Title: Model Implied Instrumental Variable (MIIV) Estimation of
Structural Equation Models
Description: Functions for estimating structural equation models using model-implied instrumental variables.
Author: Zachary Fisher, Ken Bollen and Kathleen Gates.
Maintainer: Zachary Fisher <fish.zachary@gmail.com>
Diff between MIIVsem versions 0.4.1 dated 2015-09-17 and 0.4.2 dated 2015-11-04
DESCRIPTION | 6 +++--- MD5 | 6 +++--- R/miivboot.R | 7 +++++++ R/miivs.R | 19 +++++++++++++------ 4 files changed, 26 insertions(+), 12 deletions(-)
Title: CRISPR AnalyzeR for Pooled CRISPR Screens
Description: CRISPR-Analyzer for pooled CRISPR screens (caRpools) provides an end-to-end analysis of CRISPR screens including quality control, hit candidate analysis, visualization and automated report generation using R markdown. Needs MAGeCK (http://sourceforge.net/p/mageck/wiki/Home/), bowtie2 for all functions. CRISPR (clustered regularly interspaced short palindromic repeats) is a method to perform genome editing. See <https://en.wikipedia.org/wiki/CRISPR> for more information on
CRISPR.
Author: Jan Winter, Florian Heigwer
Maintainer: Jan Winter <jan.winter@dkfz-heidelberg.de>
Diff between caRpools versions 0.82.3 dated 2015-08-14 and 0.82.5 dated 2015-11-04
DESCRIPTION | 8 MD5 | 31 - NAMESPACE | 17 R/carpools.read.count.vs.R | 1173 ++++++++++++++++------------------------- R/carpools.read.count.vs_OLD.R |only R/data.extract.R | 9 R/get.gene.info.R | 5 R/load.file.R | 227 +++++++ R/stat.mageck.R | 66 +- build/vignette.rds |binary data/caRpools.RData |binary inst/doc/CaRpools.R | 38 + inst/doc/CaRpools.Rmd | 116 +++- inst/doc/CaRpools.html | 113 +++ man/carpools.read.count.vs.Rd | 9 man/data.extract.Rd | 9 vignettes/CaRpools.Rmd | 116 +++- 17 files changed, 1130 insertions(+), 807 deletions(-)
Title: Access to Abbyy Optical Character Recognition (OCR) API
Description: Get text from images of text using Abbyy Cloud Optical Character
Recognition (OCR) API. Easily OCR images, barcodes, forms, documents with
machine readable zones, e.g. passports. Get the results in a variety of formats
including plain text and XML. To learn more about the Abbyy OCR API, see http://
ocrsdk.com/.
Author: Gaurav Sood [aut, cre]
Maintainer: Gaurav Sood <gsood07@gmail.com>
Diff between abbyyR versions 0.2 dated 2015-09-12 and 0.2.1 dated 2015-11-04
