Title: Classes with Reference Semantics
Description: The R6 package allows the creation of classes with reference
semantics, similar to R's built-in reference classes. Compared to reference
classes, R6 classes are simpler and lighter-weight, and they are not built
on S4 classes so they do not require the methods package. These classes
allow public and private members, and they support inheritance, even when
the classes are defined in different packages.
Author: Winston Chang [aut, cre]
Maintainer: Winston Chang <winston@stdout.org>
Diff between R6 versions 2.0.1 dated 2014-10-29 and 2.1.0 dated 2015-07-03
DESCRIPTION | 14 - LICENSE | 2 MD5 | 54 +++--- NAMESPACE | 2 NEWS | 25 ++- R/clone.R |only R/generator_funs.R | 20 ++ R/new.R | 5 R/print.R | 40 +++- R/r6_class.R | 208 ++++++++++++++++++++++--- build/vignette.rds |binary inst/doc/Debugging.html | 3 inst/doc/Introduction.R | 143 +++++++++++++++++ inst/doc/Introduction.Rmd | 186 +++++++++++++++++++++- inst/doc/Introduction.html | 146 ++++++++++++++++- inst/doc/Performance.R | 112 ++++++++----- inst/doc/Performance.Rmd | 160 +++++++++++-------- inst/doc/Performance.html | 315 ++++++++++++++++++++------------------ inst/doc/Portable.R | 14 + inst/doc/Portable.Rmd | 37 ++++ inst/doc/Portable.html | 29 +++ man/R6Class.Rd | 174 ++++++++++++++++++++ tests/testthat/test-clone.R |only tests/testthat/test-nonportable.R | 6 tests/testthat/test-portable.R | 23 ++ tests/testthat/test-set.R | 28 +++ vignettes/Introduction.Rmd | 186 +++++++++++++++++++++- vignettes/Performance.Rmd | 160 +++++++++++-------- vignettes/Portable.Rmd | 37 ++++ 29 files changed, 1704 insertions(+), 425 deletions(-)
Title: Partial Orders and Relations
Description: Finds equivalence classes corresponding to a symmetric relation
or undirected graph. Finds total order consistent with partial order
or directed graph (so-called topological sort).
Author: Charles J. Geyer <charlie@stat.umn.edu>.
Maintainer: Charles J. Geyer <charlie@stat.umn.edu>
Diff between pooh versions 0.3 dated 2015-01-05 and 0.3-1 dated 2015-07-03
DESCRIPTION | 12 +++++++----- LICENSE | 2 +- MD5 | 15 ++++++++------- NEWS |only R/tsort.R | 7 +++++-- man/tsort.Rd | 4 +++- src/tsort.c | 14 ++++++++------ tests/heffalump.R | 11 ++++++++++- tests/heffalump.Rout.save | 24 ++++++++++++++++++++---- 9 files changed, 62 insertions(+), 27 deletions(-)
Title: Compute Chi-Square Measures with Corrections
Description: Chi-square tests are computed with corrections.
Author: Aurélie Siberchicot, Eléonore Hellard, Dominique Pontier, David Fouchet and Franck Sauvage
Maintainer: Aurélie Siberchicot <aurelie.siberchicot@univ-lyon1.fr>
Diff between Interatrix versions 1.0 dated 2015-03-19 and 1.1.1 dated 2015-07-03
DESCRIPTION | 10 +++++----- MD5 | 10 +++++----- NAMESPACE | 26 +++++++++++++++----------- build/vignette.rds |binary inst/doc/Interatrix.pdf |binary man/Interatrix-package.Rd | 4 ++-- 6 files changed, 27 insertions(+), 23 deletions(-)
Title: Depth-Based Classification and Calculation of Data Depth
Description: Contains procedures for depth-based supervised learning, which are entirely non-parametric, in particular the DDalpha-procedure (Lange, Mosler and Mozharovskyi, 2014). The training data sample is transformed by a statistical depth function to a compact low-dimensional space, where the final classification is done. It also offers an extension to functional data and routines for calculating certain notions of statistical depth functions. 50 multivariate and 5 functional classification problems are included.
Author: Oleksii Pokotylo [aut, cre],
Pavlo Mozharovskyi [aut],
Rainer Dyckerhoff [aut]
Maintainer: Oleksii Pokotylo <alexey.pokotylo@gmail.com>
Diff between ddalpha versions 1.1.2.2 dated 2015-07-01 and 1.1.2.3 dated 2015-07-03
DESCRIPTION | 10 +++++----- MD5 | 18 +++++++++--------- man/ddalpha-package.Rd | 8 ++++---- man/depth.halfspace.Rd | 2 +- man/depth.space.halfspace.Rd | 10 ++++++++-- man/depth.space.simplicial.Rd | 2 +- src/Common.cpp | 11 +++++++++++ src/DataStructures.h | 1 + src/HD.cpp | 21 +++++++++++++-------- src/ddalpha.cpp | 9 ++++++++- 10 files changed, 61 insertions(+), 31 deletions(-)
Title: Read, Write and Edit XLSX Files
Description: Simplifies the creation of Excel .xlsx files by providing a
high level interface to writing, styling and editing worksheets. Through
the use of Rcpp, read/write times are comparable to the xlsx and XLConnect
packages with the added benefit of removing the dependency on Java.
Author: Alexander Walker [aut, cre],
Luca Braglia [ctb]
Maintainer: Alexander Walker <Alexander.Walker1989@gmail.com>
Diff between openxlsx versions 2.4.0 dated 2015-03-07 and 3.0.0 dated 2015-07-03
DESCRIPTION | 14 MD5 | 151 + NAMESPACE | 13 NEWS | 37 R/CommentClass.R |only R/RcppExports.R | 56 R/StyleClass.R | 23 R/WorkbookClass.R | 946 +++++++++-- R/baseXML.R | 79 R/helperFunctions.R | 103 + R/loadWorkbook.R | 730 +++----- R/openXL.R | 8 R/openxlsx.R | 2 R/readWorkbook.R | 572 +++--- R/wrappers.R | 686 +++++++- R/writeData.R | 128 + README.md | 31 build/vignette.rds |binary inst/doc/Introduction.pdf |binary inst/doc/formatting.Rnw | 25 inst/doc/formatting.pdf |binary man/addFilter.Rd | 2 man/addStyle.Rd | 2 man/addWorksheet.Rd | 2 man/all.equal.Rd |only man/conditionalFormat.Rd | 18 man/conditionalFormatting.Rd | 2 man/convertFromExcelRef.Rd | 2 man/convertToDate.Rd | 2 man/convertToDateTime.Rd | 9 man/createComment.Rd |only man/createStyle.Rd | 6 man/createWorkbook.Rd | 2 man/deleteData.Rd | 2 man/freezePane.Rd | 2 man/getBaseFont.Rd | 2 man/getCellRefs.Rd | 2 man/getDateOrigin.Rd | 2 man/getNamedRegions.Rd |only man/getSheetNames.Rd |only man/getStyles.Rd | 2 man/insertImage.Rd | 2 man/insertPlot.Rd | 2 man/int2col.Rd |only man/loadWorkbook.Rd | 2 man/mergeCells.Rd | 2 man/modifyBaseFont.Rd | 4 man/names.Rd | 2 man/openXL.Rd | 2 man/openxlsx.Rd | 4 man/pageSetup.Rd | 2 man/read.xlsx.Rd | 40 man/readWorkbook.Rd | 21 man/removeCellMerge.Rd | 2 man/removeColWidths.Rd | 2 man/removeComment.Rd |only man/removeFilter.Rd | 2 man/removeRowHeights.Rd | 2 man/removeWorksheet.Rd | 2 man/renameWorksheet.Rd | 2 man/replaceStyle.Rd | 2 man/saveWorkbook.Rd | 2 man/setColWidths.Rd | 2 man/setFooter.Rd | 2 man/setHeader.Rd | 2 man/setHeaderFooter.Rd | 2 man/setRowHeights.Rd | 2 man/sheets.Rd | 2 man/showGridLines.Rd | 2 man/worksheetOrder.Rd | 2 man/write.xlsx.Rd | 2 man/writeComment.Rd |only man/writeData.Rd | 21 man/writeDataTable.Rd | 2 man/writeFormula.Rd |only src/RcppExports.cpp | 924 +++++------ src/cppFunctions.cpp | 1639 +++++++++++++++++--- tests/testthat/test-load_read_file_read_equality.R | 297 --- tests/testthat/test-load_read_file_read_equality2.R |only tests/testthat/test-load_read_file_read_equality3.R |only tests/testthat/test-load_read_file_read_equality4.R |only tests/testthat/test-load_read_file_read_equality5.R |only vignettes/formatting.Rnw | 25 83 files changed, 4541 insertions(+), 2147 deletions(-)
Title: Natural Language Processing Infrastructure
Description: Basic classes and methods for Natural Language Processing.
