Title: Continuous Wavelet Transformation for Spectroscopy
Description: Fast application of Continuous Wavelet Transformation ('CWT') on time
series with special attention to spectroscopy. It is written using
data.table and 'C++' language and in some functions it is possible to
use parallel processing to speed-up the computation over samples. Currently,
only the second derivative of a Gaussian wavelet function is implemented.
Author: J. Antonio Guzman Q. [cre, aut, cph]
Maintainer: J. Antonio Guzman Q. <antguz06@gmail.com>
Diff between CWT versions 0.1.1 dated 2024-05-28 and 0.2.1 dated 2024-06-27
DESCRIPTION | 7 ++++--- MD5 | 22 ++++++++++++++-------- NAMESPACE | 1 + NEWS.md |only R/RcppExports.R | 4 ++++ R/resampling_FWHM.R |only README.md | 7 ++++++- man/CWT-package.Rd | 6 +++--- man/cwt.Rd | 4 +++- man/resampling_FWHM.Rd |only src/CWT.cpp | 17 +++++++---------- src/RcppExports.cpp | 16 ++++++++++++++++ src/resampling_FWHM.cpp |only src/resampling_FWHM.h |only tests/testthat/test-FWHM.R |only 15 files changed, 58 insertions(+), 26 deletions(-)
Title: Miscellaneous Extensions to 'ggplot2'
Description: Extensions to 'ggplot2' respecting the grammar of graphics
paradigm. Statistics: locate and tag peaks and valleys; label plot with the
equation of a fitted polynomial or other types of models; labels
with P-value, R^2 or adjusted R^2 or information criteria for fitted models;
label with ANOVA table for fitted models; label with summary for fitted
models. Model fit classes for which suitable methods are provided by package
'broom' and 'broom.mixed' are supported. Scales and stats to build volcano
and quadrant plots based on outcomes, fold changes, p-values and false
discovery rates.
Author: Pedro J. Aphalo [aut, cre] ,
Kamil Slowikowski [ctb] ,
Samer Mouksassi [ctb]
Maintainer: Pedro J. Aphalo <pedro.aphalo@helsinki.fi>
Diff between ggpmisc versions 0.5.6 dated 2024-05-07 and 0.6.0 dated 2024-06-27
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files changed, 4194 insertions(+), 3622 deletions(-)
Title: Analysing 'SNP' and 'Silicodart' Data Generated by Genome-Wide
Restriction Fragment Analysis
Description: Facilitates the analysis of SNP (single nucleotide polymorphism)
and silicodart (presence/absence) data. 'dartR.popgen' provides a suit of
functions to analyse such data in a population genetics context. It provides
several functions to calculate population genetic metrics and to study
population structure. Quite a few functions need additional software to be
able to run (gl.run.structure(), gl.blast(), gl.LDNe()). You find detailed description
in the help pages how to download and link the packages so the function can
run the software. 'dartR.popgen' is part of the the 'dartRverse' suit of packages.
Gruber et al. (2018) <doi:10.1111/1755-0998.12745>.
Mijangos et al. (2022) <doi:10.1111/2041-210X.13918>.
Author: Bernd Gruber [aut, cre],
Arthur Georges [aut],
Jose L. Mijangos [aut],
Carlo Pacioni [aut],
Peter J. Unmack [ctb],
Oliver Berry [ctb],
Lindsay V. Clark [ctb],
Floriaan Devloo-Delva [ctb],
Eric Archer [ctb]
Maintainer: Bernd Gruber <bernd.gruber@canberra.edu.au>
Diff between dartR.popgen versions 0.32 dated 2023-11-21 and 1.0.0 dated 2024-06-27
DESCRIPTION | 12 - MD5 | 51 ++++---- NAMESPACE | 14 ++ R/gl.LDNe.r | 173 ++++++++++++++++++++++++++++ R/gl.blast.r | 133 ++++++++++------------ R/gl.ld.distance.r | 49 ++++---- R/gl.ld.haplotype.r | 154 +++++++++++++++++++------ R/gl.map.structure.r | 2 R/gl.plot.faststructure.r | 55 +++++++-- R/gl.plot.structure.r | 142 ++++++++++++++++------- R/gl.run.epos.R |only R/gl.run.faststructure.r | 21 +-- R/gl.run.stairway2.r |only R/gl.run.structure.r | 136 +++++++++++++++++++--- R/gl.sfs.r | 4 R/utils.clumpp.r | 2 R/utils.structure.run.r | 95 ++++++++++++++- build |only man/gl.LDNe.Rd | 41 ++++++ man/gl.blast.Rd | 2 man/gl.ld.distance.Rd | 171 ++++++++++++++-------------- man/gl.ld.haplotype.Rd | 259 +++++++++++++++++++++---------------------- man/gl.plot.faststructure.Rd | 229 +++++++++++++++++++------------------- man/gl.plot.structure.Rd | 17 ++ man/gl.run.epos.Rd |only man/gl.run.faststructure.Rd | 209 +++++++++++++++++----------------- man/gl.run.stairway2.Rd |only man/gl.run.structure.Rd | 115 ++++++++++++++++--- man/utils.structure.run.Rd | 182 +++++++++++++++++++++--------- 29 files changed, 1522 insertions(+), 746 deletions(-)
Title: Regularized Linear Models
Description: Algorithms compute robust estimators for loss functions in the concave convex (CC) family by the iteratively reweighted convex optimization (IRCO), an extension of the iteratively reweighted least squares (IRLS). The IRCO reduces the weight of the observation that leads to a large loss; it also provides weights to help identify outliers. Applications include robust (penalized) generalized linear models and robust support vector machines. The package also contains penalized Poisson, negative binomial, zero-inflated Poisson, zero-inflated negative binomial regression models and robust models with non-convex loss functions. Wang et al. (2014) <doi:10.1002/sim.6314>,
Wang et al. (2015) <doi:10.1002/bimj.201400143>,
Wang et al. (2016) <doi:10.1177/0962280214530608>,
Wang (2021) <doi:10.1007/s11749-021-00770-2>,
Wang (2024) <doi:10.1111/anzs.12409>.
Author: Zhu Wang, with contributions from Achim Zeileis, Simon Jackman, Brian Ripley, and Patrick Breheny
Maintainer: Zhu Wang <zwang145@uthsc.edu>
Diff between mpath versions 0.4-2.25 dated 2024-03-09 and 0.4-2.26 dated 2024-06-27
DESCRIPTION | 10 +++++----- MD5 | 33 +++++++++++++++++---------------- NAMESPACE | 1 - NEWS | 4 ++-- R/balanced.folds.R |only R/cv.glmreg.R | 2 +- R/cv.irglmreg.R | 2 +- R/cv.irsvm.R | 2 +- R/cv.nclreg.R | 2 +- build/partial.rdb |binary inst/COPYRIGHTS | 4 ++++ inst/doc/brcancer.pdf |binary inst/doc/kkt.pdf |binary inst/doc/static_brcancer.pdf |binary inst/doc/static_german.pdf |binary inst/doc/static_irglmExample.pdf |binary inst/doc/static_irsvmExample.pdf |binary man/mpath-internal.Rd | 3 ++- 18 files changed, 34 insertions(+), 29 deletions(-)
Title: Tools for Spatial Data
Description: For curve, surface and function fitting with an emphasis
on splines, spatial data, geostatistics, and spatial statistics. The major methods
include cubic, and thin plate splines, Kriging, and compactly supported
covariance functions for large data sets. The splines and Kriging methods are
supported by functions that can determine the smoothing parameter
(nugget and sill variance) and other covariance function parameters by cross
validation and also by restricted maximum likelihood. For Kriging
there is an easy to use function that also estimates the correlation
scale (range parameter). A major feature is that any covariance function
implemented in R and following a simple format can be used for
spatial prediction. There are also many useful functions for plotting
and working with spatial data as images. This package also contains
an implementation of sparse matrix methods for large spatial data
sets and currently requires the sparse matrix (spam) package. Use
help(fields) to get star [...truncated...]
Author: Douglas Nychka [aut, cre],
Reinhard Furrer [aut],
John Paige [aut],
Stephan Sain [aut],
Florian Gerber [aut],
Matthew Iverson [aut],
Rider Johnson [aut]
Maintainer: Douglas Nychka <douglasnychka@gmail.com>
Diff between fields versions 15.2 dated 2023-08-17 and 16.2 dated 2024-06-27
DESCRIPTION | 16 MD5 | 587 ++++++++++++++++----------------- R/BD.R | 4 R/ChicagoO3.R | 4 R/Exponential.R | 28 - R/ExponentialUpper.R | 4 R/Krig.R | 4 R/Krig.family.R | 11 R/KrigFindLambda.R | 4 R/Matern.R | 4 R/Matern.parameters.R | 4 R/Paciorek.cov.R | 4 R/QSreg.R | 4 R/QTps.R | 4 R/RMprecip.R | 4 R/RadialBasis.R | 4 R/RdistEarth.R | 4 R/SUBSCRIPTINGSpatialDesign.R | 4 R/Tps.R | 4 R/US.R | 4 R/add.image.R | 4 R/addColorBarTriangle.R | 4 R/addLegend.R | 4 R/addMarginsGridList.R | 4 R/arrow.plot.R | 4 R/as.image.R | 4 R/as.surface.R | 4 R/bisection.search.R | 4 R/bplot.family.R | 4 R/bubblePlot.R | 25 + R/cat.matrix.R | 4 R/cat.to.list.R | 4 R/ceiling2.R | 4 R/circulantEmbedding.R | 4 R/circulantEmbeddingSetup.R | 4 R/coef.Krig.R | 4 R/color.scale.R | 4 R/colorBar.R | 4 R/colorbar.plot.R | 4 R/compactToMat.R | 4 R/confidenceIntervalMLE.R | 4 R/cover.design.R | 4 R/cubic.cov.R | 4 R/describe.R | 4 R/discretize.image.R | 4 R/double.exp.R | 4 R/drape.color.R | 4 R/drape.plot.R | 4 R/dyadic.2check.R | 4 R/dyadic.check.R | 4 R/envelopePlot.R | 4 R/evlpoly.R | 4 R/evlpoly2.R | 4 R/exp.cov.R | 6 R/exp.earth.cov.R | 4 R/exp.image.cov.R | 4 R/exp.simple.cov.R | 4 R/fast.1way.R | 4 R/fastTps.R | 4 R/fields.color.picker.R | 4 R/fields.convert.grid.R | 4 R/fields.derivative.poly.R | 4 R/fields.duplicated.matrix.R | 4 R/fields.mkpoly.R | 4 R/fields.rdist.near.R | 4 R/fields.style.R | 4 R/fields.x.to.grid.R | 4 R/fillGrid.R |only R/find.upcross.R | 4 R/findGridBox.R |only R/fitted.Krig.R | 4 R/flame.R | 4 R/gauss.cov.R | 4 R/gcv.sreg.R | 4 R/golden.section.search.R | 4 R/image.family.R | 4 R/image.plot.R | 4 R/image.smooth.R | 4 R/imagePlot.R | 4 R/imagePlotOLD.R | 4 R/in.poly.R | 4 R/interp.surface.FFT.R |only R/interp.surface.R | 4 R/interp.surface.grid.R | 4 R/larry.colors.R | 4 R/mKrig.R | 52 ++ R/mKrigCheckXY.R | 4 R/mKrigFastPredict.R | 4 R/mKrigFastPredictSetup.R | 4 R/mKrigMLEGrid.R | 12 R/mKrigMLEJoint.R | 25 - R/mKrigMisc.R | 13 R/make.surface.grid.R | 4 R/makeMultiIndex.R | 4 R/matern.image.cov.R | 4 R/minimax.crit.R | 4 R/minitri.R | 4 R/multWendlandGrid.R | 4 R/offGridWeights.R | 5 R/offGridWeights1D.R | 4 R/offGridWeights2D.R | 53 ++ R/parse.grid.list.R | 4 R/plot.Krig.R | 4 R/plot.spatialDesign.R | 4 R/plot.spatialProcess.R | 4 R/plot.sreg.R | 4 R/plot.surface.R | 4 R/plot.vgram.matrix.R | 4 R/plotMatrix.R |only R/poly.image.R | 4 R/predict.Krig.R | 4 R/predict.fastTps.R | 4 R/predict.interp.surface.R | 4 R/predict.mKrig.R | 4 R/predict.sreg.R | 4 R/predictDerivative.Krig.R | 4 R/predictSE.Krig.R | 4 R/predictSE.R | 4 R/predictSE.mKrig.R | 23 - R/predictSEUsingKrigA.R | 4 R/predictSurface.Krig.R | 4 R/predictSurface.family.R | 4 R/predictSurface.mKrig.R | 4 R/predictSurfaceSE.R | 4 R/print.Krig.R | 4 R/print.mKrig.R | 4 R/print.mKrig.summary.R | 4 R/print.spatial.design.R | 4 R/print.spatialProcess.R | 4 R/print.spatialProcessSummary.R | 4 R/print.sreg.R | 4 R/print.summary.Krig.R | 4 R/print.summary.sreg.R | 4 R/print.summarySpatialDesign.R | 4 R/printGCVWarnings.R | 4 R/profile.R | 4 R/profileCI.R | 4 R/profileMLE.R | 4 R/qr.q2ty.R | 4 R/qr.yq2.R | 4 R/qsreg.family.R | 4 R/quickPrint.R | 4 R/quilt.plot.R | 4 R/rad.cov.R | 4 R/rad.image.cov.R | 4 R/rad.simple.cov.R | 4 R/radbas.constant.R | 4 R/rat.diet.R | 4 R/rdist.R | 4 R/rdist.earth.R | 4 R/rdist.earth.vec.R | 4 R/rdist.vec.R | 4 R/residuals.Krig.R | 4 R/ribbon.plot.R | 4 R/set.panel.R | 4 R/setup.image.smooth.R | 4 R/setupLegend.R | 4 R/sim.Krig.R | 4 R/sim.rf.R | 4 R/sim.spatialProcess.R | 7 R/simLocal.spatialProcess.R | 4 R/simSpatialData.R | 4 R/smooth.2d.R | 4 R/snow.colors.R | 4 R/spam_2lz.R | 4 R/spatialProcess.R | 53 ++ R/spatialProcessSetDefaults.R | 27 + R/splint.R | 8 R/sreg.family.R | 8 R/stationary.cov.R | 16 R/stationary.image.cov.R | 4 R/stationary.taper.cov.R | 4 R/stats.R | 4 R/stats.bin.R | 4 R/summary.Krig.R | 4 R/summary.mKrig.R | 4 R/summary.ncdf.R | 4 R/summary.spatialDesign.R | 4 R/summary.spatialProcess.R | 7 R/summary.sreg.R | 4 R/summaryGCV.Krig.R | 4 R/summaryGCV.sreg.R | 4 R/supportsArg.R | 4 R/surface.family.R | 4 R/test.for.zero.R | 4 R/tim.colors.R | 4 R/transformx.R | 4 R/unrollZGrid.R | 4 R/unscale.R | 4 R/vgram.family.R | 4 R/vgram.matrix.R | 4 R/wendland.family.R | 4 R/wendland.image.cov.R | 4 R/which.max.matrix.R | 4 R/world.R | 4 R/xline.R | 4 R/yline.R | 4 data/NorthAmericanRainfall.rda |binary data/NorthAmericanRainfall2.rda |only data/datalist | 1 man/BD.Rd | 2 man/CO.Rd | 2 man/CO2.Rd | 2 man/CovarianceUpper.Rd | 2 man/Exponential.Rd | 12 man/FORTRAN.internal.Rd | 10 man/Krig.Amatrix.Rd | 2 man/Krig.Rd | 2 man/Krig.engine.default.Rd | 2 man/Krig.null.function.Rd | 2 man/Krig.replicates.Rd | 2 man/KrigFindLambda.Rd | 2 man/NorthAmericanRainfall.Rd | 60 ++- man/QTps.Rd | 2 man/RCMexample.Rd | 2 man/RMprecip.Rd | 2 man/Tps.Rd | 2 man/US.Rd | 2 man/US.dat.Rd | 2 man/Wendland.Rd | 2 man/WorldBank.Rd | 2 man/add.image.Rd | 2 man/arrow.plot.Rd | 2 man/as.image.Rd | 2 man/as.surface.Rd | 2 man/bplot.Rd | 2 man/bplot.xy.Rd | 2 man/colorbar.plot.Rd | 2 man/compactToMat.Rd | 2 man/cover.design.Rd | 5 man/drape.plot.Rd | 2 man/envelopePlot.Rd | 2 man/exp.cov.Rd | 9 man/fields-internal.Rd | 2 man/fields-stuff.Rd | 2 man/fields.Rd | 23 - man/fields.grid.Rd | 2 man/fields.hints.Rd | 2 man/fields.tests.Rd | 2 man/flame.Rd | 2 man/glacier.Rd | 2 man/grid.list.Rd | 2 man/image.cov.Rd | 2 man/image.plot.Rd | 2 man/image.smooth.Rd | 2 man/image2lz.Rd | 2 man/imagePlot.Rd | 64 ++- man/interp.surface.Rd | 58 ++- man/lennon.Rd | 2 man/mKrig.Rd | 18 - man/mKrigMLE.Rd | 2 man/minitri.Rd | 2 man/offGridWeights.Rd | 130 ++++--- man/ozone.Rd | 2 man/ozone2.Rd | 2 man/plot.Krig.Rd | 2 man/plot.surface.Rd | 2 man/poly.image.Rd | 2 man/predict.Krig.Rd | 2 man/predictSE.Krig.Rd | 2 man/predictSurface.Rd | 2 man/print.Krig.Rd | 2 man/pushpin.Rd | 2 man/qsreg.Rd | 8 man/quilt.plot.Rd | 26 - man/rat.diet.Rd | 2 man/rdist.Rd | 2 man/rdist.earth.Rd | 2 man/registeredC.Rd | 4 man/ribbon.plot.Rd | 2 man/set.panel.Rd | 2 man/sim.Krig.Rd | 13 man/sim.rf.Rd | 2 man/smooth.2d.Rd | 2 man/spam2lz.Rd | 2 man/spatialProcess.Rd | 19 - man/splint.Rd | 2 man/sreg.Rd | 2 man/stats.Rd | 2 man/stats.bin.Rd | 2 man/summary.Krig.Rd | 2 man/summary.ncdf.Rd | 2 man/supportsArg.Rd | 2 man/surface.Krig.Rd | 2 man/tim.colors.Rd | 8 man/transformx.Rd | 2 man/vgram.Rd | 2 man/vgram.matrix.Rd | 2 man/world.Rd | 2 man/xline.Rd | 2 man/yline.Rd | 2 src/fieldsF77Code.f | 2 src/init.c | 4 tests/cov.test.R | 4 tests/offGridWeights.test.R | 49 +- tests/offGridWeights.test.Rout.save | 21 - tests/offGridWeightsNEW.test.Rout.save | 11 297 files changed, 1344 insertions(+), 1039 deletions(-)
Title: P-Model
Description: Implements the P-model
(Stocker et al., 2020 <doi:10.5194/gmd-13-1545-2020>),
predicting acclimated parameters of the enzyme kinetics of C3 photosynthesis,
assimilation, and dark respiration rates as a function of the environment
(temperature, CO2, vapour pressure deficit, light, atmospheric pressure).
