst/doc/codebooks.html | 147 ++++++++++------ man/childfree.Rd | 22 ++ man/dhs.Rd | 33 +-- man/figures/logo.png |binary man/nsfg.Rd | 7 man/soss.Rd | 6 vignettes/childfree.Rmd | 4 vignettes/codebooks.Rmd | 51 +++-- 21 files changed, 781 insertions(+), 257 deletions(-)
Title: Sorted L1 Penalized Estimation
Description: Efficient implementations for Sorted L-One Penalized Estimation
(SLOPE): generalized linear models regularized with the sorted L1-norm
(Bogdan et al. 2015). Supported models include
ordinary least-squares regression, binomial regression, multinomial
regression, and Poisson regression. Both dense and sparse predictor
matrices are supported. In addition, the package features predictor
screening rules that enable fast and efficient solutions to high-dimensional
problems.
Author: Johan Larsson [aut, cre] ,
Jonas Wallin [aut] ,
Malgorzata Bogdan [aut],
Ewout van den Berg [aut],
Chiara Sabatti [aut],
Emmanuel Candes [aut],
Evan Patterson [aut],
Weijie Su [aut],
Jakub Kala [aut],
Krystyna Grzesiak [aut],
Michal Burdukiewicz [aut [...truncated...]
Maintainer: Johan Larsson <johanlarsson@outlook.com>
Diff between SLOPE versions 0.5.0 dated 2022-06-09 and 0.5.1 dated 2024-07-09
SLOPE-0.5.0/SLOPE/build/partial.rdb |only SLOPE-0.5.1/SLOPE/DESCRIPTION | 28 SLOPE-0.5.1/SLOPE/MD5 | 73 - SLOPE-0.5.1/SLOPE/NEWS.md | 157 +- SLOPE-0.5.1/SLOPE/R/SLOPE.R | 9 SLOPE-0.5.1/SLOPE/R/predict.R | 2 SLOPE-0.5.1/SLOPE/R/sortedL1Prox.R | 2 SLOPE-0.5.1/SLOPE/R/utils.R | 13 SLOPE-0.5.1/SLOPE/README.md | 2 SLOPE-0.5.1/SLOPE/build/vignette.rds |binary SLOPE-0.5.1/SLOPE/inst/CITATION | 62 - SLOPE-0.5.1/SLOPE/inst/WORDLIST | 4 SLOPE-0.5.1/SLOPE/inst/doc/introduction.R | 6 SLOPE-0.5.1/SLOPE/inst/doc/introduction.Rmd | 2 SLOPE-0.5.1/SLOPE/inst/doc/introduction.html | 583 +++++++--- SLOPE-0.5.1/SLOPE/inst/doc/prox-algs.R | 4 SLOPE-0.5.1/SLOPE/inst/doc/prox-algs.html | 423 +++++-- SLOPE-0.5.1/SLOPE/man/SLOPE-package.Rd | 5 SLOPE-0.5.1/SLOPE/man/SLOPE.Rd | 7 SLOPE-0.5.1/SLOPE/man/sortedL1Prox.Rd | 2 SLOPE-0.5.1/SLOPE/src/Makevars | 1 SLOPE-0.5.1/SLOPE/src/SLOPE.h | 22 SLOPE-0.5.1/SLOPE/src/families/binomial.h | 2 SLOPE-0.5.1/SLOPE/src/families/family.h | 4 SLOPE-0.5.1/SLOPE/src/families/gaussian.h | 2 SLOPE-0.5.1/SLOPE/src/families/multinomial.h | 2 SLOPE-0.5.1/SLOPE/src/families/poisson.h | 2 SLOPE-0.5.1/SLOPE/src/prox.cpp | 19 SLOPE-0.5.1/SLOPE/src/standardize.cpp | 4 SLOPE-0.5.1/SLOPE/tests/testthat/_snaps/diagnostics/plotdiagnostics-in-test.svg | 14 SLOPE-0.5.1/SLOPE/tests/testthat/_snaps/plotting/binom-plot-trainedslope-in-test.svg | 12 SLOPE-0.5.1/SLOPE/tests/testthat/_snaps/plotting/plot-slope-in-test.svg | 110 - SLOPE-0.5.1/SLOPE/tests/testthat/_snaps/plotting/plot-slope-multinomial-in-test.svg | 80 - SLOPE-0.5.1/SLOPE/tests/testthat/_snaps/plotting/plot-slope-parameters-in-test.svg | 118 +- SLOPE-0.5.1/SLOPE/tests/testthat/_snaps/plotting/plot-trainedslope-in-test.svg | 16 SLOPE-0.5.1/SLOPE/tests/testthat/_snaps/plotting/q-plot-trainedslope-in-test.svg | 20 SLOPE-0.5.1/SLOPE/vignettes/SLOPE.bib | 45 SLOPE-0.5.1/SLOPE/vignettes/introduction.Rmd | 2 38 files changed, 1165 insertions(+), 694 deletions(-)
Title: Quick and Essential 'R' Tricks for Better Scripts
Description: The NOT functions, 'R' tricks and a compilation of some simple quick plus often used 'R' codes to improve your scripts. Improve the quality and reproducibility of 'R' scripts.