Author: Kurt Hornik [aut, cre]
Maintainer: Kurt Hornik <Kurt.Hornik@R-project.org>
Diff between NLP versions 0.1-7 dated 2015-05-06 and 0.1-8 dated 2015-07-03
DESCRIPTION | 6 +++--- MD5 | 10 +++++----- NAMESPACE | 2 ++ R/annotators.R | 6 +++++- R/string.R | 9 ++++++++- man/String.Rd | 6 ++++-- 6 files changed, 27 insertions(+), 12 deletions(-)
Title: (Non)Additive Genetic Relatedness Matrices
Description: Constructs (non)additive genetic relationship matrices, and their inverses, from a pedigree to be used in linear mixed effect models (A.K.A. the 'animal model'). Also includes other functions to facilitate the use of animal models. Some functions have been created to be used in conjunction with the R package 'asreml' for the 'ASReml' software, which can be obtained upon purchase from 'VSN' international (http://www.vsni.co.uk/software/asreml).
Author: Matthew Wolak [cre, aut]
Maintainer: Matthew Wolak <matthewwolak@gmail.com>
Diff between nadiv versions 2.13.3 dated 2015-06-03 and 2.14.0 dated 2015-07-03
nadiv-2.13.3/nadiv/data/FG90.tab.gz |only nadiv-2.13.3/nadiv/data/Mrode2.tab.gz |only nadiv-2.13.3/nadiv/data/Mrode9.tab.gz |only nadiv-2.13.3/nadiv/data/warcolak.tab.gz |only nadiv-2.13.3/nadiv/man/is.numPed.Rd |only nadiv-2.13.3/nadiv/man/is.proLik.Rd |only nadiv-2.13.3/nadiv/man/plot.proLik.Rd |only nadiv-2.13.3/nadiv/src/ddiag.cc |only nadiv-2.13.3/nadiv/src/ddiag.h |only nadiv-2.14.0/nadiv/DESCRIPTION | 18 ++- nadiv-2.14.0/nadiv/MD5 | 73 +++++++------- nadiv-2.14.0/nadiv/NAMESPACE | 5 + nadiv-2.14.0/nadiv/R/founderLine.R | 6 - nadiv-2.14.0/nadiv/R/ggcontrib.R | 26 ++--- nadiv-2.14.0/nadiv/R/makeA.R | 22 ++-- nadiv-2.14.0/nadiv/R/makeAinv.R | 140 +++++++++++++++++++--------- nadiv-2.14.0/nadiv/R/makeDsim.R | 12 +- nadiv-2.14.0/nadiv/R/makeS.R | 67 ++++++------- nadiv-2.14.0/nadiv/R/numPed.R | 33 +++++- nadiv-2.14.0/nadiv/R/prepPed.R | 8 - nadiv-2.14.0/nadiv/R/prunePed.R | 4 nadiv-2.14.0/nadiv/README.md | 20 ++++ nadiv-2.14.0/nadiv/data/FG90.tab |only nadiv-2.14.0/nadiv/data/Mrode2.tab |only nadiv-2.14.0/nadiv/data/Mrode3.tab |only nadiv-2.14.0/nadiv/data/Mrode9.tab |only nadiv-2.14.0/nadiv/data/Q1988.tab |only nadiv-2.14.0/nadiv/data/datalist |only nadiv-2.14.0/nadiv/data/warcolak.tab |only nadiv-2.14.0/nadiv/man/Mrode3.Rd |only nadiv-2.14.0/nadiv/man/Q1988.Rd |only nadiv-2.14.0/nadiv/man/aiCI.Rd | 2 nadiv-2.14.0/nadiv/man/aiFun.Rd | 2 nadiv-2.14.0/nadiv/man/makeAinv.Rd | 59 +++++++++++- nadiv-2.14.0/nadiv/man/makeS.Rd | 2 nadiv-2.14.0/nadiv/man/nadiv-package.Rd | 6 - nadiv-2.14.0/nadiv/man/numPed.Rd | 37 +++++-- nadiv-2.14.0/nadiv/man/proLik.Rd | 21 +++- nadiv-2.14.0/nadiv/man/varTrans.Rd | 2 nadiv-2.14.0/nadiv/man/warcolak.Rd | 111 ++++++++++++++++++++-- nadiv-2.14.0/nadiv/src/General.h | 1 nadiv-2.14.0/nadiv/src/ainv.cc | 157 +++++++++++++++++++++++++++++++- nadiv-2.14.0/nadiv/src/ainv.h |only nadiv-2.14.0/nadiv/src/dfc.cc | 10 +- nadiv-2.14.0/nadiv/src/dij.cc | 14 +- nadiv-2.14.0/nadiv/src/ga.cc | 2 nadiv-2.14.0/nadiv/src/sinv.cc | 2 47 files changed, 643 insertions(+), 219 deletions(-)
Title: Hadoop InteractiVE
Description: Hadoop InteractiVE facilitates distributed
computing via the MapReduce paradigm through R and Hadoop. An easy to use
interface to Hadoop, the Hadoop Distributed File System (HDFS),
and Hadoop Streaming is provided.
Author: Ingo Feinerer [aut],
Stefan Theussl [aut, cre]
Maintainer: Stefan Theussl <Stefan.Theussl@R-project.org>
Diff between hive versions 0.1-16 dated 2014-02-21 and 0.2-0 dated 2015-07-03
ChangeLog | 4 ++ DESCRIPTION | 23 ++++++----- MD5 | 18 ++++----- NAMESPACE | 1 R/configuration.R | 30 +++++++-------- R/handler.R | 101 +++++++++++++++++++++++++++++++++++++++++---------- R/java.R | 42 +++++++++++++-------- man/DFS.Rd | 2 - man/configuration.Rd | 2 - man/hive_stream.Rd | 2 - 10 files changed, 153 insertions(+), 72 deletions(-)
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2012-11-09 1.0.2
Title: Exploratory Data Analysis and Manipulation of Multi-Label Data
Sets
Description: Exploratory data analysis and manipulation functions for
multi-label data sets along with an interactive Shiny application to ease their
use.
Author: David Charte [cre],
Francisco Charte [aut]
Maintainer: David Charte <fdavidcl@outlook.com>
Diff between mldr versions 0.1.70 dated 2015-02-13 and 0.2.25 dated 2015-07-03
DESCRIPTION | 16 ++++++----- MD5 | 50 ++++++++++++++++++++++-------------- NAMESPACE | 5 ++- R/evaluate.R |only R/graphics.R | 23 +++++++++++++++- R/mldr.R | 62 ++++++++++++++++++++++++++++++++++----------- README.md | 15 +++++++--- build |only inst/doc |only man/birds.Rd | 2 - man/emotions.Rd | 2 - man/equals-.mldr.Rd | 2 - man/genbase.Rd | 2 - man/mldr.Rd | 18 ++++++++++--- man/mldrGUI.Rd | 2 - man/mldr_evaluate.Rd |only man/mldr_from_dataframe.Rd | 2 - man/mldr_transform.Rd | 2 - man/plot.mldr.Rd | 4 +- man/plus-.mldr.Rd | 2 - man/print.mldr.Rd | 2 - man/sub-.mldr.Rd | 2 - man/summary.mldr.Rd | 2 - man/write_arff.Rd | 2 - vignettes |only 25 files changed, 153 insertions(+), 64 deletions(-)
Title: Robust Meta-Analysis and Meta-Regression
Description: Performs meta-analysis and meta-regression using standard and robust methods with confidence intervals from the profile likelihood. Robust methods are based on alternative distributions for the random effect, either the t-distribution (Lee and Thompson, 2008 doi:10.1002/sim.2897 or Baker and Jackson, 2008 doi:10.1007/s10729-007-9041-8) or mixtures of normals (Beath, 2014 doi:10.1002/jrsm.1114).
