Title: UAV Mission Planner
Description: The Unmanned Aerial Vehicle Mission Planner provides an easy to use workflow for planning autonomous obstacle avoiding surveys of rtf-UAVs to retrieve aerial or spot related data. It creates either intermediate flight control files for the DJI phantom x UAVs or ready to upload control files for the pixhawk based flightcontroller as used in the 3DR Solo. Additionally it contains some useful tools for digitizing and data manipulation.
Author: Chris Reudenbach [cre, aut],
Sebastian Richter [ctb],
Lars Opgenoorth [ctb],
Florian Detsch [ctb],
Hanna Meyer [ctb]
Maintainer: Chris Reudenbach <reudenbach@uni-marburg.de>
Diff between uavRmp versions 0.5.1 dated 2017-10-11 and 0.5.3 dated 2018-01-12
DESCRIPTION | 10 - MD5 | 44 ++--- NAMESPACE | 4 NEWS.md |only R/karim.R | 169 ++++++++++++++++++- R/makeAP.R | 209 ++++++++++++++---------- R/makeTP.R | 123 +++++--------- R/mpControl.R | 354 ++++++++++++++++++++++++----------------- R/soloTB.R | 2 R/uavRmp-package.R | 1 build/vignette.rds |binary inst/doc/uavRmp_1.Rmd | 6 inst/doc/uavRmp_1.pdf |binary inst/extdata/positions.csv | 1 inst/python/basicPSWorkflow.py |only inst/python/makeOrtho.py |only man/copyDir.Rd |only man/initProj.Rd |only man/makeAP.Rd | 42 ++-- man/makeGlobalVar.Rd |only man/makeTP.Rd | 17 - man/maxpos_on_line.Rd | 2 man/read_gpx.Rd | 1 man/sp_line.Rd | 9 - man/sp_point.Rd | 5 vignettes/uavRmp_1.Rmd | 6 26 files changed, 631 insertions(+), 374 deletions(-)
Title: Network-based Interpretation of Changes in Compositional Data
Description: Provides a set of functions to interpret changes in
compositional data based on a network representation of all pairwise ratio
comparisons: computation of all pairwise ratio, construction of a
p-value matrix of all pairwise tests of these ratios between
conditions, conversion of this matrix to a network.
Author: Emmanuel Curis [aut, cre]
Maintainer: Emmanuel Curis <emmanuel.curis@parisdescartes.fr>
Diff between SARP.compo versions 0.0.2 dated 2018-01-05 and 0.0.3 dated 2018-01-12
DESCRIPTION | 8 ++++---- MD5 | 10 +++++----- R/creer_graphe.R | 14 ++++++++++++++ data/BpLi_J2.csv.gz |binary data/BpLi_J4.csv.gz |binary man/BpLi.Rd | 9 ++++++++- 6 files changed, 31 insertions(+), 10 deletions(-)
Title: R MPFR - Multiple Precision Floating-Point Reliable
Description: Arithmetic (via S4 classes and methods) for
arbitrary precision floating point numbers, including transcendental
("special") functions. To this end, the package interfaces to
the 'LGPL' licensed 'MPFR' (Multiple Precision Floating-Point Reliable) Library
which itself is based on the 'GMP' (GNU Multiple Precision) Library.
Author: Martin Maechler
Maintainer: Martin Maechler <maechler@stat.math.ethz.ch>
Diff between Rmpfr versions 0.6-1 dated 2016-11-15 and 0.7-0 dated 2018-01-12
DESCRIPTION | 22 +- MD5 | 72 ++++---- NAMESPACE | 26 ++ R/AllClasses.R | 37 +++- R/Math.R | 6 R/Summary.R | 21 +- R/array.R | 33 ++- R/as.R | 81 ++++++--- R/formatHex.R | 300 +++++++++++++++++----------------- R/mpfr.R | 51 +++-- R/special-fun.R | 12 - README.md | 2 TODO | 9 - build/vignette.rds |binary inst/NEWS.Rd | 68 +++++++ inst/doc/Maechler_useR_2011-abstr.pdf |binary inst/doc/Rmpfr-pkg.pdf |binary inst/doc/log1mexp-note.pdf |binary man/chooseMpfr.Rd | 4 man/distr-etc.Rd | 7 man/formatHex.Rd | 70 ++++++- man/formatMpfr.Rd | 18 +- man/mpfr-utils.Rd | 30 ++- man/mpfrArray.Rd | 21 +- man/str.mpfr.Rd | 8 src/Makevars.in | 9 - src/Rmpfr_utils.h | 8 src/convert.c | 178 +++++++++++++------- src/init.c | 2 src/utils.c | 2 tests/arith-ex.R | 7 tests/bit-repr.R | 28 +++ tests/bit-repr.Rout.save | 58 +++++- tests/create.R | 20 +- tests/lowlevel.R | 44 ++++ tests/special-fun-ex.R | 33 +++ tests/tstHexBin.R | 103 ++++++----- 37 files changed, 935 insertions(+), 455 deletions(-)
Title: Control the Number of Threads on 'BLAS'
Description: Control the number of threads on 'BLAS' (Aka 'GotoBLAS', 'ACML' and 'MKL').
And possible to control the number of threads in 'OpenMP'.
Get a number of logical cores and physical cores if feasible.
Author: Junji NAKANO <nakanoj@ism.ac.jp> and Ei-ji Nakama<nakama@com-one.com>
Maintainer: Ei-ji Nakama <nakama@com-one.com>
Diff between RhpcBLASctl versions 0.15-148 dated 2015-05-28 and 0.18-12 dated 2018-01-12
ChangeLog | 2 ++ DESCRIPTION | 12 ++++++------ MD5 | 11 ++++++----- configure | 14 +++++++++++++- man/RhpcBLASctl-package.Rd | 13 ++++++++----- src/blasctl.c | 29 +++++++++++++++-------------- src/registerDynamicSymbol.c |only 7 files changed, 50 insertions(+), 31 deletions(-)
Title: 3D Visualization Using OpenGL
Description: Provides medium to high level functions for 3D interactive graphics, including
functions modelled on base graphics (plot3d(), etc.) as well as functions for
constructing representations of geometric objects (cube3d(), etc.). Output
may be on screen using OpenGL, or to various standard 3D file formats including
WebGL, PLY, OBJ, STL as well as 2D image formats, including PNG, Postscript, SVG, PGF.
Author: Daniel Adler <dadler@uni-goettingen.de>, Duncan Murdoch <murdoch@stats.uwo.ca>, and others (see README)
Maintainer: Duncan Murdoch <murdoch@stats.uwo.ca>
Diff between rgl versions 0.98.22 dated 2017-12-13 and 0.99.9 dated 2018-01-12
DESCRIPTION | 10 MD5 | 61 NAMESPACE | 6 R/Sweave_knitr.R | 4 R/convertScene.R | 889 +++++++------- R/rglMouse.R |only R/rglwidget.R | 75 + R/webGL.R | 4 build/vignette.rds |binary inst/NEWS | 20 inst/doc/WebGL.R | 16 inst/doc/WebGL.Rmd | 65 + inst/doc/WebGL.html | 260 ++-- inst/doc/legacyWebGL.Rmd | 2 inst/doc/legacyWebGL.html | 707 ++++++++--- inst/doc/rgl.Rmd | 18 inst/doc/rgl.html | 1600 +++++++++++++++----------- inst/htmlwidgets/lib/rglClass/rglClass.src.js | 450 ++++++- inst/htmlwidgets/rglWebGL.js | 90 - man/propertyControl.Rd | 3 man/rglMouse.Rd |only man/rglShared.Rd |only man/rglwidget.Rd | 8 src/COPYING.GL2PS | 2 src/SphereMesh.cpp | 37 src/SphereMesh.h | 9 src/SphereSet.cpp | 12 src/SphereSet.h | 1 src/gl2ps.c | 580 +++++++-- src/gl2ps.h | 54 vignettes/WebGL.Rmd | 65 + vignettes/legacyWebGL.Rmd | 2 vignettes/rgl.Rmd | 18 33 files changed, 3422 insertions(+), 1646 deletions(-)
Title: Analysis of Physiologically Structured Population Models
Description: Performs demographic, bifurcation and evolutionary analysis of physiologically structured population models, which is a class of models that consistently translates continuous-time models of individual life history to the population level.