Author: Benjamin Stocker [aut, cre] ,
Koen Hufkens [ctb]
Maintainer: Benjamin Stocker <benjamin.stocker@gmail.com>
Diff between rpmodel versions 1.2.0 dated 2021-06-09 and 1.2.3 dated 2024-06-27
rpmodel-1.2.0/rpmodel/man/gammastar.Rd |only rpmodel-1.2.0/rpmodel/man/kmm.Rd |only rpmodel-1.2.0/rpmodel/man/patm.Rd |only rpmodel-1.2.0/rpmodel/man/soilmstress.Rd |only rpmodel-1.2.3/rpmodel/DESCRIPTION | 19 rpmodel-1.2.3/rpmodel/MD5 | 40 rpmodel-1.2.3/rpmodel/NAMESPACE | 8 rpmodel-1.2.3/rpmodel/R/rpmodel.R | 176 - rpmodel-1.2.3/rpmodel/R/subroutines.R | 186 - rpmodel-1.2.3/rpmodel/build/vignette.rds |binary rpmodel-1.2.3/rpmodel/inst/CITATION | 6 rpmodel-1.2.3/rpmodel/inst/doc/functional_dependencies.R |only rpmodel-1.2.3/rpmodel/inst/doc/functional_dependencies.Rmd |only rpmodel-1.2.3/rpmodel/inst/doc/functional_dependencies.html |only rpmodel-1.2.3/rpmodel/inst/doc/usage.R | 34 rpmodel-1.2.3/rpmodel/inst/doc/usage.Rmd | 67 rpmodel-1.2.3/rpmodel/inst/doc/usage.html | 1293 +++++----- rpmodel-1.2.3/rpmodel/man/calc_gammastar.Rd |only rpmodel-1.2.3/rpmodel/man/calc_kmm.Rd |only rpmodel-1.2.3/rpmodel/man/calc_patm.Rd |only rpmodel-1.2.3/rpmodel/man/calc_soilmstress.Rd |only rpmodel-1.2.3/rpmodel/man/ftemp_kphio.Rd | 8 rpmodel-1.2.3/rpmodel/man/rpmodel.Rd | 61 rpmodel-1.2.3/rpmodel/tests/testthat/test_model_runs.R | 29 rpmodel-1.2.3/rpmodel/tests/testthat/test_support_functions.R | 4 rpmodel-1.2.3/rpmodel/vignettes/functional_dependencies.Rmd |only rpmodel-1.2.3/rpmodel/vignettes/usage.Rmd | 67 27 files changed, 1122 insertions(+), 876 deletions(-)
Title: Ergonomic Methods for Assessing Spatial Models
Description: Assessing predictive models of spatial data can be
challenging, both because these models are typically built for
extrapolating outside the original region represented by training data
and due to potential spatially structured errors, with "hot spots" of
higher than expected error clustered geographically due to spatial
structure in the underlying data. Methods are provided for assessing
models fit to spatial data, including approaches for measuring the
spatial structure of model errors, assessing model predictions at
multiple spatial scales, and evaluating where predictions can be made
safely. Methods are particularly useful for models fit using the
'tidymodels' framework. Methods include Moran's I ('Moran' (1950)
<doi:10.2307/2332142>), Geary's C ('Geary' (1954)
<doi:10.2307/2986645>), Getis-Ord's G ('Ord' and 'Getis' (1995)
<doi:10.1111/j.1538-4632.1995.tb00912.x>), agreement coefficients from
'Ji' and Gallo (2006) (<doi: 10.14358/PERS.72.7.823>), agreement
m [...truncated...]
Author: Michael Mahoney [aut, cre] ,
Lucas Johnson [ctb] ,
Virgilio Gomez-Rubio [rev] for rOpenSci, see
<https://github.com/ropensci/software-review/issues/571>),
Jakub Nowosad [rev] for
rOpenSci, see
<https://github.com/ropensci/software-review/issues/571 [...truncated...]
Maintainer: Michael Mahoney <mike.mahoney.218@gmail.com>
Diff between waywiser versions 0.5.1 dated 2023-10-31 and 0.6.0 dated 2024-06-27
DESCRIPTION | 8 MD5 | 40 NEWS.md | 16 R/misc_yardstick.R | 6 R/multi_scale.R | 58 build/partial.rdb |binary build/vignette.rds |binary inst/doc/multi-scale-assessment.html | 14 inst/doc/residual-autocorrelation.html | 8 inst/doc/waywiser.html | 6 man/ww_multi_scale.Rd | 2 tests/testthat/_snaps/misc.md | 3 tests/testthat/_snaps/srr-ww_global_geary_c.md | 4 tests/testthat/_snaps/srr-ww_global_moran_i.md | 4 tests/testthat/_snaps/srr-ww_local_geary_c.md | 993 ++++++--------- tests/testthat/_snaps/srr-ww_local_geary_pvalue.md | 993 ++++++--------- tests/testthat/_snaps/srr-ww_local_getis_ord_g.md | 993 ++++++--------- tests/testthat/_snaps/srr-ww_local_getis_ord_g_pvalue.md | 993 ++++++--------- tests/testthat/_snaps/srr-ww_local_moran_i.md | 993 ++++++--------- tests/testthat/_snaps/srr-ww_local_moran_pvalue.md | 993 ++++++--------- tests/testthat/test-multi_scale.R | 120 + 21 files changed, 2803 insertions(+), 3444 deletions(-)
Title: Efficiently Retrieve and Process Satellite Imagery
Description: Downloads spatial data from spatiotemporal asset catalogs
('STAC'), computes standard spectral indices from the Awesome Spectral
Indices project (Montero et al. (2023) <doi:10.1038/s41597-023-02096-0>)
against raster data, and glues the outputs together into predictor bricks.
Methods focus on interoperability with the broader spatial ecosystem;
function arguments and outputs use classes from 'sf' and 'terra', and data
downloading functions support complex 'CQL2' queries using 'rstac'.
Author: Michael Mahoney [aut, cre] ,
Permian Global [cph, fnd]
Maintainer: Michael Mahoney <mike.mahoney.218@gmail.com>
Diff between rsi versions 0.2.0 dated 2024-03-29 and 0.2.1 dated 2024-06-27
DESCRIPTION | 8 +- MD5 | 37 +++++------ NAMESPACE | 1 NEWS.md | 19 +++++ R/calculate_indices.R | 103 +++++++++++++++++++++----------- R/misc.R | 16 ++++ R/stack_rasters.R | 12 ++- README.md | 33 +++++----- build/partial.rdb |binary build/vignette.rds |binary inst/CITATION |only inst/doc/rsi.Rmd | 8 ++ inst/doc/rsi.html | 16 ++++ man/calculate_indices.Rd | 31 ++++++++- man/stack_rasters.Rd | 11 ++- tests/testthat/_snaps/misc.md | 11 +++ tests/testthat/test-calculate_indices.R | 26 ++++++++ tests/testthat/test-get_stac_data.R | 8 +- tests/testthat/test-misc.R | 8 ++ vignettes/rsi.Rmd | 8 ++ 20 files changed, 268 insertions(+), 88 deletions(-)
Title: Interface to the 'Zoltar' Forecast Repository API
Description: 'Zoltar' <https://www.zoltardata.com/> is a website that provides a repository of model forecast results
in a standardized format and a central location. It supports storing, retrieving, comparing, and analyzing time
series forecasts for prediction challenges of interest to the modeling community. This package provides functions
for working with the 'Zoltar' API, including connecting and authenticating, getting meta information (projects,
models, and forecasts, and truth), and uploading, downloading, and deleting forecast and truth data.
Author: Matthew Cornell [aut, cre],
Nicholas Reich [aut, cph]
Maintainer: Matthew Cornell <cornell@umass.edu>
Diff between zoltr versions 0.5.1 dated 2020-04-14 and 1.0.1 dated 2024-06-27
zoltr-0.5.1/zoltr/R/upload-file-job.R |only zoltr-0.5.1/zoltr/man/scores.Rd |only zoltr-0.5.1/zoltr/man/truth.Rd |only zoltr-0.5.1/zoltr/man/upload_info.Rd |only zoltr-0.5.1/zoltr/man/upload_info_forecast_url.Rd |only zoltr-0.5.1/zoltr/tests/testthat/data/Docs_Example_Project-scores.csv |only zoltr-0.5.1/zoltr/tests/testthat/data/docs-ground-truth-validated.csv |only zoltr-0.5.1/zoltr/tests/testthat/data/upload-file-job-2.json |only zoltr-1.0.1/zoltr/DESCRIPTION | 19 zoltr-1.0.1/zoltr/MD5 | 164 +- zoltr-1.0.1/zoltr/NAMESPACE | 19 zoltr-1.0.1/zoltr/NEWS.md | 145 ++ zoltr-1.0.1/zoltr/R/cdc.R | 51 zoltr-1.0.1/zoltr/R/connection.R | 50 zoltr-1.0.1/zoltr/R/csv.R |only zoltr-1.0.1/zoltr/R/forecast.R | 63 zoltr-1.0.1/zoltr/R/job.R |only zoltr-1.0.1/zoltr/R/model.R | 147 +- zoltr-1.0.1/zoltr/R/project.R | 365 ++++- zoltr-1.0.1/zoltr/R/quantile.R |only zoltr-1.0.1/zoltr/R/utils-pipe.R | 2 zoltr-1.0.1/zoltr/R/zoltr.R | 5 zoltr-1.0.1/zoltr/README.md | 82 - zoltr-1.0.1/zoltr/build/vignette.rds |binary zoltr-1.0.1/zoltr/inst/doc/getting-started.R | 37 zoltr-1.0.1/zoltr/inst/doc/getting-started.Rmd | 149 +- zoltr-1.0.1/zoltr/inst/doc/getting-started.html | 698 ++++++++-- zoltr-1.0.1/zoltr/inst/doc/project-owners.R | 36 zoltr-1.0.1/zoltr/inst/doc/project-owners.Rmd | 85 - zoltr-1.0.1/zoltr/inst/doc/project-owners.html | 498 +++++-- zoltr-1.0.1/zoltr/man/busy_poll_job.Rd |only zoltr-1.0.1/zoltr/man/create_model.Rd | 6 zoltr-1.0.1/zoltr/man/create_project.Rd | 6 zoltr-1.0.1/zoltr/man/create_timezero.Rd |only zoltr-1.0.1/zoltr/man/data_frame_from_forecast_data.Rd |only zoltr-1.0.1/zoltr/man/delete_forecast.Rd | 4 zoltr-1.0.1/zoltr/man/delete_model.Rd | 2 zoltr-1.0.1/zoltr/man/delete_project.Rd | 4 zoltr-1.0.1/zoltr/man/do_zoltar_query.Rd |only zoltr-1.0.1/zoltr/man/download_forecast.Rd | 6 zoltr-1.0.1/zoltr/man/edit_model.Rd |only zoltr-1.0.1/zoltr/man/forecast_data_from_cdc_csv_file.Rd | 8 zoltr-1.0.1/zoltr/man/forecast_data_from_cdc_data_frame.Rd | 8 zoltr-1.0.1/zoltr/man/forecast_info.Rd | 4 zoltr-1.0.1/zoltr/man/forecasts.Rd | 4 zoltr-1.0.1/zoltr/man/get_resource.Rd | 8 zoltr-1.0.1/zoltr/man/job_data.Rd |only zoltr-1.0.1/zoltr/man/job_info.Rd |only zoltr-1.0.1/zoltr/man/job_info_forecast_url.Rd |only zoltr-1.0.1/zoltr/man/latest_forecasts.Rd |only zoltr-1.0.1/zoltr/man/model_info.Rd | 4 zoltr-1.0.1/zoltr/man/models.Rd | 6 zoltr-1.0.1/zoltr/man/new_connection.Rd | 6 zoltr-1.0.1/zoltr/man/pipe.Rd | 2 zoltr-1.0.1/zoltr/man/project_info.Rd | 6 zoltr-1.0.1/zoltr/man/projects.Rd | 4 zoltr-1.0.1/zoltr/man/quantile_data_frame_from_forecast_data.Rd |only zoltr-1.0.1/zoltr/man/submit_query.Rd |only zoltr-1.0.1/zoltr/man/target_info.Rd | 6 zoltr-1.0.1/zoltr/man/targets.Rd | 6 zoltr-1.0.1/zoltr/man/timezero_info.Rd | 6 zoltr-1.0.1/zoltr/man/timezeros.Rd | 6 zoltr-1.0.1/zoltr/man/truth_info.Rd |only zoltr-1.0.1/zoltr/man/unit_info.Rd | 6 zoltr-1.0.1/zoltr/man/upload_forecast.Rd | 18 zoltr-1.0.1/zoltr/man/upload_truth.Rd |only zoltr-1.0.1/zoltr/man/zoltar_authenticate.Rd | 6 zoltr-1.0.1/zoltr/man/zoltar_units.Rd | 6 zoltr-1.0.1/zoltr/man/zoltr-package.Rd | 6 zoltr-1.0.1/zoltr/tests/testthat/data/cdc-project.json | 49 zoltr-1.0.1/zoltr/tests/testthat/data/delete_response.rda |binary zoltr-1.0.1/zoltr/tests/testthat/data/docs-ground-truth-non-dup.csv |only zoltr-1.0.1/zoltr/tests/testthat/data/docs-predictions-exp.csv |only zoltr-1.0.1/zoltr/tests/testthat/data/docs-predictions-quantile-exp.csv |only zoltr-1.0.1/zoltr/tests/testthat/data/docs-predictions-with-retractions-exp.csv |only zoltr-1.0.1/zoltr/tests/testthat/data/docs-predictions-with-retractions.json |only zoltr-1.0.1/zoltr/tests/testthat/data/docs-predictions.json | 230 +-- zoltr-1.0.1/zoltr/tests/testthat/data/example-model-config.json | 5 zoltr-1.0.1/zoltr/tests/testthat/data/forecast-71.json | 1 zoltr-1.0.1/zoltr/tests/testthat/data/forecasts-list-null-notes.json |only zoltr-1.0.1/zoltr/tests/testthat/data/forecasts-list.json | 2 zoltr-1.0.1/zoltr/tests/testthat/data/job-1.json |only zoltr-1.0.1/zoltr/tests/testthat/data/job-2.json |only zoltr-1.0.1/zoltr/tests/testthat/data/model-1.json | 4 zoltr-1.0.1/zoltr/tests/testthat/data/models-list.json | 4 zoltr-1.0.1/zoltr/tests/testthat/data/projects-list.json | 6 zoltr-1.0.1/zoltr/tests/testthat/data/targets-list.json | 14 zoltr-1.0.1/zoltr/tests/testthat/data/truth-info.json |only zoltr-1.0.1/zoltr/tests/testthat/data/units-list.json | 3 zoltr-1.0.1/zoltr/tests/testthat/test-cdc.R | 2 zoltr-1.0.1/zoltr/tests/testthat/test-connection.R | 16 zoltr-1.0.1/zoltr/tests/testthat/test-csv.R |only zoltr-1.0.1/zoltr/tests/testthat/test-forecast.R | 48 zoltr-1.0.1/zoltr/tests/testthat/test-job.R |only zoltr-1.0.1/zoltr/tests/testthat/test-model.R | 176 +- zoltr-1.0.1/zoltr/tests/testthat/test-project.R | 350 ++++- zoltr-1.0.1/zoltr/tests/testthat/test-quantile.R |only zoltr-1.0.1/zoltr/vignettes/docs-predictions.json | 425 ++---- zoltr-1.0.1/zoltr/vignettes/docs-project.json | 24 zoltr-1.0.1/zoltr/vignettes/getting-started.Rmd | 149 +- zoltr-1.0.1/zoltr/vignettes/project-owners.Rmd | 85 - 101 files changed, 2923 insertions(+), 1439 deletions(-)
Title: Joint Peak Detection in Several ChIP-Seq Samples
Description: Jointly segment several ChIP-seq samples to find the peaks
which are the same and different across samples. The fast approximate
maximum Poisson likelihood algorithm is described in
"PeakSegJoint: fast supervised peak detection via joint segmentation
of multiple count data samples"
<doi:10.48550/arXiv.1506.01286>
by TD Hocking and G Bourque.