Author: Ken Beath <ken.beath@mq.edu.au>
Maintainer: Ken Beath <ken.beath@mq.edu.au>
Diff between metaplus versions 0.7-2 dated 2015-06-03 and 0.7-4 dated 2015-07-03
DESCRIPTION | 10 MD5 | 22 - NAMESPACE | 4 R/globals.R | 2 R/makestart.profilemix.metaplus.R | 369 ++++++++++++------------ R/metaplus.R | 33 +- R/outlier.probs.metaplus.R | 22 - R/profilemix.metaplus.R | 321 ++++++++++----------- R/profilemix.profile.R | 578 +++++++++++++++++++------------------- R/profilenorm.metaplus.R | 210 +++++++------ R/profilet.metaplus.R | 383 ++++++++++++------------- inst/NEWS | 16 + 12 files changed, 1009 insertions(+), 961 deletions(-)
Title: Read Data from Files Readable by Gnumeric
Description: Read data files readable by gnumeric into R. Can read
whole sheet or a range, from several file formats, including
the native format of gnumeric. Reading is done by using
ssconvert (a file converter utility included in the gnumeric
distribution http://projects.gnome.org/gnumeric/) to convert
the requested part to CSV. From gnumeric files (but not other
formats) can list sheet names and sheet sizes or read all
sheets.
Author: Karoly Antal <antalk2@gmail.com>.
Maintainer: Karoly Antal <antalk2@gmail.com>
Diff between gnumeric versions 0.7-2 dated 2012-10-30 and 0.7-4 dated 2015-07-03
gnumeric-0.7-2/gnumeric/changelog |only gnumeric-0.7-4/gnumeric/DESCRIPTION | 12 +++++++----- gnumeric-0.7-4/gnumeric/MD5 | 9 ++++----- gnumeric-0.7-4/gnumeric/NAMESPACE | 2 ++ gnumeric-0.7-4/gnumeric/man/read.gnumeric.sheet.Rd | 15 ++++++++------- gnumeric-0.7-4/gnumeric/man/read.gnumeric.sheet.info.Rd | 5 +++-- 6 files changed, 24 insertions(+), 19 deletions(-)
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2015-03-08 1.2.1
2015-03-05 1.2
2014-09-29 1.1
2014-08-07 1.0
Title: Tag Clouds
Description: Generating Tag and Word Clouds.
Author: January Weiner
Maintainer: January Weiner <january.weiner@gmail.com>
Diff between tagcloud versions 0.5 dated 2014-11-06 and 0.6 dated 2015-07-03
tagcloud-0.5/tagcloud/R/is.overlap.R |only tagcloud-0.5/tagcloud/inst/doc/tagcloud.Rnw |only tagcloud-0.5/tagcloud/vignettes/tagcloud.Rnw |only tagcloud-0.6/tagcloud/DESCRIPTION | 13 tagcloud-0.6/tagcloud/MD5 | 47 +- tagcloud-0.6/tagcloud/NAMESPACE | 29 + tagcloud-0.6/tagcloud/NEWS | 4 tagcloud-0.6/tagcloud/R/RcppExports.R |only tagcloud-0.6/tagcloud/R/editor.tagcloud.R | 30 + tagcloud-0.6/tagcloud/R/gambia.R |only tagcloud-0.6/tagcloud/R/plot.tagcloud.R | 2 tagcloud-0.6/tagcloud/R/smoothPalette.R | 45 ++ tagcloud-0.6/tagcloud/R/strmultline.R | 20 - tagcloud-0.6/tagcloud/R/summary.tagcloud.R | 2 tagcloud-0.6/tagcloud/R/tagcloud.R | 196 ++++++++++ tagcloud-0.6/tagcloud/build/vignette.rds |binary tagcloud-0.6/tagcloud/inst/doc/tagcloud.R | 60 --- tagcloud-0.6/tagcloud/inst/doc/tagcloud.pdf |binary tagcloud-0.6/tagcloud/inst/doc/tagcloud.rmd |only tagcloud-0.6/tagcloud/man/editor.tagcloud.Rd | 56 +- tagcloud-0.6/tagcloud/man/gambia.Rd | 60 +-- tagcloud-0.6/tagcloud/man/smoothPalette.Rd | 89 ++-- tagcloud-0.6/tagcloud/man/strmultline.Rd | 45 -- tagcloud-0.6/tagcloud/man/tagcloud.Rd | 345 ++++++++---------- tagcloud-0.6/tagcloud/src/Makevars.win | 8 tagcloud-0.6/tagcloud/src/RcppExports.cpp |only tagcloud-0.6/tagcloud/src/overlap.cpp | 30 - tagcloud-0.6/tagcloud/vignettes/tagcloud-fig5plot.png |only tagcloud-0.6/tagcloud/vignettes/tagcloud.rmd |only 29 files changed, 651 insertions(+), 430 deletions(-)
Title: Estimation of Weight Functions in Meta Analysis
Description: Publication bias, the fact that studies identified for inclusion in a meta analysis do not represent all studies on the topic of interest, is commonly recognized as a threat to the validity of the results of a meta analysis. One way to explicitly model publication bias is via selection models or weighted probability distributions. In this package we provide implementations of several parametric and nonparametric weight functions. The novelty in Rufibach (2011) is the proposal of a non-increasing variant of the nonparametric weight function of Dear & Begg (1992). The new approach potentially offers more insight in the selection process than other methods, but is more flexible than parametric approaches. To maximize the log-likelihood function proposed by Dear & Begg (1992) under a monotonicity constraint we use a differential evolution algorithm proposed by Ardia et al (2010a, b) and implemented in Mullen et al (2009). In addition, we offer a method to compute a confidence interval for the overall effect size theta, adjusted for selection bias as well as a function that computes the simulation-based p-value to assess the null hypothesis of no selection as described in Rufibach (2011, Section 6).
Author: Kaspar Rufibach <kaspar.rufibach@gmail.com>
Maintainer: Kaspar Rufibach <kaspar.rufibach@gmail.com>
Diff between selectMeta versions 1.0.7 dated 2014-09-06 and 1.0.8 dated 2015-07-03
DESCRIPTION | 9 +++++---- MD5 | 12 ++++++------ NAMESPACE | 2 ++ NEWS | 4 ++++ R/DearBeggMonotonePvalSelection.r | 2 +- R/pPval.r | 5 ++++- man/selectMeta-package.Rd | 4 ++-- 7 files changed, 24 insertions(+), 14 deletions(-)
Title: Parametric Linkage Analysis in R
Description: Parametric linkage analysis and other likelihood-based pedigree analyses based on the Elston-Stewart algorithm, including singlepoint LOD scores, power analysis and computation of marker genotype distributions. Multipoint analysis is provided through a convenient MERLIN wrapper. Includes many utility functions for creating, manipulating and plotting pedigrees, markers and linkage results.
Author: Magnus Dehli Vigeland
Maintainer: Magnus Dehli Vigeland <magnusdv@studmed.uio.no>
Diff between paramlink versions 0.9-6 dated 2014-04-01 and 0.9-7 dated 2015-07-03
DESCRIPTION | 14 MD5 | 49 - NAMESPACE | 7 NEWS | 13 R/SNPsim.R | 4 R/likelihood.R | 1159 +++++++++++++++++++++---------------------- R/likelihoodSNP.R | 2 R/likelihood_LINKAGE.R | 44 - R/linkage.power.R | 2 R/linkageSim.R | 4 R/linkres.R | 96 ++- R/markerSim.R | 438 ++++++++-------- R/markers.R | 23 R/merlin.R | 16 R/modify.R | 4 R/oneMarkerDistribution.R | 128 ++-- R/setMap.R | 2 R/twoMarkerDistribution.R | 102 +-- R/utils.R | 22 man/allGenotypes.Rd |only man/examineKinships.Rd | 2 man/linkres.Rd | 14 man/markers.Rd | 14 man/merlin.Rd | 17 man/oneMarkerDistribution.Rd | 8 man/simpleSim.Rd | 2 26 files changed, 1131 insertions(+), 1055 deletions(-)
Title: Multi-Model Inference
Description: Model selection and model averaging based on information criteria
(AICc and alike).