abbyyR-0.2.1/abbyyR/DESCRIPTION | 17 ++- abbyyR-0.2.1/abbyyR/LICENSE |only abbyyR-0.2.1/abbyyR/MD5 | 109 +++++++++++--------- abbyyR-0.2.1/abbyyR/NAMESPACE | 2 abbyyR-0.2.1/abbyyR/NEWS |only abbyyR-0.2.1/abbyyR/R/abbyyR.R | 71 ++++++++++++- abbyyR-0.2.1/abbyyR/R/compareText.R | 5 abbyyR-0.2.1/abbyyR/R/deleteTask.R | 9 - abbyyR-0.2.1/abbyyR/R/getAppInfo.R | 9 - abbyyR-0.2.1/abbyyR/R/getResults.R | 2 abbyyR-0.2.1/abbyyR/R/getTaskStatus.R | 10 - abbyyR-0.2.1/abbyyR/R/listFinishedTasks.R | 6 - abbyyR-0.2.1/abbyyR/R/listTasks.R | 11 -- abbyyR-0.2.1/abbyyR/R/processBarcodeField.R | 13 +- abbyyR-0.2.1/abbyyR/R/processBusinessCard.R | 13 -- abbyyR-0.2.1/abbyyR/R/processCheckmarkField.R | 13 +- abbyyR-0.2.1/abbyyR/R/processDocument.R | 9 - abbyyR-0.2.1/abbyyR/R/processFields.R | 7 - abbyyR-0.2.1/abbyyR/R/processImage.R | 16 +- abbyyR-0.2.1/abbyyR/R/processMRZ.R | 13 -- abbyyR-0.2.1/abbyyR/R/processPhotoId.R | 15 +- abbyyR-0.2.1/abbyyR/R/processRemoteImage.R | 7 - abbyyR-0.2.1/abbyyR/R/processTextField.R | 14 +- abbyyR-0.2.1/abbyyR/R/submitImage.R | 10 - abbyyR-0.2.1/abbyyR/README.md |only abbyyR-0.2.1/abbyyR/build |only abbyyR-0.2.1/abbyyR/inst/doc |only abbyyR-0.2.1/abbyyR/man/abbyyR-package.Rd | 12 +- abbyyR-0.2.1/abbyyR/man/abbyy_GET.Rd |only abbyyR-0.2.1/abbyyR/man/abbyy_POST.Rd |only abbyyR-0.2.1/abbyyR/man/abbyy_check.Rd |only abbyyR-0.2.1/abbyyR/man/compareText.Rd | 8 - abbyyR-0.2.1/abbyyR/man/deleteTask.Rd | 2 abbyyR-0.2.1/abbyyR/man/getAppInfo.Rd | 2 abbyyR-0.2.1/abbyyR/man/getResults.Rd | 2 abbyyR-0.2.1/abbyyR/man/getTaskStatus.Rd | 2 abbyyR-0.2.1/abbyyR/man/listFinishedTasks.Rd | 6 - abbyyR-0.2.1/abbyyR/man/listTasks.Rd | 6 - abbyyR-0.2.1/abbyyR/man/ocrFile.Rd | 4 abbyyR-0.2.1/abbyyR/man/processBarcodeField.Rd | 2 abbyyR-0.2.1/abbyyR/man/processBusinessCard.Rd | 2 abbyyR-0.2.1/abbyyR/man/processCheckmarkField.Rd | 2 abbyyR-0.2.1/abbyyR/man/processDocument.Rd | 4 abbyyR-0.2.1/abbyyR/man/processFields.Rd | 2 abbyyR-0.2.1/abbyyR/man/processImage.Rd | 4 abbyyR-0.2.1/abbyyR/man/processMRZ.Rd | 2 abbyyR-0.2.1/abbyyR/man/processPhotoId.Rd | 2 abbyyR-0.2.1/abbyyR/man/processRemoteImage.Rd | 2 abbyyR-0.2.1/abbyyR/man/processTextField.Rd | 2 abbyyR-0.2.1/abbyyR/man/setapp.Rd | 2 abbyyR-0.2.1/abbyyR/man/submitImage.Rd | 2 abbyyR-0.2.1/abbyyR/tests |only abbyyR-0.2.1/abbyyR/vignettes/example.Rmd |only abbyyR-0.2.1/abbyyR/vignettes/overview.Rmd |only abbyyR-0.2.1/abbyyR/vignettes/wiscads.Rmd |only abbyyR-0.2/abbyyR/inst/extdata/t1.TIF |only abbyyR-0.2/abbyyR/vignettes/Overview_of_abbyyR.html |only abbyyR-0.2/abbyyR/vignettes/abbyyR_example.html |only abbyyR-0.2/abbyyR/vignettes/wiscads.html |only 59 files changed, 255 insertions(+), 198 deletions(-)
Title: Detect Text Reuse and Document Similarity
Description: Tools for measuring similarity among documents and detecting
passages which have been reused. Implements shingled n-gram, skip n-gram,
and other tokenizers; similarity/dissimilarity functions; pairwise
comparisons; minhash and locality sensitive hashing algorithms; and a
version of the Smith-Waterman local alignment algorithm suitable for
natural language.
