Title: Gene Set Analysis Exploiting Pathway Topology
Description: Using Gaussian graphical models we propose a novel approach to
perform pathway analysis using gene expression. Given the
structure of a graph (a pathway) we introduce two statistical
tests to compare the mean and the concentration matrices between
two groups. Specifically, these tests can be performed on the
graph and on its connected components (cliques).
Author: Sofia Massa, Gabriele Sales
Maintainer: Gabriele Sales <gabriele.sales@unipd.it>
Diff between topologyGSA versions 1.4.4 dated 2014-08-02 and 1.4.5 dated 2015-07-09
DESCRIPTION | 10 +++++----- MD5 | 8 ++++---- NAMESPACE | 10 +++++++--- R/render.R | 8 ++++---- man/pathway.var.test.Rd | 18 ++++++++++++++++-- 5 files changed, 36 insertions(+), 18 deletions(-)
Title: An Interface to the Nexus Class Library
Description: An interface to the Nexus Class Library which allows parsing
of NEXUS, Newick and other phylogenetic tree file formats. It provides
elements of the file that can be used to build phylogenetic objects
such as ape's 'phylo' or phylobase's 'phylo4(d)'.
Author: Francois Michonneau [aut, cre],
Ben Bolker [aut],
Mark Holder [aut],
Paul Lewis [aut],
Brian O'Meara [aut]
Maintainer: Francois Michonneau <francois.michonneau@gmail.com>
Diff between rncl versions 0.2.2 dated 2015-02-06 and 0.4.0 dated 2015-07-09
DESCRIPTION | 13 - LICENSE | 2 MD5 | 26 +- NAMESPACE | 2 R/rncl.R | 199 +++++++++++++++++--- README.md | 43 ++-- inst/newick_good/missing_edge_lengths.tre |only inst/nexusfiles/test_subset_taxa.nex |only inst/nexusfiles/test_underscores.nex |only inst/nexusfiles/treeWithDiscreteData.nex |only man/read_nexus_phylo.Rd | 21 +- man/rncl.Rd | 110 ++++++++++- src/GetNCL.cpp | 8 src/RcppExports.cpp | 294 ++++++++++-------------------- src/nxsreader.cpp | 5 tests/testthat/test.rncl.R | 97 +++++++++ 16 files changed, 531 insertions(+), 289 deletions(-)
Title: Visualization of Spatial and Spatio-Temporal Objects in Google
Earth
Description: Writes sp-class, spacetime-class, raster-class and similar spatial and spatio-temporal objects to KML following some basic cartographic rules.
Author: Tomislav Hengl [cre, aut],
Pierre Roudier [ctb],
Dylan Beaudette [ctb],
Edzer Pebesma [ctb],
Michael Blaschek [ctb]
Maintainer: Tomislav Hengl <tom.hengl@isric.org>
Diff between plotKML versions 0.5-2 dated 2015-05-06 and 0.5-3 dated 2015-07-09
DESCRIPTION | 8 ++-- MD5 | 34 +++++++++---------- NAMESPACE | 10 ++++- R/AAAA.R | 58 +++++++++++++++++----------------- R/getWikiMedia.ImageInfo.R | 43 ++++++++++++------------- R/kml_open.R | 2 - R/layer.SoilProfileCollection.R | 5 ++ R/normalizeFilename.R | 2 - R/plotKML.SpatialMaxEntOutput.R | 5 +- R/plotKML.SpatialPredictions.R | 22 +++++------- R/plotKML.SpatialVectorsSimulations.R | 6 +-- R/plotKML.sp.R | 6 +-- R/reproject.R | 2 - R/spPhoto.R | 53 ++++++++++++++----------------- inst/doc/jss1079.pdf |binary man/SAGA_pal.Rd | 4 +- man/getWikimedia.Rd | 2 - man/plotKML.Rd | 3 - 18 files changed, 132 insertions(+), 133 deletions(-)
Title: Phylogenetic Analysis in R
Description: Phylogenetic analysis in R: Estimation of phylogenetic
trees and networks using Maximum Likelihood, Maximum Parsimony,
distance methods and Hadamard conjugation.
Author: Klaus Schliep, Emmanuel Paradis
Maintainer: Klaus Schliep <klaus.schliep@gmail.com>
Diff between phangorn versions 1.99-13 dated 2015-04-07 and 1.99.14 dated 2015-07-09
DESCRIPTION | 16 MD5 | 79 ++- NAMESPACE | 28 + NEWS | 46 ++ R/clanistic.R | 2 R/distSeq.R | 19 R/distTree.R |only R/fitch.R | 2 R/modelTest.R |only R/neighborNet.R | 9 R/networx.R | 20 R/parsimony.R | 10 R/phyDat.R | 58 ++ R/phylo.R | 1010 +++++++++++++------------------------------------ R/treeManipulation.R | 1 R/treedist.R | 39 + README.md | 6 TODO |only build/vignette.rds |binary inst/doc/Networx.R | 14 inst/doc/Networx.Rmd | 2 inst/doc/Networx.html | 2 inst/doc/Trees.R | 2 inst/doc/Trees.Rnw | 2 man/bootstrap.pml.Rd | 5 man/densiTree.Rd | 3 man/dist.hamming.Rd | 6 man/modelTest.Rd | 7 man/parsimony.Rd | 4 man/phyDat.Rd | 17 man/plot.networx.Rd | 2 man/pml.fit.Rd | 3 man/splitsNetwork.Rd | 2 man/treedist.Rd | 3 src/fitch.c | 42 -- src/ml.c | 495 ++++++++++++++---------- src/sankoff.c | 2 tests |only vignettes/Networx.Rmd | 2 vignettes/Trees.Rnw | 2 vignettes/phangorn.bib | 203 +++++++++ 41 files changed, 1054 insertions(+), 1111 deletions(-)
Title: Flexible Pair-Copula Estimation in D-Vines using Bivariate
Penalized Splines
Description: Flexible Pair-Copula Estimation in D-vines using Bivariate Penalized Splines.