Author: Toby Dylan Hocking
Maintainer: Toby Dylan Hocking <toby.hocking@r-project.org>
Diff between PeakSegJoint versions 2024.1.24 dated 2024-01-24 and 2024.6.27 dated 2024-06-27
PeakSegJoint-2024.1.24/PeakSegJoint/tests/testthat/test-CRAN-PeakSegJoint.R |only PeakSegJoint-2024.1.24/PeakSegJoint/tests/testthat/test-CRAN-no-zeros.R |only PeakSegJoint-2024.6.27/PeakSegJoint/DESCRIPTION | 9 PeakSegJoint-2024.6.27/PeakSegJoint/MD5 | 90 PeakSegJoint-2024.6.27/PeakSegJoint/NAMESPACE | 16 PeakSegJoint-2024.6.27/PeakSegJoint/NEWS | 330 +- PeakSegJoint-2024.6.27/PeakSegJoint/R/PeakErrorSamples.R | 72 PeakSegJoint-2024.6.27/PeakSegJoint/R/PeakSegJoint.R | 1514 +++++----- PeakSegJoint-2024.6.27/PeakSegJoint/R/PeakSegJointError.R | 280 - PeakSegJoint-2024.6.27/PeakSegJoint/R/PoissonLoss.R | 78 PeakSegJoint-2024.6.27/PeakSegJoint/R/binSum.R | 158 - PeakSegJoint-2024.6.27/PeakSegJoint/R/clusterPeaks.R | 92 PeakSegJoint-2024.6.27/PeakSegJoint/R/features.R | 148 PeakSegJoint-2024.6.27/PeakSegJoint/R/multiClusterPeaks.R | 124 PeakSegJoint-2024.6.27/PeakSegJoint/man/ConvertModelList.Rd | 48 PeakSegJoint-2024.6.27/PeakSegJoint/man/H3K27ac.TDH.MMM4.Rd | 42 PeakSegJoint-2024.6.27/PeakSegJoint/man/H3K36me3.AM.immune.chunk21.Rd | 38 PeakSegJoint-2024.6.27/PeakSegJoint/man/H3K36me3.TDH.other.chunk1.Rd | 44 PeakSegJoint-2024.6.27/PeakSegJoint/man/H3K4me3.PGP.immune.chunk2.Rd | 36 PeakSegJoint-2024.6.27/PeakSegJoint/man/H3K4me3.TDH.other.chunk8.Rd | 40 PeakSegJoint-2024.6.27/PeakSegJoint/man/PeakErrorSamples.Rd | 38 PeakSegJoint-2024.6.27/PeakSegJoint/man/PeakSegJointError.Rd | 168 - PeakSegJoint-2024.6.27/PeakSegJoint/man/PeakSegJointFaster.Rd | 112 PeakSegJoint-2024.6.27/PeakSegJoint/man/PeakSegJointFasterOne.Rd | 394 +- PeakSegJoint-2024.6.27/PeakSegJoint/man/PeakSegJointHeuristic.Rd | 170 - PeakSegJoint-2024.6.27/PeakSegJoint/man/PeakSegJointHeuristicStep1.Rd | 174 - PeakSegJoint-2024.6.27/PeakSegJoint/man/PeakSegJointHeuristicStep2.Rd | 54 PeakSegJoint-2024.6.27/PeakSegJoint/man/PeakSegJointSeveral.Rd | 228 - PeakSegJoint-2024.6.27/PeakSegJoint/man/PoissonLoss.Rd | 58 PeakSegJoint-2024.6.27/PeakSegJoint/man/ProfileList.Rd | 40 PeakSegJoint-2024.6.27/PeakSegJoint/man/binSum.Rd | 116 PeakSegJoint-2024.6.27/PeakSegJoint/man/chr7.peaks.Rd | 40 PeakSegJoint-2024.6.27/PeakSegJoint/man/clusterPeaks.Rd | 84 PeakSegJoint-2024.6.27/PeakSegJoint/man/demo.profiles.Rd | 44 PeakSegJoint-2024.6.27/PeakSegJoint/man/featureMatrixJoint.Rd | 52 PeakSegJoint-2024.6.27/PeakSegJoint/man/multiClusterPeaks.Rd | 104 PeakSegJoint-2024.6.27/PeakSegJoint/man/overflow.list.Rd | 28 PeakSegJoint-2024.6.27/PeakSegJoint/man/peak.at.profile.end.Rd | 30 PeakSegJoint-2024.6.27/PeakSegJoint/man/peak1.infeasible.Rd | 28 PeakSegJoint-2024.6.27/PeakSegJoint/src/PeakSegJoint.c | 10 PeakSegJoint-2024.6.27/PeakSegJoint/tests/testthat.R | 8 PeakSegJoint-2024.6.27/PeakSegJoint/tests/testthat/test-CRAN-binSum.R | 364 +- PeakSegJoint-2024.6.27/PeakSegJoint/tests/testthat/test-CRAN-converted.R | 36 PeakSegJoint-2024.6.27/PeakSegJoint/tests/testthat/test-CRAN-features.R | 30 PeakSegJoint-2024.6.27/PeakSegJoint/tests/testthat/test-CRAN-likelihood.R | 320 +- PeakSegJoint-2024.6.27/PeakSegJoint/tests/testthat/test-CRAN-trivial.R | 122 PeakSegJoint-2024.6.27/PeakSegJoint/tests/testthat/test-CRAN.R | 274 - 47 files changed, 3145 insertions(+), 3140 deletions(-)
Title: Facilitate Analysis of Proteomic Data from Olink
Description: A collection of functions to facilitate analysis of proteomic
data from Olink, primarily NPX data that has been exported from Olink
Software. The functions also work on QUANT data from
Olink by log- transforming the QUANT data. The functions are focused
on reading data, facilitating data wrangling and quality control
analysis, performing statistical analysis and generating figures to
visualize the results of the statistical analysis. The goal of this
package is to help users extract biological insights from proteomic
data run on the Olink platform.
Author: Kathleen Nevola [aut, cre] ,
Marianne Sandin [aut] ,
Jamey Guess [aut] ,
Simon Forsberg [aut] ,
Christoffer Cambronero [aut] ,
Pascal Pucholt [aut] ,
Boxi Zhang [aut] ,
Masoumeh Sheikhi [aut] ,
Klev Diamanti [aut] ,
Amrita Kar [aut] ,
Lei Conze [aut] [...truncated...]
Maintainer: Kathleen Nevola <biostattools@olink.com>
Diff between OlinkAnalyze versions 3.7.0 dated 2024-02-22 and 3.8.2 dated 2024-06-27
OlinkAnalyze-3.7.0/OlinkAnalyze/tests/testthat/_snaps/olink_Pathway_Heatmap |only OlinkAnalyze-3.7.0/OlinkAnalyze/tests/testthat/_snaps/olink_Pathway_Visualization |only OlinkAnalyze-3.7.0/OlinkAnalyze/tests/testthat/_snaps/pca_plot |only OlinkAnalyze-3.7.0/OlinkAnalyze/tests/testthat/_snaps/pca_plot.md |only OlinkAnalyze-3.8.2/OlinkAnalyze/DESCRIPTION | 17 OlinkAnalyze-3.8.2/OlinkAnalyze/MD5 | 98 - OlinkAnalyze-3.8.2/OlinkAnalyze/NAMESPACE | 1 OlinkAnalyze-3.8.2/OlinkAnalyze/NEWS.md | 20 OlinkAnalyze-3.8.2/OlinkAnalyze/R/Read_NPX_data.R | 4 OlinkAnalyze-3.8.2/OlinkAnalyze/R/globals.R | 2 OlinkAnalyze-3.8.2/OlinkAnalyze/R/olink_lod.R |only OlinkAnalyze-3.8.2/OlinkAnalyze/R/read_npx_csv.R | 1 OlinkAnalyze-3.8.2/OlinkAnalyze/build/vignette.rds |binary OlinkAnalyze-3.8.2/OlinkAnalyze/inst/doc/LOD.R |only OlinkAnalyze-3.8.2/OlinkAnalyze/inst/doc/LOD.Rmd |only OlinkAnalyze-3.8.2/OlinkAnalyze/inst/doc/LOD.html |only OlinkAnalyze-3.8.2/OlinkAnalyze/inst/doc/OutlierExclusion.html | 36 OlinkAnalyze-3.8.2/OlinkAnalyze/inst/doc/Vignett.R | 10 OlinkAnalyze-3.8.2/OlinkAnalyze/inst/doc/Vignett.Rmd | 58 OlinkAnalyze-3.8.2/OlinkAnalyze/inst/doc/Vignett.html | 681 +++++---- OlinkAnalyze-3.8.2/OlinkAnalyze/inst/doc/bridging_introduction.html | 110 - OlinkAnalyze-3.8.2/OlinkAnalyze/inst/doc/plate_randomizer.html | 12 OlinkAnalyze-3.8.2/OlinkAnalyze/man/figures |only OlinkAnalyze-3.8.2/OlinkAnalyze/man/olink_lod.Rd |only OlinkAnalyze-3.8.2/OlinkAnalyze/tests/testthat/_snaps/Olink_boxplot/boxplot-site-10prots.svg | 448 +++--- OlinkAnalyze-3.8.2/OlinkAnalyze/tests/testthat/_snaps/Olink_boxplot/boxplot-site-2prots.svg | 220 +- OlinkAnalyze-3.8.2/OlinkAnalyze/tests/testthat/_snaps/Olink_boxplot/boxplot-time-and-site.svg | 740 +++++----- OlinkAnalyze-3.8.2/OlinkAnalyze/tests/testthat/_snaps/Olink_boxplot/boxplot-time-with-coloroption.svg | 326 ++-- OlinkAnalyze-3.8.2/OlinkAnalyze/tests/testthat/_snaps/Olink_boxplot/boxplot-time.svg | 326 ++-- OlinkAnalyze-3.8.2/OlinkAnalyze/tests/testthat/_snaps/Olink_plate_randomizer/randomized-data.svg | 522 +++---- OlinkAnalyze-3.8.2/OlinkAnalyze/tests/testthat/_snaps/Read_NPX_data.md | 24 OlinkAnalyze-3.8.2/OlinkAnalyze/tests/testthat/_snaps/Volcano_plot/volcano-plot-with-coloroption.svg | 422 ++--- OlinkAnalyze-3.8.2/OlinkAnalyze/tests/testthat/_snaps/Volcano_plot/volcano-plot.svg | 422 ++--- OlinkAnalyze-3.8.2/OlinkAnalyze/tests/testthat/_snaps/dist_plot/distribution-plot-col-by-treatment.svg | 346 ++-- OlinkAnalyze-3.8.2/OlinkAnalyze/tests/testthat/_snaps/dist_plot/distribution-plot.svg | 16 OlinkAnalyze-3.8.2/OlinkAnalyze/tests/testthat/_snaps/linear_mixed_model/lmer-plot-more-prots-than-space.svg | 78 - OlinkAnalyze-3.8.2/OlinkAnalyze/tests/testthat/_snaps/linear_mixed_model/lmer-plot.svg | 398 ++--- OlinkAnalyze-3.8.2/OlinkAnalyze/tests/testthat/_snaps/npxProcessing.md | 130 - OlinkAnalyze-3.8.2/OlinkAnalyze/tests/testthat/_snaps/olink_qc_plot/qc-plot-with-coloroption.svg | 18 OlinkAnalyze-3.8.2/OlinkAnalyze/tests/testthat/_snaps/olink_qc_plot/qc-plot.svg | 18 OlinkAnalyze-3.8.2/OlinkAnalyze/tests/testthat/refs/mock_sampleID_hashes.csv | 6 OlinkAnalyze-3.8.2/OlinkAnalyze/tests/testthat/test-Olink_normalization.R | 3 OlinkAnalyze-3.8.2/OlinkAnalyze/tests/testthat/test-Read_NPX_data.R | 3 OlinkAnalyze-3.8.2/OlinkAnalyze/tests/testthat/test-npxProcessing.R | 3 OlinkAnalyze-3.8.2/OlinkAnalyze/tests/testthat/test-olink_normalization_n.R | 3 OlinkAnalyze-3.8.2/OlinkAnalyze/vignettes/LOD.Rmd |only OlinkAnalyze-3.8.2/OlinkAnalyze/vignettes/Vignett.Rmd | 58 47 files changed, 2910 insertions(+), 2670 deletions(-)
Title: Translate English Sentence into Chinese, or Translate Chinese
Sentence into English
Description: If translate English or Chinese sentence, there is a faster
way for R user. You can pass in an English or Chinese sentence, ecce
package support both English and Chinese translation. It also support
browse translation results in website. In addition, also support obtain
the pinyin of the Chinese character, you can more easily understand
the pronunciation of the Chinese character.
Author: Xinyuan Chu [aut, cre]
Maintainer: Xinyuan Chu <chuxinyuan@outlook.com>
Diff between ecce versions 3.0.1 dated 2024-05-17 and 3.0.2 dated 2024-06-27
DESCRIPTION | 11 MD5 | 26 - R/pinyin.R | 333 +++++++++--------- R/translate.R | 7 R/translate_view.R | 7 README.md | 28 - build/vignette.rds |binary inst/doc/ecce.R | 106 ++--- inst/doc/ecce.Rmd | 26 - inst/doc/ecce.html | 896 ++++++++++++++++++++++++-------------------------- man/pinyin.Rd | 5 man/translate.Rd | 7 man/translate_view.Rd | 7 vignettes/ecce.Rmd | 26 - 14 files changed, 710 insertions(+), 775 deletions(-)
Title: Variable Selection and Ranking in Copula Survival Models
Affected by General Censoring Scheme
Description: Performs variable selection and ranking based on several measures for the class of copula survival model(s) in high dimensional domain.