A model of individual life history has to be implemented specifying the individual-level functions that determine the life history, such as development and mortality rates and fecundity.
M.A. Kirkilionis, O. Diekmann, B. Lisser, M. Nool, B. Sommeijer & A.M. de Roos (2001) <doi:10.1142/S0218202501001264>.
O.Diekmann, M.Gyllenberg & J.A.J.Metz (2003) <doi:10.1016/S0040-5809(02)00058-8>.
A.M. de Roos (2008) <doi:10.1111/j.1461-0248.2007.01121.x>.
Author: Andre M. de Roos [aut, cre],
Ernst Hairer [ctb],
Gerhard Wanner [ctb]
Maintainer: Andre M. de Roos <A.M.deRoos@uva.nl>
Diff between PSPManalysis versions 0.1.0 dated 2018-01-08 and 0.1.1 dated 2018-01-12
PSPManalysis-0.1.0/PSPManalysis/tests/testthat/Initstate.csb |only PSPManalysis-0.1.1/PSPManalysis/DESCRIPTION | 6 PSPManalysis-0.1.1/PSPManalysis/MD5 | 13 - PSPManalysis-0.1.1/PSPManalysis/demo/Indet_growth5.R | 2 PSPManalysis-0.1.1/PSPManalysis/inst/C/PSPMecodyn.c | 102 ++++------ PSPManalysis-0.1.1/PSPManalysis/inst/C/biftest.c | 8 PSPManalysis-0.1.1/PSPManalysis/tests/testthat/test.02-PNAS2002.R | 4 PSPManalysis-0.1.1/PSPManalysis/tests/testthat/test.03-Indet_growth.R | 2 8 files changed, 67 insertions(+), 70 deletions(-)
Title: Nonparametric Kernel Smoothing Methods for Mixed Data Types
Description: Nonparametric (and semiparametric) kernel methods that seamlessly handle a mix of continuous, unordered, and ordered factor data types. We would like to gratefully acknowledge support from the Natural Sciences and Engineering Research Council of Canada (NSERC, <http://www.nserc-crsng.gc.ca>), the Social Sciences and Humanities Research Council of Canada (SSHRC, <http://www.sshrc-crsh.gc.ca>), and the Shared Hierarchical Academic Research Computing Network (SHARCNET, <http://www.sharcnet.ca>).
Author: Jeffrey S. Racine [aut, cre],
Tristen Hayfield [aut]
Maintainer: Jeffrey S. Racine <racinej@mcmaster.ca>
Diff between np versions 0.60-5 dated 2018-01-04 and 0.60-6 dated 2018-01-12
CHANGELOG | 12 + DESCRIPTION | 8 - MD5 | 28 ++-- R/npregivderiv.R | 16 -- R/npuniden.boundary.R | 313 +++++++++++++++++++++++++++++++---------------- R/npuniden.reflect.R | 43 +++--- R/util.R | 16 ++ R/zzz.R | 2 inst/doc/entropy_np.pdf |binary inst/doc/np.pdf |binary inst/doc/np_faq.Rnw | 18 ++ inst/doc/np_faq.pdf |binary man/npuniden.boundary.Rd | 189 ++++++++++++++++++++++++---- man/npuniden.reflect.Rd | 64 +++++++-- vignettes/np_faq.Rnw | 18 ++ 15 files changed, 530 insertions(+), 197 deletions(-)
Title: Latent Variable Models
Description: A general implementation of Structural Equation Models
with latent variables (MLE, 2SLS, and composite likelihood
estimators) with both continuous, censored, and ordinal
outcomes (Holst and Budtz-Joergensen (2013)
<doi:10.1007/s00180-012-0344-y>). The package also provides
methods for graph exploration (d-separation, back-door criterion),
simulation of general non-linear latent variable models, and
estimation of influence functions for a broad range of statistical
models.
Author: Klaus K. Holst [aut, cre],
Brice Ozenne [ctb],
Thomas Gerds [ctb]
Maintainer: Klaus K. Holst <klaus@holst.it>
Diff between lava versions 1.5.1 dated 2017-09-27 and 1.6 dated 2018-01-12
lava-1.5.1/lava/R/zorg.R |only lava-1.5.1/lava/man/density.sim.Rd |only lava-1.6/lava/DESCRIPTION | 15 lava-1.6/lava/MD5 | 197 ++++++------ lava-1.6/lava/NAMESPACE | 29 + lava-1.6/lava/NEWS | 34 ++ lava-1.6/lava/R/Grep.R |only lava-1.6/lava/R/NA2x.R |only lava-1.6/lava/R/addhook.R | 7 lava-1.6/lava/R/addvar.R | 6 lava-1.6/lava/R/bootstrap.R | 19 - lava-1.6/lava/R/coef.R | 60 +-- lava-1.6/lava/R/combine.R | 2 lava-1.6/lava/R/complik.R | 12 lava-1.6/lava/R/confband.R | 7 lava-1.6/lava/R/confint.R | 4 lava-1.6/lava/R/confpred.R | 7 lava-1.6/lava/R/constrain.R | 4 lava-1.6/lava/R/covariance.R | 2 lava-1.6/lava/R/csplit.R | 2 lava-1.6/lava/R/cv.R | 2 lava-1.6/lava/R/effects.R | 6 lava-1.6/lava/R/equivalence.R | 2 lava-1.6/lava/R/estimate.default.R | 117 +++++-- lava-1.6/lava/R/estimate.formula.R |only lava-1.6/lava/R/estimate.list.R |only lava-1.6/lava/R/estimate.lvm.R | 71 ---- lava-1.6/lava/R/estimate.multigroup.R | 15 lava-1.6/lava/R/exogenous.R | 6 lava-1.6/lava/R/fplot.R | 2 lava-1.6/lava/R/frobnorm.R |only lava-1.6/lava/R/functional.R | 2 lava-1.6/lava/R/gkgamma.R | 2 lava-1.6/lava/R/glmest.R | 30 + lava-1.6/lava/R/gof.R | 8 lava-1.6/lava/R/graph2lvm.R | 7 lava-1.6/lava/R/iid.R | 2 lava-1.6/lava/R/iv.R | 2 lava-1.6/lava/R/kill.R | 3 lava-1.6/lava/R/km.R |only lava-1.6/lava/R/labels.R | 2 lava-1.6/lava/R/latent.R | 4 lava-1.6/lava/R/lava-package.R | 4 lava-1.6/lava/R/lvm.R | 13 lava-1.6/lava/R/makemissing.R | 29 + lava-1.6/lava/R/measurement.error.R | 2 lava-1.6/lava/R/merge.R | 18 - lava-1.6/lava/R/missingMLE.R | 37 +- lava-1.6/lava/R/mixture.R |only lava-1.6/lava/R/modelsearch.R | 25 - lava-1.6/lava/R/mvnmix.R |only lava-1.6/lava/R/napass0.R |only lava-1.6/lava/R/nonlinear.R | 8 lava-1.6/lava/R/normal.R | 2 lava-1.6/lava/R/ordinal.R | 51 ++- lava-1.6/lava/R/org.R |only lava-1.6/lava/R/path.R | 9 lava-1.6/lava/R/plot.R | 2 lava-1.6/lava/R/plot.estimate.R | 17 + lava-1.6/lava/R/plot.sim.R |only lava-1.6/lava/R/predict.mixture.R |only lava-1.6/lava/R/print.R | 16 - lava-1.6/lava/R/profile.R | 3 lava-1.6/lava/R/regression.R | 15 lava-1.6/lava/R/rotation.R |only lava-1.6/lava/R/scheffe.R | 8 lava-1.6/lava/R/sim.default.R | 398 +++---------------------- lava-1.6/lava/R/stack.R | 98 ++++-- lava-1.6/lava/R/startvalues.R | 20 - lava-1.6/lava/R/summary.R | 8 lava-1.6/lava/R/twostage.R | 78 +++- lava-1.6/lava/R/utils.R | 6 lava-1.6/lava/R/vars.R | 3 lava-1.6/lava/R/wait.R |only lava-1.6/lava/inst/doc/reference.pdf |binary lava-1.6/lava/man/Combine.Rd | 2 lava-1.6/lava/man/Grep.Rd |only lava-1.6/lava/man/NA2x.Rd |only lava-1.6/lava/man/Org.Rd | 2 lava-1.6/lava/man/bootstrap.lvm.Rd | 6 lava-1.6/lava/man/complik.Rd | 10 lava-1.6/lava/man/confint.lvmfit.Rd | 2 lava-1.6/lava/man/confpred.Rd | 7 lava-1.6/lava/man/csplit.Rd | 2 lava-1.6/lava/man/equivalence.Rd | 2 lava-1.6/lava/man/estimate.default.Rd | 10 lava-1.6/lava/man/estimate.lvm.Rd | 8 lava-1.6/lava/man/fplot.Rd | 2 lava-1.6/lava/man/internal.Rd | 3 lava-1.6/lava/man/km.Rd |only lava-1.6/lava/man/lava.options.Rd | 4 lava-1.6/lava/man/lvm.Rd | 5 lava-1.6/lava/man/makemissing.Rd | 4 lava-1.6/lava/man/measurement.error.Rd | 2 lava-1.6/lava/man/mixture.Rd |only lava-1.6/lava/man/modelsearch.Rd | 4 lava-1.6/lava/man/mvnmix.Rd |only lava-1.6/lava/man/ordinal-set.Rd |only lava-1.6/lava/man/path.Rd | 6 lava-1.6/lava/man/plot.estimate.Rd |only lava-1.6/lava/man/plot.sim.Rd |only lava-1.6/lava/man/regression-set.Rd | 5 lava-1.6/lava/man/rmvar.Rd | 3 lava-1.6/lava/man/rotate2.Rd |only lava-1.6/lava/man/scheffe.Rd | 4 lava-1.6/lava/man/sim.default.Rd | 4 lava-1.6/lava/man/stack.estimate.Rd | 30 + lava-1.6/lava/man/summary.sim.Rd |only lava-1.6/lava/man/twostage.lvmfit.Rd | 7 lava-1.6/lava/man/vars.Rd | 4 lava-1.6/lava/man/wait.Rd |only lava-1.6/lava/tests/testthat/test-inference.R | 11 lava-1.6/lava/tests/testthat/test-multigroup.R | 4 113 files changed, 846 insertions(+), 867 deletions(-)
Title: Download and Process GIMMS NDVI3g Data
Description: This is a set of functions to retrieve information about GIMMS
NDVI3g files currently available online; download (and re-arrange, in the
case of NDVI3g.v0) the half-monthly data sets from
<https://ecocast.arc.nasa.gov/data/pub/gimms/>; import downloaded files from
ENVI binary (NDVI3g.v0) or NetCDF format (NDVI3g.v1) directly into R based
on the widespread 'raster' package; conduct quality control; and generate
monthly composites (e.g., maximum values) from the half-monthly input data.
As a special gimmick, a method is included to conveniently apply the
Mann-Kendall trend test upon 'Raster*' images, optionally featuring
trend-free pre-whitening to account for lag-1 autocorrelation.
Author: Florian Detsch [cre, aut]
Maintainer: Florian Detsch <fdetsch@web.de>
Diff between gimms versions 1.0.0 dated 2016-12-16 and 1.1.0 dated 2018-01-12
DESCRIPTION | 32 +- LICENSE | 676 ------------------------------------------------ MD5 | 59 ++-- NAMESPACE | 38 +- NEWS | 67 ++-- NEWS.md |only R/downloadGimms.R | 430 +++++++++++++++--------------- R/gimms-package.R | 110 +++---- R/gimmsControls.R | 444 +++++++++++++++---------------- R/monthlyComposite.R | 258 +++++++++--------- R/monthlyIndices.R | 180 ++++++------ R/oldNaming.R |only R/qualityControl.R | 283 ++++++++++---------- R/rasterizeGimms.R | 505 ++++++++++++++++++----------------- R/rearrangeFiles.R | 132 ++++----- R/significantTau.R | 383 ++++++++++++++------------- R/updateInventory.R | 280 ++++++++++--------- README.md | 148 ++++++---- data/bale3g.v1.rda |binary data/kili3g.v0.rda |binary man/bale3g.v1.Rd | 29 -- man/downloadGimms.Rd | 177 ++++++------ man/gimms-package.Rd | 69 ++-- man/kili3g.v0.Rd | 29 -- man/monthlyComposite.Rd | 147 +++++----- man/monthlyIndices.Rd | 103 +++---- man/oldNaming.Rd |only man/qualityControl.Rd | 102 ++++--- man/rasterizeGimms.Rd | 146 +++++----- man/rearrangeFiles.Rd | 73 ++--- man/significantTau.Rd | 235 ++++++++-------- man/updateInventory.Rd | 96 +++--- 32 files changed, 2359 insertions(+), 2872 deletions(-)
Title: Fixed Rank Kriging
Description: Fixed Rank Kriging is a tool for spatial/spatio-temporal modelling
and prediction with large datasets. The approach, discussed in Cressie and
Johannesson (2008) <DOI:10.1111/j.1467-9868.2007.00633.x>, decomposes the field,
and hence the covariance function, using a fixed set of n basis functions,
where n is typically much smaller than the number of data points (or polygons) m.
The method naturally allows for non-stationary, anisotropic covariance functions
and the use of observations with varying support (with known error variance). The
projected field is a key building block of the Spatial Random Effects (SRE) model,
on which this package is based. The package FRK provides helper functions to model,
fit, and predict using an SRE with relative ease.
Author: Andrew Zammit-Mangion [aut, cre],
Timothy Davis [ctb],
Patrick Amestoy [ctb],
Iain Duff [ctb],
John K. Reid [ctb]
Maintainer: Andrew Zammit-Mangion <andrewzm@gmail.com>
Diff between FRK versions 0.1.7 dated 2018-01-07 and 0.1.8 dated 2018-01-12
DESCRIPTION | 8 ++++---- MD5 | 8 ++++---- R/geometryfns.R | 14 +++++++++++--- inst/doc/FRK_intro.pdf |binary man/SpatialPolygonsDataFrame_to_df.Rd | 4 ++-- 5 files changed, 21 insertions(+), 13 deletions(-)
Title: Flexible Procedures for Clustering
Description: Various methods for clustering and cluster validation.