Author: Christian Schellhase <cschellhase@wiwi.uni-bielefeld.de>
Maintainer: Christian Schellhase <cschellhase@wiwi.uni-bielefeld.de>
Diff between penDvine versions 0.2.2 dated 2013-03-12 and 0.2.4 dated 2015-07-09
penDvine-0.2.2/penDvine/R.css |only penDvine-0.2.4/penDvine/DESCRIPTION | 17 - penDvine-0.2.4/penDvine/MD5 | 72 ++++---- penDvine-0.2.4/penDvine/NAMESPACE | 7 penDvine-0.2.4/penDvine/R/Dvine.r | 216 ++++++++++++------------ penDvine-0.2.4/penDvine/R/cal.Dvine.r | 3 penDvine-0.2.4/penDvine/R/distr.func.help.r | 3 penDvine-0.2.4/penDvine/R/help.func.r | 4 penDvine-0.2.4/penDvine/R/marg.likelihood.r | 2 penDvine-0.2.4/penDvine/R/my.IC.r | 8 penDvine-0.2.4/penDvine/R/my.bspline.r | 8 penDvine-0.2.4/penDvine/R/my.loop.r | 5 penDvine-0.2.4/penDvine/R/new.lambda.r | 8 penDvine-0.2.4/penDvine/R/new.weights.r | 36 +++- penDvine-0.2.4/penDvine/R/order.Dvine.r | 49 ++--- penDvine-0.2.4/penDvine/R/paircopula.R | 19 +- penDvine-0.2.4/penDvine/R/plot.paircopula.r | 98 ++++++---- penDvine-0.2.4/penDvine/R/sim.Dvine.r | 5 penDvine-0.2.4/penDvine/R/spline.apply.r |only penDvine-0.2.4/penDvine/R/start.valgrid.r | 10 - penDvine-0.2.4/penDvine/man/Derv1.Rd | 3 penDvine-0.2.4/penDvine/man/Derv2.Rd | 3 penDvine-0.2.4/penDvine/man/Dvine.Rd | 5 penDvine-0.2.4/penDvine/man/bernstein.Rd | 3 penDvine-0.2.4/penDvine/man/cal.Dvine.Rd | 3 penDvine-0.2.4/penDvine/man/cond.cop.Rd | 6 penDvine-0.2.4/penDvine/man/f.hat.val.Rd | 3 penDvine-0.2.4/penDvine/man/marg.likelihood.Rd | 4 penDvine-0.2.4/penDvine/man/my.IC.Rd | 4 penDvine-0.2.4/penDvine/man/my.loop.Rd | 3 penDvine-0.2.4/penDvine/man/new.weights.Rd | 4 penDvine-0.2.4/penDvine/man/order.Dvine.Rd | 4 penDvine-0.2.4/penDvine/man/paircopula.Rd | 4 penDvine-0.2.4/penDvine/man/pen.log.like.Rd | 3 penDvine-0.2.4/penDvine/man/pen.matrix.Rd | 4 penDvine-0.2.4/penDvine/man/penDvine-package.Rd | 12 - penDvine-0.2.4/penDvine/man/plot.paircopula.Rd | 17 + penDvine-0.2.4/penDvine/man/sim.Dvine.Rd | 3 38 files changed, 378 insertions(+), 280 deletions(-)
Title: Discovering Multiple, Statistically-Equivalent Signatures
Description: Feature selection methods for identifying minimal, statistically-equivalent and equally-predictive feature subsets. MXM stands for "Mens eX Machina", meaning "Mind from the Machine" in Latin.
Author: Ioannis Tsamardinos, Vincenzo Lagani, Giorgos Borboudakis, Giorgos Athineou
Maintainer: Giorgos Athineou <athineou@ics.forth.gr>
Diff between MXM versions 0.4 dated 2015-07-01 and 0.4.1 dated 2015-07-09
DESCRIPTION | 10 +++++----- MD5 | 10 +++++----- NAMESPACE | 6 ++++++ R/SES.R | 23 ++++++++++++++++++++++- R/cv.ses.R | 1 + man/MXM-package.Rd | 4 ++-- 6 files changed, 41 insertions(+), 13 deletions(-)
Title: Tools for Multiple Imputation in Multilevel Modeling
Description: Provides tools for multiple imputation of missing data in multilevel
modeling. Includes a user-friendly interface to the 'pan' package, and
several functions for visualization, data management and the analysis
of multiply imputed data sets.