The package is based on the class of copula survival model(s) implemented in the 'GJRM' package.
Author: Danilo Petti [aut, cre, cph] ,
Marcella Niglio [aut] ,
Marialuisa Restaino [aut]
Maintainer: Danilo Petti <d.petti@essex.ac.uk>
Diff between BRBVS versions 0.1.1 dated 2024-01-09 and 0.2.1 dated 2024-06-27
DESCRIPTION | 23 ++++++++++++++--------- MD5 | 12 +++++++++--- NAMESPACE | 3 +++ R/BackwardSelectionBivCop.R |only R/ForwardSelectionBivCop.R |only R/LinkFunction_Selection.R |only inst/CITATION | 17 +++++++++++------ man/Select_link_BivCop.Rd |only man/backward_selection_BivCop.Rd |only man/forward_selection_BivCop.Rd |only 10 files changed, 37 insertions(+), 18 deletions(-)
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2022-08-22 1.4.3
2022-02-21 1.4.2
2021-09-02 1.4.1
2021-08-23 1.4.0
Title: Ontology Tools with Data FAIRification in Development
Description: Translates several CSV files with ontological terms and corresponding
data into RDF triples. These RDF triples are stored in OWL and JSON-LD files,
facilitating data accessibility, interoperability, and knowledge unification.
The triples are also visualized in a graph saved as an SVG. The input CSVs
must be formatted with a template from a public Google Sheet; see README or
vignette for more information. This is a tool is used by the SDLE Research
Center at Case Western Reserve University to create and visualize material
science ontologies, and it includes example ontologies to demonstrate its
capabilities. This work was supported by the U.S. Department of Energy’s
Office of Energy Efficiency and Renewable Energy (EERE) under Solar Energy
Technologies Office (SETO) Agreement Numbers E-EE0009353 and DE-EE0009347,
Department of Energy (National Nuclear Security Administration) under Award
Number DE-NA0004104 and Contract number B647887, and U.S. National Science
Foundation Award under Aw [...truncated...]
Author: Jonathan E Gordon [aut] ,
Alexander Harding Bradley [aut]
,
Priyan Rajamohan [aut] ,
Nathaniel Hahn [aut],
Kiefer Lin [aut],
Arafath Nihar [aut] ,
Hayden Cadwell [aut],
Jiana Kambo [aut],
Jayvic Jimenez [aut] ,
Kristen J Hernandez [aut] ,
Hein Htet-A [...truncated...]
Maintainer: Roger H French <roger.french@case.edu>
Diff between FAIRmaterials versions 0.4.2 dated 2024-06-24 and 0.4.2.1 dated 2024-06-27
DESCRIPTION | 8 - MD5 | 25 +-- R/extra_functions.R | 1 R/process_ontology_files.R | 26 ++- inst/WORDLIST | 1 inst/doc/FAIRmaterials.R | 12 + inst/doc/FAIRmaterials.Rmd | 18 ++ inst/doc/FAIRmaterials.html | 58 ++++---- inst/extdata/FAIRSheetTemplatesZIP.zip |only inst/extdata/PV/ontology_data-output.ttl | 1 inst/extdata/XRay/ontology_data-output.ttl | 1 man/process_ontology_files.Rd | 26 ++- tests/testthat/test-process_ontology_files.R | 186 +++++++++++++++++++++++++-- vignettes/FAIRmaterials.Rmd | 18 ++ 14 files changed, 299 insertions(+), 82 deletions(-)
Title: Statistical Pattern Recognition and daTing using Archaeological
Artefacts assemblageS
Description: Statistical pattern recognition and dating using archaeological artefacts assemblages.
Package of statistical tools for archaeology.
hclustcompro()/perioclust(): Bellanger Lise, Coulon Arthur, Husi Philippe (2021, ISBN:978-3-030-60103-4).
mapclust(): Bellanger Lise, Coulon Arthur, Husi Philippe (2021) <doi:10.1016/j.jas.2021.105431>.
seriograph(): Desachy Bruno (2004) <doi:10.3406/pica.2004.2396>.
cerardat(): Bellanger Lise, Husi Philippe (2012) <doi:10.1016/j.jas.2011.06.031>.
Author: Arthur Coulon [aut, cre],
Lise Bellanger [aut],
Philippe Husi [aut],
Bruno Desachy [ctb],
Benjamin Martineau [ctb]
Maintainer: Arthur Coulon <arthur-coulon@outlook.fr>
Diff between SPARTAAS versions 1.2.1 dated 2023-06-06 and 1.2.4 dated 2024-06-27
DESCRIPTION | 20 - MD5 | 41 +-- NAMESPACE | 6 R/cerardat.R | 248 +++++++++++++++-------- R/perioclust.R | 2 R/util.R | 4 build/partial.rdb |binary inst/shiny-examples/cerardat.app/ui.R | 4 inst/shiny-examples/hclustcompro.app/server.R | 20 - inst/shiny-examples/hclustcompro.app/ui.R | 2 inst/shiny-examples/map.app/server.R | 20 - inst/shiny-examples/map.app/ui.R | 7 inst/shiny-examples/serio.app/server.R | 141 ++++++++++--- inst/shiny-examples/serio.app/ui.R | 31 ++ inst/shiny-examples/serio.app/www/GS/exemple.png |only man/SPARTAAS-package.Rd | 2 man/cerardat.Rd | 4 man/cerardat_estim_nf.Rd | 2 man/datarcheo.Rd | 2 man/extract_results.Rd | 11 - man/hclustcompro.Rd | 2 man/plot.cerardat_obj.Rd | 4 22 files changed, 380 insertions(+), 193 deletions(-)
More information about scorematchingad at CRAN
Permanent link
Title: Road Network Projection
Description: Iterative least cost path and minimum spanning tree methods for projecting
forest road networks. The methods connect a set of target points to an existing
road network using 'igraph' <https://igraph.org> to identify least cost routes.
The cost of constructing a road segment between adjacent pixels is determined
by a user supplied weight raster and a weight function; options include the
average of adjacent weight raster values, and a function of the elevation
differences between adjacent cells that penalizes steep grades. These road
network projection methods are intended for integration into R workflows and
modelling frameworks used for forecasting forest change, and can be applied
over multiple time-steps without rebuilding a graph at each time-step.
Author: Sarah Endicott [aut, cre] ,
Kyle Lochhead [aut],
Josie Hughes [aut],
Patrick Kirby [aut],
Her Majesty the Queen in Right of Canada as represented by the Minister
of the Environment [cph] ,
Province of British Columbia [cph]
Maintainer: Sarah Endicott <sarah.endicott@ec.gc.ca>
Diff between roads versions 1.1.1 dated 2023-06-24 and 1.2.0 dated 2024-06-27
roads-1.1.1/roads/build/partial.rdb |only roads-1.2.0/roads/DESCRIPTION | 43 roads-1.2.0/roads/MD5 | 105 - roads-1.2.0/roads/NAMESPACE | 2 roads-1.2.0/roads/NEWS.md | 14 roads-1.2.0/roads/R/CLUSexample.R | 71 roads-1.2.0/roads/R/buildSimList.R | 436 ++--- roads-1.2.0/roads/R/buildSnapRoads.R | 6 roads-1.2.0/roads/R/dem_example.R |only roads-1.2.0/roads/R/demoScen.R | 95 - roads-1.2.0/roads/R/getClosestRoad.R | 4 roads-1.2.0/roads/R/getDistFromSource.R | 379 ++-- roads-1.2.0/roads/R/getGraph.R | 315 ++- roads-1.2.0/roads/R/getLandingsFromTarget.R | 715 ++++---- roads-1.2.0/roads/R/lcpList.R | 6 roads-1.2.0/roads/R/mstList.R | 136 - roads-1.2.0/roads/R/pathsToLines.R | 121 - roads-1.2.0/roads/R/plotRoads.R | 116 - roads-1.2.0/roads/R/prepExData.R | 34 roads-1.2.0/roads/R/projectRoads.R | 789 +++++---- roads-1.2.0/roads/R/rasterToLineSegments.R | 320 +-- roads-1.2.0/roads/R/rasterizeLine.R | 95 - roads-1.2.0/roads/R/shortestPaths.R | 186 +- roads-1.2.0/roads/R/weightFunctions.R |only roads-1.2.0/roads/README.md | 42 roads-1.2.0/roads/build/vignette.rds |binary roads-1.2.0/roads/data/CLUSexample.rda |binary roads-1.2.0/roads/data/dem_example.rda |only roads-1.2.0/roads/inst/doc/ReconstructRoadHistory.R | 8 roads-1.2.0/roads/inst/doc/ReconstructRoadHistory.Rmd | 6 roads-1.2.0/roads/inst/doc/ReconstructRoadHistory.html | 73 roads-1.2.0/roads/inst/doc/grade-penalty.R |only roads-1.2.0/roads/inst/doc/grade-penalty.Rmd |only roads-1.2.0/roads/inst/doc/grade-penalty.html |only roads-1.2.0/roads/inst/doc/roads-vignette.R | 160 - roads-1.2.0/roads/inst/doc/roads-vignette.Rmd | 812 ++++------ roads-1.2.0/roads/inst/doc/roads-vignette.html | 612 +++---- roads-1.2.0/roads/man/CLUSexample.Rd | 17 roads-1.2.0/roads/man/dem_example.Rd |only roads-1.2.0/roads/man/demoScen.Rd | 28 roads-1.2.0/roads/man/figures/README-example-1.png |binary roads-1.2.0/roads/man/getDistFromSource.Rd | 83 - roads-1.2.0/roads/man/getLandingsFromTarget.Rd | 43 roads-1.2.0/roads/man/gradePenaltyFn.Rd |only roads-1.2.0/roads/man/plotRoads.Rd | 10 roads-1.2.0/roads/man/prepExData.Rd | 8 roads-1.2.0/roads/man/projectRoads.Rd | 413 ++--- roads-1.2.0/roads/man/rasterToLineSegments.Rd | 5 roads-1.2.0/roads/man/rasterizeLine.Rd | 3 roads-1.2.0/roads/man/roads-package.Rd | 2 roads-1.2.0/roads/man/simpleCostFn.Rd |only roads-1.2.0/roads/tests/testthat/test-AltGraphFns.R |only roads-1.2.0/roads/tests/testthat/test-getDistFromSource.R | 13 roads-1.2.0/roads/tests/testthat/test-getGraph.R |only roads-1.2.0/roads/tests/testthat/test-getLandingsFromTarget.R | 293 +-- roads-1.2.0/roads/tests/testthat/test-projectRoads.R | 311 ++- roads-1.2.0/roads/tests/testthat/test-projectRoads_CLUSexample.R | 31 roads-1.2.0/roads/vignettes/ReconstructRoadHistory.Rmd | 6 roads-1.2.0/roads/vignettes/grade-penalty.Rmd |only roads-1.2.0/roads/vignettes/roads-vignette.Rmd | 812 ++++------ 60 files changed, 4024 insertions(+), 3755 deletions(-)
Title: Relationship-Based Mixed-Effects Models
Description: Fit relationship-based and customized mixed-effects models with complex variance-covariance structures using the 'lme4' machinery. The core computational algorithms are implemented using the
'Eigen' 'C++' library for numerical linear algebra and 'RcppEigen' 'glue'.
Author: Giovanny Covarrubias-Pazaran [aut, cre]
Maintainer: Giovanny Covarrubias-Pazaran <cova_ruber@live.com.mx>
Diff between lme4breeding versions 1.0.21 dated 2024-06-25 and 1.0.22 dated 2024-06-27
lme4breeding-1.0.21/lme4breeding/man/dsc.Rd |only lme4breeding-1.0.21/lme4breeding/man/rrc.Rd |only lme4breeding-1.0.22/lme4breeding/DESCRIPTION | 6 - lme4breeding-1.0.22/lme4breeding/MD5 | 38 +++++----- lme4breeding-1.0.22/lme4breeding/NAMESPACE | 2 lme4breeding-1.0.22/lme4breeding/R/utils.R | 40 +++++------ lme4breeding-1.0.22/lme4breeding/inst/doc/lmebreed.gxe.R | 18 ++-- lme4breeding-1.0.22/lme4breeding/inst/doc/lmebreed.gxe.Rmd | 20 ++--- lme4breeding-1.0.22/lme4breeding/inst/doc/lmebreed.gxe.pdf |binary lme4breeding-1.0.22/lme4breeding/inst/doc/lmebreed.qg.R | 2 lme4breeding-1.0.22/lme4breeding/inst/doc/lmebreed.qg.Rmd | 2 lme4breeding-1.0.22/lme4breeding/inst/doc/lmebreed.qg.pdf |binary lme4breeding-1.0.22/lme4breeding/man/DT_example.Rd | 4 - lme4breeding-1.0.22/lme4breeding/man/DT_h2.Rd | 2 lme4breeding-1.0.22/lme4breeding/man/DT_legendre.Rd | 2 lme4breeding-1.0.22/lme4breeding/man/DT_wheat.Rd | 2 lme4breeding-1.0.22/lme4breeding/man/rrm.Rd |only lme4breeding-1.0.22/lme4breeding/man/smm.Rd |only lme4breeding-1.0.22/lme4breeding/vignettes/lmebreed.gxe.Rmd | 20 ++--- lme4breeding-1.0.22/lme4breeding/vignettes/lmebreed.gxe.html | 24 +++--- lme4breeding-1.0.22/lme4breeding/vignettes/lmebreed.qg.Rmd | 2 lme4breeding-1.0.22/lme4breeding/vignettes/lmebreed.qg.html | 6 - 22 files changed, 96 insertions(+), 94 deletions(-)
Title: An R Client to Retrieve Data from DHIS2
Description: Provides a user-friendly interface for interacting with the District Health
Information Software 2 (DHIS2) instance. It streamlines data retrieval,
empowering researchers, analysts, and healthcare professionals to obtain and
utilize data efficiently.
Author: David Kariuki [aut, cre, cph]
Maintainer: David Kariuki <hello@damurka.com>
Diff between khisr versions 1.0.4 dated 2024-06-10 and 1.0.5 dated 2024-06-27
DESCRIPTION | 6 MD5 | 44 - NEWS.md | 6 R/api_get.R | 154 ++-- R/get_analytics_by_level.R | 198 +++--- R/get_data_elements_with_category_options.R | 110 +-- R/get_datasets_by_level.R | 189 +++-- R/get_metadata.R | 137 ++-- R/get_organisations_by_level.R | 225 +++---- R/khis_cred.R | 799 ++++++++++++------------- R/utils.R | 10 README.md | 61 - inst/extdata/valid_cred_conf.json | 14 man/get_analytics_by_level.Rd | 7 man/get_data_elements_with_category_options.Rd | 10 man/get_data_sets_by_level.Rd | 5 man/get_metadata.Rd | 5 man/get_organisations_by_level.Rd | 11 man/khis_base_url.Rd | 5 man/khis_has_cred.Rd | 5 man/khis_username.Rd | 5 man/metadata-helpers.Rd | 1 tests/testthat/test-khis_cred.R | 178 ++--- 23 files changed, 1113 insertions(+), 1072 deletions(-)
Title: Analysis of NCES Education Survey and Assessment Data
Description: Read in and analyze functions for education survey and assessment data from the National Center for Education Statistics (NCES) <https://nces.ed.gov/>, including National Assessment of Educational Progress (NAEP) data <https://nces.ed.gov/nationsreportcard/> and data from the International Assessment Database: Organisation for Economic Co-operation and Development (OECD) <https://www.oecd.org/>, including Programme for International Student Assessment (PISA), Teaching and Learning International Survey (TALIS), Programme for the International Assessment of Adult Competencies (PIAAC), and International Association for the Evaluation of Educational Achievement (IEA) <https://www.iea.nl/>, including Trends in International Mathematics and Science Study (TIMSS), TIMSS Advanced, Progress in International Reading Literacy Study (PIRLS), International Civic and Citizenship Study (ICCS), International Computer and Information Literacy Study (ICILS), and Civic Education S [...truncated...]