Author: Kamil Bartoń
Maintainer: Kamil Bartoń <kamil.barton@go2.pl>
Diff between MuMIn versions 1.14.0 dated 2015-06-04 and 1.15.1 dated 2015-07-03
MuMIn-1.14.0/MuMIn/man/avgpred.Rd |only MuMIn-1.14.0/MuMIn/man/beetle.Rd |only MuMIn-1.14.0/MuMIn/man/cement.Rd |only MuMIn-1.14.0/MuMIn/man/glm.link.Rd |only MuMIn-1.14.0/MuMIn/man/gpa.Rd |only MuMIn-1.14.0/MuMIn/man/mod.sel.Rd |only MuMIn-1.14.0/MuMIn/man/weights.Rd |only MuMIn-1.15.1/MuMIn/DESCRIPTION | 15 - MuMIn-1.15.1/MuMIn/MD5 | 132 ++++----- MuMIn-1.15.1/MuMIn/NAMESPACE | 80 ++++- MuMIn-1.15.1/MuMIn/NEWS | 33 ++ MuMIn-1.15.1/MuMIn/R/AICc.R | 3 MuMIn-1.15.1/MuMIn/R/ICOMP.R | 14 - MuMIn-1.15.1/MuMIn/R/Weights.R | 25 + MuMIn-1.15.1/MuMIn/R/arm.glm.R |only MuMIn-1.15.1/MuMIn/R/coefTable.R | 4 MuMIn-1.15.1/MuMIn/R/coeffs.R | 2 MuMIn-1.15.1/MuMIn/R/dredge.R | 170 ++++++------ MuMIn-1.15.1/MuMIn/R/ext.R | 1 MuMIn-1.15.1/MuMIn/R/get.models.R | 2 MuMIn-1.15.1/MuMIn/R/init.R | 27 + MuMIn-1.15.1/MuMIn/R/makeArgs.R | 2 MuMIn-1.15.1/MuMIn/R/methods-nobs.R | 2 MuMIn-1.15.1/MuMIn/R/methods-predict.R | 8 MuMIn-1.15.1/MuMIn/R/model.avg.R | 181 +++++++------ MuMIn-1.15.1/MuMIn/R/model.sel.R | 96 +++---- MuMIn-1.15.1/MuMIn/R/model.selection.R | 315 +++++------------------ MuMIn-1.15.1/MuMIn/R/modify.model.selection.R |only MuMIn-1.15.1/MuMIn/R/nested.R | 22 - MuMIn-1.15.1/MuMIn/R/par.avg.R | 2 MuMIn-1.15.1/MuMIn/R/pdredge.R | 126 +++++---- MuMIn-1.15.1/MuMIn/R/plots.R | 16 - MuMIn-1.15.1/MuMIn/R/predict-new.R | 4 MuMIn-1.15.1/MuMIn/R/predict.R | 13 MuMIn-1.15.1/MuMIn/R/quasiLik.R | 4 MuMIn-1.15.1/MuMIn/R/r.squaredGLMM.R | 2 MuMIn-1.15.1/MuMIn/R/rbind.model.selection.R |only MuMIn-1.15.1/MuMIn/R/std.coef.R | 20 - MuMIn-1.15.1/MuMIn/R/stdize.R | 6 MuMIn-1.15.1/MuMIn/R/substitution.R | 61 ++-- MuMIn-1.15.1/MuMIn/R/updateable.R | 37 +- MuMIn-1.15.1/MuMIn/R/utils-misc.R | 23 - MuMIn-1.15.1/MuMIn/R/utils-models.R | 13 MuMIn-1.15.1/MuMIn/R/xtable-methods.R |only MuMIn-1.15.1/MuMIn/data/Beetle.rda |binary MuMIn-1.15.1/MuMIn/data/Cement.rda |binary MuMIn-1.15.1/MuMIn/data/GPA.rda |binary MuMIn-1.15.1/MuMIn/demo/dredge.distsamp.R | 4 MuMIn-1.15.1/MuMIn/demo/dredge.subset.R | 4 MuMIn-1.15.1/MuMIn/demo/pdredge.pcount.R | 9 MuMIn-1.15.1/MuMIn/inst/TODO | 4 MuMIn-1.15.1/MuMIn/man/AICc.Rd | 4 MuMIn-1.15.1/MuMIn/man/QAIC.Rd | 2 MuMIn-1.15.1/MuMIn/man/QIC.Rd | 2 MuMIn-1.15.1/MuMIn/man/Weights.Rd |only MuMIn-1.15.1/MuMIn/man/arm.glm.Rd |only MuMIn-1.15.1/MuMIn/man/data-Beetle.Rd |only MuMIn-1.15.1/MuMIn/man/data-Cement.Rd |only MuMIn-1.15.1/MuMIn/man/data-GPA.Rd |only MuMIn-1.15.1/MuMIn/man/dredge.Rd | 85 ++---- MuMIn-1.15.1/MuMIn/man/exprApply.Rd | 22 + MuMIn-1.15.1/MuMIn/man/merge.model.selection.Rd | 18 - MuMIn-1.15.1/MuMIn/man/model.avg.Rd | 22 - MuMIn-1.15.1/MuMIn/man/model.sel.Rd |only MuMIn-1.15.1/MuMIn/man/model.selection.object.Rd |only MuMIn-1.15.1/MuMIn/man/par.avg.Rd | 6 MuMIn-1.15.1/MuMIn/man/pdredge.Rd | 4 MuMIn-1.15.1/MuMIn/man/predict.averaging.Rd | 2 MuMIn-1.15.1/MuMIn/man/r.squaredGLMM.Rd | 39 +- MuMIn-1.15.1/MuMIn/man/r.squaredLR.Rd | 33 +- MuMIn-1.15.1/MuMIn/man/std.coef.Rd | 16 - MuMIn-1.15.1/MuMIn/man/subset.model.selection.Rd | 53 ++- MuMIn-1.15.1/MuMIn/tests/classes.R | 150 +++++----- MuMIn-1.15.1/MuMIn/tests/parallel.R | 2 MuMIn-1.15.1/MuMIn/tests/singularities.R | 3 MuMIn-1.15.1/MuMIn/tests/unmarked.R | 9 76 files changed, 958 insertions(+), 996 deletions(-)
Title: Estimate a Log-Concave Probability Mass Function from Discrete
i.i.d. Observations
Description: Given independent and identically distributed observations X(1), ..., X(n), allows to compute the maximum likelihood estimator (MLE) of probability mass function (pmf) under the assumption that it is log-concave, see Weyermann (2007) and Balabdaoui, Jankowski, Rufibach, and Pavlides (2012). The main functions of the package are 'logConDiscrMLE' that allows computation of the log-concave MLE, 'logConDiscrCI' that computes pointwise confidence bands for the MLE, and 'kInflatedLogConDiscr' that computes a mixture of a log-concave PMF and a point mass at k.
Author: Kaspar Rufibach <kaspar.rufibach@gmail.com> and Fadoua Balabdaoui <fadoua@ceremade.dauphine.fr> and Hanna Jankowski <hkj@mathstat.yorku.ca> and Kathrin Weyermann <kathrin.weyermann@bkw-fmb.ch>
Maintainer: Kaspar Rufibach <kaspar.rufibach@gmail.com>
Diff between logcondiscr versions 1.0.5 dated 2014-02-05 and 1.0.6 dated 2015-07-03
DESCRIPTION | 13 +++++----- MD5 | 8 +++--- NAMESPACE | 56 +++++++++++++++++++++------------------------ NEWS | 4 +++ man/logcondiscr-package.Rd | 8 +++--- 5 files changed, 46 insertions(+), 43 deletions(-)
Title: Simulation of Chromosomal Regions Shared by Family Members
Description: R package for simulation of IBD sharing among family members. Using sex specific recombination rates from the Decode map (2010) of the human genome, phased chromosomes are simulated for all pedigree members, either by unconditional 'gene dropping' or conditional on a specified IBD pattern. Regions compatible with the query IBD pattern (possibly different from the conditional pattern) are subsequently detected and summarized.
Author: Magnus Dehli Vigeland
Maintainer: Magnus Dehli Vigeland <magnusdv@studmed.uio.no>
Diff between IBDsim versions 0.9-4 dated 2014-05-30 and 0.9-5 dated 2015-07-03
DESCRIPTION | 13 +++++++------ MD5 | 16 ++++++++-------- NAMESPACE | 5 ++++- R/ibd.runs.R | 13 +++---------- R/map_utils.R | 2 +- R/ped_utils.R | 2 +- R/range_utils.R | 4 ++-- data/DecodeMap.rda |binary data/dominant1.rda |binary 9 files changed, 26 insertions(+), 29 deletions(-)
Title: Gaussian Processes for Pareto Front Estimation and Optimization
Description: Gaussian process regression models, a.k.a. kriging models, are
applied to global multiobjective optimization of black-box functions.
Multiobjective Expected Improvement and Stepwise Uncertainty Reduction
sequential infill criteria are available. A quantification of uncertainty
on Pareto fronts is provided using conditional simulations.