Author: Simon Grund [aut,cre], Alexander Robitzsch [aut], Oliver Luedtke [aut]
Maintainer: Simon Grund <grund@ipn.uni-kiel.de>
Diff between mitml versions 0.2-2 dated 2015-05-22 and 0.2-3 dated 2015-07-09
DESCRIPTION | 10 - MD5 | 56 +++++------ NAMESPACE | 7 + NEWS |only R/as.mitml.list.R | 5 R/internal-getLR.R | 5 R/panImpute.R | 44 +++++--- R/plot.mitml.R | 244 ++++++++++++++++++++++++++++++++++++------------ R/print.mitml.R | 6 - R/print.mitml.summary.R | 33 ++++-- R/write.mitmlMplus.R | 6 - R/zzz.R |only data/studentratings.rda |binary man/as.mitml.list.Rd | 1 man/clusterMeans.Rd | 10 - man/is.mitml.list.Rd | 2 man/mitmlComplete.Rd | 2 man/panImpute.Rd | 39 +++---- man/plot.mitml.Rd | 11 +- man/read.mitml.Rd | 2 man/studentratings.Rd | 2 man/summary.mitml.Rd | 5 man/testConstraints.Rd | 20 +-- man/testEstimates.Rd | 2 man/testModels.Rd | 16 +-- man/with.mitml.Rd | 8 - man/write.mitml.Rd | 2 man/write.mitmlMplus.Rd | 2 man/write.mitmlSAV.Rd | 2 man/write.mitmlSPSS.Rd | 2 30 files changed, 352 insertions(+), 192 deletions(-)
Title: Weighted k-Nearest Neighbors
Description: Weighted k-Nearest Neighbors for Classification, Regression and Clustering.
Author: Klaus Schliep & Klaus Hechenbichler
Maintainer: Klaus Schliep <klaus.schliep@gmail.com>
Diff between kknn versions 1.2-5 dated 2014-02-11 and 1.3.0 dated 2015-07-09
kknn-1.2-5/kknn/man/simulation.Rd |only kknn-1.3.0/kknn/DESCRIPTION | 14 ++++--- kknn-1.3.0/kknn/MD5 | 19 +++++----- kknn-1.3.0/kknn/NAMESPACE | 4 +- kknn-1.3.0/kknn/NEWS | 10 +++++ kknn-1.3.0/kknn/R/kknn.R | 62 +++++++++++++++++++++++++++++---- kknn-1.3.0/kknn/R/specClust.R | 2 - kknn-1.3.0/kknn/README.md |only kknn-1.3.0/kknn/inst |only kknn-1.3.0/kknn/man/kknn-deprecated.Rd |only kknn-1.3.0/kknn/man/train.kknn.Rd | 2 - kknn-1.3.0/kknn/src/dm.c | 2 - 12 files changed, 90 insertions(+), 25 deletions(-)
Title: Spatial Terms in GAMLSS Models
Description: It allows us to fit Markov Random Field (MRF) within the GAMLSS algorithms.
Author: Fernanda De Bastiani [aut, cre, cph],
Mikis Stasinopoulos [aut],
Bob Rigby [aut]
Maintainer: Fernanda De Bastiani <fernandadebastiani@gmail.com>
Diff between gamlss.spatial versions 0.2 dated 2015-02-05 and 1.3 dated 2015-07-09
DESCRIPTION | 27 ++++++++++++++++++--------- MD5 | 4 ++-- NAMESPACE | 7 +++++-- 3 files changed, 25 insertions(+), 13 deletions(-)
More information about gamlss.spatial at CRAN
Permanent link
Title: A Toolbox for Non-Tabular Data Manipulation
Description: Provides a set of functions for data manipulation with
list objects, including mapping, filtering, grouping, sorting,
updating, searching, and other useful functions. Most functions
are designed to be pipeline friendly so that data processing with
lists can be chained.
