Title: Rothermel fire spread model for R
Diff between Rothermel versions 1.0 dated 2014-01-20 and 1.1 dated 2014-04-22
Description: R build of Rothermel's (1972) model for surface fire rate of spread with some additional utilities (uncertainty propagation, standard fuel model selection, fuel model optimization by genetic algorithm) and sample datasets.
Author: Giorgio Vacchiano, Davide Ascoli
Maintainer: Giorgio Vacchiano
DESCRIPTION | 9 ++++---
MD5 | 18 ++++++++-------
NAMESPACE | 2 +
R/gaRoth.R |only
R/ros.R | 7 ++++-
inst/CITATION | 16 ++++++-------
man/Rothermel-package.Rd | 8 ++++--
man/bestFM.Rd | 4 +--
man/gaRoth.Rd |only
man/ros.Rd | 55 +++++++++++++++++++++++++++++++++++++++++++++--
man/rosunc.Rd | 7 +++--
11 files changed, 94 insertions(+), 32 deletions(-)
Title: Flexibly reshape data.
Diff between reshape versions 0.8.4 dated 2011-01-28 and 0.8.5 dated 2014-04-22
Description: Reshape lets you flexibly restructure and aggregate data using just two functions: melt and cast.
Author: Hadley Wickham
Maintainer: Hadley Wickham
reshape-0.8.4/reshape/inst/doc |only
reshape-0.8.4/reshape/load.r |only
reshape-0.8.5/reshape/DESCRIPTION | 15 +--
reshape-0.8.5/reshape/LICENSE |only
reshape-0.8.5/reshape/MD5 |only
reshape-0.8.5/reshape/NAMESPACE | 2
reshape-0.8.5/reshape/NEWS | 10 +-
reshape-0.8.5/reshape/R/melt.r | 64 +++++++-------
reshape-0.8.5/reshape/man/all-vars-character-rs.rd | 2
reshape-0.8.5/reshape/man/as-data-frame-cast-df-v7.rd | 2
reshape-0.8.5/reshape/man/as-data-frame-cast-matrix-59.rd | 2
reshape-0.8.5/reshape/man/as-matrix-cast-df-bu.rd | 2
reshape-0.8.5/reshape/man/as-matrix-cast-matrix-2y.rd | 2
reshape-0.8.5/reshape/man/cast-9g.rd | 4
reshape-0.8.5/reshape/man/melt-array-e0.rd | 2
reshape-0.8.5/reshape/man/melt-cast-df-c7.rd | 2
reshape-0.8.5/reshape/man/melt-cast-matrix-vq.rd | 2
reshape-0.8.5/reshape/man/melt-data-frame-da.rd | 3
reshape-0.8.5/reshape/man/melt-default-gi.rd | 2
reshape-0.8.5/reshape/man/melt-list-8m.rd | 2
reshape-0.8.5/reshape/man/rescaler-data-frame-4u.rd | 2
reshape-0.8.5/reshape/man/rescaler-default-bl.rd | 2
reshape-0.8.5/reshape/man/rescaler-matrix-xv.rd | 2
reshape-0.8.5/reshape/man/reshape-4u.rd | 11 +-
reshape-0.8.5/reshape/man/stamp-fw.rd | 3
reshape-0.8.5/reshape/man/str-cast-matrix-ez.rd | 2
26 files changed, 76 insertions(+), 64 deletions(-)
Title: Variance Ratio tests and other tests for Martingale Difference
Hypothesis
Diff between vrtest versions 0.95 dated 2010-11-03 and 0.96 dated 2014-04-22
Description: A collection of statistical tests for martingale difference hypothesis
Author: Jae H. Kim
Maintainer: Jae H. Kim
vrtest-0.95/vrtest/R/Gen.Spec.R |only
vrtest-0.95/vrtest/man/Gen.Spec.Rd |only
vrtest-0.96/vrtest/DESCRIPTION | 16 +++++++--------
vrtest-0.96/vrtest/MD5 |only
vrtest-0.96/vrtest/NAMESPACE | 2 -
vrtest-0.96/vrtest/R/ABEL1Q.R | 1
vrtest-0.96/vrtest/R/AR1.R | 1
vrtest-0.96/vrtest/R/Adjust.thin.R | 1
vrtest-0.96/vrtest/R/Auto.Q.R | 4 +--
vrtest-0.96/vrtest/R/Auto.VR.R | 3 --
vrtest-0.96/vrtest/R/AutoBoot.test.R | 21 +++++++++++---------
vrtest-0.96/vrtest/R/Ave.Ex.R | 1
vrtest-0.96/vrtest/R/Boot.test.R | 1
vrtest-0.96/vrtest/R/Chen.Deo.R | 3 --
vrtest-0.96/vrtest/R/Chow.Denning.R | 1
vrtest-0.96/vrtest/R/DL.test.R | 2 -
vrtest-0.96/vrtest/R/DLtest.R | 4 +--
vrtest-0.96/vrtest/R/FastLMCD.R | 1
vrtest-0.96/vrtest/R/FastLM_stat.R | 1
vrtest-0.96/vrtest/R/FastVR.R | 1
vrtest-0.96/vrtest/R/Gen.Spec.Test.R |only
vrtest-0.96/vrtest/R/IACM.R | 1
vrtest-0.96/vrtest/R/ISIMP.R | 1
vrtest-0.96/vrtest/R/JWright.crit.R | 1
vrtest-0.96/vrtest/R/Joint.Wright.R | 1
vrtest-0.96/vrtest/R/LMCD.R | 1
vrtest-0.96/vrtest/R/LM_stat.R | 12 +++--------
vrtest-0.96/vrtest/R/Lo.Mac.R | 2 -
vrtest-0.96/vrtest/R/Mammen.R | 1
vrtest-0.96/vrtest/R/Rademacher.R | 1
vrtest-0.96/vrtest/R/Spec.shape.R | 1
vrtest-0.96/vrtest/R/Subsample.test.R | 1
vrtest-0.96/vrtest/R/VR.minus.1.R | 16 +++++----------
vrtest-0.96/vrtest/R/VR.plot.R | 1
vrtest-0.96/vrtest/R/WK_stat1.R | 13 +++---------
vrtest-0.96/vrtest/R/WK_stat2.R | 1
vrtest-0.96/vrtest/R/Wald.R | 1
vrtest-0.96/vrtest/R/Wald1.R | 13 +++---------
vrtest-0.96/vrtest/R/Wright.R | 1
vrtest-0.96/vrtest/R/Wright.crit.R | 1
vrtest-0.96/vrtest/R/Wright_stat.R | 1
vrtest-0.96/vrtest/R/compweexp.R | 4 +--
vrtest-0.96/vrtest/R/covmat.R | 1
vrtest-0.96/vrtest/R/kfunc.R | 1
vrtest-0.96/vrtest/R/stat.R | 3 --
vrtest-0.96/vrtest/R/stat.plot.R | 32 +++++++++++--------------------
vrtest-0.96/vrtest/man/Adjust.thin.Rd | 4 +--
vrtest-0.96/vrtest/man/Auto.Q.Rd | 4 +--
vrtest-0.96/vrtest/man/Auto.VR.Rd | 8 +++----
vrtest-0.96/vrtest/man/AutoBoot.test.Rd | 6 +++--
vrtest-0.96/vrtest/man/Ave.Ex.Rd | 4 +--
vrtest-0.96/vrtest/man/Boot.test.Rd | 4 +--
vrtest-0.96/vrtest/man/Chen.Deo.Rd | 4 +--
vrtest-0.96/vrtest/man/Chow.Denning.Rd | 4 +--
vrtest-0.96/vrtest/man/DL.test.Rd | 6 +++--
vrtest-0.96/vrtest/man/Gen.Spec.Test.Rd |only
vrtest-0.96/vrtest/man/JWright.crit.Rd | 5 +++-
vrtest-0.96/vrtest/man/Joint.Wright.Rd | 4 +--
vrtest-0.96/vrtest/man/Lo.Mac.Rd | 4 +--
vrtest-0.96/vrtest/man/Spec.shape.Rd | 4 +--
vrtest-0.96/vrtest/man/Subsample.test.Rd | 4 +--
vrtest-0.96/vrtest/man/VR.minus.1.Rd | 4 +--
vrtest-0.96/vrtest/man/VR.plot.Rd | 6 ++---
vrtest-0.96/vrtest/man/Wald.Rd | 4 +--
vrtest-0.96/vrtest/man/Wright.Rd | 4 +--
vrtest-0.96/vrtest/man/Wright.crit.Rd | 5 +++-
vrtest-0.96/vrtest/man/vrtest-package.Rd | 8 +++----
67 files changed, 115 insertions(+), 157 deletions(-)
Title: Statistical inference of vine copulas
Diff between VineCopula versions 1.2 dated 2013-11-11 and 1.3 dated 2014-04-22
Description: This package provides functions for statistical inference of vine copulas. It contains tools for bivariate exploratory data analysis, bivariate copula selection and (vine) tree construction. Models can be estimated either sequentially or by joint maximum likelihood estimation. Sampling algorithms and plotting methods are also included. Data is assumed to lie in the unit hypercube (so-called copula data). For C- and D-vines links to the package CDVine are provided.