Author: Mickael Binois, Victor Picheny
Maintainer: Mickael Binois <mickael.binois@mines-stetienne.fr>
Diff between GPareto versions 1.0.0 dated 2014-12-17 and 1.0.1 dated 2015-07-03
GPareto-1.0.0/GPareto/man/GPareto-package.Rd |only GPareto-1.0.1/GPareto/DESCRIPTION | 15 +-- GPareto-1.0.1/GPareto/MD5 | 71 +++++++------- GPareto-1.0.1/GPareto/NAMESPACE | 13 ++ GPareto-1.0.1/GPareto/NEWS |only GPareto-1.0.1/GPareto/R/CPF.R | 35 +++---- GPareto-1.0.1/GPareto/R/EHI_2d.R | 2 GPareto-1.0.1/GPareto/R/GPareto-package.R | 24 ++-- GPareto-1.0.1/GPareto/R/GParetoptim.R | 8 + GPareto-1.0.1/GPareto/R/SAA_MEI.R | 2 GPareto-1.0.1/GPareto/R/TestFunctions.R | 20 +--- GPareto-1.0.1/GPareto/R/crit_EHI.R | 11 +- GPareto-1.0.1/GPareto/R/crit_EMI.R | 4 GPareto-1.0.1/GPareto/R/crit_SMS.R | 4 GPareto-1.0.1/GPareto/R/crit_SUR.R | 7 - GPareto-1.0.1/GPareto/R/crit_optimizer.R | 2 GPareto-1.0.1/GPareto/R/fastfun.R | 5 - GPareto-1.0.1/GPareto/R/plotParetoEmp.R | 90 ++++++++++++------ GPareto-1.0.1/GPareto/R/plotParetoGrid.R | 7 - GPareto-1.0.1/GPareto/R/plotSymDevFun.R | 11 -- GPareto-1.0.1/GPareto/man/CPF.Rd | 14 +- GPareto-1.0.1/GPareto/man/GPareto.Rd |only GPareto-1.0.1/GPareto/man/GParetoptim.Rd | 7 - GPareto-1.0.1/GPareto/man/TestFunctions.Rd | 22 ++-- GPareto-1.0.1/GPareto/man/checkPredict.Rd | 3 GPareto-1.0.1/GPareto/man/crit_EHI.Rd | 7 - GPareto-1.0.1/GPareto/man/crit_EMI.Rd | 7 - GPareto-1.0.1/GPareto/man/crit_SMS.Rd | 7 - GPareto-1.0.1/GPareto/man/crit_SUR.Rd | 8 - GPareto-1.0.1/GPareto/man/crit_optimizer.Rd | 3 GPareto-1.0.1/GPareto/man/fastfun-class.Rd | 3 GPareto-1.0.1/GPareto/man/fastfun.Rd | 7 - GPareto-1.0.1/GPareto/man/integration_design_optim.Rd | 3 GPareto-1.0.1/GPareto/man/plotParetoEmp.Rd | 13 ++ GPareto-1.0.1/GPareto/man/plotParetoGrid.Rd | 9 - GPareto-1.0.1/GPareto/man/plotSymDevFun.Rd | 13 +- GPareto-1.0.1/GPareto/man/plotSymDifRNP.Rd | 3 GPareto-1.0.1/GPareto/src/RcppExports.cpp | 58 ++++------- 38 files changed, 268 insertions(+), 250 deletions(-)
Title: Classical Goodness-of-Fit Tests for Univariate Distributions
Description: Cramer-Von Mises and Anderson-Darling tests of goodness-of-fit
for continuous univariate distributions, using
efficient algorithms.
Author: Julian Faraway [aut],
George Marsaglia [aut],
John Marsaglia [aut],
Adrian Baddeley [aut, cre]
Maintainer: Adrian Baddeley <Adrian.Baddeley@uwa.edu.au>
Diff between goftest versions 1.0-2 dated 2014-06-24 and 1.0-3 dated 2015-07-03
DESCRIPTION | 11 ++++++----- MD5 | 4 ++-- NAMESPACE | 1 + 3 files changed, 9 insertions(+), 7 deletions(-)
Title: Generalised Additive Models for Location Scale and Shape
Description: Functions for fitting, displaying and checking GAMLSS Models.
Author: Mikis Stasinopoulos [aut, cre, cph],
Bob Rigby [aut],
Vlasios Voudouris [ctb],
Calliope Akantziliotou [ctb],
Marco Enea [ctb]
Maintainer: Mikis Stasinopoulos <d.stasinopoulos@londonmet.ac.uk>
Diff between gamlss versions 4.3-4 dated 2015-02-03 and 4.3-5 dated 2015-07-03
gamlss-4.3-4/gamlss/R/VGD03-10-13.R |only gamlss-4.3-4/gamlss/R/pbm.R |only gamlss-4.3-4/gamlss/R/stepGAICAll-B.R |only gamlss-4.3-4/gamlss/R/stepTGD-25-03-10.R |only gamlss-4.3-4/gamlss/R/term-plot.R |only gamlss-4.3-4/gamlss/man/VGD.Rd |only gamlss-4.3-4/gamlss/man/ridge.Rd |only gamlss-4.3-5/gamlss/DESCRIPTION | 36 - gamlss-4.3-5/gamlss/MD5 | 87 +- gamlss-4.3-5/gamlss/NAMESPACE | 24 gamlss-4.3-5/gamlss/R/DropAddStepGAIC-Parallel.R |only gamlss-4.3-5/gamlss/R/confint-gamlss-03-10-13.R | 7 gamlss-4.3-5/gamlss/R/edf.R | 5 gamlss-4.3-5/gamlss/R/extra.R | 44 - gamlss-4.3-5/gamlss/R/gamlss.R | 14 gamlss-4.3-5/gamlss/R/gamlssML-31-10-13.R | 5 gamlss-4.3-5/gamlss/R/gamlssVGD.R |only gamlss-4.3-5/gamlss/R/getSmo-18-6-13.R | 5 gamlss-4.3-5/gamlss/R/lms.R | 4 gamlss-4.3-5/gamlss/R/lpred.R | 4 gamlss-4.3-5/gamlss/R/pb_new.R | 10 gamlss-4.3-5/gamlss/R/pbm_new.R |only gamlss-4.3-5/gamlss/R/plot2way.R | 4 gamlss-4.3-5/gamlss/R/predict.gamlss.R | 4 gamlss-4.3-5/gamlss/R/pvc.R | 673 ++++++++++++++--------- gamlss-4.3-5/gamlss/R/ri.R | 422 +++++++++----- gamlss-4.3-5/gamlss/R/rqres.R | 87 ++ gamlss-4.3-5/gamlss/R/rqresplot03-10-13.R | 4 gamlss-4.3-5/gamlss/R/stepGAIC-03-10-13..R | 374 ++++++------ gamlss-4.3-5/gamlss/R/stepGAICAll-B-Parallel.R |only gamlss-4.3-5/gamlss/R/stepTGD.R |only gamlss-4.3-5/gamlss/R/term.plot-new.R |only gamlss-4.3-5/gamlss/R/update.R | 138 ++-- gamlss-4.3-5/gamlss/inst/doc/NEWS.txt | 69 ++ gamlss-4.3-5/gamlss/man/coef.gamlss.Rd | 82 +- gamlss-4.3-5/gamlss/man/deviance.gamlss.Rd | 88 +-- gamlss-4.3-5/gamlss/man/edf.Rd | 118 ++-- gamlss-4.3-5/gamlss/man/fitted.gamlss.Rd | 96 +-- gamlss-4.3-5/gamlss/man/formula.gamlss.Rd | 84 +- gamlss-4.3-5/gamlss/man/gamlssVGD.Rd |only gamlss-4.3-5/gamlss/man/getSmo.Rd | 5 gamlss-4.3-5/gamlss/man/lpred.Rd | 5 gamlss-4.3-5/gamlss/man/model.frame.gamlss.Rd | 100 +-- gamlss-4.3-5/gamlss/man/plot2way.Rd | 3 gamlss-4.3-5/gamlss/man/predict.gamlss.Rd | 184 +++--- gamlss-4.3-5/gamlss/man/ps.Rd | 9 gamlss-4.3-5/gamlss/man/ri.Rd |only gamlss-4.3-5/gamlss/man/rqres.plot.Rd | 2 gamlss-4.3-5/gamlss/man/stepGAIC.Rd | 175 +++-- gamlss-4.3-5/gamlss/man/summary.gamlss.Rd | 2 gamlss-4.3-5/gamlss/man/term.plot.Rd | 9 gamlss-4.3-5/gamlss/man/update.gamlss.Rd | 109 +-- 52 files changed, 1806 insertions(+), 1285 deletions(-)
Title: Epidemiological Tool for Contact Tracing
Description: Routines for epidemiological contact tracing
and visualisation of network of contacts.