Author: Kun Ren <ken@renkun.me>
Maintainer: Kun Ren <ken@renkun.me>
Diff between rlist versions 0.4 dated 2015-01-24 and 0.4.2.3 dated 2015-07-09
rlist-0.4.2.3/rlist/DESCRIPTION | 14 rlist-0.4.2.3/rlist/MD5 | 268 ++++++-------- rlist-0.4.2.3/rlist/NAMESPACE | 7 rlist-0.4.2.3/rlist/NEWS | 16 rlist-0.4.2.3/rlist/R/List.R | 56 +- rlist-0.4.2.3/rlist/R/data.R | 2 rlist-0.4.2.3/rlist/R/functions.R | 103 ++--- rlist-0.4.2.3/rlist/R/internal.R | 120 +++--- rlist-0.4.2.3/rlist/R/lambda.R | 11 rlist-0.4.2.3/rlist/R/list.all.R | 44 +- rlist-0.4.2.3/rlist/R/list.clean.R | 37 + rlist-0.4.2.3/rlist/R/list.common.R | 21 - rlist-0.4.2.3/rlist/R/list.count.R | 20 - rlist-0.4.2.3/rlist/R/list.do.R | 51 ++ rlist-0.4.2.3/rlist/R/list.extract.R | 5 rlist-0.4.2.3/rlist/R/list.filter.R | 22 - rlist-0.4.2.3/rlist/R/list.find.R | 34 + rlist-0.4.2.3/rlist/R/list.first.R | 32 - rlist-0.4.2.3/rlist/R/list.flatten.R | 11 rlist-0.4.2.3/rlist/R/list.group.R | 125 ++++++ rlist-0.4.2.3/rlist/R/list.insert.R | 59 ++- rlist-0.4.2.3/rlist/R/list.is.R | 15 rlist-0.4.2.3/rlist/R/list.join.R | 40 +- rlist-0.4.2.3/rlist/R/list.load.R | 77 ++-- rlist-0.4.2.3/rlist/R/list.map.R | 66 +++ rlist-0.4.2.3/rlist/R/list.match.R | 12 rlist-0.4.2.3/rlist/R/list.merge.R | 25 + rlist-0.4.2.3/rlist/R/list.names.R | 10 rlist-0.4.2.3/rlist/R/list.order.R | 34 + rlist-0.4.2.3/rlist/R/list.parse.R | 75 ++-- rlist-0.4.2.3/rlist/R/list.remove.R | 31 + rlist-0.4.2.3/rlist/R/list.reverse.R | 2 rlist-0.4.2.3/rlist/R/list.sample.R | 14 rlist-0.4.2.3/rlist/R/list.save.R | 30 - rlist-0.4.2.3/rlist/R/list.search.R | 66 +-- rlist-0.4.2.3/rlist/R/list.select.R | 8 rlist-0.4.2.3/rlist/R/list.serialize.R | 48 ++ rlist-0.4.2.3/rlist/R/list.skip.R | 37 + rlist-0.4.2.3/rlist/R/list.stack.R | 6 rlist-0.4.2.3/rlist/R/list.subset.R | 14 rlist-0.4.2.3/rlist/R/list.table.R | 12 rlist-0.4.2.3/rlist/R/list.take.R | 41 +- rlist-0.4.2.3/rlist/R/list.update.R | 28 - rlist-0.4.2.3/rlist/R/list.which.R | 17 rlist-0.4.2.3/rlist/R/list.zip.R | 55 +- rlist-0.4.2.3/rlist/R/rlist.R | 2 rlist-0.4.2.3/rlist/R/subset.list.R | 29 - rlist-0.4.2.3/rlist/R/utils.R | 19 - rlist-0.4.2.3/rlist/README.md | 4 rlist-0.4.2.3/rlist/man/List.Rd | 18 rlist-0.4.2.3/rlist/man/list.all.Rd | 10 rlist-0.4.2.3/rlist/man/list.any.Rd | 12 rlist-0.4.2.3/rlist/man/list.append.Rd | 11 rlist-0.4.2.3/rlist/man/list.apply.Rd | 4 rlist-0.4.2.3/rlist/man/list.cases.Rd | 20 - rlist-0.4.2.3/rlist/man/list.cbind.Rd | 9 rlist-0.4.2.3/rlist/man/list.class.Rd | 27 - rlist-0.4.2.3/rlist/man/list.clean.Rd | 32 + rlist-0.4.2.3/rlist/man/list.common.Rd | 16 rlist-0.4.2.3/rlist/man/list.count.Rd | 23 - rlist-0.4.2.3/rlist/man/list.do.Rd | 9 rlist-0.4.2.3/rlist/man/list.exclude.Rd | 12 rlist-0.4.2.3/rlist/man/list.extract.Rd | 8 rlist-0.4.2.3/rlist/man/list.filter.Rd | 25 - rlist-0.4.2.3/rlist/man/list.find.Rd | 22 - rlist-0.4.2.3/rlist/man/list.findi.Rd | 25 - rlist-0.4.2.3/rlist/man/list.first.Rd | 8 rlist-0.4.2.3/rlist/man/list.flatten.Rd | 8 rlist-0.4.2.3/rlist/man/list.group.Rd | 21 - rlist-0.4.2.3/rlist/man/list.insert.Rd | 13 rlist-0.4.2.3/rlist/man/list.is.Rd | 10 rlist-0.4.2.3/rlist/man/list.iter.Rd | 12 rlist-0.4.2.3/rlist/man/list.join.Rd | 16 rlist-0.4.2.3/rlist/man/list.last.Rd | 8 rlist-0.4.2.3/rlist/man/list.load.Rd | 18 rlist-0.4.2.3/rlist/man/list.map.Rd | 8 rlist-0.4.2.3/rlist/man/list.maps.Rd | 4 rlist-0.4.2.3/rlist/man/list.mapv.Rd | 8 rlist-0.4.2.3/rlist/man/list.match.Rd | 12 rlist-0.4.2.3/rlist/man/list.merge.Rd | 24 + rlist-0.4.2.3/rlist/man/list.names.Rd | 4 rlist-0.4.2.3/rlist/man/list.order.Rd | 14 rlist-0.4.2.3/rlist/man/list.parse.Rd | 34 + rlist-0.4.2.3/rlist/man/list.prepend.Rd | 11 rlist-0.4.2.3/rlist/man/list.rbind.Rd | 9 