Author: Ulf Schepsmeier, Jakob Stoeber, Eike Christian Brechmann, Benedikt Graeler
Maintainer: Tobias Erhardt
VineCopula-1.2/VineCopula/R/wrappingCFunctions.r |only
VineCopula-1.3/VineCopula/DESCRIPTION | 13
VineCopula-1.3/VineCopula/MD5 | 115 +++--
VineCopula-1.3/VineCopula/NAMESPACE | 30 +
VineCopula-1.3/VineCopula/R/0_prep_object.R |only
VineCopula-1.3/VineCopula/R/BB1copula.R |only
VineCopula-1.3/VineCopula/R/BB6copula.R |only
VineCopula-1.3/VineCopula/R/BB7copula.R |only
VineCopula-1.3/VineCopula/R/BB8copula.R |only
VineCopula-1.3/VineCopula/R/BiCopPar2Tau.r | 2
VineCopula-1.3/VineCopula/R/BiCopSelect.r | 127 ++----
VineCopula-1.3/VineCopula/R/BiCopVuongClarke.r | 2
VineCopula-1.3/VineCopula/R/ClaytonGumbelCopula.R |only
VineCopula-1.3/VineCopula/R/RVineAIC.r | 114 +++++
VineCopula-1.3/VineCopula/R/RVineClarkeTest.R | 4
VineCopula-1.3/VineCopula/R/RVineCopSelect.r | 46 +-
VineCopula-1.3/VineCopula/R/RVineGofTest3.r | 2
VineCopula-1.3/VineCopula/R/RVineLogLik.r | 10
VineCopula-1.3/VineCopula/R/RVineMLE.R | 15
VineCopula-1.3/VineCopula/R/RVineMatrix.R | 6
VineCopula-1.3/VineCopula/R/RVinePIT.r | 2
VineCopula-1.3/VineCopula/R/RVinePar2Beta.r | 34 -
VineCopula-1.3/VineCopula/R/RVineSim.R | 25 -
VineCopula-1.3/VineCopula/R/RVineStructureSelect.r | 96 +++-
VineCopula-1.3/VineCopula/R/RVineTreePlot.r | 4
VineCopula-1.3/VineCopula/R/RVineVuongTest.R | 4
VineCopula-1.3/VineCopula/R/gof_ECP.r | 2
VineCopula-1.3/VineCopula/R/gof_PIT.r | 2
VineCopula-1.3/VineCopula/R/gof_White.r | 4
VineCopula-1.3/VineCopula/R/joeBiCopula.R |only
VineCopula-1.3/VineCopula/R/tawnCopula.R |only
VineCopula-1.3/VineCopula/R/vineCopulas.R |only
VineCopula-1.3/VineCopula/inst/ChangeLog | 39 +-
VineCopula-1.3/VineCopula/man/BB1Copula-class.Rd |only
VineCopula-1.3/VineCopula/man/BB1Copula.Rd |only
VineCopula-1.3/VineCopula/man/BB6Copula-class.Rd |only
VineCopula-1.3/VineCopula/man/BB6Copula.Rd |only
VineCopula-1.3/VineCopula/man/BB7Copula-class.Rd |only
VineCopula-1.3/VineCopula/man/BB7Copula.Rd |only
VineCopula-1.3/VineCopula/man/BB8Copula-class.Rd |only
VineCopula-1.3/VineCopula/man/BB8Copula.Rd |only
VineCopula-1.3/VineCopula/man/BiCopGofTest.Rd | 16
VineCopula-1.3/VineCopula/man/BiCopSelect.Rd | 4
VineCopula-1.3/VineCopula/man/RVineCopSelect.Rd | 2
VineCopula-1.3/VineCopula/man/RVineGofTest.Rd | 12
VineCopula-1.3/VineCopula/man/RVineLogLik.Rd | 6
VineCopula-1.3/VineCopula/man/RVineSim.Rd | 11
VineCopula-1.3/VineCopula/man/RVineStructureSelect.Rd | 6
VineCopula-1.3/VineCopula/man/RVineTreePlot.Rd | 8
VineCopula-1.3/VineCopula/man/copulaFromFamilyIndex.Rd |only
VineCopula-1.3/VineCopula/man/dduCopula.Rd |only
VineCopula-1.3/VineCopula/man/joeBiCopula-class.Rd |only
VineCopula-1.3/VineCopula/man/joeBiCopula.Rd |only
VineCopula-1.3/VineCopula/man/surClaytonCopula-class.Rd |only
VineCopula-1.3/VineCopula/man/surClaytonCopula.Rd |only
VineCopula-1.3/VineCopula/man/surGumbelCopula-class.Rd |only
VineCopula-1.3/VineCopula/man/surGumbelCopula.Rd |only
VineCopula-1.3/VineCopula/man/tawnT1Copula-class.Rd |only
VineCopula-1.3/VineCopula/man/tawnT1Copula.Rd |only
VineCopula-1.3/VineCopula/man/tawnT2Copula-class.Rd |only
VineCopula-1.3/VineCopula/man/tawnT2Copula.Rd |only
VineCopula-1.3/VineCopula/man/vineCopula-class.Rd |only
VineCopula-1.3/VineCopula/man/vineCopula.Rd |only
VineCopula-1.3/VineCopula/src/deriv.c | 30 -
VineCopula-1.3/VineCopula/src/deriv2.c | 60 +--
VineCopula-1.3/VineCopula/src/gof.c | 6
VineCopula-1.3/VineCopula/src/hfunc.c | 8
VineCopula-1.3/VineCopula/src/hfuncderiv.c | 40 +-
VineCopula-1.3/VineCopula/src/hfuncderiv2.c | 60 +--
VineCopula-1.3/VineCopula/src/include/rvine.h | 14
VineCopula-1.3/VineCopula/src/likelihood.c | 44 +-
VineCopula-1.3/VineCopula/src/rvine.c | 311 ++++++++--------
VineCopula-1.3/VineCopula/src/rvinederiv2.c | 10
VineCopula-1.3/VineCopula/tests |only
74 files changed, 811 insertions(+), 535 deletions(-)
Title: Simultaneous Inference in General Parametric Models
Diff between multcomp versions 1.3-2 dated 2014-02-12 and 1.3-3 dated 2014-04-22
Description: Simultaneous tests and confidence intervals
for general linear hypotheses in parametric models, including
linear, generalized linear, linear mixed effects, and survival models.
The package includes demos reproducing analyzes presented
in the book "Multiple Comparisons Using R" (Bretz, Hothorn,
Westfall, 2010, CRC Press).
Author: Torsten Hothorn [aut, cre],
Frank Bretz [aut],
Peter Westfall [aut],
Richard M. Heiberger [ctb],
Andre Schuetzenmeister [ctb]
Maintainer: Torsten Hothorn
multcomp-1.3-2/multcomp/inst/MCMT/Rplots.pdf |only
multcomp-1.3-3/multcomp/DESCRIPTION | 8
multcomp-1.3-3/multcomp/MD5 | 19 -
multcomp-1.3-3/multcomp/inst/NEWS | 12
multcomp-1.3-3/multcomp/inst/doc/chfls1.pdf |binary
multcomp-1.3-3/multcomp/inst/doc/generalsiminf.pdf |binary
multcomp-1.3-3/multcomp/inst/doc/multcomp-examples.pdf |binary
multcomp-1.3-3/multcomp/man/glht.Rd | 2
multcomp-1.3-3/multcomp/man/mmm.Rd | 76 ++--
multcomp-1.3-3/multcomp/man/modelparm.Rd | 4
multcomp-1.3-3/multcomp/tests/Examples/multcomp-Ex.Rout.save | 180 ++---------
11 files changed, 116 insertions(+), 185 deletions(-)
Title: Network analysis and visualization
Diff between igraph versions 0.7.0 dated 2014-02-05 and 0.7.1 dated 2014-04-22
Description: Routines for simple graphs and network analysis. igraph can
handle large graphs very well and provides functions for generating random
and regular graphs, graph visualization, centrality indices and much more.
Author: See AUTHORS file.
Maintainer: Gabor Csardi
DESCRIPTION | 8 -
MD5 | 65 ++++----
NAMESPACE | 3
NEWS | 211 ++++++++++++++++++++++++++
R/auto.R | 2
R/bipartite.R | 11 +
R/community.R | 40 ++++-
R/package.R | 6
R/plot.R | 61 +++++--
R/plot.common.R | 2
R/structure.generators.R | 7
inst/benchmarks/time_call.R |only
inst/tests/test_bipartite.projection.R | 34 ++++
inst/tests/test_callbacks.R |only
inst/tests/test_communities.R | 19 ++
inst/tests/test_graph.formula.R |only
man/bipartite.projection.Rd | 9 +
man/communities.Rd | 26 +++
man/modularity.Rd | 6
man/plot.common.Rd | 10 +
src/Makevars.win | 2
src/bipartite.c | 8 +
src/community.c | 7
src/foreign-dl-parser.h | 4
src/foreign-gml-parser.h | 4
src/foreign-graphml.c | 260 ++++++++++++++++++++-------------
src/foreign-lgl-parser.h | 4
src/foreign-ncol-parser.h | 4
src/foreign-pajek-parser.h | 4
src/igraph_motifs.h | 6
src/igraph_version.h | 2
src/prpack/prpack_result.h | 2
src/rinterface.c | 15 +
src/sir.c | 9 +
src/triangles.c | 22 +-
35 files changed, 682 insertions(+), 191 deletions(-)
Title: Dynamic NETworks via integrative analysis of digitised data in
terms of network, ontology and evolution
Diff between dnet versions 1.0.0 dated 2014-04-09 and 1.0.1 dated 2014-04-22
Description: The 'dnet' package is initiated to fill in the need of an open-source tool for digitised data in an integrative manner in terms of network, ontology and evolution. More specifically, dnet intends to analyse the biological network whose nodes/genes are associated with digitised information such as expression levels across samples. To help make sense of identified networks, enrichment analysis is also supported using a wide variety of pre-compiled ontologies and phylostratific age information in major organisms including human, mouse, rat, chicken, C.elegans, fruit fly, zebrafish and arabidopsis. In summary, dnet aims to deliver an eye-intuitive tool with rich visuals but less inputs.
Author: Hai Fang and Julian Gough
Maintainer: Hai Fang
dnet-1.0.0/dnet/R/visColoralpha.r |only
dnet-1.0.0/dnet/R/visColormap.r |only
dnet-1.0.0/dnet/R/visHeatmap.r |only
dnet-1.0.0/dnet/R/visHeatmapAdv.r |only
dnet-1.0.0/dnet/R/visTreeBootstrap.r |only
dnet-1.0.0/dnet/man/visColoralpha.Rd |only
dnet-1.0.0/dnet/man/visColormap.Rd |only
dnet-1.0.0/dnet/man/visHeatmap.Rd |only
dnet-1.0.0/dnet/man/visHeatmapAdv.Rd |only
dnet-1.0.0/dnet/man/visTreeBootstrap.Rd |only
dnet-1.0.1/dnet/DESCRIPTION | 23
dnet-1.0.1/dnet/MD5 | 89 +--
dnet-1.0.1/dnet/NAMESPACE | 20
dnet-1.0.1/dnet/R/dBUMscore.r | 4
dnet-1.0.1/dnet/R/dDAGannotate.r | 12
dnet-1.0.1/dnet/R/dDAGinduce.r | 12
dnet-1.0.1/dnet/R/dDAGlevel.r | 13
dnet-1.0.1/dnet/R/dDAGreverse.r | 7
dnet-1.0.1/dnet/R/dDAGroot.r | 7
dnet-1.0.1/dnet/R/dDAGtip.r | 7
dnet-1.0.1/dnet/R/dEnricher.r | 139 +++--
dnet-1.0.1/dnet/R/dGSEA.r | 214 ++++++--
dnet-1.0.1/dnet/R/dNetFind.r | 4
dnet-1.0.1/dnet/R/visBoxplotAdv.r |only
dnet-1.0.1/dnet/R/visDAG.r | 6
dnet-1.0.1/dnet/data |only
dnet-1.0.1/dnet/inst/staticdocs/CITATIONs.md | 2
dnet-1.0.1/dnet/inst/staticdocs/INSTALLATIONs.md | 63 +-
dnet-1.0.1/dnet/inst/staticdocs/RData.md | 2
dnet-1.0.1/dnet/inst/staticdocs/README.md | 29 -
dnet-1.0.1/dnet/inst/staticdocs/README_tmp.md |only
dnet-1.0.1/dnet/inst/staticdocs/demo/Hiratani.r | 210 +++++---
dnet-1.0.1/dnet/inst/staticdocs/demo/Hiratani_pre.r |only
dnet-1.0.1/dnet/inst/staticdocs/demo/List_demos.txt | 8
dnet-1.0.1/dnet/inst/staticdocs/demo/TCGA.r | 392 ++++++++++++---
dnet-1.0.1/dnet/inst/staticdocs/demo/TCGA_pre.r |only
dnet-1.0.1/dnet/inst/staticdocs/docs.r | 21
dnet-1.0.1/dnet/inst/staticdocs/images/dnet_userIO.png |only
dnet-1.0.1/dnet/inst/staticdocs/images/dnet_workflow.png |binary
dnet-1.0.1/dnet/man/TCGA_mutations.Rd |only
dnet-1.0.1/dnet/man/dBUMscore.Rd | 4
dnet-1.0.1/dnet/man/dDAGannotate.Rd | 12
dnet-1.0.1/dnet/man/dDAGinduce.Rd | 6
dnet-1.0.1/dnet/man/dDAGlevel.Rd | 8
dnet-1.0.1/dnet/man/dDAGreverse.Rd | 7
dnet-1.0.1/dnet/man/dDAGroot.Rd | 7
dnet-1.0.1/dnet/man/dDAGtip.Rd | 7
dnet-1.0.1/dnet/man/dEnricher.Rd | 60 +-
dnet-1.0.1/dnet/man/dGSEA.Rd | 46 +
dnet-1.0.1/dnet/man/ig.HPPA.Rd |only
dnet-1.0.1/dnet/man/org.Hs.egHPPA.Rd |only
dnet-1.0.1/dnet/man/org.Hs.string900.Rd |only
dnet-1.0.1/dnet/man/visBoxplotAdv.Rd |only
dnet-1.0.1/dnet/man/visDAG.Rd | 6
54 files changed, 986 insertions(+), 461 deletions(-)
Title: A simple way to fit detection functions to distance sampling
data and calculate abundance/density for biological
populations.