Author: Maria Noremark [aut],
Stefan Widgren [aut, cre]
Maintainer: Stefan Widgren <stefan.widgren@gmail.com>
Diff between EpiContactTrace versions 0.9.0 dated 2015-07-02 and 0.9.1 dated 2015-07-03
DESCRIPTION | 10 ++++----- MD5 | 10 ++++----- NAMESPACE | 2 + R/report.r | 6 +++-- man/Report-methods.Rd | 2 - src/trace.cpp | 53 +++++++++++++++++++++++++++----------------------- 6 files changed, 46 insertions(+), 37 deletions(-)
More information about EpiContactTrace at CRAN
Permanent link
Title: Text Mining Package
Description: A framework for text mining applications within R.
Author: Ingo Feinerer [aut, cre],
Kurt Hornik [aut],
Artifex Software, Inc. [ctb, cph] (pdf_info.ps taken from GPL
Ghostscript)
Maintainer: Ingo Feinerer <feinerer@logic.at>
Diff between tm versions 0.6-1 dated 2015-05-07 and 0.6-2 dated 2015-07-03
DESCRIPTION | 14 +++++++------- MD5 | 26 +++++++++++++------------- NAMESPACE | 5 +++-- R/doc.R | 4 ++-- R/matrix.R | 14 +++++++------- build/vignette.rds |binary data/acq.rda |binary data/crude.rda |binary inst/NEWS.Rd | 28 ++++++++++++++++++++++------ inst/doc/extensions.pdf |binary inst/doc/tm.R | 21 +++++++++++---------- inst/doc/tm.Rnw | 1 + inst/doc/tm.pdf |binary vignettes/tm.Rnw | 1 + 14 files changed, 67 insertions(+), 47 deletions(-)
Title: Interface to the Global 'Biodiversity' Information Facility
'API'
Description: A programmatic interface to the Web Service methods
provided by the Global Biodiversity Information Facility ('GBIF').
'GBIF' is a database of species occurrence records from sources all
over the globe. 'rgbif' includes functions for searching for
taxonomic names, retrieving information on data providers,
getting species occurrence records, and getting counts of
occurrence records.
Author: Scott Chamberlain [aut, cre],
Karthik Ram [aut],
Vijay Barve [aut],
Dan Mcglinn [aut]
Maintainer: Scott Chamberlain <myrmecocystus@gmail.com>
Diff between rgbif versions 0.8.4 dated 2015-06-08 and 0.8.6 dated 2015-07-03
rgbif-0.8.4/rgbif/NEWS |only rgbif-0.8.4/rgbif/R/startup.r |only rgbif-0.8.4/rgbif/inst/js/terraformer-wkt-parser2.js |only rgbif-0.8.4/rgbif/inst/vign/cache |only rgbif-0.8.6/rgbif/DESCRIPTION | 13 rgbif-0.8.6/rgbif/MD5 | 191 - rgbif-0.8.6/rgbif/NAMESPACE | 27 rgbif-0.8.6/rgbif/R/dataset_metrics.r | 4 rgbif-0.8.6/rgbif/R/datasets.r | 38 rgbif-0.8.6/rgbif/R/downloads.R |only rgbif-0.8.6/rgbif/R/enumeration.R | 4 rgbif-0.8.6/rgbif/R/installations.r | 2 rgbif-0.8.6/rgbif/R/name_suggest.r | 2 rgbif-0.8.6/rgbif/R/name_usage.r | 2 rgbif-0.8.6/rgbif/R/networks.r | 2 rgbif-0.8.6/rgbif/R/nodes.r | 2 rgbif-0.8.6/rgbif/R/occ_count.r | 56 rgbif-0.8.6/rgbif/R/occ_download.R |only rgbif-0.8.6/rgbif/R/occ_download_cancel.R |only rgbif-0.8.6/rgbif/R/occ_download_get.r |only rgbif-0.8.6/rgbif/R/occ_download_import.R |only rgbif-0.8.6/rgbif/R/occ_download_list.R |only rgbif-0.8.6/rgbif/R/occ_download_meta.R |only rgbif-0.8.6/rgbif/R/occ_get.r | 4 rgbif-0.8.6/rgbif/R/occ_metadata.r | 2 rgbif-0.8.6/rgbif/R/occ_search.r | 5 rgbif-0.8.6/rgbif/R/on_load.R | 2 rgbif-0.8.6/rgbif/R/organizations.r | 4 rgbif-0.8.6/rgbif/R/parsenames.R | 6 rgbif-0.8.6/rgbif/R/rgbif-package.r | 47 rgbif-0.8.6/rgbif/R/zzz.r | 1 rgbif-0.8.6/rgbif/README.md | 105 rgbif-0.8.6/rgbif/build/vignette.rds |binary rgbif-0.8.6/rgbif/inst/assets/img/unnamed-chunk-8-1.png |binary rgbif-0.8.6/rgbif/inst/doc/issues_vignette.Rmd | 229 + rgbif-0.8.6/rgbif/inst/doc/issues_vignette.html | 229 + rgbif-0.8.6/rgbif/inst/doc/rgbif_vignette.html | 119 rgbif-0.8.6/rgbif/inst/js/LICENSE |only rgbif-0.8.6/rgbif/inst/js/README.md |only rgbif-0.8.6/rgbif/inst/js/terraformer-wkt-parser.js | 2085 +++++++++++++++- rgbif-0.8.6/rgbif/inst/vign/figure/gbifmap1-1.png |binary rgbif-0.8.6/rgbif/inst/vign/issues_vignette.Rmd | 24 rgbif-0.8.6/rgbif/inst/vign/issues_vignette.md | 229 + rgbif-0.8.6/rgbif/inst/vign/rgbif_vignette.Rmd | 8 rgbif-0.8.6/rgbif/inst/vign/rgbif_vignette.md | 117 rgbif-0.8.6/rgbif/man/datasets.Rd | 2 rgbif-0.8.6/rgbif/man/downloads.Rd |only rgbif-0.8.6/rgbif/man/installations.Rd | 2 rgbif-0.8.6/rgbif/man/name_suggest.Rd | 2 rgbif-0.8.6/rgbif/man/name_usage.Rd | 2 rgbif-0.8.6/rgbif/man/networks.Rd | 2 rgbif-0.8.6/rgbif/man/nodes.Rd | 2 rgbif-0.8.6/rgbif/man/occ_count.Rd | 4 rgbif-0.8.6/rgbif/man/occ_download.Rd |only rgbif-0.8.6/rgbif/man/occ_download_cancel.Rd |only rgbif-0.8.6/rgbif/man/occ_download_get.Rd |only rgbif-0.8.6/rgbif/man/occ_download_import.Rd |only rgbif-0.8.6/rgbif/man/occ_download_list.Rd |only rgbif-0.8.6/rgbif/man/occ_download_meta.Rd |only rgbif-0.8.6/rgbif/man/occ_get.Rd | 2 rgbif-0.8.6/rgbif/man/occ_metadata.Rd | 2 rgbif-0.8.6/rgbif/man/occ_search.Rd | 5 rgbif-0.8.6/rgbif/man/organizations.Rd | 2 rgbif-0.8.6/rgbif/man/parsenames.Rd | 6 rgbif-0.8.6/rgbif/tests/testthat/test-enumeration.r | 2 rgbif-0.8.6/rgbif/tests/testthat/test-read_wkt.R |only rgbif-0.8.6/rgbif/vignettes/issues_vignette.Rmd | 229 + rgbif-0.8.6/rgbif/vignettes/rgbif_vignette.Rmd | 117 68 files changed, 3060 insertions(+), 880 deletions(-)
Title: Multiscale Analysis for Density Functions
Description: Given independent and identically distributed observations X(1), ..., X(n) from a density f,
provides five methods to perform a multiscale analysis about f as well as the necessary critical
values. The first method, introduced in Duembgen and Walther (2008), provides simultaneous confidence statements
for the existence and location of local increases (or decreases) of f, based on all intervals I(all) spanned by
any two observations X(j), X(k). The second method approximates the latter approach by using only a subset of
I(all) and is therefore computationally much more efficient, but asymptotically equivalent. Omitting the additive
correction term Gamma in either method offers another two approaches which are more powerful on small scales and
less powerful on large scales, however, not asymptotically minimax optimal anymore. Finally, the block procedure is a
compromise between adding Gamma or not, having intermediate power properties. The latter is again asymptotically
equivalent to the first and was introduced in Rufibach and Walther (2010).