rlist-0.4.2.3/rlist/man/list.remove.Rd | 10 rlist-0.4.2.3/rlist/man/list.reverse.Rd | 2 rlist-0.4.2.3/rlist/man/list.sample.Rd | 8 rlist-0.4.2.3/rlist/man/list.save.Rd | 10 rlist-0.4.2.3/rlist/man/list.search.Rd | 48 +- rlist-0.4.2.3/rlist/man/list.select.Rd | 8 rlist-0.4.2.3/rlist/man/list.serialize.Rd | 6 rlist-0.4.2.3/rlist/man/list.skip.Rd | 11 rlist-0.4.2.3/rlist/man/list.skipWhile.Rd | 23 - rlist-0.4.2.3/rlist/man/list.sort.Rd | 16 rlist-0.4.2.3/rlist/man/list.stack.Rd | 2 rlist-0.4.2.3/rlist/man/list.subset.Rd | 14 rlist-0.4.2.3/rlist/man/list.table.Rd | 10 rlist-0.4.2.3/rlist/man/list.take.Rd | 17 rlist-0.4.2.3/rlist/man/list.takeWhile.Rd | 25 - rlist-0.4.2.3/rlist/man/list.ungroup.Rd | 37 + rlist-0.4.2.3/rlist/man/list.unserialize.Rd | 8 rlist-0.4.2.3/rlist/man/list.unzip.Rd | 27 - rlist-0.4.2.3/rlist/man/list.update.Rd | 20 - rlist-0.4.2.3/rlist/man/list.which.Rd | 23 - rlist-0.4.2.3/rlist/man/list.zip.Rd | 4 rlist-0.4.2.3/rlist/man/nyweather.Rd | 4 rlist-0.4.2.3/rlist/man/rlist-package.Rd | 2 rlist-0.4.2.3/rlist/man/subset.list.Rd | 25 - rlist-0.4.2.3/rlist/man/tryEval.Rd | 2 rlist-0.4.2.3/rlist/man/tryGet.Rd | 2 rlist-0.4.2.3/rlist/tests/testthat.R | 2 rlist-0.4.2.3/rlist/tests/testthat/test-List.R | 85 ++-- rlist-0.4.2.3/rlist/tests/testthat/test-basic.R | 393 ++++++++++++--------- rlist-0.4.2.3/rlist/tests/testthat/test-class.R |only rlist-0.4.2.3/rlist/tests/testthat/test-filter.R |only rlist-0.4.2.3/rlist/tests/testthat/test-find.R |only rlist-0.4.2.3/rlist/tests/testthat/test-group.R |only rlist-0.4.2.3/rlist/tests/testthat/test-internal.R |only rlist-0.4.2.3/rlist/tests/testthat/test-io.R |only rlist-0.4.2.3/rlist/tests/testthat/test-join.R |only rlist-0.4.2.3/rlist/tests/testthat/test-map.R |only rlist-0.4.2.3/rlist/tests/testthat/test-search.R |only rlist-0.4.2.3/rlist/tests/testthat/test-select.R |only rlist-0.4.2.3/rlist/tests/testthat/test-sort.R |only rlist-0.4.2.3/rlist/tests/testthat/test-subset.R |only rlist-0.4.2.3/rlist/tests/testthat/test-update.R |only rlist-0.4.2.3/rlist/tests/testthat/test-utils.R |only rlist-0.4/rlist/R/list.any.R |only rlist-0.4/rlist/R/list.append.R |only rlist-0.4/rlist/R/list.apply.R |only rlist-0.4/rlist/R/list.cases.R |only rlist-0.4/rlist/R/list.cbind.R |only rlist-0.4/rlist/R/list.class.R |only rlist-0.4/rlist/R/list.exclude.R |only rlist-0.4/rlist/R/list.findi.R |only rlist-0.4/rlist/R/list.iter.R |only rlist-0.4/rlist/R/list.maps.R |only rlist-0.4/rlist/R/list.prepend.R |only rlist-0.4/rlist/R/list.rbind.R |only rlist-0.4/rlist/R/list.skipWhile.R |only rlist-0.4/rlist/R/list.sort.R |only rlist-0.4/rlist/R/list.takeWhile.R |only rlist-0.4/rlist/R/list.ungroup.R |only rlist-0.4/rlist/R/list.unserialize.R |only rlist-0.4/rlist/tests/testthat/test-list.class.R |only rlist-0.4/rlist/tests/testthat/test-list.filter.R |only rlist-0.4/rlist/tests/testthat/test-list.find.R |only rlist-0.4/rlist/tests/testthat/test-list.group.R |only rlist-0.4/rlist/tests/testthat/test-list.join.R |only rlist-0.4/rlist/tests/testthat/test-list.map.R |only rlist-0.4/rlist/tests/testthat/test-list.search.R |only rlist-0.4/rlist/tests/testthat/test-list.select.R |only rlist-0.4/rlist/tests/testthat/test-list.sort.R |only rlist-0.4/rlist/tests/testthat/test-list.update.R |only rlist-0.4/rlist/tests/testthat/test-subset.list.R |only 156 files changed, 2001 insertions(+), 1243 deletions(-)
Title: R Client for the eBird Database of Bird Observations
Description: A programmatic client for the eBird database, including functions
for searching for bird observations by geographic location (latitude,
longitude), eBird hotspots, location identifiers, by notable sightings, by
region, and by taxonomic name.