Fixed point clustering. Linear regression clustering. Clustering by
merging Gaussian mixture components. Symmetric
and asymmetric discriminant projections for visualisation of the
separation of groupings. Cluster validation statistics
for distance based clustering including corrected Rand index.
Cluster-wise cluster stability assessment. Methods for estimation of
the number of clusters: Calinski-Harabasz, Tibshirani and Walther's
prediction strength, Fang and Wang's bootstrap stability.
Gaussian/multinomial mixture fitting for mixed
continuous/categorical variables. Variable-wise statistics for cluster
interpretation. DBSCAN clustering. Interface functions for many
clustering methods implemented in R, including estimating the number of
clusters with kmeans, pam and clara. Modality diagnosis for Gaussian
mixtures. For an overview see package?fpc.
Author: Christian Hennig <c.hennig@ucl.ac.uk>
Maintainer: Christian Hennig <c.hennig@ucl.ac.uk>
Diff between fpc versions 2.1-10 dated 2015-08-14 and 2.1-11 dated 2018-01-12
fpc-2.1-10/fpc/tests/fpctests.R |only fpc-2.1-10/fpc/tests/fpctests.Rout.save |only fpc-2.1-11/fpc/DESCRIPTION | 9 fpc-2.1-11/fpc/MD5 | 38 + fpc-2.1-11/fpc/R/addclustermethods.R | 3 fpc-2.1-11/fpc/R/clusterboot.R | 230 ++++++----- fpc-2.1-11/fpc/R/clusterindexes.R |only fpc-2.1-11/fpc/R/mergenormals.R | 318 +++++---------- fpc-2.1-11/fpc/man/bhattacharyya.dist.Rd | 3 fpc-2.1-11/fpc/man/cdbw.Rd |only fpc-2.1-11/fpc/man/clusterboot.Rd | 58 +- fpc-2.1-11/fpc/man/cvnn.Rd |only fpc-2.1-11/fpc/man/findrep.Rd |only fpc-2.1-11/fpc/man/fixreg.Rd | 42 +- fpc-2.1-11/fpc/man/flexmixedruns.Rd | 2 fpc-2.1-11/fpc/man/kmeansCBI.Rd | 73 +-- fpc-2.1-11/fpc/man/lcmixed.Rd | 2 fpc-2.1-11/fpc/man/neginc.Rd |only fpc-2.1-11/fpc/man/prediction.strength.Rd | 11 fpc-2.1-11/fpc/man/rFace.Rd | 5 fpc-2.1-11/fpc/man/regmix.Rd | 5 fpc-2.1-11/fpc/man/xtable.Rd |only fpc-2.1-11/fpc/tests/Examples/fpc-Ex.Rout.save | 515 ++++++++++++++----------- fpc-2.1-11/fpc/tests/fpctests_notallin.R |only fpc-2.1-11/fpc/tests/fpctests_notallin.Rout |only 25 files changed, 675 insertions(+), 639 deletions(-)
Title: Bayesian Variable Selection in High Dimensional Settings using
Non-Local Prior
Description: Variable/Feature selection in high or ultra-high dimensional
settings has gained a lot of attention recently specially in cancer genomic
studies. This package provides a Bayesian approach to tackle this problem,
where it exploits mixture of point masses at zero and nonlocal priors to
improve the performance of variable selection and coefficient estimation.
It performs variable selection for binary response and survival time
response datasets which are widely used in biostatistic and bioinformatics
community. Benefiting from parallel computing ability, it reports necessary
outcomes of Bayesian variable selection such as Highest Posterior
Probability Model (HPPM), Median Probability Model (MPM) and posterior
inclusion probability for each of the covariates in the model. The option
to use Bayesian Model Averaging (BMA) is also part of this package that can
be exploited for predictive power measurements in real datasets.
Author: Amir Nikooienejad [aut, cre], Valen E. Johnson [ths]
Maintainer: Amir Nikooienejad <amir@stat.tamu.edu>
Diff between BVSNLP versions 0.9.7 dated 2018-01-08 and 0.9.8 dated 2018-01-12
DESCRIPTION | 6 +- MD5 | 6 +- R/PreProcess.R | 126 ++++++++++++++++++++++++++++----------------------------- R/zzz.R | 2 4 files changed, 70 insertions(+), 70 deletions(-)
Title: Utilities for Working with Air Quality Monitoring Data
Description: Utilities for working with air quality monitoring data
with a focus on small particulates (PM2.5) generated by wildfire
smoke. Functions are provided for downloading available data from
the United States Environmental Protection Agency (US EPA) and
it's AirNow air quality site. Additional sources of PM2.5 data
made accessible by the package include: AIRSIS (password protected),
the Western Regional Climate Center (WRCC) and the open source site OpenAQ.
Author: Jonathan Callahan [aut, cre],
Rohan Aras [aut],
Zach Dingels [aut],
Jon Hagg [aut],
Jimin Kim [aut],
Helen Miller [aut],
Rex Thompson [aut],
Alice Yang [aut]
Maintainer: Jonathan Callahan <jonathan.s.callahan@gmail.com>
Diff between PWFSLSmoke versions 1.0.3 dated 2018-01-04 and 1.0.7 dated 2018-01-12