Diff between Distance versions 0.8.0 dated 2014-01-09 and 0.9 dated 2014-04-22
Description: A library that provides a simple way of fitting detection
functions to distance sampling data for both line and point transects.
Adjustment term selection, left and right truncation as well as
monotonicity constraints and binning are supported. Abundance and density
estimates can also be calculated if survey area information is provided.
Author: David Lawrence Miller
Maintainer: David Lawrence Miller
Distance-0.8.0/Distance/README |only
Distance-0.8.0/Distance/tests/test_all.R |only
Distance-0.9/Distance/DESCRIPTION | 14
Distance-0.9/Distance/MD5 | 36 +-
Distance-0.9/Distance/NAMESPACE | 2
Distance-0.9/Distance/NEWS | 14
Distance-0.9/Distance/R/Distance-package.R |only
Distance-0.9/Distance/R/checkdata.R | 12
Distance-0.9/Distance/R/create.bins.R | 45 +-
Distance-0.9/Distance/R/ds.R | 269 +++++++---------
Distance-0.9/Distance/R/plot.dsmodel.R | 3
Distance-0.9/Distance/README.md |only
Distance-0.9/Distance/data |only
Distance-0.9/Distance/inst |only
Distance-0.9/Distance/man/Distance-package.Rd |only
Distance-0.9/Distance/man/create.bins.Rd | 2
Distance-0.9/Distance/man/ds.Rd | 138 +++++---
Distance-0.9/Distance/man/flatfile.Rd |only
Distance-0.9/Distance/man/minke.Rd |only
Distance-0.9/Distance/man/plot.dsmodel.Rd | 1
Distance-0.9/Distance/tests/testthat.R |only
Distance-0.9/Distance/tests/testthat/test_dht.R |only
Distance-0.9/Distance/tests/testthat/test_ds.R | 107 ++++--
Distance-0.9/Distance/tests/testthat/test_pt.R |only
Distance-0.9/Distance/tests/testthat/test_simpletable.R | 10
25 files changed, 389 insertions(+), 264 deletions(-)
Title: Collocation Inference for Dynamic Systems
Diff between CollocInfer versions 0.1.7 dated 2012-03-22 and 1.0.0 dated 2014-04-22
Description: These functions implement collocation-inference
for continuous-time and discrete-time stochastic processes.
They provide model-based smoothing, gradient-matching,
generalized profiling and forwards prediction error methods.
Author: Giles Hooker
Maintainer: Giles Hooker
CollocInfer-0.1.7/CollocInfer/add-links.rb |only
CollocInfer-0.1.7/CollocInfer/demo/FhNEx.R |only
CollocInfer-0.1.7/CollocInfer/demo/HenonEx.R |only
CollocInfer-1.0.0/CollocInfer/DESCRIPTION | 23
CollocInfer-1.0.0/CollocInfer/MD5 | 60 -
CollocInfer-1.0.0/CollocInfer/NAMESPACE | 3
CollocInfer-1.0.0/CollocInfer/R/CollocInferPlots.R | 39
CollocInfer-1.0.0/CollocInfer/R/InnerOptimization.R | 31
CollocInfer-1.0.0/CollocInfer/R/OuterOptimization.R | 47
CollocInfer-1.0.0/CollocInfer/R/ProfileCovariance.R | 76 -
CollocInfer-1.0.0/CollocInfer/R/SSElik.R | 453 ++++---
CollocInfer-1.0.0/CollocInfer/R/SSEproc.R | 313 ++---
CollocInfer-1.0.0/CollocInfer/R/genlin.R | 28
CollocInfer-1.0.0/CollocInfer/R/ls.shortcut.r | 44
CollocInfer-1.0.0/CollocInfer/data/ChemoRMData.rda |only
CollocInfer-1.0.0/CollocInfer/data/FhNest.rda |only
CollocInfer-1.0.0/CollocInfer/demo/00Index | 6
CollocInfer-1.0.0/CollocInfer/demo/ChemoEx.R | 536 ++++-----
CollocInfer-1.0.0/CollocInfer/demo/ChemoRMEx.r |only
CollocInfer-1.0.0/CollocInfer/demo/FhN.diagnostics.r | 133 ++
CollocInfer-1.0.0/CollocInfer/demo/FhNEx2.r |only
CollocInfer-1.0.0/CollocInfer/demo/HenonEx.r |only
CollocInfer-1.0.0/CollocInfer/demo/NorthShore.R | 2
CollocInfer-1.0.0/CollocInfer/demo/OldDemo |only
CollocInfer-1.0.0/CollocInfer/demo/RMEx.r |only
CollocInfer-1.0.0/CollocInfer/demo/SEIREX.r | 827 +++++++-------
CollocInfer-1.0.0/CollocInfer/man/ChemoRMData.rd |only
CollocInfer-1.0.0/CollocInfer/man/CollocInfer-internal.rd | 1
CollocInfer-1.0.0/CollocInfer/man/CollocInferPlots.rd | 7
CollocInfer-1.0.0/CollocInfer/man/FhNest.rd |only
CollocInfer-1.0.0/CollocInfer/man/FitMatch.rd | 5
CollocInfer-1.0.0/CollocInfer/man/Profile.rd | 35
CollocInfer-1.0.0/CollocInfer/man/inneropt.rd | 6
CollocInfer-1.0.0/CollocInfer/man/setup.rd | 15
CollocInfer-1.0.0/CollocInfer/man/smooth.rd | 49
35 files changed, 1557 insertions(+), 1182 deletions(-)
Title: R wrapper to the almetrics API platform developed by PLoS
Diff between alm versions 0.1.4 dated 2014-04-04 and 0.1.6 dated 2014-04-22
Description: An R interface to the open source article level metrics API
created by the Public Library of Science (PLOS). A number of publishers are
using the open source app created by PLOS, so you can drop in a different
base URL to the functions in this package to get to not only PLOS data, but
data for Crossref, and more as the open source PLOS software is used.
Obtain rCharts at https://github.com/ramnathv/rCharts.
Author: Scott Chamberlain [aut, cre],
Carl Boettiger [aut],
Karthik Ram [aut],
Fenner Martin [aut]
Maintainer: Scott Chamberlain
alm-0.1.4/alm/vignettes/alm_vignette.md |only
alm-0.1.6/alm/DESCRIPTION | 9 +++++----
alm-0.1.6/alm/MD5 | 11 +++++------
alm-0.1.6/alm/NEWS | 7 +++++++
alm-0.1.6/alm/build/vignette.rds |binary
alm-0.1.6/alm/tests/testthat/test-almevents.R | 2 +-
alm-0.1.6/alm/tests/testthat/test-plot_signposts.R | 4 ++--
7 files changed, 20 insertions(+), 13 deletions(-)
Title: Kernel smoothing
Diff between ks versions 1.9.1 dated 2014-04-11 and 1.9.2 dated 2014-04-22
Description: Kernel smoothers for univariate and multivariate data
Author: Tarn Duong
Maintainer: Tarn Duong
CHANGELOG | 7 ++++++-
DESCRIPTION | 8 ++++----
MD5 | 34 +++++++++++++++++-----------------
NAMESPACE | 2 --
R/kcde.R | 28 +++++++++++++++-------------
R/kdde.R | 15 +++++++--------
R/kde-test.R | 4 ++--
R/kde.R | 29 ++++++++++++++++++++---------
R/kfe.R | 2 +-
R/normal.R | 13 ++++++++-----
R/selector.R | 52 +++++++++++++++++++++++++++-------------------------
inst/doc/kde.Rnw | 2 +-
inst/doc/kde.pdf |binary
man/kcopula.Rd | 8 ++++----
man/kde.Rd | 13 ++++++++-----
man/kroc.Rd | 2 +-
man/plot.kroc.Rd | 6 +++---
vignettes/kde.Rnw | 2 +-
18 files changed, 125 insertions(+), 102 deletions(-)
Title: API for access to SQLShare database
Diff between sqlshare versions 1.0.2 dated 2013-04-12 and 1.0.3 dated 2014-04-22
Description: Provides API for executing and retrieving the results of SQL statements on the online SQLShare service provided by the eScience institute at the University of Washington. More information on using SQLShare may be found at the package URL.
Author: Andrew White
Maintainer: Andrew White
DESCRIPTION | 15 ++++++---------
LICENSE |only
MD5 | 11 ++++++-----
R/sqlshare.R | 2 +-
README.md | 5 +++--
man/fetch.data.frame.Rd | 2 +-
man/sqlshare-package.Rd | 4 ++--
7 files changed, 19 insertions(+), 20 deletions(-)
Title: Running MLwiN from within R
Diff between R2MLwiN versions 0.2-0 dated 2014-03-28 and 0.2-1 dated 2014-04-22
Description: R2MLwiN is an R command interface to the MLwiN multilevel
modelling software package, allowing users to fit multilevel models using
MLwiN from within the R environment.
Author: Zhengzheng Zhang [aut, cre],
Chris Charlton [aut],
Richard Parker [aut],
George Leckie [aut],
William Browne [aut]
Maintainer: Zhengzheng Zhang
DESCRIPTION | 8 ++++----
MD5 | 12 ++++++------
NEWS | 6 +++++-
R/MacroScript1.R | 2 ++
R/MacroScript2.R | 4 +++-
R/runMLwiN.R | 4 ++--
man/R2MLwiN-package.Rd | 4 ++--
7 files changed, 24 insertions(+), 16 deletions(-)
Title: Mark-Recapture Distance Sampling (mrds)
Diff between mrds versions 2.1.4 dated 2013-09-23 and 2.1.5 dated 2014-04-22
Description: This package implements mark-recapture distance sampling
methods as described in D.L. Borchers, W. Zucchini and Fewster,
R.M. (1988), "Mark-recapture models for line transect surveys",
Biometrics 54: 1207-1220. and Laake, J.L. (1999) "Distance sampling
with independent observers: Reducing bias from heterogeneity by
weakening the conditional independence assumption." in Amstrup,
G.W., Garner, S.C., Laake, J.L., Manly, B.F.J., McDonald, L.L. and
Robertson, D.G. (eds) "Marine mammal survey and assessment
methods", Balkema, Rotterdam: 137-148 and Borchers, D.L., Laake,
J.L., Southwell, C. and Paxton, C.L.G. "Accommodating unmodelled
heterogeneity in double-observer distance sampling surveys". 2006.
Biometrics 62:372-378.)