Author: Paul Bailey [aut, cre] ,
Ahmad Emad [aut],
Huade Huo [aut] ,
Michael Lee [aut] ,
Yuqi Liao [aut] ,
Alex Lishinski [aut] ,
Trang Nguyen [aut] ,
Qingshu Xie [aut],
Jiao Yu [aut],
Ting Zhang [aut] ,
Eric Buehler [aut] ,
Sun-joo Lee [aut],
Blue Webb [aut [...truncated...]
Maintainer: Paul Bailey <pbailey@air.org>
Diff between EdSurvey versions 4.0.6 dated 2024-05-21 and 4.0.7 dated 2024-06-27
DESCRIPTION | 11 +++++++---- MD5 | 24 ++++++++++++------------ NAMESPACE | 1 + R/downloadNHES.R | 4 ++-- R/edsurvey.data.frame.R | 35 +++++++++++++++++++++++++++++++++++ R/readNHES.R | 2 +- R/subset.edsurvey.data.frame.list.R | 4 ---- build/vignette.rds |binary inst/NEWS.Rd | 19 +++++++++++++++++++ inst/doc/introduction.html | 4 ++-- man/downloadNHES.Rd | 2 +- man/readNHES.Rd | 2 +- tests/testthat/test-10-main.R | 35 +++++++++++++++++++++++++++++++++++ 13 files changed, 116 insertions(+), 27 deletions(-)
Title: Call Real Time APIs from Data Gov Singapore
Description: A wrapper for the Data.gov.sg developer resources, which provide
real time and historical information, ranging from carpark availability to
weather forecasts. The functions makes the API calls for a given date and
time, before returning the relevant information in a data frame. All APIs
are supported, less the IPOS one which is not returning any data. Relevant
information can be found here <https://data.gov.sg/developer>.
Author: Clinton Wong <cwxy.clinton@gmail.com>
Maintainer: Clinton Wong <cwxy.clinton@gmail.com>
Diff between datagovsgR versions 1.0.0 dated 2023-01-15 and 1.0.1 dated 2024-06-27
DESCRIPTION | 9 LICENSE | 4 MD5 | 58 - NAMESPACE | 24 R/CarparkAvailability.R | 100 +-- R/PM2.5.R |only R/PM2.5Summary.R |only R/PSI.R | 107 +-- R/PSISummary.R | 128 +--- R/ParseApiDate.R | 100 +-- R/ParseApiOutput.R | 54 - R/TaxiAvailability.R | 87 +- R/TrafficImages.R | 140 ++-- R/UVI.R | 86 +- R/WeatherForecast.R | 176 ++--- R/WeatherReading.R | 192 +++--- README.md | 159 ++--- build/vignette.rds |binary inst/doc/datagovsgR-vignette.R | 70 +- inst/doc/datagovsgR-vignette.Rmd | 220 +++---- inst/doc/datagovsgR-vignette.html | 1186 ++++++++++++++++++++------------------ man/carpark_availability.Rd | 52 - man/parse_api_date.Rd | 48 - man/parse_api_output.Rd | 36 - man/pm25.Rd |only man/pm25_summary.Rd |only man/psi.Rd | 62 - man/psi_summary.Rd | 64 +- man/taxi_availability.Rd | 48 - man/weather_forecast.Rd | 56 - man/weather_reading.Rd | 64 +- vignettes/datagovsgR-vignette.Rmd | 220 +++---- 32 files changed, 1830 insertions(+), 1720 deletions(-)
More information about bayesCureRateModel at CRAN
Permanent link
Title: Antares Visualizations
Description: Visualize results generated by Antares, a powerful open source software
developed by RTE to simulate and study electric power systems
(more information about 'Antares' here: <https://github.com/AntaresSimulatorTeam/Antares_Simulator>).
This package provides functions that create interactive charts to help
'Antares' users visually explore the results of their simulations.
Author: Tatiana Vargas [aut, cre],
Jalal-Edine Zawam [aut],
Francois Guillem [aut],
Benoit Thieurmel [aut],
Titouan Robert [aut],
Paul Plessiez [aut],
Baptiste Seguinot [ctb],
RTE [cph]
Maintainer: Tatiana Vargas <tatiana.vargas@rte-france.com>
Diff between antaresViz versions 0.18.1 dated 2024-06-26 and 0.18.2 dated 2024-06-27
DESCRIPTION | 6 +++--- MD5 | 8 ++++---- NEWS.md | 3 +++ inst/doc/antaresViz.html | 4 ++-- tests/testthat/test-plotXY.R | 20 ++++++++++---------- 5 files changed, 22 insertions(+), 19 deletions(-)
Title: Tidy Temporal Data Frames and Tools
Description: Provides a 'tbl_ts' class (the 'tsibble') for
temporal data in an data- and model-oriented format. The 'tsibble'
provides tools to easily manipulate and analyse temporal data, such as
filling in time gaps and aggregating over calendar periods.
Author: Earo Wang [aut, cre] ,
Di Cook [aut, ths] ,
Rob Hyndman [aut, ths] ,
Mitchell O'Hara-Wild [aut] ,
Tyler Smith [ctb],
Wil Davis [ctb]
Maintainer: Earo Wang <earo.wang@gmail.com>
Diff between tsibble versions 1.1.4 dated 2024-01-29 and 1.1.5 dated 2024-06-27
tsibble-1.1.4/tsibble/build/stage23.rdb |only tsibble-1.1.4/tsibble/build/tsibble.pdf |only tsibble-1.1.5/tsibble/DESCRIPTION | 9 tsibble-1.1.5/tsibble/MD5 | 115 ++++------ tsibble-1.1.5/tsibble/NAMESPACE | 28 ++ tsibble-1.1.5/tsibble/NEWS.md | 4 tsibble-1.1.5/tsibble/R/as-tsibble.R | 11 tsibble-1.1.5/tsibble/R/dplyr-verbs.R | 2 tsibble-1.1.5/tsibble/R/filter-index.R | 18 + tsibble-1.1.5/tsibble/R/gaps.R | 2 tsibble-1.1.5/tsibble/R/index-by.R | 2 tsibble-1.1.5/tsibble/R/index-valid.R | 2 tsibble-1.1.5/tsibble/R/interval.R | 6 tsibble-1.1.5/tsibble/R/new-data.R | 2 tsibble-1.1.5/tsibble/R/rolling.R | 6 tsibble-1.1.5/tsibble/R/subset.R | 2 tsibble-1.1.5/tsibble/R/tidyr-verbs.R | 2 tsibble-1.1.5/tsibble/R/time-wise.R | 4 tsibble-1.1.5/tsibble/R/tsibble-meta.R | 2 tsibble-1.1.5/tsibble/R/tsibble-package.R | 40 +-- tsibble-1.1.5/tsibble/R/tsibble2ts.R | 10 tsibble-1.1.5/tsibble/R/yearmonth.R | 2 tsibble-1.1.5/tsibble/R/yearquarter.R | 3 tsibble-1.1.5/tsibble/R/yearweek.R | 2 tsibble-1.1.5/tsibble/README.md | 11 tsibble-1.1.5/tsibble/inst/WORDLIST | 1 tsibble-1.1.5/tsibble/man/as-tsibble.Rd | 2 tsibble-1.1.5/tsibble/man/as.ts.tbl_ts.Rd | 2 tsibble-1.1.5/tsibble/man/build_tsibble_meta.Rd | 2 tsibble-1.1.5/tsibble/man/default_time_units.Rd | 2 tsibble-1.1.5/tsibble/man/difference.Rd | 2 tsibble-1.1.5/tsibble/man/duplicates.Rd | 2 tsibble-1.1.5/tsibble/man/figures/lifecycle-archived.svg | 22 + tsibble-1.1.5/tsibble/man/figures/lifecycle-defunct.svg | 22 + tsibble-1.1.5/tsibble/man/figures/lifecycle-deprecated.svg | 22 + tsibble-1.1.5/tsibble/man/figures/lifecycle-experimental.svg | 22 + tsibble-1.1.5/tsibble/man/figures/lifecycle-maturing.svg | 22 + tsibble-1.1.5/tsibble/man/figures/lifecycle-questioning.svg | 22 + tsibble-1.1.5/tsibble/man/figures/lifecycle-soft-deprecated.svg | 22 + tsibble-1.1.5/tsibble/man/figures/lifecycle-stable.svg | 30 ++ tsibble-1.1.5/tsibble/man/figures/lifecycle-superseded.svg |only tsibble-1.1.5/tsibble/man/fill_gaps.Rd | 2 tsibble-1.1.5/tsibble/man/group_by_key.Rd | 2 tsibble-1.1.5/tsibble/man/guess_frequency.Rd | 2 tsibble-1.1.5/tsibble/man/index-by.Rd | 2 tsibble-1.1.5/tsibble/man/index_valid.Rd | 2 tsibble-1.1.5/tsibble/man/interval-pull.Rd | 2 tsibble-1.1.5/tsibble/man/is-tsibble.Rd | 2 tsibble-1.1.5/tsibble/man/new-data.Rd | 2 tsibble-1.1.5/tsibble/man/new-interval.Rd | 2 tsibble-1.1.5/tsibble/man/slide_tsibble.Rd | 2 tsibble-1.1.5/tsibble/man/stretch_tsibble.Rd | 2 tsibble-1.1.5/tsibble/man/tile_tsibble.Rd | 2 tsibble-1.1.5/tsibble/man/tsibble.Rd | 2 tsibble-1.1.5/tsibble/man/unnest_tsibble.Rd | 2 tsibble-1.1.5/tsibble/man/year-month.Rd | 2 tsibble-1.1.5/tsibble/man/year-quarter.Rd | 2 tsibble-1.1.5/tsibble/man/year-week.Rd | 2 tsibble-1.1.5/tsibble/tests/testthat/test-timewise.R | 5 tsibble-1.1.5/tsibble/tests/testthat/test-tsibble2ts.R | 1 60 files changed, 381 insertions(+), 141 deletions(-)
Title: Cardiovascular Risk Scores Calculator
Description: A tool to calculate Cardiovascular Risk Scores in large data frames. Cardiovascular risk scores are statistical tools used to assess an individual's likelihood of developing a cardiovascular disease based on various risk factors, such as age, gender, blood pressure, cholesterol levels, and smoking. Here we bring together the six most commonly used in the emergency department. Using 'RiskScorescvd', you can calculate all the risk scores in an extended dataset in seconds. PCE (ASCVD) described in Goff, et al (2013) <doi:10.1161/01.cir.0000437741.48606.98>. EDACS described in Mark DG, et al (2016) <doi:10.1016/j.jacc.2017.11.064>. GRACE described in Fox KA, et al (2006) <doi:10.1136/bmj.38985.646481.55>. HEART is described in Mahler SA, et al (2017) <doi:10.1016/j.clinbiochem.2017.01.003>. SCORE2/OP described in SCORE2 working group and ESC Cardiovascular risk collaboration (2021) <doi:10.1093/eurheartj/ehab309>. TIMI described in Antman EM, et al (2000) < [...truncated...]
Author: Daniel Perez-Vicencio [aut, cre]
,
Dimitrios Doudesis [aut],
Alexander JF Thurston [aut],
Jeremy Selva [aut]
Maintainer: Daniel Perez-Vicencio <dvicencio947@gmail.com>
Diff between RiskScorescvd versions 0.1.0 dated 2023-06-28 and 0.2.0 dated 2024-06-27
DESCRIPTION | 34 ++++++++--- MD5 | 76 +++++++++++++++----------- NAMESPACE | 46 ++++++++------- NEWS.md | 10 +++ R/01_HEART_func.R | 2 R/02_HEART_df.R | 2 R/03_EDACS_func.R | 2 R/04_EDACS_df.R | 2 R/05_GRACE_func.R | 2 R/06_GRACE_df.R | 3 - R/07_TIMIUAN_func.R | 3 - R/07_calc_all_scores_prec.R | 36 +++++++++--- R/08_TIMIUAN_df.R | 6 -- R/09_ASCVD-PCE_func.R | 4 - R/10_ASCVD_df.R | 4 - R/11_SCORE2_func.R | 109 +++++++++++++++++++++++++++++++------ R/12_SCORE2_df.R | 20 ++++-- R/13_SCORE2_CKD_func.R |only R/14_SCORE2_CKD_df.R |only R/15_SCORE2-Diabetes_func.R |only R/rounding.R |only README.md | 121 ++++++++++++++++++++++-------------------- build/partial.rdb |only build/vignette.rds |binary inst/doc/Calculate_scores.R | 2 man/ASCVD.Rd | 4 - man/ASCVD_scores.Rd | 4 - man/EDACS.Rd | 2 man/EDACS_scores.Rd | 2 man/GRACE.Rd | 2 man/GRACE_scores.Rd | 3 - man/HEART.Rd | 2 man/HEART_scores.Rd | 2 man/RiskScoresCalc.Rd | 21 +++++-- man/SCORE2-slash-OP-CKD.Rd |only man/SCORE2-slash-OP.Rd | 27 +++++---- man/SCORE2_CKD_scores.Rd |only man/SCORE2_Diabetes.Rd |only man/SCORE2_scores.Rd | 17 +++-- man/TIMI.Rd | 91 ------------------------------- man/TIMI_scores.Rd |only man/round_to_nearest_digit.Rd |only tests |only 43 files changed, 375 insertions(+), 286 deletions(-)
Title: Automatic Univariate Time Series Modelling of many Kinds
Description: Comprehensive analysis and forecasting
of univariate time series using automatic
time series models of many kinds.
Harvey AC (1989) <doi:10.1017/CBO9781107049994>.
Pedregal DJ and Young PC (2002) <doi:10.1002/9780470996430>.
Durbin J and Koopman SJ (2012) <doi:10.1093/acprof:oso/9780199641178.001.0001>.
Hyndman RJ, Koehler AB, Ord JK, and Snyder RD (2008) <doi:10.1007/978-3-540-71918-2>.
Gómez V, Maravall A (2000) <doi:10.1002/9781118032978>.
Pedregal DJ, Trapero JR and Holgado E (2024) <doi:10.1016/j.ijforecast.2023.09.004>.
Author: Diego J. Pedregal [aut, cre]
Maintainer: Diego J. Pedregal <Diego.Pedregal@uclm.es>
Diff between UComp versions 4.0.2 dated 2023-05-20 and 5.0.0 dated 2024-06-27
ChangeLog | 5 + DESCRIPTION | 18 ++- MD5 | 84 +++++++++++------ NAMESPACE | 23 ++++ R/ARIMAS3functions.R |only R/ARIMAestim.R |only R/ARIMAmodel.R |only R/ARIMAvalidate.R |only R/ETSvalidate.R | 4 R/RcppExports.R | 8 + R/TETSS3functions.R |only R/TETScomponents.R |only R/TETSestim.R |only R/TETSmodel.R |only R/TETSvalidate.R |only R/UComp-package.R | 28 +++-- R/data.R | 20 ++-- R/onAttach.R | 2 R/tools.R | 91 +++++++++++++++++- man/ARIMA.Rd |only man/ARIMAestim.Rd |only man/ARIMAmodel.Rd |only man/ARIMAsetup.Rd |only man/ARIMAvalidate.Rd |only man/ETSvalidate.Rd | 4 man/OECDgdp.Rd | 5 - man/TETS.Rd |only man/TETScomponents.Rd |only man/TETSestim.Rd |only man/TETSmodel.Rd |only man/TETSsetup.Rd |only man/TETSvalidate.Rd |only man/UComp.Rd | 25 +++-- man/airpas.Rd | 5 - man/box.cox.Rd |only man/fitted.Rd | 19 +++ man/gdp.Rd | 5 - man/inv.box.cox.Rd |only man/ipi.Rd | 5 - man/plot.ARIMA.Rd |only man/plot.Rd | 19 +++ man/print.Rd | 36 ++++++- man/residuals.Rd | 19 +++ man/sales.Rd | 5 - man/summary.ARIMA.Rd |only man/summary.TETS.Rd |only src/ARIMASSmodel.h |only src/ARIMAmodel.h |only src/ARMAmodel.h | 6 - src/BSMmodel.h | 1 src/DJPTtools.h | 15 ++- src/RcppExports.cpp | 59 ++++++++++++ src/SSpace.h | 241 +++++++++++++++++++++----------------------------- src/TETSmodel.h |only src/UCompC.cpp | 227 +++++++++++++++++++++++++++++++++++++++++++++++ src/boxcox.h | 6 - src/stats.h | 205 ++++++++++++++++++++++++++++++++++++++++-- 57 files changed, 933 insertions(+), 257 deletions(-)
Title: Write Events for 'TensorBoard'
Description: Provides a convenient way to log scalars, images, audio, and histograms in the 'tfevent' record file format.