Author: Rafael Maia [aut],
Scott Chamberlain [aut],
Andy Teucher [aut],
Sebastian Pardo [aut, cre]
Maintainer: Sebastian Pardo <sebpardo@gmail.com>
Diff between rebird versions 0.1.1 dated 2014-03-05 and 0.2 dated 2015-07-09
rebird-0.1.1/rebird/NEWS |only rebird-0.1.1/rebird/tests/testthat/test-all.R |only rebird-0.2/rebird/DESCRIPTION | 38 +-- rebird-0.2/rebird/LICENSE | 2 rebird-0.2/rebird/MD5 | 68 +++--- rebird-0.2/rebird/NAMESPACE | 12 - rebird-0.2/rebird/R/ebirdfreq.R |only rebird-0.2/rebird/R/ebirdgeo.R | 108 +++------ rebird-0.2/rebird/R/ebirdhotspot.R | 79 ++----- rebird-0.2/rebird/R/ebirdloc.R | 66 ++--- rebird-0.2/rebird/R/ebirdnotable.R | 106 +++------ rebird-0.2/rebird/R/ebirdregion.R | 87 ++----- rebird-0.2/rebird/R/ebirdregioncheck.R |only rebird-0.2/rebird/R/ebirdtaxonomy.R | 47 +--- rebird-0.2/rebird/R/getlatlng.R | 6 rebird-0.2/rebird/R/nearestobs.R | 83 +++---- rebird-0.2/rebird/R/rebird-package.R | 21 + rebird-0.2/rebird/R/zzz.R |only rebird-0.2/rebird/README.md | 157 +++++++++++++- rebird-0.2/rebird/build |only rebird-0.2/rebird/inst |only rebird-0.2/rebird/man/ebirdfreq.Rd |only rebird-0.2/rebird/man/ebirdgeo.Rd | 138 ++++++------ rebird-0.2/rebird/man/ebirdhotspot.Rd | 111 ++++------ rebird-0.2/rebird/man/ebirdloc.Rd | 142 +++++++----- rebird-0.2/rebird/man/ebirdnotable.Rd | 166 ++++++--------- rebird-0.2/rebird/man/ebirdregion.Rd | 131 +++++------ rebird-0.2/rebird/man/ebirdregioncheck.Rd |only rebird-0.2/rebird/man/ebirdtaxonomy.Rd | 51 ++-- rebird-0.2/rebird/man/getlatlng.Rd | 14 - rebird-0.2/rebird/man/nearestobs.Rd | 101 ++++----- rebird-0.2/rebird/man/rebird-package.Rd | 25 +- rebird-0.2/rebird/tests/test-all.R |only rebird-0.2/rebird/tests/testthat/test-ebirdfreq.R |only rebird-0.2/rebird/tests/testthat/test-ebirdgeo.R |only rebird-0.2/rebird/tests/testthat/test-ebirdhotspot.R |only rebird-0.2/rebird/tests/testthat/test-ebirdloc.R |only rebird-0.2/rebird/tests/testthat/test-ebirdnotable.R |only rebird-0.2/rebird/tests/testthat/test-ebirdregion.R |only rebird-0.2/rebird/tests/testthat/test-ebirdregioncheck.R |only rebird-0.2/rebird/tests/testthat/test-ebirdtaxonomy.R |only rebird-0.2/rebird/tests/testthat/test-nearestobs.R |only rebird-0.2/rebird/vignettes |only 43 files changed, 904 insertions(+), 855 deletions(-)
Title: Draw Geographical Maps
Description: Display of maps. Projection code and larger maps are in
separate packages (mapproj and mapdata).
Author: Original S code by Richard A. Becker and Allan R. Wilks.
R version by Ray Brownrigg <Ray.Brownrigg@ecs.vuw.ac.nz>.
Enhancements by Thomas P Minka <tpminka@media.mit.edu>
Maintainer: Ray Brownrigg <Ray.Brownrigg@ecs.vuw.ac.nz>
Diff between maps versions 2.3-9 dated 2014-09-22 and 2.3-10 dated 2015-07-09
DESCRIPTION | 15 ++++++++------- MD5 | 22 +++++++++++----------- NAMESPACE | 3 +++ R/db.r | 10 +++++----- R/map.r | 5 ++--- R/misc.r | 10 +++++----- R/polygon.r | 2 +- man/map.axes.Rd | 7 +++++-- man/map.cities.Rd | 6 +++--- man/smooth.map.Rd | 4 ++-- man/state.carto.Rd | 2 +- src/world.name | 4 ++-- 12 files changed, 48 insertions(+), 42 deletions(-)
Title: Map Projections
Description: Converts latitude/longitude into projected coordinates.
Author: Doug McIlroy. Packaged for R by Ray Brownrigg and Thomas P
Minka, transition to Plan 9 codebase by Roger Bivand.
Maintainer: Ray Brownrigg <Ray.Brownrigg@ecs.vuw.ac.nz>
Diff between mapproj versions 1.2-2 dated 2014-01-16 and 1.2-3 dated 2015-07-09
DESCRIPTION | 9 +++++---- MD5 | 12 ++++++------ NAMESPACE | 6 +++--- R/mapproj.r | 41 +++++++++++++++++++++++------------------ man/map.grid.Rd | 37 +++++++++++++++++++------------------ man/mapproject.Rd | 13 +------------ src/lambert.c | 26 ++++++++++++++++++++------ 7 files changed, 77 insertions(+), 67 deletions(-)
Title: Extra Map Databases
Description: Supplement to maps package, providing the larger and/or
higher-resolution databases.