PWFSLSmoke-1.0.3/PWFSLSmoke/man/airsis_currentData.Rd |only PWFSLSmoke-1.0.3/PWFSLSmoke/man/airsis_currentStatus.Rd |only PWFSLSmoke-1.0.7/PWFSLSmoke/DESCRIPTION | 6 PWFSLSmoke-1.0.7/PWFSLSmoke/MD5 | 84 +- PWFSLSmoke-1.0.7/PWFSLSmoke/NAMESPACE | 3 PWFSLSmoke-1.0.7/PWFSLSmoke/R/addGoogleAddress.R | 2 PWFSLSmoke-1.0.7/PWFSLSmoke/R/addGoogleElevation.R | 2 PWFSLSmoke-1.0.7/PWFSLSmoke/R/addGoogleMetadata.R | 2 PWFSLSmoke-1.0.7/PWFSLSmoke/R/addMazamaMetadata.R | 16 PWFSLSmoke-1.0.7/PWFSLSmoke/R/airnow_createDataDataframes.R | 2 PWFSLSmoke-1.0.7/PWFSLSmoke/R/airnow_createMetaDataframes.R | 2 PWFSLSmoke-1.0.7/PWFSLSmoke/R/airnow_createMonitorObjects.R | 2 PWFSLSmoke-1.0.7/PWFSLSmoke/R/airnow_downloadParseData.R | 2 PWFSLSmoke-1.0.7/PWFSLSmoke/R/airnow_load.R | 150 +-- PWFSLSmoke-1.0.7/PWFSLSmoke/R/airsisDump_createMonitorObject.R | 4 PWFSLSmoke-1.0.7/PWFSLSmoke/R/airsisDump_parseData.R | 12 PWFSLSmoke-1.0.7/PWFSLSmoke/R/airsis_BAM1020QualityControl.R | 24 PWFSLSmoke-1.0.7/PWFSLSmoke/R/airsis_EBAMQualityControl.R | 36 PWFSLSmoke-1.0.7/PWFSLSmoke/R/airsis_ESAMQualityControl.R | 27 PWFSLSmoke-1.0.7/PWFSLSmoke/R/airsis_availableUnits.R | 2 PWFSLSmoke-1.0.7/PWFSLSmoke/R/airsis_createDataDataframe.R | 2 PWFSLSmoke-1.0.7/PWFSLSmoke/R/airsis_createMetaDataframe.R | 4 PWFSLSmoke-1.0.7/PWFSLSmoke/R/airsis_createMonitorObject.R | 5 PWFSLSmoke-1.0.7/PWFSLSmoke/R/airsis_createRawDataframe.R | 2 PWFSLSmoke-1.0.7/PWFSLSmoke/R/airsis_currentData.R | 90 +- PWFSLSmoke-1.0.7/PWFSLSmoke/R/airsis_currentStatus.R | 388 +++++----- PWFSLSmoke-1.0.7/PWFSLSmoke/R/airsis_downloadData.R | 2 PWFSLSmoke-1.0.7/PWFSLSmoke/R/airsis_load.R |only PWFSLSmoke-1.0.7/PWFSLSmoke/R/airsis_parseData.R | 14 PWFSLSmoke-1.0.7/PWFSLSmoke/R/epa_createMonitorObject.R | 2 PWFSLSmoke-1.0.7/PWFSLSmoke/R/epa_load.R |only PWFSLSmoke-1.0.7/PWFSLSmoke/R/monitorPlot_timeseries.R | 8 PWFSLSmoke-1.0.7/PWFSLSmoke/R/monitor_combine.R | 10 PWFSLSmoke-1.0.7/PWFSLSmoke/R/monitor_join.R | 25 PWFSLSmoke-1.0.7/PWFSLSmoke/R/wrccDump_createMonitorObject.R | 2 PWFSLSmoke-1.0.7/PWFSLSmoke/R/wrcc_createMonitorObject.R | 2 PWFSLSmoke-1.0.7/PWFSLSmoke/inst/doc/Data_Model.R | 2 PWFSLSmoke-1.0.7/PWFSLSmoke/inst/doc/Data_Model.Rmd | 6 PWFSLSmoke-1.0.7/PWFSLSmoke/inst/doc/Data_Model.html | 6 PWFSLSmoke-1.0.7/PWFSLSmoke/inst/doc/Maps_and_Timeseries_Plots.html | 2 PWFSLSmoke-1.0.7/PWFSLSmoke/man/addMazamaMetadata.Rd | 13 PWFSLSmoke-1.0.7/PWFSLSmoke/man/airnow_load.Rd | 31 PWFSLSmoke-1.0.7/PWFSLSmoke/man/airsis_load.Rd |only PWFSLSmoke-1.0.7/PWFSLSmoke/man/epa_load.Rd |only PWFSLSmoke-1.0.7/PWFSLSmoke/man/monitor_combine.Rd | 5 PWFSLSmoke-1.0.7/PWFSLSmoke/vignettes/Data_Model.Rmd | 6 46 files changed, 511 insertions(+), 494 deletions(-)
Title: Eigenvalues and Singular Values and Vectors from Large Matrices
Description: R interface to PRIMME, a C library for computing a few
eigenvalues and their corresponding eigenvectors of a real symmetric or complex
Hermitian matrix. It can also compute singular values and vectors of a square
or rectangular matrix. It can find largest, smallest, or interior
singular/eigenvalues and can use preconditioning to accelerate convergence.
Author: Eloy Romero [aut, cre],
Andreas Stathopoulos [aut],
College of William & Mary [cph]
Maintainer: Eloy Romero <eloy@cs.wm.edu>
Diff between PRIMME versions 2.1-0 dated 2017-04-13 and 2.2-0 dated 2018-01-12
PRIMME-2.1-0/PRIMME/src/Makevars.orig |only PRIMME-2.1-0/PRIMME/src/primme/eigs/locking.c |only PRIMME-2.1-0/PRIMME/src/primme/eigs/locking.h |only PRIMME-2.2-0/PRIMME/DESCRIPTION | 8 PRIMME-2.2-0/PRIMME/MD5 | 76 PRIMME-2.2-0/PRIMME/R/RcppExports.R | 28 PRIMME-2.2-0/PRIMME/R/svds.R | 4 PRIMME-2.2-0/PRIMME/README.md | 86 - PRIMME-2.2-0/PRIMME/cleanup | 3 PRIMME-2.2-0/PRIMME/inst/CITATION | 9 PRIMME-2.2-0/PRIMME/inst/include/primme.h | 2 PRIMME-2.2-0/PRIMME/inst/include/primme_eigs.h | 11 PRIMME-2.2-0/PRIMME/inst/include/primme_svds.h | 6 PRIMME-2.2-0/PRIMME/inst/include/primme_svds_f77.h | 4 PRIMME-2.2-0/PRIMME/man/svds.Rd | 4 PRIMME-2.2-0/PRIMME/src/Makevars | 14 PRIMME-2.2-0/PRIMME/src/RcppExports.cpp | 28 PRIMME-2.2-0/PRIMME/src/init.c | 56 PRIMME-2.2-0/PRIMME/src/primme/eigs/auxiliary_eigs.c | 7 PRIMME-2.2-0/PRIMME/src/primme/eigs/auxiliary_eigs.h | 8 PRIMME-2.2-0/PRIMME/src/primme/eigs/convergence.c | 5 PRIMME-2.2-0/PRIMME/src/primme/eigs/globalsum.c | 1 PRIMME-2.2-0/PRIMME/src/primme/eigs/inner_solve.c | 62 PRIMME-2.2-0/PRIMME/src/primme/eigs/main_iter.c | 103 - PRIMME-2.2-0/PRIMME/src/primme/eigs/ortho.c | 201 +- PRIMME-2.2-0/PRIMME/src/primme/eigs/ortho.h | 38 PRIMME-2.2-0/PRIMME/src/primme/eigs/primme.c | 56 PRIMME-2.2-0/PRIMME/src/primme/eigs/primme_interface.c | 31 PRIMME-2.2-0/PRIMME/src/primme/eigs/restart.c | 1032 +++++++++++- PRIMME-2.2-0/PRIMME/src/primme/eigs/restart.h | 56 PRIMME-2.2-0/PRIMME/src/primme/eigs/solve_projection.c | 52 PRIMME-2.2-0/PRIMME/src/primme/eigs/solve_projection.h | 12 PRIMME-2.2-0/PRIMME/src/primme/include/blaslapack.h | 18 PRIMME-2.2-0/PRIMME/src/primme/include/template.h | 8 PRIMME-2.2-0/PRIMME/src/primme/linalg/blaslapack.c | 149 + PRIMME-2.2-0/PRIMME/src/primme/linalg/blaslapack_private.h | 20 PRIMME-2.2-0/PRIMME/src/primme/make_primme | 16 PRIMME-2.2-0/PRIMME/src/primme/svds/primme_svds.c | 358 ++-- PRIMME-2.2-0/PRIMME/src/primme/svds/primme_svds_interface.c | 57 PRIMME-2.2-0/PRIMME/src/primme/zhegv.c |only PRIMME-2.2-0/PRIMME/src/primmeR.cpp | 6 41 files changed, 2036 insertions(+), 599 deletions(-)
Title: Management and Exploratory Analysis of Spatial Data in Landscape
Genetics
Description: Management and exploratory analysis of spatial data in landscape genetics. Easy integration of information from multiple sources with "ecogen" objects.