Author: Jeff Laake
Maintainer: David Miller
mrds-2.1.4/mrds/R/calcp.mrds.R |only
mrds-2.1.4/mrds/inst/tests |only
mrds-2.1.4/mrds/man/calcp.mrds.Rd |only
mrds-2.1.4/mrds/man/predict.io.Rd |only
mrds-2.1.4/mrds/man/predict.io.fi.Rd |only
mrds-2.1.4/mrds/man/predict.rem.Rd |only
mrds-2.1.4/mrds/man/predict.rem.fi.Rd |only
mrds-2.1.4/mrds/man/predict.trial.Rd |only
mrds-2.1.4/mrds/man/predict.trial.fi.Rd |only
mrds-2.1.4/mrds/tests/run-all.R |only
mrds-2.1.5/mrds/DESCRIPTION | 53 -
mrds-2.1.5/mrds/MD5 | 443 +++++-----
mrds-2.1.5/mrds/NAMESPACE | 121 +-
mrds-2.1.5/mrds/NEWS | 61 +
mrds-2.1.5/mrds/R/DeltaMethod.R | 94 +-
mrds-2.1.5/mrds/R/NCovered.R | 45 -
mrds-2.1.5/mrds/R/NCovered.io.R | 68 -
mrds-2.1.5/mrds/R/NCovered.io.fi.R | 64 -
mrds-2.1.5/mrds/R/apex.gamma.R | 16
mrds-2.1.5/mrds/R/assign.default.values.R | 14
mrds-2.1.5/mrds/R/assign.par.R | 51 -
mrds-2.1.5/mrds/R/average.line.R | 286 ++----
mrds-2.1.5/mrds/R/average.line.cond.R |only
mrds-2.1.5/mrds/R/calc.se.Np.R |only
mrds-2.1.5/mrds/R/check.bounds.R |only
mrds-2.1.5/mrds/R/check.mono.R |only
mrds-2.1.5/mrds/R/coef.ds.R | 80 -
mrds-2.1.5/mrds/R/coef.io.R | 51 -
mrds-2.1.5/mrds/R/coef.io.fi.R | 31
mrds-2.1.5/mrds/R/coef.rem.R | 53 -
mrds-2.1.5/mrds/R/coef.rem.fi.R | 22
mrds-2.1.5/mrds/R/coef.trial.R | 52 -
mrds-2.1.5/mrds/R/coef.trial.fi.R | 22
mrds-2.1.5/mrds/R/compute.Nht.R | 39
mrds-2.1.5/mrds/R/create.ddfobj.R | 109 +-
mrds-2.1.5/mrds/R/ddf.R | 207 ++--
mrds-2.1.5/mrds/R/ddf.ds.R | 325 +++----
mrds-2.1.5/mrds/R/ddf.gof.R | 72 -
mrds-2.1.5/mrds/R/ddf.io.R | 188 +---
mrds-2.1.5/mrds/R/ddf.io.fi.R | 199 ++--
mrds-2.1.5/mrds/R/ddf.rem.R | 205 ++--
mrds-2.1.5/mrds/R/ddf.rem.fi.R | 468 +++++-----
mrds-2.1.5/mrds/R/ddf.trial.R | 199 ++--
mrds-2.1.5/mrds/R/ddf.trial.fi.R | 342 +++-----
mrds-2.1.5/mrds/R/det.tables.R | 174 ++--
mrds-2.1.5/mrds/R/detfct.R | 238 ++---
mrds-2.1.5/mrds/R/detfct.fit.R | 62 -
mrds-2.1.5/mrds/R/detfct.fit.mono.R | 67 -
mrds-2.1.5/mrds/R/detfct.fit.opt.R | 286 +++---
mrds-2.1.5/mrds/R/dht.R | 397 ++++-----
mrds-2.1.5/mrds/R/dht.deriv.R | 123 +-
mrds-2.1.5/mrds/R/dht.se.R | 521 +++++-------
mrds-2.1.5/mrds/R/ds.function.r | 204 ++--
mrds-2.1.5/mrds/R/flnl.R | 89 +-
mrds-2.1.5/mrds/R/flpt.lnl.r | 14
mrds-2.1.5/mrds/R/flt.var.R | 61 -
mrds-2.1.5/mrds/R/g0.R | 30
mrds-2.1.5/mrds/R/getpar.R | 88 +-
mrds-2.1.5/mrds/R/gof.ds.R | 104 +-
mrds-2.1.5/mrds/R/gstdint.R | 21
mrds-2.1.5/mrds/R/histline.R | 61 -
mrds-2.1.5/mrds/R/integratedetfct.logistic.R | 103 +-
mrds-2.1.5/mrds/R/integratelogistic.R | 15
mrds-2.1.5/mrds/R/integratelogistic.analytic.R | 80 -
mrds-2.1.5/mrds/R/integratelogisticdup.R | 14
mrds-2.1.5/mrds/R/integratepdf.r | 46 -
mrds-2.1.5/mrds/R/is.linear.logistic.R | 70 -
mrds-2.1.5/mrds/R/is.logistic.constant.R | 39
mrds-2.1.5/mrds/R/logisticbyx.R | 52 -
mrds-2.1.5/mrds/R/logisticbyz.R | 39
mrds-2.1.5/mrds/R/logisticdetfct.R | 43 -
mrds-2.1.5/mrds/R/logisticdupbyx.R | 60 -
mrds-2.1.5/mrds/R/logit.R | 11
mrds-2.1.5/mrds/R/mcds.R | 113 +-
mrds-2.1.5/mrds/R/mrds-package.R | 895 +++++++++++++++++----
mrds-2.1.5/mrds/R/pdot.dsr.integrate.logistic.R | 244 +++--
mrds-2.1.5/mrds/R/plot.det.tables.R | 137 +--
mrds-2.1.5/mrds/R/plot.ds.R | 671 +++++++--------
mrds-2.1.5/mrds/R/plot.io.R | 263 +++---
mrds-2.1.5/mrds/R/plot.io.fi.R | 257 +++---
mrds-2.1.5/mrds/R/plot.layout.R |only
mrds-2.1.5/mrds/R/plot.rem.R | 197 ++--
mrds-2.1.5/mrds/R/plot.rem.fi.R | 182 ++--
mrds-2.1.5/mrds/R/plot.trial.R | 160 +--
mrds-2.1.5/mrds/R/plot.trial.fi.R | 157 +--
mrds-2.1.5/mrds/R/plot_cond.R | 133 +--
mrds-2.1.5/mrds/R/plot_uncond.R | 154 +--
mrds-2.1.5/mrds/R/predict.ds.R | 170 ++-
mrds-2.1.5/mrds/R/predict.io.R | 151 +--
mrds-2.1.5/mrds/R/predict.io.fi.R | 113 --
mrds-2.1.5/mrds/R/predict.rem.R | 141 ---
mrds-2.1.5/mrds/R/predict.rem.fi.R | 190 +---
mrds-2.1.5/mrds/R/predict.trial.R | 146 ---
mrds-2.1.5/mrds/R/predict.trial.fi.R | 190 +---
mrds-2.1.5/mrds/R/print.ddf.gof.R | 86 +-
mrds-2.1.5/mrds/R/print.summary.ds.R | 53 -
mrds-2.1.5/mrds/R/print.summary.io.R | 29
mrds-2.1.5/mrds/R/print.summary.io.fi.R | 65 -
mrds-2.1.5/mrds/R/print.summary.rem.R | 31
mrds-2.1.5/mrds/R/print.summary.rem.fi.R | 53 -
mrds-2.1.5/mrds/R/print.summary.trial.R | 30
mrds-2.1.5/mrds/R/print.summary.trial.fi.R | 54 -
mrds-2.1.5/mrds/R/prob.deriv.R | 138 +--
mrds-2.1.5/mrds/R/prob.se.R | 125 +-
mrds-2.1.5/mrds/R/process.data.R | 78 -
mrds-2.1.5/mrds/R/setbounds.R | 99 +-
mrds-2.1.5/mrds/R/solvecov.R |only
mrds-2.1.5/mrds/R/summary.ds.R | 97 --
mrds-2.1.5/mrds/R/summary.io.R | 75 -
mrds-2.1.5/mrds/R/summary.io.fi.R | 232 ++---
mrds-2.1.5/mrds/R/summary.rem.R | 71 -
mrds-2.1.5/mrds/R/summary.rem.fi.R | 186 ++--
mrds-2.1.5/mrds/R/summary.trial.R | 73 -
mrds-2.1.5/mrds/R/summary.trial.fi.R | 183 +---
mrds-2.1.5/mrds/R/varn.R | 228 ++---
mrds-2.1.5/mrds/R/zzz.R | 24
mrds-2.1.5/mrds/data/book.tee.data.rda |binary
mrds-2.1.5/mrds/data/lfbcvi.rda |only
mrds-2.1.5/mrds/data/lfgcwa.rda |only
mrds-2.1.5/mrds/inst/testData/ltresults.rda |binary
mrds-2.1.5/mrds/inst/testData/summaryresults.rda |only
mrds-2.1.5/mrds/man/DeltaMethod.Rd | 130 +--
mrds-2.1.5/mrds/man/NCovered.Rd | 72 -
mrds-2.1.5/mrds/man/adj.check.order.Rd | 83 -
mrds-2.1.5/mrds/man/apex.gamma.Rd |only
mrds-2.1.5/mrds/man/assign.default.values.Rd | 50 -
mrds-2.1.5/mrds/man/assign.par.Rd | 76 -
mrds-2.1.5/mrds/man/average.line.Rd | 78 -
mrds-2.1.5/mrds/man/average.line.cond.Rd | 75 -
mrds-2.1.5/mrds/man/book.tee.data.Rd | 58 -
mrds-2.1.5/mrds/man/calc.se.Np.Rd |only
mrds-2.1.5/mrds/man/cdf.ds.Rd | 77 -
mrds-2.1.5/mrds/man/cds.Rd | 99 +-
mrds-2.1.5/mrds/man/check.bounds.Rd |only
mrds-2.1.5/mrds/man/check.mono.Rd |only
mrds-2.1.5/mrds/man/coef.ds.Rd | 105 +-
mrds-2.1.5/mrds/man/compute.Nht.Rd | 66 -
mrds-2.1.5/mrds/man/covered.region.dht.Rd | 58 -
mrds-2.1.5/mrds/man/create.ddfobj.Rd | 101 +-
mrds-2.1.5/mrds/man/create.model.frame.Rd | 91 +-
mrds-2.1.5/mrds/man/create.varstructure.Rd | 105 +-
mrds-2.1.5/mrds/man/ddf.Rd | 625 +++++++-------
mrds-2.1.5/mrds/man/ddf.ds.Rd | 204 ++--
mrds-2.1.5/mrds/man/ddf.gof.Rd | 87 +-
mrds-2.1.5/mrds/man/ddf.io.Rd | 160 +--
mrds-2.1.5/mrds/man/ddf.io.fi.Rd | 160 +--
mrds-2.1.5/mrds/man/ddf.rem.Rd | 154 +--
mrds-2.1.5/mrds/man/ddf.rem.fi.Rd | 161 +--
mrds-2.1.5/mrds/man/ddf.trial.Rd | 158 +--
mrds-2.1.5/mrds/man/ddf.trial.fi.Rd | 155 +--
mrds-2.1.5/mrds/man/det.tables.Rd | 92 +-
mrds-2.1.5/mrds/man/detfct.fit.Rd | 133 +--
mrds-2.1.5/mrds/man/detfct.fit.opt.Rd | 140 +--
mrds-2.1.5/mrds/man/dht.Rd | 471 +++++------
mrds-2.1.5/mrds/man/dht.deriv.Rd | 82 -
mrds-2.1.5/mrds/man/dht.se.Rd | 240 ++---
mrds-2.1.5/mrds/man/distpdf.Rd | 283 +++---
mrds-2.1.5/mrds/man/ds.function.Rd | 82 +
mrds-2.1.5/mrds/man/errors.Rd | 51 -
mrds-2.1.5/mrds/man/flnl.Rd | 146 +--
mrds-2.1.5/mrds/man/flt.var.Rd | 84 -
mrds-2.1.5/mrds/man/g0.Rd |only
mrds-2.1.5/mrds/man/getpar.Rd | 88 +-
mrds-2.1.5/mrds/man/gof.ds.Rd |only
mrds-2.1.5/mrds/man/gstdint.Rd | 94 +-
mrds-2.1.5/mrds/man/histline.Rd | 91 +-
mrds-2.1.5/mrds/man/integratedetfct.logistic.Rd |only
mrds-2.1.5/mrds/man/integratelogistic.analytic.Rd |only
mrds-2.1.5/mrds/man/integratepdf.Rd | 94 +-