Logged data can be visualized on the fly using 'TensorBoard', a web based tool that focuses on visualizing the training
progress of machine learning models.
Author: Daniel Falbel [aut, cre, cph],
Posit, PBC [cph],
The tl::optional authors [cph] ,
Mark Adler [cph]
Maintainer: Daniel Falbel <daniel@posit.co>
Diff between tfevents versions 0.0.3 dated 2024-05-06 and 0.0.4 dated 2024-06-27
DESCRIPTION | 8 ++++---- MD5 | 12 ++++++------ NEWS.md | 2 ++ R/events.R | 2 +- R/scalar.R | 2 +- README.md | 7 +++++-- man/figures/README-tensorboard-1.png |binary 7 files changed, 19 insertions(+), 14 deletions(-)
Title: Non-Proportional Hazards in Randomized Controlled Trials
Description: Perform a stratified weighted log-rank test in a randomized controlled trial. Tests can be visualized as a difference in average score on the two treatment arms. These methods are described in Magirr and Burman (2018) <doi:10.48550/arXiv.1807.11097>, Magirr (2020) <doi:10.48550/arXiv.2007.04767>, and Magirr and Jimenez (2022) <doi:10.48550/arXiv.2201.10445>.
Author: Dominic Magirr [aut, cre],
Isobel Barrott [aut],
Jose Jimenez [ctb]
Maintainer: Dominic Magirr <d.magirr@gmail.com>
Diff between nphRCT versions 0.1.0 dated 2022-09-01 and 0.1.1 dated 2024-06-27
DESCRIPTION | 10 MD5 | 25 - NEWS.md |only R/find_at_risk.R | 20 R/find_scores.R | 39 + R/find_weights.R | 4 R/wlrt.R | 94 ++-- inst/doc/explanation.html | 369 +++++++++++++++-- inst/doc/weighted_log_rank_tests.html | 710 ++++++++++++++++++++++++---------- man/find_at_risk.Rd | 8 man/find_scores.Rd | 5 man/wlrt.Rd | 5 tests/testthat.R | 1 tests/testthat/test-find_at_risk.R | 4 14 files changed, 966 insertions(+), 328 deletions(-)
Title: Detection and Attribution Analysis of Climate Change
Description: Conduct detection and attribution of climate change using methods including optimal fingerprinting via
generalized total least squares or estimating equation approach from Ma et al. (2023) <doi:10.1175/JCLI-D-22-0681.1>.
Provide shrinkage estimators for covariance matrix from Ledoit and Wolf (2004) <doi:10.1016/S0047-259X(03)00096-4>,
and Ledoit and Wolf (2017) <doi:10.2139/ssrn.2383361>.
Author: Yan Li [aut, cre],
Kun Chen [aut],
Jun Yan [aut]
Maintainer: Yan Li <yan.4.li@uconn.edu>
Diff between dacc versions 0.0-3 dated 2024-01-09 and 0.0-4 dated 2024-06-27
dacc-0.0-3/dacc/man/fingerprintCEE.Rd |only dacc-0.0-4/dacc/DESCRIPTION | 13 dacc-0.0-4/dacc/MD5 | 22 - dacc-0.0-4/dacc/NAMESPACE | 9 dacc-0.0-4/dacc/R/data.R | 67 ++- dacc-0.0-4/dacc/R/fingerprint.R | 573 +++++++--------------------------- dacc-0.0-4/dacc/R/fingerprintCEE.R | 115 +++--- dacc-0.0-4/dacc/R/fingerprintTLS.R |only dacc-0.0-4/dacc/R/fingerprintTS.R |only dacc-0.0-4/dacc/R/fpPrep.R |only dacc-0.0-4/dacc/data/datalist |only dacc-0.0-4/dacc/data/globalDat.rdata |only dacc-0.0-4/dacc/man/fingerprint.Rd | 112 ++++-- dacc-0.0-4/dacc/man/fpPrep.Rd |only dacc-0.0-4/dacc/man/globalDat.Rd |only dacc-0.0-4/dacc/man/simDat.Rd | 2 16 files changed, 346 insertions(+), 567 deletions(-)
Title: Fast Text Tokenization
Description: Interfaces with the 'Hugging Face' tokenizers library to provide implementations
of today's most used tokenizers such as the 'Byte-Pair Encoding' algorithm
<https://huggingface.co/docs/tokenizers/index>. It's extremely fast for both
training new vocabularies and tokenizing texts.
Author: Daniel Falbel [aut, cre],
Posit [cph]
Maintainer: Daniel Falbel <daniel@posit.co>
Diff between tok versions 0.1.1 dated 2023-08-17 and 0.1.2 dated 2024-06-27
DESCRIPTION | 11 MD5 | 71 ++ NAMESPACE | 50 + NEWS.md | 12 R/decoders.R |only R/extendr-wrappers.R | 205 +++++++ R/models.R |only R/normalizers.R |only R/post_processors.R |only R/pre_tokenizers.R |only R/tokenizer.R | 148 +++++ R/trainers.R |only README.md | 3 man/decoder_byte_level.Rd |only man/model_bpe.Rd |only man/model_unigram.Rd |only man/model_wordpiece.Rd |only man/normalizer_nfc.Rd |only man/normalizer_nfkc.Rd |only man/pre_tokenizer.Rd |only man/pre_tokenizer_byte_level.Rd |only man/pre_tokenizer_whitespace.Rd |only man/processor_byte_level.Rd |only man/tok-package.Rd |only man/tok_decoder.Rd |only man/tok_model.Rd |only man/tok_normalizer.Rd |only man/tok_processor.Rd |only man/tok_trainer.Rd |only man/tokenizer.Rd | 189 +++++++ man/trainer_bpe.Rd |only man/trainer_unigram.Rd |only man/trainer_wordpiece.Rd |only src/Makevars | 15 src/rust/Cargo.lock | 875 +++++++++++++++++++++++++++++++++- src/rust/Cargo.toml | 2 src/rust/config/cargo-config.toml | 10 src/rust/src/decoders.rs |only src/rust/src/lib.rs | 12 src/rust/src/models.rs | 188 ++++++- src/rust/src/normalizers.rs |only src/rust/src/post_processors.rs |only src/rust/src/pre_tokenizers.rs |only src/rust/src/tokenizer.rs | 340 +++++++++++-- src/rust/src/trainers.rs | 228 ++++++++ src/rust/vendor.tar.xz |binary tests/testthat/test-decoders.R |only tests/testthat/test-models.R |only tests/testthat/test-normalizers.R |only tests/testthat/test-post_processors.R |only tests/testthat/test-pre_tokenizers.R |only tests/testthat/test-tokenizer.R | 89 +++ tests/testthat/test-trainers.R |only tools/patch.R | 5 54 files changed, 2314 insertions(+), 139 deletions(-)
Title: Pam: Prediction Analysis for Microarrays
Description: Some functions for sample classification in microarrays.
Author: T. Hastie, R. Tibshirani, Balasubramanian Narasimhan, Gil Chu
Maintainer: ORPHANED
Diff between pamr versions 1.56.2 dated 2024-04-20 and 1.56.2.1 dated 2024-06-27
DESCRIPTION | 12 ++++++++---- MD5 | 4 ++-- src/knnimpute.f | 51 +++++++++++++++++++++++++++------------------------ 3 files changed, 37 insertions(+), 30 deletions(-)
Title: A Modular Approach to Dose-Finding Clinical Trials
Description: Methods for working with dose-finding clinical trials. We provide
implementations of many dose-finding clinical trial designs, including the
continual reassessment method (CRM) by O'Quigley et al. (1990)
<doi:10.2307/2531628>, the toxicity probability interval (TPI) design by Ji
et al. (2007) <doi:10.1177/1740774507079442>, the modified TPI (mTPI) design
by Ji et al. (2010) <doi:10.1177/1740774510382799>, the Bayesian optimal
interval design (BOIN) by Liu & Yuan (2015) <doi:10.1111/rssc.12089>, EffTox
by Thall & Cook (2004) <doi:10.1111/j.0006-341X.2004.00218.x>; the design of
Wages & Tait (2015) <doi:10.1080/10543406.2014.920873>, and the 3+3
described by Korn et al. (1994) <doi:10.1002/sim.4780131802>. All designs
are implemented with a common interface. We also offer optional additional
classes to tailor the behaviour of all designs, including avoiding skipping
doses, stopping after n patients have been treated at the recommended [...truncated...]
Author: Kristian Brock [aut, cre] ,
Daniel Slade [aut] ,
Michael Sweeting [aut]
Maintainer: Kristian Brock <kristian.brock@gmail.com>
Diff between escalation versions 0.1.9 dated 2024-05-22 and 0.1.10 dated 2024-06-27
DESCRIPTION | 12 - MD5 | 120 ++++++++------- NAMESPACE | 14 + NEWS.md | 18 ++ R/correlated_patient_sample.R | 41 +++-- R/derived_dose_selector.R | 4 R/dfcrm_selector.R | 132 ++++++++++++++-- R/helpers.R | 2 R/interface.R | 23 ++ R/linear_tolerance_weight.R |only R/patient_sample.R | 91 ++++++++--- R/phase1_sim.R | 7 R/phase1_tite_sim.R |only R/selector.R | 97 ------------ R/trialr_crm_selector.R | 143 +++++++++++++----- R/trialr_efftox_selector.R | 2 R/trialr_nbg_selector.R | 106 +++++++++++-- inst/doc/A205-CRM.html | 68 ++++---- inst/doc/A207-NBG.html | 20 +- inst/doc/A210-TPI.html | 12 - inst/doc/A220-mTPI.html | 12 - inst/doc/A230-BOIN.html | 8 - inst/doc/A600-DosePaths.html | 36 ++-- inst/doc/A700-Simulation.html | 160 ++++++++++---------- inst/doc/A710-SimulationComparison.html | 187 +++++++++++++----------- man/CorrelatedPatientSample.Rd | 18 +- man/PatientSample.Rd | 47 +++++- man/get_dfcrm.Rd | 9 + man/get_dfcrm_tite.Rd |only man/get_trialr_crm.Rd | 15 + man/get_trialr_crm_tite.Rd |only man/get_trialr_efftox.Rd | 2 man/get_trialr_nbg.Rd | 8 + man/get_trialr_nbg_tite.Rd |only man/linear_follow_up_weight.Rd |only man/selector.Rd | 1 man/weight.Rd |only tests/testthat/test_boin.R | 9 + tests/testthat/test_boin12.R | 9 + tests/testthat/test_correlated_patient_sample.R | 115 ++++++++++++++ tests/testthat/test_demand_n_at_dose.R | 9 + tests/testthat/test_dfcrm.R | 156 +++++++++++++++++++- tests/testthat/test_dont_skip_doses.R | 9 + tests/testthat/test_follow_path.R | 12 + tests/testthat/test_linear_follow_up_weight.R |only tests/testthat/test_mtpi.R | 9 + tests/testthat/test_mtpi2.R | 9 + tests/testthat/test_patient_sample.R | 116 ++++++++++++++ tests/testthat/test_random_selector.R | 18 ++ tests/testthat/test_select_boin_mtd.R | 27 +++ tests/testthat/test_select_dose_by_cibp.R | 9 + tests/testthat/test_select_mtpi2_mtd.R | 27 +++ tests/testthat/test_select_mtpi_mtd.R | 27 +++ tests/testthat/test_select_tpi_mtd.R | 27 +++ tests/testthat/test_simulate_trials.R | 110 ++++++++++++++ tests/testthat/test_stop_at_n.R | 9 + tests/testthat/test_stop_when_n_at_dose.R | 9 + tests/testthat/test_stop_when_too_toxic.R | 9 + tests/testthat/test_stop_when_tox_ci_covered.R | 9 + tests/testthat/test_tpi.R | 9 + tests/testthat/test_trialr_crm.R | 179 ++++++++++++++++++++++ tests/testthat/test_trialr_efftox.R | 9 + tests/testthat/test_trialr_nbg.R | 92 +++++++++++ tests/testthat/test_try_rescue_dose.R | 9 + tests/testthat/test_wages_tait.R | 9 + 65 files changed, 1931 insertions(+), 525 deletions(-)
Title: A Dipping Sauce for Data Analysis and Visualizations
Description: Works as an "add-on" to packages like 'shiny', 'future', as well as
'rlang', and provides utility functions. Just like dipping sauce adding
flavors to potato chips or pita bread, 'dipsaus' for data analysis and
visualizations adds handy functions and enhancements to popular packages.
The goal is to provide simple solutions that are frequently asked for
online, such as how to synchronize 'shiny' inputs without freezing the app,
or how to get memory size on 'Linux' or 'MacOS' system. The enhancements
roughly fall into these four categories: 1. 'shiny' input widgets; 2.
high-performance computing using the 'future' package; 3.
modify R calls and convert among numbers, strings, and other objects. 4.
utility functions to get system information such like CPU chip-set, memory
limit, etc.
Author: Zhengjia Wang [aut, cre],
John Magnotti [ctb] ,
Xiang Zhang [ctb]
Maintainer: Zhengjia Wang <dipterix.wang@gmail.com>
Diff between dipsaus versions 0.2.8 dated 2023-07-03 and 0.2.9 dated 2024-06-27
DESCRIPTION | 8 ++-- MD5 | 50 +++++++++++++------------ NAMESPACE | 14 +++++++ NEWS.md | 11 +++++ R/RcppExports.R | 8 ++++ R/aaa.R | 2 - R/language.R | 40 +++++++++++++++++++- R/reexports.R | 40 ++++++++++++++++++++ R/shortcuts.R | 35 ++++++++++++++++- R/strings.R | 10 ++--- R/systems.R | 2 - R/utils-package.R | 2 - R/utils-rstudio.R | 2 - build/vignette.rds |binary inst/doc/r_expr_addons.R | 12 +++--- inst/doc/r_expr_addons.html | 8 ++-- inst/doc/shiny_customized_widgets.R | 14 +++---- inst/doc/utility_functions.R | 8 ++-- inst/doc/utility_functions.html | 68 +++++++++++++++++----------------- man/digest2.Rd |only man/is_from_namespace.Rd |only man/reexports.Rd | 8 ++++ man/restart_session.Rd | 2 - src/RcppExports.cpp | 25 ++++++++++++ src/rcpp_median.cpp | 39 ++++++++++--------- src/utils.cpp | 71 ++++++++++++++++++++++++++++++++++++ src/utils.h | 3 + 27 files changed, 366 insertions(+), 116 deletions(-)
Title: Disciplined Convex Optimization
Description: An object-oriented modeling language for disciplined
convex programming (DCP) as described in Fu, Narasimhan, and Boyd
(2020, <doi:10.18637/jss.v094.i14>). It allows the user to
formulate convex optimization problems in a natural way following
mathematical convention and DCP rules. The system analyzes the
problem, verifies its convexity, converts it into a canonical
form, and hands it off to an appropriate solver to obtain the
solution. Interfaces to solvers on CRAN and elsewhere are
provided, both commercial and open source.