Author: Lincoln Mullen [aut, cre]
Maintainer: Lincoln Mullen <lincoln@lincolnmullen.com>
Diff between textreuse versions 0.1.0 dated 2015-10-30 and 0.1.1 dated 2015-11-04
DESCRIPTION | 10 MD5 | 32 +- NEWS | 4 README.md | 18 - inst/doc/textreuse-alignment.html | 6 inst/doc/textreuse-introduction.R | 12 - inst/doc/textreuse-introduction.Rmd | 27 ++ inst/doc/textreuse-introduction.html | 47 +--- inst/doc/textreuse-minhash.R | 20 + inst/doc/textreuse-minhash.Rmd | 33 +-- inst/doc/textreuse-minhash.html | 379 ++--------------------------------- inst/doc/textreuse-pairwise.R | 7 inst/doc/textreuse-pairwise.Rmd | 7 inst/doc/textreuse-pairwise.html | 89 -------- vignettes/textreuse-introduction.Rmd | 11 - vignettes/textreuse-minhash.Rmd | 9 vignettes/textreuse-pairwise.Rmd | 7 17 files changed, 165 insertions(+), 553 deletions(-)
Title: SOM Bound to Realize Euclidean and Relational Outputs
Description: The stochastic (also called on-line) version of the Self-Organising
Map (SOM) algorithm is provided. Different versions of the
algorithm are implemented, for numeric and relational data and for
contingency tables. The package also contains many plotting
features (to help the user interpret the results) and a graphical
user interface based on shiny (which is also available on-line at
http://shiny.nathalievilla.org/sombrero).
Author: Laura Bendhaiba [aut],
Julien Boelaert [aut],
Madalina Olteanu [aut],
Nathalie Villa-Vialaneix [aut, cre]
Maintainer: Nathalie Villa-Vialaneix <nathalie.villa@toulouse.inra.fr>
Diff between SOMbrero versions 1.0 dated 2015-03-27 and 1.1 dated 2015-11-04
DESCRIPTION | 15 ++-- MD5 | 22 +++--- NAMESPACE | 8 ++ NEWS | 10 ++ R/init.R | 2 R/quality.R | 9 +- R/som.R | 121 +++++++++++++++++++++++++---------- build/vignette.rds |binary inst/doc/doc-korrespSOM.html | 147 ++++++++++++++++++++++--------------------- inst/shiny/ui.R | 2 man/SOMbrero-package.Rd | 11 ++- man/trainSOM.Rd | 9 ++ 12 files changed, 223 insertions(+), 133 deletions(-)
Title: Supplementary Item Response Theory Models
Description:
Supplementary item response theory models to complement existing
functions in R, including multidimensional compensatory and
noncompensatory IRT models, MCMC for hierarchical IRT models and
testlet models, NOHARM, faceted and hierarchical rater models,
ordinal IRT model (ISOP), latent regression models,
DETECT statistic, local structural equation modeling (LSEM).
Author: Alexander Robitzsch [aut,cre]
Maintainer: Alexander Robitzsch <robitzsch@ipn.uni-kiel.de>
Diff between sirt versions 1.8-9 dated 2015-06-28 and 1.9-0 dated 2015-11-04
DESCRIPTION | 16 +++--- MD5 | 58 +++++++++++------------ NAMESPACE | 77 +++++++++++++++++++++++-------- R/data.prep.R | 11 ---- R/f1d.irt.R | 4 - R/greenyang.reliability.R | 10 ++-- R/lsdm.R | 5 -- R/mirt.wrapper.posterior.R | 2 R/np.dich.R | 16 +----- R/plot.mcmc.sirt.R | 2 R/qmc.nodes.R | 5 -- R/rasch.jml.R | 19 ------- R/rasch.mml2.R | 2 R/rasch.pairwise.R | 15 ++++-- R/rasch.pairwise.itemcluster.R | 11 +++- inst/NEWS | 40 ++++++++++++---- man/data.read.Rd | 2 man/dif.logistic.regression.Rd | 92 ++++++++++++++++++++++++++++++++++++++ man/f1d.irt.Rd | 2 man/likelihood.adjustment.Rd | 2 man/pbivnorm2.Rd | 4 + man/pcm.fit.Rd | 14 ++--- man/polychoric2.Rd | 3 - man/qmc.nodes.Rd | 5 +- man/rasch.pairwise.Rd | 34 ++++++++++++-- man/rasch.pairwise.itemcluster.Rd | 6 ++ man/rasch.pml.Rd | 3 - man/sia.sirt.Rd | 4 - man/sirt-package.Rd | 63 ++++++++++++-------------- man/tetrachoric2.Rd | 3 - 30 files changed, 346 insertions(+), 184 deletions(-)
Title: Regression Models with Breakpoints/Changepoints Estimation
Description: Given a regression model, segmented `updates' the model by adding one or more segmented (i.e., piecewise-linear) relationships. Several variables with multiple breakpoints are allowed.