mrds-2.1.5/mrds/man/io.glm.Rd | 130 +--
mrds-2.1.5/mrds/man/is.linear.logistic.Rd | 103 --
mrds-2.1.5/mrds/man/is.logistic.constant.Rd |only
mrds-2.1.5/mrds/man/lfbcvi.Rd |only
mrds-2.1.5/mrds/man/lfgcwa.Rd |only
mrds-2.1.5/mrds/man/logisticbyx.Rd |only
mrds-2.1.5/mrds/man/logisticbyz.Rd |only
mrds-2.1.5/mrds/man/logisticdetfct.Rd |only
mrds-2.1.5/mrds/man/logisticdupbyx.Rd |only
mrds-2.1.5/mrds/man/logit.Rd | 40
mrds-2.1.5/mrds/man/mcds.Rd | 96 +-
mrds-2.1.5/mrds/man/mrds-package.Rd | 68 -
mrds-2.1.5/mrds/man/p.det.Rd | 54 -
mrds-2.1.5/mrds/man/pdot.dsr.integrate.logistic.Rd |only
mrds-2.1.5/mrds/man/plot.det.tables.Rd | 110 +-
mrds-2.1.5/mrds/man/plot.ds.Rd | 220 ++---
mrds-2.1.5/mrds/man/plot.io.Rd | 206 ++--
mrds-2.1.5/mrds/man/plot.io.fi.Rd | 206 ++--
mrds-2.1.5/mrds/man/plot.layout.Rd |only
mrds-2.1.5/mrds/man/plot.rem.Rd | 183 ++--
mrds-2.1.5/mrds/man/plot.rem.fi.Rd | 183 ++--
mrds-2.1.5/mrds/man/plot.trial.Rd | 178 ++--
mrds-2.1.5/mrds/man/plot.trial.fi.Rd | 178 ++--
mrds-2.1.5/mrds/man/plot_cond.Rd | 152 +--
mrds-2.1.5/mrds/man/plot_uncond.Rd | 163 +--
mrds-2.1.5/mrds/man/predict.ds.Rd | 205 ++--
mrds-2.1.5/mrds/man/print.ddf.Rd | 40
mrds-2.1.5/mrds/man/print.ddf.gof.Rd | 56 -
mrds-2.1.5/mrds/man/print.det.tables.Rd | 52 -
mrds-2.1.5/mrds/man/print.dht.Rd | 78 -
mrds-2.1.5/mrds/man/print.summary.ds.Rd | 57 -
mrds-2.1.5/mrds/man/print.summary.io.Rd | 57 -
mrds-2.1.5/mrds/man/print.summary.io.fi.Rd | 57 -
mrds-2.1.5/mrds/man/print.summary.rem.Rd | 57 -
mrds-2.1.5/mrds/man/print.summary.rem.fi.Rd | 57 -
mrds-2.1.5/mrds/man/print.summary.trial.Rd | 57 -
mrds-2.1.5/mrds/man/print.summary.trial.fi.Rd | 57 -
mrds-2.1.5/mrds/man/prob.deriv.Rd | 85 -
mrds-2.1.5/mrds/man/prob.se.Rd | 93 +-
mrds-2.1.5/mrds/man/process.data.Rd | 144 +--
mrds-2.1.5/mrds/man/pronghorn.Rd | 92 +-
mrds-2.1.5/mrds/man/ptdata.distance.Rd | 56 -
mrds-2.1.5/mrds/man/ptdata.dual.Rd | 52 -
mrds-2.1.5/mrds/man/ptdata.removal.Rd | 53 -
mrds-2.1.5/mrds/man/ptdata.single.Rd | 45 -
mrds-2.1.5/mrds/man/qqplot.ddf.Rd | 142 +--
mrds-2.1.5/mrds/man/rem.glm.Rd | 147 +--
mrds-2.1.5/mrds/man/setbounds.Rd | 61 -
mrds-2.1.5/mrds/man/setcov.Rd | 70 -
mrds-2.1.5/mrds/man/setinitial.ds.Rd | 78 -
mrds-2.1.5/mrds/man/sim.mix.Rd | 74 -
mrds-2.1.5/mrds/man/stake77.Rd | 181 ++--
mrds-2.1.5/mrds/man/stake78.Rd | 219 ++---
mrds-2.1.5/mrds/man/summary.ds.Rd | 98 +-
mrds-2.1.5/mrds/man/summary.io.Rd | 92 +-
mrds-2.1.5/mrds/man/summary.io.fi.Rd | 110 +-
mrds-2.1.5/mrds/man/summary.rem.Rd | 92 +-
mrds-2.1.5/mrds/man/summary.rem.fi.Rd | 106 +-
mrds-2.1.5/mrds/man/summary.trial.Rd | 92 +-
mrds-2.1.5/mrds/man/summary.trial.fi.Rd | 106 +-
mrds-2.1.5/mrds/man/survey.region.dht.Rd | 64 -
mrds-2.1.5/mrds/man/tablecgf.Rd | 96 +-
mrds-2.1.5/mrds/man/test.breaks.Rd | 53 -
mrds-2.1.5/mrds/man/varn.Rd | 158 +--
mrds-2.1.5/mrds/tests/testthat |only
mrds-2.1.5/mrds/tests/testthat.R |only
235 files changed, 12313 insertions(+), 12571 deletions(-)
Title: Longitudinal Targeted Maximum Likelihood Estimation
Diff between ltmle versions 0.9.3 dated 2013-12-12 and 0.9.3-1 dated 2014-04-22
Description: Targeted Maximum Likelihood Estimation (TMLE) of
treatment/censoring specific mean outcome or marginal structural model for
point-treatment and longitudinal data
Author: Joshua Schwab [aut, cre],
Samuel Lendle [aut],
Maya Petersen [aut],
Mark van der Laan [aut],
Susan Gruber [ctb]
Maintainer: Joshua Schwab
DESCRIPTION | 10 +++++-----
MD5 | 6 +++---
NEWS | 4 ++++
man/ltmle-package.rd | 4 ++--
4 files changed, 14 insertions(+), 10 deletions(-)
Title: k-Cube Thurstonian IRT Models
Diff between kcirt versions 0.5.4 dated 2013-11-12 and 0.6.0 dated 2014-04-22
Description: Create, Simulate, Fit, Solve k-Cube Thurstonian IRT Models
Author: Dave Zes, Jimmy Lewis, Dana Landis @ Korn/Ferry International
Maintainer: Dave Zes
.Rinstignore | 2 +-
DESCRIPTION | 8 ++++----
MD5 | 28 ++++++++++++++--------------
NAMESPACE | 4 ++++
R/ikcirt.fun.mss.eta.R | 5 ++---
R/ikcirt.fun.mss.lambda.R | 14 +++++++++++++-
R/ikcirt.fun.mss.mu.R | 4 +++-
R/kcirt.fitMSS.R | 21 ++++++++++++++++-----
R/kcirt.model.R | 12 ++++++++----
R/kcirt.sim.R | 5 +++++
build/vignette.rds |binary
inst/doc/kcirt.pdf |binary
inst/doc/kcirtTutorial.pdf |binary
man/kcirt-package.Rd | 4 ++--
man/kcirt.fitMSS.Rd | 15 +++++++++++++--
man/kcirt.ystarinfo.Rd | 4 ++--
16 files changed, 87 insertions(+), 39 deletions(-)
Title: Extra themes, scales and geoms for ggplot
Diff between ggthemes versions 1.6.0 dated 2013-12-14 and 1.7.0 dated 2014-04-22
Description: Some extra themes, geoms, and scales for ggplot2.
Author: Jeffrey B. Arnold [aut, cre]
Maintainer: Jeffrey B. Arnold
DESCRIPTION | 8 ++++----
MD5 | 14 +++++++++-----
NAMESPACE | 6 ++++++
NEWS | 12 ++++++++++++
R/scale-tufte.R |only
R/wsj.R | 4 ++--
build/partial.rdb |binary
man/range_breaks.Rd |only
man/scale_tufte.Rd |only
man/smart_digits.Rd |only
10 files changed, 33 insertions(+), 11 deletions(-)
Title: Radiocarbon dating, age-depth modelling, relative sea level rate
estimation, and non-parametric phase modelling
Diff between Bchron versions 4.1 dated 2014-04-11 and 4.1.1 dated 2014-04-22
Description: This package enables quick calibration of radiocarbon dates under various calibration curves (including user generated ones); Age-depth modelling as per the algorithm of Haslett and Parnell (2008); Relative sea level rate estimation incorporating time uncertainty in polynomial regression models; and non-parametric phase modelling via Gaussian mixtures as a means to determine the activity of a site (and as an alternative to the Oxcal function SUM).
Author: Andrew Parnell
Maintainer: Andrew Parnell
DESCRIPTION | 8 ++++----
MD5 | 7 ++++---
R/Bchronology.R | 9 +++++----
R/zzz.R |only
data/normal.txt.gz |binary
5 files changed, 13 insertions(+), 11 deletions(-)
Title: An alternative display for profiling information
Diff between profr versions 0.2 dated 2011-01-28 and 0.3.1 dated 2014-04-22
Description: profr provides an alternative data structure
and visual rendering for the profiling information
generated by Rprof.
Author: Hadley Wickham
Maintainer: Hadley Wickham
profr-0.2/profr/.gitignore |only
profr-0.2/profr/inst/doc |only
profr-0.2/profr/man/data.rd |only
profr-0.3.1/profr/DESCRIPTION | 21 +++--
profr-0.3.1/profr/LICENSE |only
profr-0.3.1/profr/MD5 |only
profr-0.3.1/profr/NAMESPACE | 6 +
profr-0.3.1/profr/NEWS | 19 ++++
profr-0.3.1/profr/R/output.r | 48 +++++-------
profr-0.3.1/profr/R/parse.r | 135 +++++++++++++++++-----------------
profr-0.3.1/profr/R/profile.r | 37 +++++++--
profr-0.3.1/profr/man/ggplot.profr.Rd | 45 ++++++-----
profr-0.3.1/profr/man/parse_rprof.Rd | 38 +++++----
profr-0.3.1/profr/man/plot.profr.Rd | 41 +++++-----
profr-0.3.1/profr/man/profr.Rd | 61 ++++++++-------
profr-0.3.1/profr/man/sample-data.Rd |only
16 files changed, 262 insertions(+), 189 deletions(-)
Title: Improved Quality Control Charts
Diff between IQCC versions 0.5 dated 2010-05-19 and 0.6 dated 2014-04-22
Description: Builds statistical control charts with exact limits for
univariate and multivariate cases.