Author: Kaspar Rufibach <kaspar.rufibach@gmail.com> and Guenther Walther <gwalther@stanford.edu>
Maintainer: Kaspar Rufibach <kaspar.rufibach@gmail.com>
Diff between modehunt versions 1.0.6 dated 2011-11-29 and 1.0.7 dated 2015-07-03
DESCRIPTION | 12 +++++++----- MD5 | 12 ++++++------ NAMESPACE | 31 +++++++++++++++++-------------- data/cvModeAll.rda |binary data/cvModeApprox.rda |binary data/cvModeBlock.rda |binary man/modehunt-package.Rd | 8 ++++---- 7 files changed, 34 insertions(+), 29 deletions(-)
Title: Semi Parametric Distribution
Description: The Semi Parametric Piecewise Distribution blends the Generalized Pareto Distribution for the tails with a kernel based interior.
Author: Alexios Ghalanos <alexios@4dscape.com>
Maintainer: Alexios Ghalanos <alexios@4dscape.com>
Diff between spd versions 2.0-0 dated 2014-07-02 and 2.0-1 dated 2015-07-03
ChangeLog | 4 ++++ DESCRIPTION | 16 ++++++++-------- MD5 | 7 ++++--- NAMESPACE | 3 +++ README.md |only 5 files changed, 19 insertions(+), 11 deletions(-)
Title: Estimating the Proportion of Genetically Modified Seeds in
Seedlots via Multinomial Group Testing
Description: Estimate the percentage of seeds in a seedlot that contain stacks
of genetically modified traits. Estimates are calculated using a
multinomial group testing model with maximum likelihood estimation of the
parameters.
Author: Kevin Wright [aut, cre],
Jean-Louis Laffont [aut]
Maintainer: Kevin Wright <kw.stat@gmail.com>
Diff between rseedcalc versions 1.2 dated 2013-10-10 and 1.3 dated 2015-07-03
DESCRIPTION | 20 ++++++++++++-------- MD5 | 13 +++++++------ NAMESPACE | 4 +++- NEWS |only R/stacks.r | 5 +++-- man/rseedcalc-package.Rd | 16 ++++++++-------- man/stack2.Rd | 40 ++++++++++++++++++++-------------------- man/valid.Rd | 12 ++++++------ 8 files changed, 59 insertions(+), 51 deletions(-)
Title: Work with 'GitHub' 'Gists'
Description: Work with 'GitHub' 'gists' from 'R' (e.g.,
http://en.wikipedia.org/wiki/GitHub#Gist,
https://help.github.com/articles/about-gists/). A 'gist' is simply one or
more files with code/text/images/etc. This package allows the user to
create new 'gists', update 'gists' with new files, rename files, delete files,
get and delete 'gists', star and 'un-star' 'gists', fork 'gists', open a 'gist' in
your default browser, get embed code for a 'gist', list 'gist' 'commits', and
get rate limit information when 'authenticated'. Some requests require
authentication and some do not. 'Gists' website: https://gist.github.com/.
Author: Ramnath Vaidyanathan [aut],
Karthik Ram [aut],
Scott Chamberlain [aut, cre]
Maintainer: Scott Chamberlain <myrmecocystus@gmail.com>
Diff between gistr versions 0.2.0 dated 2015-05-01 and 0.3.0 dated 2015-07-03
gistr-0.2.0/gistr/NEWS |only gistr-0.2.0/gistr/inst/vign/cache |only gistr-0.3.0/gistr/DESCRIPTION | 41 +- gistr-0.3.0/gistr/MD5 | 209 +++--------- gistr-0.3.0/gistr/NAMESPACE | 7 gistr-0.3.0/gistr/R/add_files.R | 6 gistr-0.3.0/gistr/R/commits.R | 3 gistr-0.3.0/gistr/R/delete.R | 3 gistr-0.3.0/gistr/R/embed.R | 3 gistr-0.3.0/gistr/R/forks.R | 8 gistr-0.3.0/gistr/R/gist.R | 49 ++ gistr-0.3.0/gistr/R/gist_create.R | 58 ++- gistr-0.3.0/gistr/R/gist_save.R |only gistr-0.3.0/gistr/R/gistr-package.R | 3 gistr-0.3.0/gistr/R/gists.R | 1 gistr-0.3.0/gistr/R/rate_limit.R | 4 gistr-0.3.0/gistr/R/star.R | 5 gistr-0.3.0/gistr/R/tabl.R | 7 gistr-0.3.0/gistr/R/update.R | 27 + gistr-0.3.0/gistr/R/zzz.R | 4 gistr-0.3.0/gistr/README.md | 119 +++---- gistr-0.3.0/gistr/build/vignette.rds |binary gistr-0.3.0/gistr/inst/doc/gistr_vignette.Rmd | 163 +++++---- gistr-0.3.0/gistr/inst/doc/gistr_vignette.html | 264 ++++++++-------- gistr-0.3.0/gistr/inst/examples/ggplot_imgur.Rmd |only gistr-0.3.0/gistr/inst/examples/rmarkdown_eg.Rmd |only gistr-0.3.0/gistr/inst/examples/rmarkdown_eg.md |only gistr-0.3.0/gistr/inst/examples/stuff.md | 28 - gistr-0.3.0/gistr/inst/ignore/gist_create_git.R | 6 gistr-0.3.0/gistr/inst/vign/gistr_vignette.Rmd | 49 +- gistr-0.3.0/gistr/inst/vign/gistr_vignette.md | 163 +++++---- gistr-0.3.0/gistr/man/commits.Rd | 3 gistr-0.3.0/gistr/man/embed.Rd | 3 gistr-0.3.0/gistr/man/files.Rd | 6 gistr-0.3.0/gistr/man/fork.Rd | 5 gistr-0.3.0/gistr/man/forks.Rd | 3 gistr-0.3.0/gistr/man/gist.Rd | 11 gistr-0.3.0/gistr/man/gist_create.Rd | 13 gistr-0.3.0/gistr/man/gist_save.Rd |only gistr-0.3.0/gistr/man/star.Rd | 5 gistr-0.3.0/gistr/man/tabl.Rd | 7 gistr-0.3.0/gistr/man/update.Rd | 21 - gistr-0.3.0/gistr/tests/localtests/test-gist_create.R | 12 gistr-0.3.0/gistr/tests/test-all.R |only gistr-0.3.0/gistr/tests/testthat/test-commits.R | 4 gistr-0.3.0/gistr/tests/testthat/test-delete.R | 4 gistr-0.3.0/gistr/tests/testthat/test-embed.R | 2 gistr-0.3.0/gistr/tests/testthat/test-fork.R | 4 gistr-0.3.0/gistr/tests/testthat/test-gist.R | 29 + gistr-0.3.0/gistr/tests/testthat/test-gist_create_obj.R | 6 gistr-0.3.0/gistr/tests/testthat/test-gist_save.R |only gistr-0.3.0/gistr/tests/testthat/test-gists.R | 4 gistr-0.3.0/gistr/tests/testthat/test-rate_limit.R | 2 gistr-0.3.0/gistr/tests/testthat/test-star.R | 42 +- gistr-0.3.0/gistr/tests/testthat/test-update.R | 2 gistr-0.3.0/gistr/vignettes/gistr_vignette.Rmd | 163 +++++---- 56 files changed, 877 insertions(+), 704 deletions(-)
Title: Estimation and Use of the Generalised (Tukey) Lambda
Distribution
Description: The generalised lambda distribution, or Tukey lambda distribution, provides a wide variety of shapes with one functional form.
This package provides random numbers, quantiles, probabilities, densities and density quantiles for four different parameterisations of the distribution.
It provides the density function, distribution function, and Quantile-Quantile plots.
It implements a variety of estimation methods for the distribution, including diagnostic plots.
Estimation methods include the starship (all 4 parameterisations) and a number of methods for only the FKML parameterisation.
These include maximum likelihood, maximum product of spacings, Titterington's method, Moments, L-Moments, Trimmed L-Moments and Distributional Least Absolutes.