Author: Leandro Roser [aut, cre],
Juan Vilardi [aut],
Beatriz Saidman [aut],
Laura Ferreyra [aut]
Maintainer: Leandro Roser <learoser@gmail.com>
Diff between EcoGenetics versions 1.2.1-2 dated 2017-11-21 and 1.2.1-3 dated 2018-01-12
EcoGenetics-1.2.1-2/EcoGenetics/R/accesors.R |only EcoGenetics-1.2.1-3/EcoGenetics/DESCRIPTION | 45 +- EcoGenetics-1.2.1-3/EcoGenetics/MD5 | 122 +++--- EcoGenetics-1.2.1-3/EcoGenetics/NAMESPACE | 18 EcoGenetics-1.2.1-3/EcoGenetics/NEWS | 8 EcoGenetics-1.2.1-3/EcoGenetics/R/accessors.R |only EcoGenetics-1.2.1-3/EcoGenetics/R/auxiliar.R | 73 +++ EcoGenetics-1.2.1-3/EcoGenetics/R/control.R | 3 EcoGenetics-1.2.1-3/EcoGenetics/R/eco.NDVI.R | 5 EcoGenetics-1.2.1-3/EcoGenetics/R/eco.NDVI.post.R | 6 EcoGenetics-1.2.1-3/EcoGenetics/R/eco.cbind.R | 2 EcoGenetics-1.2.1-3/EcoGenetics/R/eco.format.R | 17 EcoGenetics-1.2.1-3/EcoGenetics/R/eco.gsa.R | 2 EcoGenetics-1.2.1-3/EcoGenetics/R/eco.lagweight.R | 14 EcoGenetics-1.2.1-3/EcoGenetics/R/eco.lmtree.R | 6 EcoGenetics-1.2.1-3/EcoGenetics/R/eco.lsa.R | 4 EcoGenetics-1.2.1-3/EcoGenetics/R/eco.mantel.R | 7 EcoGenetics-1.2.1-3/EcoGenetics/R/eco.merge.R | 7 EcoGenetics-1.2.1-3/EcoGenetics/R/eco.plotGlobal.R | 2 EcoGenetics-1.2.1-3/EcoGenetics/R/eco.plotWeight.R | 7 EcoGenetics-1.2.1-3/EcoGenetics/R/eco.theilsen.R | 8 EcoGenetics-1.2.1-3/EcoGenetics/R/eco.variogram.R | 26 - EcoGenetics-1.2.1-3/EcoGenetics/R/eco.weight.R | 14 EcoGenetics-1.2.1-3/EcoGenetics/R/ecogen.1OF6.definition.R | 2 EcoGenetics-1.2.1-3/EcoGenetics/R/ecogen.2OF6.constructor.R | 4 EcoGenetics-1.2.1-3/EcoGenetics/R/ecogen.3OF6.basic.methods.R | 60 --- EcoGenetics-1.2.1-3/EcoGenetics/R/ecogen.4OF6.brackets.R | 32 + EcoGenetics-1.2.1-3/EcoGenetics/R/ecogen.5OF6.get&set.R | 159 -------- EcoGenetics-1.2.1-3/EcoGenetics/R/ecogen.6OF6.converters.R | 2 EcoGenetics-1.2.1-3/EcoGenetics/R/ecopop.1OF6.definition.R |only EcoGenetics-1.2.1-3/EcoGenetics/R/ecopop.2OF6.constructor.R |only EcoGenetics-1.2.1-3/EcoGenetics/R/ecopop.3OF6.basic.methods.R |only EcoGenetics-1.2.1-3/EcoGenetics/R/ecopop.4OF6.brackets.R |only EcoGenetics-1.2.1-3/EcoGenetics/R/ecopop.5OF6.get&set.R |only EcoGenetics-1.2.1-3/EcoGenetics/R/ecopop.6OF6.converters.R |only EcoGenetics-1.2.1-3/EcoGenetics/R/generics.R |only EcoGenetics-1.2.1-3/EcoGenetics/R/int.order.R | 36 + EcoGenetics-1.2.1-3/EcoGenetics/R/plot.generic.R | 1 EcoGenetics-1.2.1-3/EcoGenetics/R/roxygen.auxiliar.R | 12 EcoGenetics-1.2.1-3/EcoGenetics/README.md | 24 - EcoGenetics-1.2.1-3/EcoGenetics/data/eco.test.RData |binary EcoGenetics-1.2.1-3/EcoGenetics/data/eco3.RData |binary EcoGenetics-1.2.1-3/EcoGenetics/man/EcoGenetics-accessors.Rd | 166 +++++--- EcoGenetics-1.2.1-3/EcoGenetics/man/EcoGenetics-package.Rd | 197 +--------- EcoGenetics-1.2.1-3/EcoGenetics/man/aue.aggregated_df.Rd |only EcoGenetics-1.2.1-3/EcoGenetics/man/aue.check_class.Rd |only EcoGenetics-1.2.1-3/EcoGenetics/man/aue.split_categorical.Rd |only EcoGenetics-1.2.1-3/EcoGenetics/man/check_ecopop.Rd |only EcoGenetics-1.2.1-3/EcoGenetics/man/eco.NDVI.Rd | 4 EcoGenetics-1.2.1-3/EcoGenetics/man/eco.NDVI.post.Rd | 5 EcoGenetics-1.2.1-3/EcoGenetics/man/eco.cbind.Rd | 4 EcoGenetics-1.2.1-3/EcoGenetics/man/eco.format.Rd | 17 EcoGenetics-1.2.1-3/EcoGenetics/man/eco.gsa.Rd | 2 EcoGenetics-1.2.1-3/EcoGenetics/man/eco.lmtree.Rd | 6 EcoGenetics-1.2.1-3/EcoGenetics/man/eco.theilsen.Rd | 8 EcoGenetics-1.2.1-3/EcoGenetics/man/eco.variogram.Rd | 2 EcoGenetics-1.2.1-3/EcoGenetics/man/ecogen.Rd | 13 EcoGenetics-1.2.1-3/EcoGenetics/man/ecogen2ecopop.Rd |only EcoGenetics-1.2.1-3/EcoGenetics/man/ecopop-class.Rd |only EcoGenetics-1.2.1-3/EcoGenetics/man/ecopop-methods.Rd |only EcoGenetics-1.2.1-3/EcoGenetics/man/ecopop.Rd |only EcoGenetics-1.2.1-3/EcoGenetics/man/ecopop2genpop.Rd |only EcoGenetics-1.2.1-3/EcoGenetics/man/int.check.colnames.Rd | 3 EcoGenetics-1.2.1-3/EcoGenetics/man/int.check.group.Rd | 3 EcoGenetics-1.2.1-3/EcoGenetics/man/int.check.rownames.Rd | 3 EcoGenetics-1.2.1-3/EcoGenetics/man/int.order.Rd | 16 EcoGenetics-1.2.1-3/EcoGenetics/man/int.popdata-class.Rd |only EcoGenetics-1.2.1-3/EcoGenetics/man/my_ecopop.Rd |only EcoGenetics-1.2.1-3/EcoGenetics/tests |only 69 files changed, 562 insertions(+), 615 deletions(-)
Title: Use and if Needed Install Packages from CRAN, BioConductor, CRAN
Archive, and GitHub
Description: This tries to attach a package if you have it; if not, it tries to install it from BioConductor or CRAN; if not available there, it tries to install it from the cran mirror on GitHub, which includes packages that have been removed from CRAN; if not available there, it looks for a matching other package on GitHub to install. Note this is sloppy practice and prone to all sorts of risks. However, there are use cases, such as quick scripting, or in a class where students already know best practices, where this can be useful. yearn was inspired by teaching in PhyloMeth, a course funded by an NSF CAREER award to the author (NSF DEB-1453424).