Author: Emanuel P. Barbosa,
Flavio M. M. Barros
Maintainer: Emanuel P. Barbosa
DESCRIPTION | 15 ++++++----
MD5 |only
NAMESPACE | 49 +++++++++++++++++++----------------
README.md |only
man/cchart.p.Rd | 77 ++++++++++++++++++++++++++++----------------------------
man/cchart.u.Rd | 75 +++++++++++++++++++++++++++---------------------------
6 files changed, 113 insertions(+), 103 deletions(-)
Title: Connect MonetDB to R
Diff between MonetDB.R versions 0.9.1 dated 2014-03-06 and 0.9.2 dated 2014-04-22
Description: Allows to pull data from MonetDB into R
Author: Hannes Muehleisen [aut, cre],
Thomas Lumley [ctb],
Anthony Damico [ctb]
Maintainer: Hannes Muehleisen
DESCRIPTION | 8
MD5 | 16
NAMESPACE | 4
NEWS | 12
R/control.R | 45 +
R/monetdb.R | 1524 ++++++++++++++++++++++++-----------------------
man/mc.Rd | 4
man/monetdb_queryinfo.Rd |only
man/mq.Rd |only
src/mapi.c | 13
10 files changed, 857 insertions(+), 769 deletions(-)
Title: Symmetric Normalized Quadratic Profit Function
Diff between micEconSNQP versions 0.6-4 dated 2013-11-06 and 0.6-6 dated 2014-04-22
Description: Production analysis with the Symmetric Normalized Quadratic (SNQ) profit function
Author: Arne Henningsen
Maintainer: Arne Henningsen
DESCRIPTION | 13 ++--
MD5 | 35 ++++++-------
NAMESPACE | 13 ++++
NEWS | 7 ++
R/zzz.R |only
man/predict.snqProfitEst.Rd | 2
man/print.snqProfitEst.Rd | 2
man/residuals.snqProfitEst.Rd | 2
man/snqProfitCalc.Rd | 2
man/snqProfitEla.Rd | 2
man/snqProfitEst.Rd | 2
man/snqProfitFixEla.Rd | 2
man/snqProfitHessian.Rd | 2
man/snqProfitHessianDeriv.Rd | 2
man/snqProfitImposeConvexity.Rd | 2
man/snqProfitShadowPrices.Rd | 2
man/snqProfitWeights.Rd | 2
tests/snqProfit.R | 14 +----
tests/snqProfit.Rout.save | 105 ++++++++++++++++++----------------------
19 files changed, 110 insertions(+), 101 deletions(-)
Title: A penalty approach to Differential Item Functioning in Rasch
Models
Diff between DIFlasso versions 1.0 dated 2013-08-23 and 1.0-1 dated 2014-04-22
Description: A package to perform DIFlasso, a method to detect DIF (Differential Item Functioning) in Rasch Models. It can handle settings with many covariates and also metric covariates.
Author: Gunther Schauberger
Maintainer: Gunther Schauberger
DIFlasso-1.0-1/DIFlasso/DESCRIPTION | 12 ++++-----
DIFlasso-1.0-1/DIFlasso/MD5 | 26 ++++++++++----------
DIFlasso-1.0-1/DIFlasso/NAMESPACE | 22 ++++++++++------
DIFlasso-1.0-1/DIFlasso/R/plot.DIFlasso.R |only
DIFlasso-1.0-1/DIFlasso/R/plot.DIFlasso.refit.R |only
DIFlasso-1.0-1/DIFlasso/R/print.DIFlasso.R |only
DIFlasso-1.0-1/DIFlasso/R/print.DIFlasso.refit.R |only
DIFlasso-1.0-1/DIFlasso/man/DIFlasso.Rd | 14 +++++-----
DIFlasso-1.0-1/DIFlasso/man/plot.DIFlasso.Rd |only
DIFlasso-1.0-1/DIFlasso/man/plot.DIFlasso.refit.Rd |only
DIFlasso-1.0-1/DIFlasso/man/print.DIFlasso.Rd |only
DIFlasso-1.0-1/DIFlasso/man/print.DIFlasso.refit.Rd |only
DIFlasso-1.0-1/DIFlasso/man/refitDIFlasso.Rd | 10 +++----
DIFlasso-1.0-1/DIFlasso/man/simul.data.Rd | 8 +++---
DIFlasso-1.0/DIFlasso/R/plotDIFlasso.R |only
DIFlasso-1.0/DIFlasso/R/plotDIFlasso.refit.R |only
DIFlasso-1.0/DIFlasso/R/printDIFlasso.R |only
DIFlasso-1.0/DIFlasso/R/printDIFlasso.refit.R |only
DIFlasso-1.0/DIFlasso/man/plotDIFlasso.Rd |only
DIFlasso-1.0/DIFlasso/man/plotDIFlasso.refit.Rd |only
DIFlasso-1.0/DIFlasso/man/printDIFlasso.Rd |only
DIFlasso-1.0/DIFlasso/man/printDIFlasso.refit.Rd |only
22 files changed, 49 insertions(+), 43 deletions(-)
Title: Spatial point patterns analysis
Diff between ads versions 1.4 dated 2014-01-07 and 1.5-2.1 dated 2014-04-22
Description: Perform first- and second-order multi-scale analyses derived from Ripley K-function, for univariate,
multivariate and marked mapped data in rectangular, circular or irregular shaped sampling windows, with tests of
statistical significance based on Monte Carlo simulations.
Author: R. Pelissier and F. Goreaud
Maintainer: Raphael Pelissier
DESCRIPTION | 10
INDEX | 3
MD5 | 53 +-
NAMESPACE | 4
R/fads.R | 115 ++++
R/mimetic.R | 38 -
R/plot.fads.R | 1241 +++++++++++++++++++++++++++--------------------------
R/spp.R | 3
R/swin.R | 22
R/triangulate.R | 2
R/util.R | 12
data/BPoirier.rda |binary
data/Couepia.rda |binary
data/demopat.rda |only
man/demopat.Rd |only
man/internal.Rd | 16
man/k12fun.Rd | 33 +
man/kdfun.Rd |only
man/kmfun.Rd | 6
man/krfun.Rd | 32 -
man/ksfun.Rd | 2
man/mimetic.Rd | 4
man/plot.fads.Rd | 1
man/spp.Rd | 2
man/swin.Rd | 4
man/triangulate.Rd | 13
src/Zlibs.c | 982 ++++++++++++++++++++++++++++++-----------
src/Zlibs.h | 30 -
src/triangulate.c | 4
29 files changed, 1642 insertions(+), 990 deletions(-)
Title: A GTK GUI for fitting and comparing GLM and GLMM in R
Diff between R2STATS versions 0.68-35 dated 2014-03-18 and 0.68-38 dated 2014-04-22
Description: R2STATS is a gWidgetsRGtk2 GUI for fitting and comparing GLM or GLMM (based on Douglas Bates' lme4 package) in R. It is designed to make comparisons between numerous models easy, both numerically and graphically, which may be useful for teaching. Relevant plots are automatically produced for each model family. R2STATS is *not* a generic graphical interface for R, but a GUI for statistical modelling in a model comparison approach.
Author: Yvonnick Noel
Maintainer: Yvonnick Noel
DESCRIPTION | 15 +++++++--------
MD5 | 4 ++--
NAMESPACE | 2 +-
3 files changed, 10 insertions(+), 11 deletions(-)
Title: Demand Analysis with the Almost Ideal Demand System (AIDS)
Diff between micEconAids versions 0.6-12 dated 2012-12-26 and 0.6-14 dated 2014-04-22
Description: Demand analysis with the Almost Ideal Demand System (AIDS)
suggested by Deaton and Muellbauer (1980)
Author: Arne Henningsen
Maintainer: Arne Henningsen
DESCRIPTION | 16 +++----
MD5 | 8 +--
NAMESPACE | 7 +++
NEWS | 6 ++
tests/aids.Rout.save | 107 +++++++++++++++++++++++++--------------------------
5 files changed, 78 insertions(+), 66 deletions(-)
Title: Microeconomic Analysis and Modelling
Diff between micEcon versions 0.6-10 dated 2012-06-02 and 0.6-12 dated 2014-04-22
Description: Tools for microeconomic analysis and microeconomic modelling
Author: Arne Henningsen
Maintainer: Arne Henningsen
DESCRIPTION | 17
MD5 | 33
NAMESPACE | 11
NEWS | 10
R/quadFuncEst.R | 8
R/zzz.R |only
tests/cobbDouglasTest.R | 1
tests/cobbDouglasTest.Rout.save | 332 -
tests/indices.R | 1
tests/indices.Rout.save | 5936 +++++++++++++++++------------------
tests/quadFunc.R | 31
tests/quadFunc.Rout.save | 6691 +++++++++++++++------------------------
tests/translog.R | 5
tests/translog.Rout.save | 6701 ++++++++++++++++------------------------
tests/translogCost.R | 1
tests/translogCost.Rout.save | 936 ++---
tests/translogRay.R | 1
tests/translogRay.Rout.save | 2217 +++++--------
18 files changed, 9840 insertions(+), 13092 deletions(-)
Title: The YUIMA Project package for SDEs
Diff between yuima versions 1.0.9 dated 2014-04-18 and 1.0.10 dated 2014-04-22
Description: Simulation and Inference for Stochastic Differential Equations
Author: YUIMA Project Team
Maintainer: Stefano M. Iacus
DESCRIPTION | 8 ++++----
MD5 | 6 +++---
R/yuima.data.R | 13 ++++++++++---
man/setData.Rd | 11 ++++++++++-
4 files changed, 27 insertions(+), 11 deletions(-)
Title: Scale functions for graphics.
Diff between scales versions 0.2.3 dated 2012-12-05 and 0.2.4 dated 2014-04-22
Description: Scales map data to aesthetics, and provide
methods for automatically determining breaks and labels
for axes and legends.