Author: Obinna Obianom [aut, cre],
Brice Richard [aut]
Maintainer: Obinna Obianom <idonshayo@gmail.com>
Diff between quickcode versions 0.8 dated 2024-04-06 and 0.9 dated 2024-07-09
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Title: An Interactive Introduction to Life Data Analysis
Description: An interactive introduction to Life Data Analysis that depends on 'WeibullR'
by David Silkworth and Jurgen Symynck (2022) <https://CRAN.R-project.org/package=WeibullR>,
a R package for Weibull Analysis, and 'learnr' by Garrick Aden-Buie et al. (2023)
<https://CRAN.R-project.org/package=learnr>, a framework for building interactive learning
modules in R.
Author: Paul Govan [aut, cre, cph]
Maintainer: Paul Govan <paul.govan2@gmail.com>
Diff between WeibullR.learnr versions 0.1.1 dated 2023-06-06 and 0.1.3 dated 2024-07-09
WeibullR.learnr-0.1.1/WeibullR.learnr/inst/learnr |only WeibullR.learnr-0.1.3/WeibullR.learnr/DESCRIPTION | 17 ++-- WeibullR.learnr-0.1.3/WeibullR.learnr/MD5 | 53 +++++++------- WeibullR.learnr-0.1.3/WeibullR.learnr/NAMESPACE | 7 + WeibullR.learnr-0.1.3/WeibullR.learnr/NEWS.md |only WeibullR.learnr-0.1.3/WeibullR.learnr/R/RAMR.learnr.R |only WeibullR.learnr-0.1.3/WeibullR.learnr/R/WeibullR.learnr.R | 2 WeibullR.learnr-0.1.3/WeibullR.learnr/R/availability.R |only WeibullR.learnr-0.1.3/WeibullR.learnr/R/lambda.R |only WeibullR.learnr-0.1.3/WeibullR.learnr/R/mtbf.R |only WeibullR.learnr-0.1.3/WeibullR.learnr/R/mttf.R |only WeibullR.learnr-0.1.3/WeibullR.learnr/R/reliability.R |only WeibullR.learnr-0.1.3/WeibullR.learnr/R/serviceability.R |only WeibullR.learnr-0.1.3/WeibullR.learnr/README.md |only WeibullR.learnr-0.1.3/WeibullR.learnr/inst/CITATION |only WeibullR.learnr-0.1.3/WeibullR.learnr/inst/paper |only WeibullR.learnr-0.1.3/WeibullR.learnr/inst/tutorials |only WeibullR.learnr-0.1.3/WeibullR.learnr/man/RAMR.learnr.Rd |only WeibullR.learnr-0.1.3/WeibullR.learnr/man/avail.Rd |only WeibullR.learnr-0.1.3/WeibullR.learnr/man/fr.Rd |only WeibullR.learnr-0.1.3/WeibullR.learnr/man/mtbf.Rd |only WeibullR.learnr-0.1.3/WeibullR.learnr/man/mttf.Rd |only WeibullR.learnr-0.1.3/WeibullR.learnr/man/rel.Rd |only WeibullR.learnr-0.1.3/WeibullR.learnr/man/serv.Rd |only 24 files changed, 44 insertions(+), 35 deletions(-)
More information about WeibullR.learnr at CRAN
Permanent link
Title: Open Perimetry Interface
Description: Implementation of the Open Perimetry Interface (OPI) for simulating and controlling visual field machines using R. The OPI is a standard for interfacing with visual field testing machines (perimeters) first started as an open source project with support of Haag-Streit in 2010. It specifies basic functions that allow many visual field tests to be constructed. As of February 2022 it is fully implemented on the Haag-Streit Octopus 900 and 'CrewT ImoVifa' ('Topcon Tempo') with partial implementations on the Centervue Compass, Kowa AP 7000 and Android phones. It also has a cousin: the R package 'visualFields', which has tools for analysing and manipulating visual field data.
Author: Andrew Turpin [cre, aut, cph] ,
David Lawson [ctb, cph],
Ivan Marin-Franch [ctb, cph],
Matthias Muller [ctb],
Jonathan Denniss [ctb, cph],
Astrid Zeman [ctb],
Giovanni Montesano [ctb]
Maintainer: Andrew Turpin <andrew.turpin@lei.org.au>
Diff between OPI versions 3.0.1 dated 2024-07-03 and 3.0.2 dated 2024-07-09
DESCRIPTION | 8 ++++---- MD5 | 10 +++++----- NEWS.md | 3 +++ R/ImoVifa.r | 30 +++++++++++++++++++----------- man/opiPresent_for_ImoVifa.Rd | 23 +++++++++++++---------- man/opiQueryDevice_for_ImoVifa.Rd | 6 ++++++ 6 files changed, 50 insertions(+), 30 deletions(-)