Author: Original S code by Richard A. Becker and Allan R. Wilks.
R version by Ray Brownrigg <Ray.Brownrigg@ecs.vuw.ac.nz>.
Maintainer: Ray Brownrigg <Ray.Brownrigg@ecs.vuw.ac.nz>
Diff between mapdata versions 2.2-3 dated 2014-06-03 and 2.2-4 dated 2015-07-09
DESCRIPTION | 12 ++++++------ MD5 | 6 +++--- src/nzHires.name | 8 ++++---- src/worldHires.name | 4 ++-- 4 files changed, 15 insertions(+), 15 deletions(-)
Title: Multivariate Exploratory Data Analysis and Data Mining
Description: Exploratory data analysis methods such as principal component methods and clustering.
Author: Francois Husson, Julie Josse, Sebastien Le, Jeremy Mazet
Maintainer: Francois Husson <francois.husson@agrocampus-ouest.fr>
Diff between FactoMineR versions 1.31.2 dated 2015-07-06 and 1.31.3 dated 2015-07-09
DESCRIPTION | 8 ++-- MD5 | 30 ++++++++--------- R/CA.R | 8 +--- R/CaGalt.R | 2 + R/DMFA.R | 12 +++--- R/FAMD.R | 2 + R/MCA.R | 6 +-- R/MFA.R | 17 ++++++--- R/PCA.R | 13 ++----- R/summary.CA.r | 12 +++--- R/summary.FAMD.r | 12 +++--- R/summary.MCA.r | 12 +++--- R/summary.MFA.r | 8 ++-- R/summary.PCA.r | 12 +++--- inst/doc/FactoMineR.pdf |binary inst/doc/clustering_and_pricipal_component_methods.pdf |binary 16 files changed, 76 insertions(+), 78 deletions(-)
Title: Evaluation of Modeling without Information Leakage
Description: A toolbox for designing and evaluating predictive models with
resampling methods. The aim of this package is to provide a simple and
efficient general framework for working with any type of prediction
problem, be it classification, regression or survival analysis, that is
easy to extend and adapt to your specific setting. Some commonly used
methods for classification, regression and survival analysis are included.
Author: Christofer Backlin [aut, cre],
Mats Gustafsson [aut]
Maintainer: Christofer Backlin <emil@christofer.backlin.se>
Diff between emil versions 2.0.2 dated 2015-05-20 and 2.1.1 dated 2015-07-09
emil-2.0.2/emil/man/emil_list_method.Rd |only emil-2.1.1/emil/DESCRIPTION | 18 - emil-2.1.1/emil/MD5 | 119 ++++--- emil-2.1.1/emil/NAMESPACE | 47 +++ emil-2.1.1/emil/R/caret.r | 18 - emil-2.1.1/emil/R/cforest.r | 2 emil-2.1.1/emil/R/error-functions.r | 84 +++-- emil-2.1.1/emil/R/glmnet.r | 180 ++++++++--- emil-2.1.1/emil/R/helpers.r | 58 +++ emil-2.1.1/emil/R/lda.r | 4 emil-2.1.1/emil/R/learning-curve.r | 38 +- emil-2.1.1/emil/R/modeling.r | 363 +++++++----------------- emil-2.1.1/emil/R/modeling_procedure.r |only emil-2.1.1/emil/R/pamr.r | 57 ++- emil-2.1.1/emil/R/preprocessing.r | 54 ++- emil-2.1.1/emil/R/qda.r | 4 emil-2.1.1/emil/R/randomForest.r | 19 - emil-2.1.1/emil/R/resampling.r | 169 ++++++----- emil-2.1.1/emil/R/reshape-result.r | 78 +++-- emil-2.1.1/emil/R/rpart.r |only emil-2.1.1/emil/R/survival.r | 50 ++- emil-2.1.1/emil/man/as.modeling_procedure.Rd |only emil-2.1.1/emil/man/emil.Rd | 8 emil-2.1.1/emil/man/error_fun.Rd | 21 + emil-2.1.1/emil/man/evaluate.Rd | 33 -- emil-2.1.1/emil/man/extension.Rd | 29 + emil-2.1.1/emil/man/fit.Rd | 5 emil-2.1.1/emil/man/fit_caret.Rd | 4 emil-2.1.1/emil/man/fit_cforest.Rd | 2 emil-2.1.1/emil/man/fit_coxph.Rd |only emil-2.1.1/emil/man/fit_glmnet.Rd | 17 - emil-2.1.1/emil/man/fit_lda.Rd | 2 emil-2.1.1/emil/man/fit_pamr.Rd | 13 emil-2.1.1/emil/man/fit_qda.Rd | 2 emil-2.1.1/emil/man/fit_randomForest.Rd | 8 emil-2.1.1/emil/man/fit_rpart.Rd |only emil-2.1.1/emil/man/get_importance.Rd | 8 emil-2.1.1/emil/man/get_prediction.Rd | 6 emil-2.1.1/emil/man/get_response.Rd |only emil-2.1.1/emil/man/get_tuning.Rd | 4 emil-2.1.1/emil/man/image.resample.Rd | 4 emil-2.1.1/emil/man/importance_glmnet.Rd |only emil-2.1.1/emil/man/learning_curve.Rd | 15 emil-2.1.1/emil/man/list_method.Rd |only emil-2.1.1/emil/man/modeling_procedure.Rd | 4 emil-2.1.1/emil/man/neg_gmpa.Rd | 4 emil-2.1.1/emil/man/pre_process.Rd | 15 emil-2.1.1/emil/man/predict.model.Rd | 6 emil-2.1.1/emil/man/predict_caret.Rd | 14 emil-2.1.1/emil/man/predict_coxph.Rd |only emil-2.1.1/emil/man/predict_glmnet.Rd | 19 - emil-2.1.1/emil/man/predict_lda.Rd | 2 emil-2.1.1/emil/man/predict_qda.Rd | 2 emil-2.1.1/emil/man/predict_rpart.Rd |only emil-2.1.1/emil/man/print.preprocessed_data.Rd |only emil-2.1.1/emil/man/pvalue.Rd | 2 emil-2.1.1/emil/man/resample.Rd | 23 - emil-2.1.1/emil/man/select.Rd | 6 emil-2.1.1/emil/man/subresample.Rd | 12 emil-2.1.1/emil/man/subtree.Rd | 2 emil-2.1.1/emil/man/tune.Rd | 2 emil-2.1.1/emil/tests/testthat/test-helpers.r | 2 emil-2.1.1/emil/tests/testthat/test-methods.r | 2 emil-2.1.1/emil/tests/testthat/test-modeling.r | 5 emil-2.1.1/emil/tests/testthat/test-procedure.r |only emil-2.1.1/emil/tests/testthat/test-resample.r | 46 +-- emil-2.1.1/emil/tests/testthat/test-survival.r | 8 67 files changed, 1002 insertions(+), 717 deletions(-)
Title: Download Files over HTTP and HTTPS
Description: Provides a wrapper for the download.file function,
making it possible to download files over HTTPS on Windows, Mac OS X, and
other Unix-like platforms. The 'RCurl' package provides this functionality
(and much more) but can be difficult to install because it must be compiled
with external dependencies. This package has no external dependencies, so
it is much easier to install.
Author: Winston Chang <winston@stdout.org>
Maintainer: Winston Chang <winston@stdout.org>
Diff between downloader versions 0.3 dated 2013-05-01 and 0.4 dated 2015-07-09
DESCRIPTION | 25 ++++++------- MD5 | 20 +++++----- NAMESPACE | 3 + NEWS | 5 ++ R/download.r | 99 +++++++++++++++++++++++++++++++++--------------------- R/sha_url.r | 11 ++++-- R/source_url.r | 15 ++++++-- man/download.Rd | 48 ++++++++++++-------------- man/downloader.Rd | 15 ++++---- man/sha_url.Rd | 31 +++++++++------- man/source_url.Rd | 81 ++++++++++++++++++++++---------------------- 11 files changed, 203 insertions(+), 150 deletions(-)
Title: Biodemography Functions
Description: The Biodem package provides a number of functions for Biodemographic analysis.
Author: Alessio Boattini and Federico C. F. Calboli; Vincente Canto Cassola together with Martin Maechler authored the function mtx.exp.
Maintainer: Federico Calboli <federico.calboli@helsinki.fi>
Diff between Biodem versions 0.3 dated 2012-10-29 and 0.4 dated 2015-07-09
DESCRIPTION | 22 +++++++++++----------- MD5 | 48 ++++++++++++++++++++++++------------------------ R/sur.freq.R | 4 ++-- data/N.rda |binary data/P.rda |binary data/S.rda |binary data/raw.mig.rda |binary data/surnames.rda |binary data/valley.rda |binary man/Fst.Rd | 4 ++-- man/col.sto.Rd | 2 +- man/hedrick.Rd | 2 +- man/lasker.Rd | 2 +- man/mal.cond.Rd | 2 +- man/mal.eq.Rd | 2 +- man/mal.phi.Rd | 2 +- man/mar.iso.Rd | 2 +- man/r.pairs.Rd | 2 +- man/rel.cond.Rd | 2 +- man/rel.phi.Rd | 2 +- man/rri.Rd | 2 +- man/sur.freq.Rd | 8 ++++---- man/sur.inbr.Rd | 2 +- man/sym.P.Rd | 2 +- man/uri.Rd | 2 +- 25 files changed, 57 insertions(+), 57 deletions(-)
Title: Creation and Evaluation of Acceptance Sampling Plans
Description: Provides functionality for creating and
evaluating acceptance sampling plans. Sampling plans can be single,
double or multiple.
Author: Andreas Kiermeier <Andreas.Kiermeier@gmail.com>
Maintainer: Andreas Kiermeier <Andreas.Kiermeier@gmail.com>
Diff between AcceptanceSampling versions 1.0-3 dated 2014-01-14 and 1.0-4 dated 2015-07-09
DESCRIPTION | 18 +++++++++--------- MD5 | 12 ++++++------ NAMESPACE | 4 +++- R/code_generic.R | 7 +++---- R/code_twoclass.R | 1 - R/code_var.R | 1 - build/vignette.rds |binary 7 files changed, 21 insertions(+), 22 deletions(-)
More information about AcceptanceSampling at CRAN
Permanent link
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2012-04-27 1.2.0