Author: Hadley Wickham
Maintainer: Hadley Wickham
scales-0.2.3/scales/inst |only
scales-0.2.3/scales/man/Range.Rd |only
scales-0.2.3/scales/tests/test-all.R |only
scales-0.2.4/scales/DESCRIPTION | 33 ++--
scales-0.2.4/scales/LICENSE |only
scales-0.2.4/scales/MD5 | 183 +++++++++++++--------------
scales-0.2.4/scales/NAMESPACE | 7 -
scales-0.2.4/scales/NEWS | 11 +
scales-0.2.4/scales/R/breaks.r | 31 ++--
scales-0.2.4/scales/R/colour-manip.r | 2
scales-0.2.4/scales/R/documentation.r | 2
scales-0.2.4/scales/R/formatter.r | 25 +--
scales-0.2.4/scales/R/full-seq.r | 16 +-
scales-0.2.4/scales/R/pal-brewer.r | 29 ++--
scales-0.2.4/scales/R/pal-dichromat.r | 12 -
scales-0.2.4/scales/R/pal-hue.r | 11 -
scales-0.2.4/scales/R/range.r | 10 -
scales-0.2.4/scales/R/scales.r | 4
scales-0.2.4/scales/R/trans-numeric.r | 34 ++---
scales-0.2.4/scales/R/trans.r | 15 +-
scales-0.2.4/scales/README.md | 2
scales-0.2.4/scales/build/partial.rdb |binary
scales-0.2.4/scales/man/Range-class.Rd |only
scales-0.2.4/scales/man/abs_area.Rd | 8 -
scales-0.2.4/scales/man/alpha.Rd | 13 +
scales-0.2.4/scales/man/area_pal.Rd | 9 -
scales-0.2.4/scales/man/as.trans.Rd | 7 -
scales-0.2.4/scales/man/asn_trans.Rd | 5
scales-0.2.4/scales/man/atanh_trans.Rd | 5
scales-0.2.4/scales/man/boxcox_trans.Rd | 10 -
scales-0.2.4/scales/man/brewer_pal.Rd | 15 +-
scales-0.2.4/scales/man/cbreaks.Rd | 29 +---
scales-0.2.4/scales/man/censor.Rd | 14 +-
scales-0.2.4/scales/man/col2hcl.Rd | 17 +-
scales-0.2.4/scales/man/comma_format.Rd | 17 +-
scales-0.2.4/scales/man/cscale.Rd | 22 +--
scales-0.2.4/scales/man/date_breaks.Rd | 11 -
scales-0.2.4/scales/man/date_format.Rd | 10 -
scales-0.2.4/scales/man/date_trans.Rd | 5
scales-0.2.4/scales/man/dichromat_pal.Rd | 9 -
scales-0.2.4/scales/man/discard.Rd | 10 -
scales-0.2.4/scales/man/div_gradient_pal.Rd | 18 +-
scales-0.2.4/scales/man/dollar_format.Rd | 25 +--
scales-0.2.4/scales/man/dscale.Rd | 11 -
scales-0.2.4/scales/man/exp_trans.Rd | 8 -
scales-0.2.4/scales/man/expand_range.Rd | 15 +-
scales-0.2.4/scales/man/extended_breaks.Rd | 19 +-
scales-0.2.4/scales/man/format_format.Rd | 12 -
scales-0.2.4/scales/man/fullseq.Rd | 13 +
scales-0.2.4/scales/man/gradient_n_pal.Rd | 20 +-
scales-0.2.4/scales/man/grey_pal.Rd | 11 -
scales-0.2.4/scales/man/hue_pal.Rd | 20 +-
scales-0.2.4/scales/man/identity_pal.Rd | 6
scales-0.2.4/scales/man/identity_trans.Rd | 5
scales-0.2.4/scales/man/linetype_pal.Rd | 6
scales-0.2.4/scales/man/log1p_trans.Rd | 5
scales-0.2.4/scales/man/log_breaks.Rd | 9 -
scales-0.2.4/scales/man/log_trans.Rd | 7 -
scales-0.2.4/scales/man/manual_pal.Rd | 7 -
scales-0.2.4/scales/man/math_format.Rd | 21 +--
scales-0.2.4/scales/man/muted.Rd | 11 -
scales-0.2.4/scales/man/package-scales.Rd | 3
scales-0.2.4/scales/man/parse_format.Rd | 11 -
scales-0.2.4/scales/man/percent_format.Rd | 14 +-
scales-0.2.4/scales/man/pretty_breaks.Rd | 12 -
scales-0.2.4/scales/man/probability_trans.Rd | 15 +-
scales-0.2.4/scales/man/reciprocal_trans.Rd | 5
scales-0.2.4/scales/man/rescale.Rd | 14 +-
scales-0.2.4/scales/man/rescale_max.Rd | 14 +-
scales-0.2.4/scales/man/rescale_mid.Rd | 17 +-
scales-0.2.4/scales/man/rescale_none.Rd | 9 -
scales-0.2.4/scales/man/rescale_pal.Rd | 11 -
scales-0.2.4/scales/man/reverse_trans.Rd | 5
scales-0.2.4/scales/man/scientific_format.Rd | 18 +-
scales-0.2.4/scales/man/seq_gradient_pal.Rd | 15 +-
scales-0.2.4/scales/man/shape_pal.Rd | 7 -
scales-0.2.4/scales/man/show_col.Rd | 7 -
scales-0.2.4/scales/man/sqrt_trans.Rd | 5
scales-0.2.4/scales/man/squish.Rd | 16 +-
scales-0.2.4/scales/man/squish_infinite.Rd | 10 -
scales-0.2.4/scales/man/time_trans.Rd | 10 -
scales-0.2.4/scales/man/trans_breaks.Rd | 15 +-
scales-0.2.4/scales/man/trans_format.Rd | 14 +-
scales-0.2.4/scales/man/trans_new.Rd | 44 +++---
scales-0.2.4/scales/man/trans_range.Rd | 12 -
scales-0.2.4/scales/man/zero_range.Rd | 24 +--
scales-0.2.4/scales/tests/testthat |only
scales-0.2.4/scales/tests/testthat.R |only
88 files changed, 624 insertions(+), 595 deletions(-)
Title: R Commander Plug-in for the EZR (Easy R) Package
Diff between RcmdrPlugin.EZR versions 1.23 dated 2014-03-04 and 1.24 dated 2014-04-22
More information about RcmdrPlugin.EZR at CRAN
Description: EZR (Easy R) adds a variety of statistical functions, including survival analyses, ROC analyses, metaanalyses, sample size calculation, and so on, to the R commander. EZR enables point-and-click easy access to statistical functions, especially for medical statistics. EZR is platform-independent and runs on Windows, Mac OS X, and UNIX. Its complete manual is available only in Japanese (Chugai Igakusha, ISBN-10: 4498109007), but an report that introduced the investigation of EZR was published in Bone Marrow Transplantation (Nature Publishing Group) as an Open article. This report can be used as a simple manual. It can be freely downloaded from the journal website as shown below.
Author: Yoshinobu Kanda
Maintainer: Yoshinobu Kanda
DESCRIPTION | 8 ++++----
MD5 | 14 +++++++-------
NEWS | 4 ++++
R/EZR.R | 18 ++++++++++--------
inst/CHANGES | 4 ++++
inst/doc/EZR.htm | 4 ++--
inst/doc/EZR.pdf |binary
man/EZR.Rd | 4 ++--
8 files changed, 33 insertions(+), 23 deletions(-)
Permanent link
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2011-01-14 0.1.1
2010-09-30 0.1
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2011-12-02 0.1
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2010-07-05 0.1.2
2010-06-11 0.1.1
2009-11-16 0.1
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2008-03-27 1.0.1-1
2007-11-27 1.0.1
2007-10-01 1.0
Title: Quantitative analysis made accessible
Diff between userfriendlyscience versions 0.1.1 dated 2014-04-17 and 0.1-2 dated 2014-04-22
More information about userfriendlyscience at CRAN
Description: This package contains a number of functions that serve
two goals: first, make R more accessible to people migrating from
SPSS by adding a number of functions that behave roughly like their
SPSS equivalents; and second, make a number of slightly more
advanced functions more userfriendly to relatively novice users.
Author: Gjalt-Jorn Peters
Maintainer: Gjalt-Jorn Peters
ChangeLog |only
DESCRIPTION | 13 -
MD5 | 40 +--
NAMESPACE | 16 -
NEWS |only
R/basicSPSStranslationFunctions.R | 176 ++++++++++++++-
R/dlvPlot.r | 69 +++--
R/meanDiff.multi.r | 33 ++
R/rMatrix.r | 4
R/scaleReliability.r | 67 -----
R/testRetestAlpha.r | 15 -
R/testRetestCES.r |only
R/testRetestReliability.r |only
R/userfriendlyscienceBasics.r | 40 +++
data/testRetestSimData.rda |binary
man/userfriendlyscience-basicSPSStranslationFunctions.Rd | 54 +++-
man/userfriendlyscience-dlvPlot.Rd | 7
man/userfriendlyscience-meanDiff.multi.Rd | 13 +
man/userfriendlyscience-printMethods.Rd | 6
man/userfriendlyscience-testRetestAlpha.Rd | 6
man/userfriendlyscience-testRetestCES.Rd |only
man/userfriendlyscience-testRetestReliability.Rd |only
man/userfriendlyscience-userfriendlyscienceBasics.Rd | 26 ++
tests/reliabilityTest.r | 84 ++++++-
24 files changed, 500 insertions(+), 169 deletions(-)
Permanent link
Title: Simulating from the Polya posterior
Diff between polyapost versions 1.1-5 dated 2014-03-31 and 1.1-6 dated 2014-04-22
Description: Generate dependent samples from a non-full dimensional
polytope via a Markov Chain sampler
Author: Glen Meeden
Maintainer: Glen Meeden
DESCRIPTION | 8 ++++----
MD5 | 10 +++++-----
build/vignette.rds |binary
inst/doc/pp1.R | 2 +-
inst/doc/pp1.Rnw | 2 +-
vignettes/pp1.Rnw | 2 +-
6 files changed, 12 insertions(+), 12 deletions(-)
Title: Analysing Phenotype Microarray and Growth Curve Data
Diff between opm versions 1.0.24 dated 2013-12-17 and 1.1.0 dated 2014-04-22
Description: Tools for analysing OmniLog(R) and MicroStation(TM)
phenotype microarray (PM) data as produced by the devices
distributed by BIOLOG Inc. as well as similar kinds of data
such as growth curves. Major facilities are plotting data,
accurately estimating curve parameters, comparing and
discretising data, creating phylogenetic formats and reports
for taxonomic journals, drawing the PM analysis results in
biochemical pathway graphs optionally including genome
annotations, running multiple comparisons of means, easy
interaction with powerful feature-selection approaches,
integrating metadata, using the YAML format for the storage of
data and metadata, batch conversion of large numbers of files,
and database I/O. (The suggested mboostDevel is from R-Forge
and not necessary.)
Author: Markus Goeker, with contributions by Benjamin Hofner, Lea A.I.