Author: Brian O'Meara [aut, cre]
Maintainer: Brian O'Meara <omeara.brian@gmail.com>
Diff between yearn versions 0.1.1 dated 2017-06-16 and 0.1.3 dated 2018-01-12
DESCRIPTION | 6 +++--- MD5 | 10 +++++----- NEWS.md | 8 ++++++++ R/yearn.R | 6 +++--- README.md | 8 +++++--- man/yearn.Rd | 4 ++-- 6 files changed, 26 insertions(+), 16 deletions(-)
Title: Fitting the Centered Autologistic and Sparse Spatial Generalized
Linear Mixed Models for Areal Data
Description: Provides tools for analyzing spatial data, especially non-
Gaussian areal data. The current version supports the sparse restricted
spatial regression model of Hughes and Haran (2013) <DOI:10.1111/j.1467-9868.2012.01041.x>,
the centered autologistic model of Caragea and Kaiser (2009) <DOI:10.1198/jabes.2009.07032>,
and the Bayesian spatial filtering model of Hughes (2017) <arXiv:1706.04651>.
Author: John Hughes <jphughesjr@gmail.com> and Xiaohui Cui
Maintainer: John Hughes <jphughesjr@gmail.com>
Diff between ngspatial versions 1.2 dated 2017-06-21 and 1.2-1 dated 2018-01-12
COPYING | 2 +- DESCRIPTION | 8 ++++---- MD5 | 8 ++++---- NAMESPACE | 1 + R/zzz.R | 2 +- 5 files changed, 11 insertions(+), 10 deletions(-)
Title: Functions and Add-Ins for Working with 'data.world' Data Sets
and Projects
Description: High-level tools for working with 'data.world' data sets. 'data.world' is a platform
where you can find interesting data, store and showcase your own data and data projects,
and find and collaborate with other members. In addition to exploring, querying and
charting data on the data.world site, you can access data via 'API' endpoints and
integrations. Use this package to access, query and explore data sets, and to
publish your insights. Visit <https://data.world>, for additional information.
Author: Rafael Pereira [aut, cre],
Triet Le [aut],
Bryon Jacob [aut],
Scott Came [aut]
Maintainer: Rafael Pereira <rafael.pereira@data.world>
Diff between data.world versions 1.1.1 dated 2017-06-23 and 1.2.0 dated 2018-01-12
data.world-1.1.1/data.world/man/is_attached.Rd |only data.world-1.2.0/data.world/DESCRIPTION | 27 +-- data.world-1.2.0/data.world/MD5 | 70 +++++--- data.world-1.2.0/data.world/NAMESPACE | 12 + data.world-1.2.0/data.world/NEWS.md | 12 + data.world-1.2.0/data.world/R/config.R | 8 - data.world-1.2.0/data.world/R/data.world-defunct.R | 2 data.world-1.2.0/data.world/R/data.world.R | 6 data.world-1.2.0/data.world/R/insight-addin.R |only data.world-1.2.0/data.world/R/query.R | 28 +++ data.world-1.2.0/data.world/R/utils.R | 2 data.world-1.2.0/data.world/R/zzz.R | 26 +-- data.world-1.2.0/data.world/README.md | 9 + data.world-1.2.0/data.world/build/vignette.rds |binary data.world-1.2.0/data.world/inst/doc/query.R | 4 data.world-1.2.0/data.world/inst/doc/query.Rmd | 6 data.world-1.2.0/data.world/inst/doc/query.html | 28 +-- data.world-1.2.0/data.world/inst/doc/quickstart.R | 4 data.world-1.2.0/data.world/inst/doc/quickstart.Rmd | 22 ++ data.world-1.2.0/data.world/inst/doc/quickstart.html | 26 ++- data.world-1.2.0/data.world/inst/dw-bootstrap.css |only data.world-1.2.0/data.world/inst/dw-logo@2x.png |only data.world-1.2.0/data.world/inst/rstudio |only data.world-1.2.0/data.world/man/add_insight_addin.Rd |only data.world-1.2.0/data.world/man/data.world.Rd | 6 data.world-1.2.0/data.world/man/insight_project_filter.Rd |only data.world-1.2.0/data.world/man/qry_sparql.Rd | 10 + data.world-1.2.0/data.world/man/qry_sql.Rd | 7 data.world-1.2.0/data.world/man/query.Rd | 10 + data.world-1.2.0/data.world/man/save_config.Rd | 4 data.world-1.2.0/data.world/man/save_image_as_insight.Rd |only data.world-1.2.0/data.world/man/set_config.Rd | 2 data.world-1.2.0/data.world/man/set_dw_config.Rd |only data.world-1.2.0/data.world/tests/testthat.R | 2 data.world-1.2.0/data.world/tests/testthat/helper.R | 34 ++-- data.world-1.2.0/data.world/tests/testthat/test_config.R | 80 ++++------ data.world-1.2.0/data.world/tests/testthat/test_insight-addin.R |only data.world-1.2.0/data.world/tests/testthat/test_query.R | 22 +- data.world-1.2.0/data.world/vignettes/new_insight_menu.png |only data.world-1.2.0/data.world/vignettes/new_insight_window.png |only data.world-1.2.0/data.world/vignettes/query.Rmd | 6 data.world-1.2.0/data.world/vignettes/quickstart.Rmd | 22 ++ 42 files changed, 314 insertions(+), 183 deletions(-)
Title: Quantitative Classification by Association Rules
Description: CBA postprocessing algorithm that creates smaller models for datasets containing quantitative (numerical) attributes. Article describing QCBA is published in Tomas Kliegr (2017) <arXiv:1711.10166>.
Author: Tomas Kliegr
Maintainer: Tomas Kliegr <kliegr@gmail.com>
Diff between qCBA versions 0.3 dated 2017-12-01 and 0.3.1 dated 2018-01-12
DESCRIPTION | 10 ++++----- MD5 | 9 ++++---- NEWS |only R/rMARC.R | 36 ++++++++++++++++++++++++++++++++++- man/arulesCBAModel2CustomCBAModel.Rd | 18 +++++++++++++++++ man/rcbaModel2CustomCBAModel.Rd | 18 +++++++++++++++++ 6 files changed, 81 insertions(+), 10 deletions(-)
Title: Diagnostics to Assess the Effects of Text Preprocessing
Decisions
Description: Functions to assess the effects of different text preprocessing decisions on the inferences drawn from the resulting document-term matrices they generate.
Author: Matthew J. Denny <mdenny@psu.edu>, Arthur Spirling
<as9934@nyu.edu>,
Maintainer: Matthew J. Denny <mdenny@psu.edu>
Diff between preText versions 0.6.1 dated 2017-11-13 and 0.6.2 dated 2018-01-12
DESCRIPTION | 8 ++++---- MD5 | 10 +++++----- R/preprocessing_choice_regression.R | 2 +- R/zzz.R | 2 +- build/vignette.rds |binary inst/doc/getting_started_with_preText.html | 10 +++++----- 6 files changed, 16 insertions(+), 16 deletions(-)
Title: Bayesian Latent Variable Analysis
Description: Fit a variety of Bayesian latent variable models, including confirmatory
factor analysis, structural equation models, and latent growth curve models.