Author: Anqi Fu [aut, cre],
Balasubramanian Narasimhan [aut],
David W Kang [aut],
Steven Diamond [aut],
John Miller [aut],
Stephen Boyd [ctb],
Paul Kunsberg Rosenfield [ctb]
Maintainer: Anqi Fu <anqif@alumni.stanford.edu>
Diff between CVXR versions 1.0-13 dated 2024-06-01 and 1.0-14 dated 2024-06-27
DESCRIPTION | 20 +++++++++++--------- MD5 | 29 +++++++++++++++++++---------- NAMESPACE | 2 ++ NEWS.md | 6 ++++++ R/clarabel.R |only R/qp2quad_form.R | 4 ++-- R/solver_utilities.R | 4 ++-- R/sparse_utils.R |only R/utilities.R | 4 +++- build/vignette.rds |binary inst/doc/cvxr_intro.html | 4 ++-- inst/doc/version1.html | 4 ++-- man/CLARABEL-class.Rd |only man/CLARABEL.dims_to_solver_dict.Rd |only man/CLARABEL.extract_dual_value.Rd |only man/make_sparse_diagonal_matrix.Rd |only man/scaled_upper_tri.Rd |only man/triu_to_full.Rd |only man/updated_scaled_lower_tri.Rd |only tests/testthat/test-g05-solver_tests.R | 6 +++--- 20 files changed, 52 insertions(+), 31 deletions(-)
Title: Cluster Optimized Proximity Scaling
Description: Multidimensional scaling (MDS) methods that aim at pronouncing the clustered appearance of the configuration (Rusch, Mair & Hornik, 2021, <doi:10.1080/10618600.2020.1869027>). They achieve this by transforming proximities/distances with explicit power functions and penalizing the fitting criterion with a clusteredness index, the OPTICS Cordillera (Rusch, Hornik & Mair, 2018, <doi:10.1080/10618600.2017.1349664>). There are two variants: One for finding the configuration directly (COPS-C) with given explicit power transformations and implicit ratio, interval and non-metric optimal scaling transformations (Borg & Groenen, 2005, ISBN:978-0-387-28981-6), and one for using the augmented fitting criterion to find optimal hyperparameters for the explicit transformations (P-COPS). The package contains various functions, wrappers, methods and classes for fitting, plotting and displaying a large number of different MDS models (most of the functionality in smacofx) in the C [...truncated...]
Author: Thomas Rusch [aut, cre] ,
Patrick Mair [aut] ,
Kurt Hornik [ctb]
Maintainer: Thomas Rusch <thomas.rusch@wu.ac.at>
Diff between cops versions 1.3-1 dated 2023-01-19 and 1.11-3 dated 2024-06-27
cops-1.11-3/cops/DESCRIPTION | 23 cops-1.11-3/cops/MD5 | 138 cops-1.11-3/cops/NAMESPACE | 49 cops-1.11-3/cops/NEWS | 65 cops-1.11-3/cops/R/bcsdistance.R |only cops-1.11-3/cops/R/bootmds.pcops.R |only cops-1.11-3/cops/R/coef.cops.R |only cops-1.11-3/cops/R/conf_adjust.R |only cops-1.11-3/cops/R/cop_apstress.R |only cops-1.11-3/cops/R/cop_cmdscale.R |only cops-1.11-3/cops/R/cop_elastic.R |only cops-1.11-3/cops/R/cop_powerelastic.R |only cops-1.11-3/cops/R/cop_powermds.R |only cops-1.11-3/cops/R/cop_powersammon.R |only cops-1.11-3/cops/R/cop_powerstress.R |only cops-1.11-3/cops/R/cop_rpowerstress.R |only cops-1.11-3/cops/R/cop_rstress.R |only cops-1.11-3/cops/R/cop_sammon.R |only cops-1.11-3/cops/R/cop_sammon2.R |only cops-1.11-3/cops/R/cop_smacofSphere.R |only cops-1.11-3/cops/R/cop_smacofSym.R |only cops-1.11-3/cops/R/cop_sstress.R |only cops-1.11-3/cops/R/cops-package.R | 8 cops-1.11-3/cops/R/cops.R | 3727 +++++++++++++------------- cops-1.11-3/cops/R/copstress.R |only cops-1.11-3/cops/R/copstressMin.R |only cops-1.11-3/cops/R/doubleCenter.R |only cops-1.11-3/cops/R/enorm.R |only cops-1.11-3/cops/R/jackmds.pcops.R |only cops-1.11-3/cops/R/ljoptim.R |only cops-1.11-3/cops/R/matchphi-data.R |only cops-1.11-3/cops/R/mkBmat.R |only cops-1.11-3/cops/R/mkPower.R |only cops-1.11-3/cops/R/pcops.R |only cops-1.11-3/cops/R/pdist.R |only cops-1.11-3/cops/R/phidist.R |only cops-1.11-3/cops/R/plot.copsc.R |only cops-1.11-3/cops/R/plot.pcops.R |only cops-1.11-3/cops/R/print.cops.R |only cops-1.11-3/cops/R/print.copsc.R |only cops-1.11-3/cops/R/print.pcops.R |only cops-1.11-3/cops/R/procruster.R |only cops-1.11-3/cops/R/scale_adjust.R |only cops-1.11-3/cops/R/secularEq.R |only cops-1.11-3/cops/R/spp.R |only cops-1.11-3/cops/R/sqdist.R |only cops-1.11-3/cops/R/summary.pcops.R |only cops-1.11-3/cops/build/partial.rdb |binary cops-1.11-3/cops/build/vignette.rds |binary cops-1.11-3/cops/data/matchphi.rda |only cops-1.11-3/cops/inst/CITATION | 48 cops-1.11-3/cops/man/bootmds.pcops.Rd |only cops-1.11-3/cops/man/cop_apstress.Rd | 28 cops-1.11-3/cops/man/cop_cmdscale.Rd | 27 cops-1.11-3/cops/man/cop_elastic.Rd | 18 cops-1.11-3/cops/man/cop_powerelastic.Rd | 15 cops-1.11-3/cops/man/cop_powermds.Rd | 21 cops-1.11-3/cops/man/cop_powersammon.Rd | 19 cops-1.11-3/cops/man/cop_powerstress.Rd | 17 cops-1.11-3/cops/man/cop_rpowerstress.Rd | 17 cops-1.11-3/cops/man/cop_rstress.Rd | 21 cops-1.11-3/cops/man/cop_sammon.Rd | 30 cops-1.11-3/cops/man/cop_sammon2.Rd | 18 cops-1.11-3/cops/man/cop_smacofSphere.Rd | 13 cops-1.11-3/cops/man/cop_smacofSym.Rd | 13 cops-1.11-3/cops/man/cop_sstress.Rd | 17 cops-1.11-3/cops/man/cops-package.Rd |only cops-1.11-3/cops/man/cops.Rd | 75 cops-1.11-3/cops/man/copstress.Rd | 2 cops-1.11-3/cops/man/copstressMin.Rd | 152 - cops-1.11-3/cops/man/doubleCenter.Rd | 2 cops-1.11-3/cops/man/enorm.Rd | 2 cops-1.11-3/cops/man/jackmds.pcops.Rd |only cops-1.11-3/cops/man/ljoptim.Rd | 4 cops-1.11-3/cops/man/matchphi.Rd |only cops-1.11-3/cops/man/mkBmat.Rd | 5 cops-1.11-3/cops/man/mkPower.Rd | 2 cops-1.11-3/cops/man/pcops.Rd | 46 cops-1.11-3/cops/man/pdist.Rd | 2 cops-1.11-3/cops/man/phidistance.Rd |only cops-1.11-3/cops/man/plot.copsc.Rd |only cops-1.11-3/cops/man/plot.pcops.Rd | 35 cops-1.11-3/cops/man/procruster.Rd | 2 cops-1.11-3/cops/man/scale_adjust.Rd | 2 cops-1.11-3/cops/man/secularEq.Rd | 5 cops-1.11-3/cops/man/spp.Rd |only cops-1.11-3/cops/man/sqdist.Rd | 2 cops-1.11-3/cops/vignettes/cops.Rmd | 2 cops-1.3-1/cops/R/extras.R |only cops-1.3-1/cops/R/optimizations.R |only cops-1.3-1/cops/R/powerstress.R |only cops-1.3-1/cops/man/cmdscale.Rd |only cops-1.3-1/cops/man/conf_adjust.Rd |only cops-1.3-1/cops/man/plot.cops.Rd |only cops-1.3-1/cops/man/plot.smacofP.Rd |only cops-1.3-1/cops/man/plot3dstatic.Rd |only cops-1.3-1/cops/man/plot3dstatic.cmdscaleE.Rd |only cops-1.3-1/cops/man/powerStressFast.Rd |only cops-1.3-1/cops/man/powerStressMin.Rd |only cops-1.3-1/cops/man/sammon.Rd |only cops-1.3-1/cops/man/torgerson.Rd |only 101 files changed, 2456 insertions(+), 2216 deletions(-)
Title: Manipulations of Triangular Meshes Based on the 'VCGLIB' API
Description: Operations on triangular meshes based on 'VCGLIB'. This package
integrates nicely with the R-package 'rgl' to render the meshes processed by
'Rvcg'. The Visualization and Computer Graphics Library (VCG for short) is
an open source portable C++ templated library for manipulation, processing
and displaying with OpenGL of triangle and tetrahedral meshes. The library,
composed by more than 100k lines of code, is released under the GPL license,
and it is the base of most of the software tools of the Visual Computing Lab of
the Italian National Research Council Institute ISTI <https://vcg.isti.cnr.it/>,
like 'metro' and 'MeshLab'. The 'VCGLIB' source is pulled from trunk
<https://github.com/cnr-isti-vclab/vcglib> and patched to work with options
determined by the configure script as well as to work with the header files
included by 'RcppEigen'.
Author: Stefan Schlager [aut, cre, cph],
Girinon Francois [ctb],
Tim Schaefer [ctb],
Zhengjia Wang [ctb]
Maintainer: Stefan Schlager <zarquon42@gmail.com>
Diff between Rvcg versions 0.22.2 dated 2023-12-06 and 0.23 dated 2024-06-27
DESCRIPTION | 14 ++- MD5 | 23 +++--- NAMESPACE | 1 R/Rvcg-package.R | 29 ++++---- R/vcgIsosurface.r | 12 +-- R/vcgSmooth.r | 75 ++++++++++++++++++-- inst/NEWS.Rd | 9 ++ man/Rvcg-package.Rd | 15 +++- man/vcgSmooth.Rd | 2 man/vcgSmoothImplicit.Rd |only src/Rsmooth.cpp | 115 +++++++++++++++++++++++++++++--- src/init.c | 2 src/vcglib/wrap/io_trimesh/import_ply.h | 6 - 13 files changed, 241 insertions(+), 62 deletions(-)
Title: Procedures for Psychological, Psychometric, and Personality
Research
Description: A general purpose toolbox developed originally for personality, psychometric theory and experimental psychology. Functions are primarily for multivariate analysis and scale construction using factor analysis, principal component analysis, cluster analysis and reliability analysis, although others provide basic descriptive statistics. Item Response Theory is done using factor analysis of tetrachoric and polychoric correlations. Functions for analyzing data at multiple levels include within and between group statistics, including correlations and factor analysis. Validation and cross validation of scales developed using basic machine learning algorithms are provided, as are functions for simulating and testing particular item and test structures. Several functions serve as a useful front end for structural equation modeling. Graphical displays of path diagrams, including mediation models, factor analysis and structural equation models are created using basic graphics. Some of the fu [...truncated...]
Author: William Revelle [aut, cre]
Maintainer: William Revelle <revelle@northwestern.edu>
Diff between psych versions 2.4.3 dated 2024-03-18 and 2.4.6.26 dated 2024-06-27
DESCRIPTION | 14 +- MD5 | 238 +++++++++++++++++++++--------------------- NAMESPACE | 9 + R/ICLUST.R | 61 ++++++++-- R/ICLUST.cluster.R | 2 R/ICLUST.diagram.R | 2 R/ICLUST.sort.R | 4 R/RV.R |only R/alpha.R | 3 R/anova.psych.R | 56 ++++++++- R/bestItems.r | 2 R/bestScale.R | 19 ++- R/cluster.cor.R | 2 R/cohen.d.R | 2 R/cor.plot.R | 12 +- R/describe.R | 2 R/error.bars.R | 3 R/fa.extension.R | 2 R/fa.parallel.R | 9 - R/fa.sort.R | 17 ++- R/glb.R | 6 - R/irt.fa.R | 2 R/lmCor.R | 42 +++++-- R/misc.R | 87 ++++++++++++++- R/omega.R | 6 - R/omega.diagram.R | 32 +++-- R/omega.sem.R | 6 - R/omegaSem.R | 10 + R/polychoric.R | 36 ++++-- R/print.psych.R | 5 R/print.psych.fa.R | 8 + R/print.psych.omega.R | 3 R/reliability.R | 40 ++++--- R/rescale.R | 5 R/schmid.R | 4 R/score.irt.r | 4 R/score.items.R | 13 +- R/sim.multilevel.R | 1 R/splitHalf.R | 5 R/test.psych.r | 27 ++-- R/testRetest.r | 6 - R/unidim.r | 27 ++-- build/partial.rdb |binary build/vignette.rds |binary data/bfi.dictionary.rda |only data/small.msq.rda |only inst/CITATION | 2 inst/NEWS.Rd | 115 ++++++++++++-------- inst/doc/scoring.R | 20 +-- inst/doc/scoring.Rnw | 54 +++++---- inst/doc/scoring.pdf |binary inst/scoring.pdf |only man/ICC.Rd | 3 man/ICLUST.Rd | 162 +++++++++++++++++++++------- man/Pinv.Rd | 8 - man/RV.Rd |only man/Yule.Rd | 2 man/anova.psych.Rd | 11 + man/bassAckward.Rd | 14 +- man/best.scales.Rd | 12 +- man/bfi.Rd | 28 +--- man/bi.bars.Rd | 4 man/bigCor.Rd | 4 man/biplot.psych.Rd | 16 +- man/cluster.cor.Rd | 3 man/cluster.plot.Rd | 6 - man/cor.ci.Rd | 6 - man/cor.plot.Rd | 4 man/cor.smooth.Rd | 3 man/corFiml.Rd | 6 - man/cortest.bartlett.Rd | 2 man/cosinor.Rd | 2 man/count.pairwise.Rd | 3 man/densityBy.Rd | 4 man/ellipses.Rd | 2 man/error.bars.by.Rd | 4 man/error.circles.Rd | 6 - man/error.crosses.Rd | 8 - man/error.dots.Rd | 8 - man/esem.Rd | 4 man/fa.Rd | 14 +- man/fa.diagram.Rd | 8 + man/fa.lookup.Rd | 15 +- man/fa.parallel.Rd | 9 + man/fa.random.Rd | 3 man/faCor.Rd | 8 - man/faRotate.Rd | 2 man/factor.scores.Rd | 4 man/fisherz.Rd | 2 man/guttman.Rd | 21 +++ man/headtail.Rd | 5 man/iclust.diagram.Rd | 9 - man/interp.median.Rd | 3 man/irt.fa.Rd | 3 man/irt.responses.Rd | 2 man/make.keys.Rd | 12 +- man/manhattan.Rd | 23 ++-- man/misc.Rd | 29 +++-- man/mixed.cor.Rd | 6 - man/multilevel.reliability.Rd | 8 - man/pairs.panels.Rd | 2 man/parcels.Rd | 8 - man/plot.psych.Rd | 2 man/predict.psych.Rd | 6 - man/predicted.validity.Rd | 3 man/print.psych.Rd | 4 man/r.test.Rd | 4 man/reliability.Rd | 17 +-- man/sat.act.Rd | 2 man/score.irt.Rd | 5 man/score.items.Rd | 32 +++-- man/score.multiple.choice.Rd | 3 man/sim.Rd | 70 ++++++++---- man/small.msq.Rd |only man/spider.Rd | 2 man/statsBy.Rd | 2 man/structure.diagram.Rd | 8 - man/table2matrix.Rd | 2 man/testRetest.Rd | 5 man/tetrachor.Rd | 3 man/thurstone.Rd | 3 man/unidim.Rd | 13 +- vignettes/scoring.Rnw | 54 +++++---- 123 files changed, 1165 insertions(+), 631 deletions(-)
Title: Distributions for Ecological Models in 'nimble'
Description: Common ecological distributions for 'nimble' models in the form of nimbleFunction objects.
Includes Cormack-Jolly-Seber, occupancy, dynamic occupancy, hidden Markov, dynamic hidden Markov, and N-mixture models.
(Jolly (1965) <DOI: 10.2307/2333826>, Seber (1965) <DOI: 10.2307/2333827>, Turek et al. (2016) <doi:10.1007/s10651-016-0353-z>).