Vaas, Johannes Sikorski, Nora Buddruhs and Anne Fiebig
Maintainer: Markus Goeker
opm-1.0.24/opm/man/contains.Rd |only
opm-1.0.24/opm/man/kubrick.Rd |only
opm-1.0.24/opm/man/map_values.Rd |only
opm-1.1.0/opm/ChangeLog | 68 +
opm-1.1.0/opm/DESCRIPTION | 44 -
opm-1.1.0/opm/MD5 | 214 +++---
opm-1.1.0/opm/NAMESPACE | 42 -
opm-1.1.0/opm/NEWS | 67 +
opm-1.1.0/opm/R/aggregation.R | 3
opm-1.1.0/opm/R/auxiliary.R | 573 ++++------------
opm-1.1.0/opm/R/classes.R | 203 +++++
opm-1.1.0/opm/R/combination.R | 122 +--
opm-1.1.0/opm/R/constants.R | 32
opm-1.1.0/opm/R/conversion.R | 612 +++++++++++++++--
opm-1.1.0/opm/R/data.R | 4
opm-1.1.0/opm/R/dbio.R |only
opm-1.1.0/opm/R/discretization.R | 2
opm-1.1.0/opm/R/getter.R | 364 +++++++---
opm-1.1.0/opm/R/imports.R | 4
opm-1.1.0/opm/R/io.R | 25
opm-1.1.0/opm/R/metadata.R | 109 ++-
opm-1.1.0/opm/R/multcomp.R | 162 +++-
opm-1.1.0/opm/R/naming.R | 503 +++++++++++---
opm-1.1.0/opm/R/phylogeny.R | 24
opm-1.1.0/opm/R/plotting.R | 114 ++-
opm-1.1.0/opm/R/substrate-info.R | 755 +++++++++++++---------
opm-1.1.0/opm/R/testing.R | 4
opm-1.1.0/opm/R/well-map.R | 65 -
opm-1.1.0/opm/build/vignette.rds |binary
opm-1.1.0/opm/data/boccuto_et_al.rda |only
opm-1.1.0/opm/demo/00Index | 16
opm-1.1.0/opm/demo/MongoDB-IO.R | 79 +-
opm-1.1.0/opm/demo/MySQL-IO.R |only
opm-1.1.0/opm/demo/PostgreSQL-IO.R |only
opm-1.1.0/opm/demo/RODBC-IO.R |only
opm-1.1.0/opm/demo/SQLite-IO.R |only
opm-1.1.0/opm/demo/cluster-with-pvalues.R | 53 -
opm-1.1.0/opm/demo/custom-PCA.R | 69 +-
opm-1.1.0/opm/demo/distinguish-curve-topologies.R |only
opm-1.1.0/opm/demo/identify-positive-reactions.R |only
opm-1.1.0/opm/demo/multiple-plate-types.R | 182 ++---
opm-1.1.0/opm/demo/phenotype-vs-genotype.R |only
opm-1.1.0/opm/inst/auxiliary/001_rdbms_drop.sql |only
opm-1.1.0/opm/inst/auxiliary/002_rdbms_create.sql |only
opm-1.1.0/opm/inst/auxiliary/003_rdbms_delete.sql |only
opm-1.1.0/opm/inst/doc/opm-growth-curves.Rnw |only
opm-1.1.0/opm/inst/doc/opm-growth-curves.pdf |only
opm-1.1.0/opm/inst/doc/opm-substrates.pdf |binary
opm-1.1.0/opm/inst/doc/opm-tutorial.pdf |binary
opm-1.1.0/opm/inst/scripts/run_opm.R | 4
opm-1.1.0/opm/inst/tests/test_aggregation.R | 10
opm-1.1.0/opm/inst/tests/test_auxiliary.R | 279 +-------
opm-1.1.0/opm/inst/tests/test_classes.R | 53 +
opm-1.1.0/opm/inst/tests/test_combination.R | 81 +-
opm-1.1.0/opm/inst/tests/test_constants.R | 33
opm-1.1.0/opm/inst/tests/test_conversion.R | 133 +++
opm-1.1.0/opm/inst/tests/test_dbio.R |only
opm-1.1.0/opm/inst/tests/test_getter.R | 196 +++++
opm-1.1.0/opm/inst/tests/test_io.R | 36 -
opm-1.1.0/opm/inst/tests/test_metadata.R | 63 +
opm-1.1.0/opm/inst/tests/test_multcomp.R | 74 +-
opm-1.1.0/opm/inst/tests/test_naming.R | 217 +++++-
opm-1.1.0/opm/inst/tests/test_phylogeny.R | 10
opm-1.1.0/opm/inst/tests/test_plotting.R | 35 -
opm-1.1.0/opm/inst/tests/test_substrate-info.R | 3
opm-1.1.0/opm/man/OPM.Rd | 42 -
opm-1.1.0/opm/man/OPM_DB.Rd |only
opm-1.1.0/opm/man/WMD.Rd | 41 -
opm-1.1.0/opm/man/aggregated.Rd | 17
opm-1.1.0/opm/man/annotated.Rd | 23
opm-1.1.0/opm/man/as.data.frame.Rd | 125 ++-
opm-1.1.0/opm/man/boccuto_et_al.Rd |only
opm-1.1.0/opm/man/bracket.Rd | 99 ++
opm-1.1.0/opm/man/bracket.set.Rd | 48 -
opm-1.1.0/opm/man/c.Rd | 47 +
opm-1.1.0/opm/man/collect_template.Rd | 18
opm-1.1.0/opm/man/csv_data.Rd | 44 -
opm-1.1.0/opm/man/dim.Rd | 25
opm-1.1.0/opm/man/discrete.Rd | 14
opm-1.1.0/opm/man/discretized.Rd | 15
opm-1.1.0/opm/man/do_aggr.Rd | 2
opm-1.1.0/opm/man/duplicated.Rd | 122 ++-
opm-1.1.0/opm/man/explode_dir.Rd | 8
opm-1.1.0/opm/man/extract.Rd | 79 +-
opm-1.1.0/opm/man/find_substrate.Rd | 3
opm-1.1.0/opm/man/has_aggr.Rd | 13
opm-1.1.0/opm/man/heat_map.Rd | 31
opm-1.1.0/opm/man/html_args.Rd | 24
opm-1.1.0/opm/man/include_metadata.Rd | 107 ++-
opm-1.1.0/opm/man/infix.k.Rd | 116 ++-
opm-1.1.0/opm/man/infix.q.Rd | 118 ++-
opm-1.1.0/opm/man/max.Rd | 9
opm-1.1.0/opm/man/measurements.Rd | 15
opm-1.1.0/opm/man/merge.Rd | 164 +++-
opm-1.1.0/opm/man/metadata.Rd | 22
opm-1.1.0/opm/man/metadata.set.Rd | 130 ++-
opm-1.1.0/opm/man/opm.package.Rd | 24
opm-1.1.0/opm/man/opm_dbput.Rd |only
opm-1.1.0/opm/man/opm_files.Rd | 25
opm-1.1.0/opm/man/opm_mcp.Rd | 52 -
opm-1.1.0/opm/man/opm_opt.Rd | 10
opm-1.1.0/opm/man/opms.function.Rd | 27
opm-1.1.0/opm/man/opmx.function.Rd |only
opm-1.1.0/opm/man/parallelplot.Rd | 1
opm-1.1.0/opm/man/phylo_data.Rd | 30
opm-1.1.0/opm/man/plate_type.Rd | 124 +++
opm-1.1.0/opm/man/plates.Rd | 16
opm-1.1.0/opm/man/potato.Rd |only
opm-1.1.0/opm/man/radial_plot.Rd | 16
opm-1.1.0/opm/man/separate.Rd | 4
opm-1.1.0/opm/man/set_spline_options.Rd | 13
opm-1.1.0/opm/man/sort.Rd | 90 +-
opm-1.1.0/opm/man/subset.Rd | 56 +
opm-1.1.0/opm/man/substrate_info.Rd | 62 +
opm-1.1.0/opm/man/summary.Rd | 2
opm-1.1.0/opm/man/to_yaml.Rd | 9
opm-1.1.0/opm/man/vaas_4.Rd | 16
opm-1.1.0/opm/man/wells.Rd | 95 +-
opm-1.1.0/opm/man/xy_plot.Rd | 11
opm-1.1.0/opm/vignettes/opm-growth-curves.Rnw |only
120 files changed, 5273 insertions(+), 2672 deletions(-)
Title: Memoise functions
Diff between memoise versions 0.1 dated 2010-09-03 and 0.2.1 dated 2014-04-22
Description: Cache the results of a function so that when you call it
again with the same arguments it returns the pre-computed value.
Author: Hadley Wickham
Maintainer: Hadley Wickham
memoise-0.1/memoise/man/memoize.Rd |only
memoise-0.2.1/memoise/DESCRIPTION | 16 ++--
memoise-0.2.1/memoise/LICENSE |only
memoise-0.2.1/memoise/MD5 |only
memoise-0.2.1/memoise/NAMESPACE | 9 +-
memoise-0.2.1/memoise/NEWS |only
memoise-0.2.1/memoise/R/cache.r | 22 ++---
memoise-0.2.1/memoise/R/memoise.r | 122 ++++++++++++++++++++++++++-----
memoise-0.2.1/memoise/README.md |only
memoise-0.2.1/memoise/man/forget.Rd | 28 +++++--
memoise-0.2.1/memoise/man/is.memoised.Rd |only
memoise-0.2.1/memoise/man/memoise.Rd |only
12 files changed, 155 insertions(+), 42 deletions(-)
Title: Methods for detection of clusters in hierarchical clustering
dendrograms.
Diff between dynamicTreeCut versions 1.60-1 dated 2013-11-04 and 1.62 dated 2014-04-22
More information about dynamicTreeCut at CRAN
Description: Contains methods for detection of clusters in hierarchical clustering dendrograms.
Author: Peter Langfelder
Maintainer: Peter Langfelder
Changelog | 20 +++++++++++
DESCRIPTION | 8 ++--
MD5 | 14 ++++----
R/cutreeWrapper.R | 6 +++
R/treeCut.R | 71 +++++++++++++++++++++++++++++-------------
man/cutreeDynamic.Rd | 20 +++++++++++
man/cutreeHybrid.Rd | 18 ++++++++++
man/dynamicTreeCut-package.Rd | 4 +-
8 files changed, 127 insertions(+), 34 deletions(-)
Permanent link
Title: Average bioequivalence and bioavailability data analysis tool
Diff between bear versions 2.6.2 dated 2014-02-24 and 2.6.3 dated 2014-04-22
Description: An average bioequivalence (ABE) and bioavailability data
analysis tool including sample size estimation, noncompartmental
analysis (NCA), ANOVA (lm) for a standard RT/TR 2x2x2 crossover
design or a parallel study. And linear mixed effect model (lme
of nlme) for a 2-treatment, 2-sequence with 2 periods or more
(i.e. 2x2x3/2x2x4) replicate crossover design.
Author: Hsin-ya Lee, Yung-jin Lee
Maintainer: Yung-jin Lee
DESCRIPTION | 8
MD5 | 38 +-
NEWS | 19 +
R/BANOVA.r | 105 +++---
R/BANOVAcsv.r | 23 +
R/NCAoutput.r | 52 +--
R/NCAplot.r | 823 +++++++++++++++++++++---------------------------
R/RepMIX.r | 2
R/about.bear.r | 2
R/bear.setup.r | 4
R/demoBANOVA.r | 6
R/demo_datasets_gen.r | 4
R/description_plot.r | 10
R/description_version.r | 6
R/go.r | 6
R/go2menu.r | 72 ----
R/icd.check.r | 2
R/lm.mod.r | 7
R/logo_plot_desc.r | 6
R/zzz.R | 2
20 files changed, 561 insertions(+), 636 deletions(-)
Title: R Utilities Accompanying the Software Package BayesX
Diff between BayesX versions 0.2-7 dated 2013-08-09 and 0.2-8 dated 2014-04-22
Description: This package provides functionality for exploring and visualising estimation results
obtained with the software package BayesX for structured additive regression. It also provides
functions that allow to read, write and manipulate map objects that are required in spatial analyses
performed with BayesX, a free software for estimating structured additive regression models
(http://www.bayesx.org).
Author: Thomas Kneib, Felix Heinzl, Andreas Brezger, Daniel Sabanes Bove, Nadja Klein
Maintainer: Thomas Kneib
BayesX-0.2-7/BayesX/inst/examples/germany.bnd.BAK |only
BayesX-0.2-8/BayesX/DESCRIPTION | 10
BayesX-0.2-8/BayesX/MD5 | 11
BayesX-0.2-8/BayesX/NAMESPACE | 8
BayesX-0.2-8/BayesX/inst/examples/samples/data.txt | 602 +++---
BayesX-0.2-8/BayesX/inst/examples/samples/log.txt | 1216 +++++++-------
BayesX-0.2-8/BayesX/inst/examples/samples/res_r_splus.txt | 38
7 files changed, 941 insertions(+), 944 deletions(-)