Author: Edgar Merkle [aut, cre],
Yves Rosseel [aut],
Mauricio Garnier-Villarreal [ctb]
Maintainer: Edgar Merkle <merklee@missouri.edu>
Diff between blavaan versions 0.2-4 dated 2017-04-26 and 0.3-1 dated 2018-01-12
DESCRIPTION | 10 MD5 | 53 +- R/blav_compare.R | 4 R/blav_fit_measures.R | 396 ++------------- R/blav_object_inspect.R | 55 ++ R/blav_object_methods.R | 25 R/blav_test.R | 4 R/blav_utils.R | 229 +++++++- R/blavaan.R | 352 +++++++++---- R/dpriors.R | 4 R/lav_export_mcmc.R | 1 R/lav_export_stan.R | 972 ++++++++++++++++++++++++++++++-------- R/margloglik.R | 80 +-- R/postpred.R | 9 R/set_inits.R | 30 - R/set_partable.R | 31 - R/set_priors.R | 48 + R/set_stancovs.R | 39 - R/set_stanpars.R | 37 + README | 2 inst/stanfuns/sem_lv.stan | 57 +- inst/stanfuns/sem_lv_missing.stan |only inst/stanfuns/sem_mean.stan |only inst/stanfuns/sem_mean_eta.stan |only man/bcfa.Rd | 25 man/bgrowth.Rd | 21 man/blavInspect.Rd | 1 man/blavaan.Rd | 25 man/bsem.Rd | 25 29 files changed, 1666 insertions(+), 869 deletions(-)
Title: Network-Based Genome Wide Association Studies
Description: A multi-core R package that contains a set of tools based on undirected graphical models for accomplishing three important and interrelated goals in genetics: (1) linkage map construction, (2) reconstructing intra- and inter-chromosomal conditional interactions (linkage disequilibrium) networks, and (3) exploring high-dimensional genotype-phenotype network and genotype-phenotype-environment interactions network. For this purpose, we use conditional (in)dependence relationships between variables. The netgwas package can deal with biparental inbreeding and outbreeding species with any ploidy level, namely diploid (2 sets of chromosomes), triploid (3 sets of chromosomes), tetraploid (4 sets of chromosomes) and so on. We target on high-dimensional data where number of variables p is larger than number of sample sizes (p >> n). The computations is memory-optimized using the sparse matrix output. The package is implemented the recent developments in Behrouzi and Wit (2017) <arXiv:1710.00894> and Behrouzi and Wit (2017) <arXiv:1710.01063> .
Author: Pariya Behrouzi and Ernst C. Wit
Maintainer: Pariya Behrouzi <pariya.behrouzi@gmail.com>
Diff between netgwas versions 0.0.1-1 dated 2017-12-01 and 0.1.2.0 dated 2018-01-12
DESCRIPTION | 12 ++-- MD5 | 30 +++++----- NAMESPACE | 5 + R/Gibbs_method.R | 13 +++- R/buildMap.R | 50 +++++++++++------- R/initialize.R | 12 ++-- R/netmap.R | 135 ++++++++++++++++++++++++++++++++++--------------- R/selectnet.R | 5 + R/simRIL.R |only R/simgeno.R | 16 ++++- man/buildMap.Rd | 17 ++++-- man/netgwas-package.Rd | 19 +++--- man/netmap.Rd | 19 +++--- man/plot.netgwasmap.Rd | 15 +++-- man/plot.select.Rd | 3 - man/simGeno.Rd | 4 - man/simRIL.Rd |only 17 files changed, 230 insertions(+), 125 deletions(-)
Title: Geographical Detectors
Description: Geographical detectors for measuring spatial stratified heterogeneity,
as described in Jinfeng Wang (2010) <doi:10.1080/13658810802443457> and
Jinfeng Wang (2016) <doi:10.1016/j.ecolind.2016.02.052>. Includes the
discretization of continuous data and four primary functions of
geographical detectors.
Author: Yongze Song [aut, cre] (0000-0003-3420-9622)
Maintainer: Yongze Song <yongze.song@postgrad.curtin.edu.au>
Diff between GD versions 1.0 dated 2018-01-03 and 1.1 dated 2018-01-12
DESCRIPTION | 9 +++++---- MD5 | 6 +++--- R/disc.R | 26 +++++++++++++++++++++----- R/stra.R | 2 +- 4 files changed, 30 insertions(+), 13 deletions(-)
Title: Models for Analysing Moult in Birds
Description: Functions to estimate start and duration of moult from moult
data, based on models developed in Underhill
and Zucchini (1988, 1990).
Author: Birgit Erni <birgit.erni@uct.ac.za>. Based on models
developed by Underhill and Zucchini (1988, 1990).
Maintainer: Birgit Erni <birgit.erni@uct.ac.za>
Diff between moult versions 2.0.0 dated 2016-05-04 and 2.1.0 dated 2018-01-12
moult-2.0.0/moult/build |only moult-2.0.0/moult/inst/doc/moult.R |only moult-2.0.0/moult/inst/doc/moult.Rnw |only moult-2.0.0/moult/inst/doc/moult.pdf |only moult-2.0.0/moult/vignettes |only moult-2.1.0/moult/DESCRIPTION | 8 moult-2.1.0/moult/MD5 | 24 moult-2.1.0/moult/NAMESPACE | 2 moult-2.1.0/moult/NEWS | 15 moult-2.1.0/moult/R/moult.R | 79 +- moult-2.1.0/moult/R/moult_alternative.R |only moult-2.1.0/moult/R/predict.moult.R | 290 +++++----- moult-2.1.0/moult/R/print.summary.moult.R | 2 moult-2.1.0/moult/inst/doc/moult-AlternativeParameterization.pdf |only moult-2.1.0/moult/inst/doc/moult-IndividualFeathers.pdf |only moult-2.1.0/moult/inst/doc/moult-vignette.pdf |only moult-2.1.0/moult/man/moult.Rd | 34 + 17 files changed, 247 insertions(+), 207 deletions(-)
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2017-06-25 0.0.4
Title: Interpolation of Data with Variable Spatial Support
Description: Geostatistical interpolation of data with irregular spatial support such as runoff related data or data from administrative units.
Author: Jon Olav Skoien
Maintainer: Jon Olav Skoien <jon.skoien@gmail.com>
Diff between rtop versions 0.5-10 dated 2016-09-12 and 0.5-13 dated 2018-01-12
rtop-0.5-10/rtop/R/riverNetwork.R |only rtop-0.5-10/rtop/man/netProp-deprecated.rd |only rtop-0.5-10/rtop/man/netProp.rd |only rtop-0.5-13/rtop/DESCRIPTION | 11 +- rtop-0.5-13/rtop/MD5 | 30 +++--- rtop-0.5-13/rtop/NAMESPACE | 3 rtop-0.5-13/rtop/R/fitVariogram.R | 12 +- rtop-0.5-13/rtop/R/gDist.r | 6 - rtop-0.5-13/rtop/R/krige.R | 42 ++++++--- rtop-0.5-13/rtop/R/rtop.R | 4 rtop-0.5-13/rtop/R/rtopKrige.R | 14 ++- rtop-0.5-13/rtop/R/rtopSim.R | 2 rtop-0.5-13/rtop/R/rtophelp.R | 117 +++++++++++++-------------- rtop-0.5-13/rtop/R/sceua.R | 58 +++++++------ rtop-0.5-13/rtop/man/getRtopParams.Rd | 5 - rtop-0.5-13/rtop/man/rtopKrige.Rd | 12 +- rtop-0.5-13/rtop/src/registerDynamicSymbol.c |only rtop-0.5-13/rtop/src/vred.f | 4 18 files changed, 173 insertions(+), 147 deletions(-)