Author: Robert King <Robert.King@newcastle.edu.au>
Maintainer: Robert King <Robert.King@newcastle.edu.au>
Diff between gld versions 2.2.1 dated 2014-02-19 and 2.3 dated 2015-07-03
Changelog | 10 ++- DESCRIPTION | 25 +++++---- MD5 | 41 ++++++++------ NAMESPACE | 14 +++-- NEWS | 5 + R/fxgld.R | 16 ++--- R/methods.R | 15 +---- R/moment.R |only R/plotgl.R | 6 +- R/qfgld.R | 10 ++- R/qqgl.R | 8 +- R/rgld.R | 8 +- R/starship.R | 97 +++++++++++++++-------------------- TODO | 5 - man/GeneralisedLambdaDistribution.Rd | 21 ++----- man/StarshipClassDocs.Rd | 11 +-- man/fit.fkml.moments.val.Rd |only man/gl.check.lambda.Rd | 8 -- man/gld-Deprecated.Rd |only man/gld.moments.Rd |only man/plot.starship.Rd | 15 +---- man/plotgl.Rd | 2 man/qdgl-deprecated.Rd |only man/starship.Rd | 32 +++-------- 24 files changed, 161 insertions(+), 188 deletions(-)
Title: Plot a Correlogram
Description: Calculates correlation of variables and displays the results graphically.
Included panel functions can display points, shading, ellipses, and correlation
values with confidence intervals.
Author: Kevin Wright [aut, cre]
Maintainer: Kevin Wright <kw.stat@gmail.com>
Diff between corrgram versions 1.7 dated 2015-02-13 and 1.8 dated 2015-07-03
DESCRIPTION | 21 ++++++++++++--------- MD5 | 22 +++++++++++----------- NAMESPACE | 1 + NEWS | 24 ++++++++++++++---------- build/vignette.rds |binary data/auto.rda |binary data/baseball.rda |binary data/vote.rda |binary inst/doc/corrgram_examples.Rnw | 21 ++++++++++++++++++--- inst/doc/corrgram_examples.pdf |binary man/corrgram.Rd | 3 +++ vignettes/corrgram_examples.Rnw | 21 ++++++++++++++++++--- 12 files changed, 77 insertions(+), 36 deletions(-)
Title: The Analysis of Biological Data
Description: The abd package contains data sets and sample code for The
Analysis of Biological Data by Michael Whitlock and Dolph Schluter (2009;
Roberts & Company Publishers).
Author: Kevin M. Middleton <middletonk@missouri.edu>, Randall Pruim
<rpruim@calvin.edu>
Maintainer: Kevin M. Middleton <middletonk@missouri.edu>
Diff between abd versions 0.2-7 dated 2015-02-02 and 0.2-8 dated 2015-07-03
DESCRIPTION | 8 - MD5 | 304 +++++++++++++++++++++---------------------- NAMESPACE | 4 R/datasets.R | 28 --- man/AlgaeCO2.Rd | 5 man/Antilles.Rd | 2 man/Aspirin.Rd | 4 man/BeeGenes.Rd | 2 man/BeeLifespans.Rd | 2 man/Beetles.Rd | 2 man/BirdSexRatio.Rd | 2 man/Blackbirds.Rd | 2 man/BodyFatHeatLoss.Rd | 2 man/BrainExpression.Rd | 2 man/BrookTrout.Rd | 2 man/Cavalry.Rd | 2 man/Chickadees.Rd | 2 man/ChimpBrains.Rd | 2 man/Cichlids.Rd | 2 man/CichlidsGnRH.Rd | 2 man/Clearcuts.Rd | 2 man/CocaineDopamine.Rd | 2 man/Convictions.Rd | 2 man/ConvictionsAndIncome.Rd | 2 man/Crickets.Rd | 2 man/DEET.Rd | 2 man/DaphniaLongevity.Rd | 2 man/DaphniaResistance.Rd | 2 man/DayOfBirth.Rd | 2 man/DesertBirds.Rd | 2 man/Dioecy.Rd | 2 man/Dolphins.Rd | 2 man/DungBeetles.Rd | 2 man/Earthworms.Rd | 2 man/Earwigs.Rd | 2 man/Eelgrass.Rd | 2 man/ElVerde.Rd | 2 man/ElectricFish.Rd | 2 man/EndangeredSpecies.Rd | 2 man/FingerRatio.Rd | 2 man/Fireflies.Rd | 2 man/FireflyFlash.Rd | 2 man/FlyTestes.Rd | 2 man/FlycatcherPatch.Rd | 2 man/GeneRegulation.Rd | 2 man/GlidingSnakes.Rd | 2 man/GodwitArrival.Rd | 2 man/Grassland.Rd | 2 man/GreatTitMalaria.Rd | 2 man/Greenspace.Rd | 2 man/Guppies.Rd | 2 man/Hemoglobin.Rd | 2 man/HippocampusLesions.Rd | 2 man/HornedLizards.Rd | 2 man/HumanBodyTemp.Rd | 2 man/HumanGeneLengths.Rd | 2 man/Hurricanes.Rd | 2 man/Iguanas.Rd | 2 man/IntertidalAlgae.Rd | 2 man/JetLagKnees.Rd | 2 man/KenyaFinches.Rd | 5 man/LanguageBrains.Rd | 2 man/LarvalFish.Rd | 2 man/Lefthanded.Rd | 2 man/LionCubs.Rd | 2 man/LionNoses.Rd | 2 man/LiverPreparation.Rd | 4 man/LizardBite.Rd | 2 man/LizardSprint.Rd | 2 man/Lobsters.Rd | 2 man/LodgepolePines.Rd | 2 man/LupusMice.Rd | 2 man/Lynx.Rd | 2 man/MarineReserve.Rd | 2 man/MassExtinctions.Rd | 2 man/MoleRats.Rd | 2 man/Mosquitoes.Rd | 2 man/MouseEmpathy.Rd | 2 man/NeanderthalBrains.Rd | 2 man/NematodeLifespan.Rd | 2 man/NeotropicalTrees.Rd | 2 man/Newts.Rd | 2 man/NoSmokingDay.Rd | 2 man/NorthSeaCod.Rd | 2 man/OstrichTemp.Rd | 2 man/Penguins.Rd | 2 man/PlantPersistence.Rd | 2 man/Pollen.Rd | 2 man/Powerball.Rd | 2 man/PrimateMetabolism.Rd | 2 man/PrimateWBC.Rd | 2 man/ProgesteroneExercise.Rd | 2 man/Pseudoscorpions.Rd | 2 man/Pufferfish.Rd | 2 man/Rattlesnakes.Rd | 2 man/Rigormortis.Rd | 2 man/RopeTrick.Rd | 2 man/SagebrushCrickets.Rd | 2 man/SalmonColor.Rd | 2 man/Seedlings.Rd | 2 man/Selection.Rd | 2 man/SexualSelection.Rd | 2 man/ShadParasites.Rd | 4 man/ShrinkingSeals.Rd | 2 man/ShuttleDisaster.Rd | 2 man/Silversword.Rd | 2 man/SleepAndPerformance.Rd | 4 man/SockeyeFemales.Rd | 5 man/Sparrows.Rd | 2 man/SpiderColonies.Rd | 2 man/SpiderSpeed.Rd | 2 man/Stalkies1.Rd | 2 man/Stalkies2.Rd | 5 man/SticklebackPlates.Rd | 2 man/SticklebackPreference.Rd | 2 man/Sumo.Rd | 2 man/SyrupSwimming.Rd | 2 man/TeenDeaths.Rd | 2 man/Telomeres.Rd | 2 man/TimeOfDeath.Rd | 2 man/Toads.Rd | 2 man/Tobacco.Rd | 2 man/Tobacco2.Rd | 2 man/ToothAge.Rd | 5 man/TreeSeedlings.Rd | 2 man/Trematodes.Rd | 2 man/Trillium.Rd | 7 man/Truffles.Rd | 2 man/TsetseLearning.Rd | 2 man/TwoKids.Rd | 2 man/VampireBites.Rd | 2 man/VasopressinVoles.Rd | 5 man/Vines.Rd | 2 man/VoleDispersal.Rd | 2 man/WalkingStickFemurs.Rd | 2 man/WalkingStickHeads.Rd | 2 man/WeddellSeals.Rd | 2 man/WillsDebates.Rd | 2 man/WillsPresidents.Rd | 2 man/WolfTeeth.Rd | 2 man/Wolves.Rd | 2 man/WorldCup.Rd | 2 man/WrasseSexes.Rd | 2 man/YeastGenes.Rd | 2 man/ZebraFinchBeaks.Rd | 2 man/ZebraFinches.Rd | 2 man/ZooMortality.Rd | 5 man/Zooplankton.Rd | 2 man/abd-package.Rd | 6 man/abdData.Rd | 2 man/dataInfo.Rd | 2 man/histochart.Rd | 2 man/themes.Rd | 2 153 files changed, 321 insertions(+), 359 deletions(-)