Author: Benjamin R. Goldstein [aut, cre],
Daniel Turek [aut],
Lauren Ponisio [aut],
Wei Zhang [ctb],
Perry de Valpine [aut]
Maintainer: Benjamin R. Goldstein <bgoldst2@ncsu.edu>
Diff between nimbleEcology versions 0.4.1 dated 2021-11-01 and 0.5.0 dated 2024-06-27
nimbleEcology-0.4.1/nimbleEcology/man/nimNmixPois_logFac.Rd |only nimbleEcology-0.5.0/nimbleEcology/DESCRIPTION | 22 nimbleEcology-0.5.0/nimbleEcology/MD5 | 74 nimbleEcology-0.5.0/nimbleEcology/NAMESPACE | 189 nimbleEcology-0.5.0/nimbleEcology/R/dBetaBinom.R | 299 nimbleEcology-0.5.0/nimbleEcology/R/dCJS.R | 913 +- nimbleEcology-0.5.0/nimbleEcology/R/dDHMM.R | 951 +- nimbleEcology-0.5.0/nimbleEcology/R/dDynOcc.R | 2365 +++--- nimbleEcology-0.5.0/nimbleEcology/R/dHMM.R | 905 +- nimbleEcology-0.5.0/nimbleEcology/R/dNmixture.R | 2008 ++--- nimbleEcology-0.5.0/nimbleEcology/R/dNmixtureAD.R |only nimbleEcology-0.5.0/nimbleEcology/R/dOcc.R | 390 - nimbleEcology-0.5.0/nimbleEcology/R/utils.R | 351 nimbleEcology-0.5.0/nimbleEcology/R/zzz.R | 1235 +-- nimbleEcology-0.5.0/nimbleEcology/README.md | 34 nimbleEcology-0.5.0/nimbleEcology/build/vignette.rds |binary nimbleEcology-0.5.0/nimbleEcology/inst/AD_test_utils.R |only nimbleEcology-0.5.0/nimbleEcology/inst/CITATION | 111 nimbleEcology-0.5.0/nimbleEcology/inst/NEWS | 80 nimbleEcology-0.5.0/nimbleEcology/inst/doc/Introduction_to_nimbleEcology.R | 190 nimbleEcology-0.5.0/nimbleEcology/inst/doc/Introduction_to_nimbleEcology.Rmd | 989 +- nimbleEcology-0.5.0/nimbleEcology/inst/doc/Introduction_to_nimbleEcology.html | 1807 +++- nimbleEcology-0.5.0/nimbleEcology/inst/test_utils.R |only nimbleEcology-0.5.0/nimbleEcology/man/dBetaBinom.Rd | 164 nimbleEcology-0.5.0/nimbleEcology/man/dCJS.Rd | 337 nimbleEcology-0.5.0/nimbleEcology/man/dDHMM.Rd | 391 - nimbleEcology-0.5.0/nimbleEcology/man/dDynOcc.Rd | 546 - nimbleEcology-0.5.0/nimbleEcology/man/dHMM.Rd | 393 - nimbleEcology-0.5.0/nimbleEcology/man/dNmixture.Rd | 601 - nimbleEcology-0.5.0/nimbleEcology/man/dNmixtureAD.Rd |only nimbleEcology-0.5.0/nimbleEcology/man/dNmixture_steps.Rd |only nimbleEcology-0.5.0/nimbleEcology/man/dOcc.Rd | 286 nimbleEcology-0.5.0/nimbleEcology/tests/testthat/test-AD.R |only nimbleEcology-0.5.0/nimbleEcology/tests/testthat/test-BetaBinom.R | 422 - nimbleEcology-0.5.0/nimbleEcology/tests/testthat/test-CJS.R | 1125 +- nimbleEcology-0.5.0/nimbleEcology/tests/testthat/test-DHMM.R | 1375 +-- nimbleEcology-0.5.0/nimbleEcology/tests/testthat/test-DynOcc.R | 3836 +++++----- nimbleEcology-0.5.0/nimbleEcology/tests/testthat/test-HMM.R | 1323 +-- nimbleEcology-0.5.0/nimbleEcology/tests/testthat/test-Nmixture.R | 3067 ++++--- nimbleEcology-0.5.0/nimbleEcology/tests/testthat/test-NmixtureADnoDerivs.R |only nimbleEcology-0.5.0/nimbleEcology/tests/testthat/test-Occ.R | 494 - nimbleEcology-0.5.0/nimbleEcology/vignettes/Introduction_to_nimbleEcology.Rmd | 989 +- 42 files changed, 14849 insertions(+), 13413 deletions(-)
Title: AI-Driven Code Generation, Explanation and Execution for Data
Analysis
Description: Employing artificial intelligence to convert data analysis questions into executable code, explanations, and algorithms. The self-correction feature ensures the generated code is optimized for performance and accuracy. 'mergen' features a user-friendly chat interface, enabling users to interact with the AI agent and extract valuable insights from their data effortlessly.
Author: Altuna Akalin [aut, cre] ,
Jacqueline Anne Jansen [aut]
Maintainer: Altuna Akalin <aakalin@gmail.com>
Diff between mergen versions 0.1.0 dated 2023-12-08 and 0.2.1 dated 2024-06-27
DESCRIPTION | 12 + MD5 | 32 ++-- NAMESPACE | 2 NEWS.md |only R/clean_code_blocks.R | 3 R/extractInstallPkg.R | 53 +++++-- R/parseBotResponse.R | 2 R/runCodeInResponse.R |only R/selfcorrect.R | 354 ++++++++++++++++++++++++++++++++++++++++++----- R/sendPrompt.R | 107 ++++++++++++-- R/setupAgent.R | 26 ++- README.md | 16 +- man/check_install.Rd | 2 man/extractInstallPkg.Rd | 3 man/runCodeInResponse.Rd |only man/sampleResponse.Rd |only man/selfcorrect.Rd | 7 man/sendPrompt.Rd | 41 ++++- man/setupAgent.Rd | 17 +- 19 files changed, 585 insertions(+), 92 deletions(-)
Title: Train and Apply a Gaussian Stochastic Process Model
Description: Train a Gaussian stochastic process model of an unknown function, possibly observed with error, via maximum likelihood or maximum a posteriori (MAP) estimation, run model diagnostics, and make predictions, following Sacks, J., Welch, W.J., Mitchell, T.J., and Wynn, H.P. (1989) "Design and Analysis of Computer Experiments", Statistical Science, <doi:10.1214/ss/1177012413>. Perform sensitivity analysis and visualize low-order effects, following Schonlau, M. and Welch, W.J. (2006), "Screening the Input Variables to a Computer Model Via Analysis of Variance and Visualization", <doi:10.1007/0-387-28014-6_14>.
Author: William J. Welch [aut, cre, cph]
,
Yilin Yang [aut]
Maintainer: William J. Welch <will@stat.ubc.ca>
Diff between GaSP versions 1.0.5 dated 2023-12-08 and 1.0.6 dated 2024-06-27
DESCRIPTION | 8 +++---- MD5 | 20 ++++++++--------- README.md | 11 ++++++--- build/vignette.rds |binary inst/doc/GaSP_vignette.pdf |binary src/RtoC.c | 51 ++++++++++++++++++++++++++++----------------- src/libout.c | 3 +- src/matio.c | 4 ++- src/mattri.c | 3 +- src/min.c | 9 ++++--- src/mincont.c | 5 +--- 11 files changed, 67 insertions(+), 47 deletions(-)
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2023-11-01 1.2.4
2021-11-27 1.2.3
2021-05-03 1.2.2
2021-04-02 1.2.1
2020-11-05 1.2.0
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2024-05-28 1.1.2
2024-05-21 1.1.1
Title: Pathways Longitudinal and Differential Analysis in Metabolomics
Description: Perform a differential analysis at pathway level based on metabolite quantifications and information on pathway metabolite composition.
The method is based on a Principal Component Analysis step and on a linear mixed model.
Automatic query of metabolic pathways is also implemented.
Author: Camille Guilmineau [aut, cre],
Remi Servien [aut] ,
Nathalie Vialaneix [aut]
Maintainer: Camille Guilmineau <camille.guilmineau@inrae.fr>
Diff between phoenics versions 0.1 dated 2024-05-22 and 0.2 dated 2024-06-27
DESCRIPTION | 8 ++++---- MD5 | 9 +++++---- R/overlap_coefficient.R | 6 +++--- R/pathway_search.R | 7 ++++--- R/test_pathway.R | 2 +- R/use_KEGGREST.R |only 6 files changed, 17 insertions(+), 15 deletions(-)
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2022-05-10 1.1.3
2021-07-13 1.1.2
2017-10-31 1.1.1
2017-03-24 1.1.0
2014-12-19 1.0.1
2014-11-05 1.0.0
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2021-10-20 1.3-4
2013-04-17 1.2-4
2011-02-28 1.2-2
2010-10-21 1.2-1
2010-10-08 1.2
2010-03-23 1.1-1
Title: Semi-Automated Marketing Mix Modeling (MMM) from Meta Marketing
Science
Description: Semi-Automated Marketing Mix Modeling (MMM) aiming to reduce human bias by means of ridge regression and evolutionary algorithms, enables actionable decision making providing a budget allocation and diminishing returns curves and allows ground-truth calibration to account for causation.
Author: Gufeng Zhou [aut],
Bernardo Lares [cre, aut],
Leonel Sentana [aut],
Igor Skokan [aut],
Meta Platforms, Inc. [cph, fnd]
Maintainer: Bernardo Lares <laresbernardo@gmail.com>
Diff between Robyn versions 3.11.0 dated 2024-06-19 and 3.11.1 dated 2024-06-27
DESCRIPTION | 7 LICENSE | 6 MD5 | 90 - NAMESPACE | 336 ++--- R/allocator.R | 2108 +++++++++++++++++----------------- R/auxiliary.R | 192 +-- R/calibration.R | 270 ++-- R/checks.R | 2202 ++++++++++++++++++------------------ R/clusters.R | 950 +++++++-------- R/convergence.R | 440 +++---- R/data.R | 126 +- R/exports.R | 440 +++---- R/imports.R | 102 - R/json.R | 860 +++++++------- R/model.R | 2714 ++++++++++++++++++++++----------------------- R/outputs.R | 656 +++++----- R/pareto.R | 1240 ++++++++++---------- R/plots.R | 3 R/refresh.R | 1208 ++++++++++---------- R/response.R | 804 ++++++------- R/transformation.R | 884 +++++++------- R/zzz.R | 16 man/Robyn.Rd | 62 - man/adstocks.Rd | 204 +-- man/dt_prophet_holidays.Rd | 76 - man/dt_simulated_weekly.Rd | 74 - man/fit_spend_exposure.Rd | 58 man/hyper_limits.Rd | 36 man/hyper_names.Rd | 202 +-- man/mic_men.Rd | 76 - man/prophet_decomp.Rd | 90 - man/robyn_allocator.Rd | 312 ++--- man/robyn_clusters.Rd | 168 +- man/robyn_converge.Rd | 118 - man/robyn_inputs.Rd | 426 +++---- man/robyn_mmm.Rd | 202 +-- man/robyn_outputs.Rd | 304 ++--- man/robyn_refresh.Rd | 334 ++--- man/robyn_response.Rd | 316 ++--- man/robyn_run.Rd | 260 ++-- man/robyn_save.Rd | 120 - man/robyn_train.Rd | 196 +-- man/robyn_update.Rd | 48 man/robyn_write.Rd | 156 +- man/saturation_hill.Rd | 86 - man/set_holidays.Rd | 46 46 files changed, 9812 insertions(+), 9812 deletions(-)
Title: Reporting Tables
Description: Reporting tables often have structure that goes beyond simple
rectangular data. The 'rtables' package provides a framework for
declaring complex multi-level tabulations and then applying them to
data. This framework models both tabulation and the resulting tables
as hierarchical, tree-like objects which support sibling sub-tables,
arbitrary splitting or grouping of data in row and column dimensions,
cells containing multiple values, and the concept of contextual
summary computations. A convenient pipe-able interface is provided for
declaring table layouts and the corresponding computations, and then
applying them to data.
Author: Gabriel Becker [aut] ,
Adrian Waddell [aut],
Daniel Sabanes Bove [ctb],
Maximilian Mordig [ctb],
Davide Garolini [ctb],
Emily de la Rua [ctb],
Abinaya Yogasekaram [ctb],
Joe Zhu [ctb, cre],
F. Hoffmann-La Roche AG [cph, fnd]
Maintainer: Joe Zhu <joe.zhu@roche.com>
Diff between rtables versions 0.6.8 dated 2024-06-20 and 0.6.9 dated 2024-06-27
DESCRIPTION | 8 +-- MD5 | 76 ++++++++++++++++---------------- NEWS.md | 4 + R/argument_conventions.R | 4 - R/colby_constructors.R | 5 +- R/tt_compatibility.R | 4 - R/tt_export.R | 6 +- R/tt_sort.R | 14 ++--- inst/doc/advanced_usage.html | 4 - inst/doc/baseline.html | 4 - inst/doc/clinical_trials.html | 4 - inst/doc/col_counts.R | 18 +++++-- inst/doc/col_counts.Rmd | 12 ++++- inst/doc/col_counts.html | 31 +++++++------ inst/doc/custom_appearance.html | 4 - inst/doc/example_analysis_coxreg.html | 4 - inst/doc/exploratory_analysis.html | 6 +- inst/doc/format_precedence.html | 4 - inst/doc/introduction.Rmd | 3 - inst/doc/introduction.html | 8 +-- inst/doc/introspecting_tables.Rmd | 3 - inst/doc/introspecting_tables.html | 6 +- inst/doc/manual_table_construction.html | 4 - inst/doc/sorting_pruning.html | 8 +-- inst/doc/split_functions.html | 4 - inst/doc/subsetting_tables.html | 4 - inst/doc/tabulation_dplyr.html | 4 - inst/doc/title_footer.html | 4 - man/basic_table.Rd | 9 ++- man/constr_args.Rd | 4 - man/export_as_docx.Rd | 6 +- man/qtable_layout.Rd | 4 - man/rbind.Rd | 4 - man/sort_at_path.Rd | 14 ++--- man/tabclasses.Rd | 4 - man/tt_to_flextable.Rd | 6 +- vignettes/col_counts.Rmd | 12 ++++- vignettes/introduction.Rmd | 3 - vignettes/introspecting_tables.Rmd | 3 - 39 files changed, 181 insertions(+), 148 deletions(-)
Title: Geometric Markov Chain Sampling
Description: Simulates from discrete and continuous target distributions
using geometric Metropolis-Hastings (MH)
algorithms. Users specify the target distribution
by an R function that evaluates the log un-normalized pdf or pmf. The package
also contains a function implementing a specific geometric MH algorithm for
performing high dimensional Bayesian variable selection.
Author: Vivekananda Roy [aut, cre]
Maintainer: Vivekananda Roy <vroy@iastate.edu>
Diff between geommc versions 0.0.0 dated 2024-06-17 and 0.0.1 dated 2024-06-27
DESCRIPTION | 6 +++--- MD5 | 4 ++-- R/geomcvs.R | 2 +- 3 files changed, 6 insertions(+), 6 deletions(-)
Title: Approximate Algorithm for Horseshoe Prior
Description: Provides exact and approximate algorithms for the horseshoe prior
in linear regression models, which were proposed by Johndrow et al. (2020)
<https://www.jmlr.org/papers/v21/19-536.html>.
Author: Kang Mingi [aut, cre],
Lee Kyoungjae [aut]
Maintainer: Kang Mingi <leehuimin115@g.skku.edu>
Diff between Mhorseshoe versions 0.1.2 dated 2023-11-24 and 0.1.3 dated 2024-06-27
DESCRIPTION | 19 - MD5 | 28 +- NEWS.md | 8 R/approximate_algorithm.R | 166 ++----------- R/exact_algorithm.R | 48 +-- R/package-Mhorseshoe.R | 125 +-------- README.md | 110 ++++---- build/vignette.rds |binary inst/doc/Mhorseshoe.R | 28 +- inst/doc/Mhorseshoe.Rmd | 586 +++++++++++++++++++++------------------------- inst/doc/Mhorseshoe.html | 301 +++++++++-------------- man/Mhorseshoe.Rd | 99 ------- man/approx_horseshoe.Rd | 198 ++++----------- man/exact_horseshoe.Rd | 52 ++-- vignettes/Mhorseshoe.Rmd | 586 +++++++++++++++++++++------------------------- 15 files changed, 916 insertions(+), 1438 deletions(-)