Author: Vito M. R. Muggeo [aut, cre]
Maintainer: Vito M. R. Muggeo <vito.muggeo@unipa.it>
Diff between segmented versions 0.5-1.2 dated 2015-09-08 and 0.5-1.4 dated 2015-11-04
DESCRIPTION | 8 ++++---- MD5 | 34 +++++++++++++++++----------------- NEWS | 19 ++++++++++++++++++- R/intercept.r | 1 + R/plot.segmented.R | 23 ++++++++++++++++++----- R/points.segmented.r | 4 +++- R/print.summary.segmented.R | 6 +++--- R/seg.Ar.fit.r | 1 + R/segmented.Arima.r | 6 ++++-- R/segmented.default.r | 2 +- R/segmented.glm.R | 2 +- R/segmented.lm.R | 2 +- R/slope.R | 4 ++-- man/intercept.Rd | 2 +- man/plot.segmented.Rd | 4 +++- man/points.segmented.Rd | 6 +++++- man/segmented-package.Rd | 4 ++-- man/segmented.Rd | 10 +++++++++- 18 files changed, 94 insertions(+), 44 deletions(-)
Title: Detecting Correlated Genomic Regions
Description: Performs correlation matrix segmentation and applies a test
procedure to detect highly correlated regions in gene expression.
Author: Eleni Ioanna Delatola, Emilie Lebarbier, Tristan Mary-Huard, Francois
Radvanyi, Stephane Robin, Jennifer Wong
Maintainer: Eleni Ioanna Delatola <eldelatola@yahoo.gr>
Diff between SegCorr versions 1.0 dated 2015-02-09 and 1.1 dated 2015-11-04
DESCRIPTION | 17 ++++++++++------- MD5 | 18 +++++++++--------- NAMESPACE | 7 +++++-- R/SegCorr.R | 9 ++++++--- R/segmentation.R | 12 ++++++++---- man/CNV_correction.Rd | 6 +++--- man/SegCorr-package.Rd | 5 ++--- man/SegCorr.Rd | 15 ++++++++++----- man/segmentation.Rd | 11 +++++++---- man/segmented_signal.Rd | 2 +- 10 files changed, 61 insertions(+), 41 deletions(-)
Title: Robust Ordinal Regression UTADIS
Description: Implementation of Robust Ordinal Regression for value-based sorting with some extensions and additional tools. It is a novel Multiple-Criteria Decision Aiding (MCDA) framework.
Author: Krzysztof Ciomek
Maintainer: Krzysztof Ciomek <k.ciomek@gmail.com>
Diff between rorutadis versions 0.3.0 dated 2015-10-22 and 0.3.1 dated 2015-11-04
DESCRIPTION | 8 ++++---- MD5 | 6 +++--- R/model.R | 6 +++--- man/rorutadis-package.Rd | 4 ++-- 4 files changed, 12 insertions(+), 12 deletions(-)
Title: Interface to Geometry Engine - Open Source (GEOS)
Description: Interface to Geometry Engine - Open Source (GEOS) using the C API for topology operations on geometries. The GEOS library is external to the package, and, when installing the package from source, must be correctly installed first. Windows and Mac Intel OS X binaries are provided on CRAN.
Author: Roger Bivand [cre, aut],
Colin Rundel [aut],
Edzer Pebesma [ctb],
Karl Ove Hufthammer [ctb]
Maintainer: Roger Bivand <Roger.Bivand@nhh.no>
Diff between rgeos versions 0.3-14 dated 2015-10-26 and 0.3-15 dated 2015-11-04
ChangeLog | 8 ++++++++ DESCRIPTION | 8 ++++---- MD5 | 12 ++++++------ configure | 18 +++++++++--------- inst/ChangeLog | 8 ++++++++ inst/SVN_VERSION | 2 +- src/rgeos_buffer.c | 43 +++++++++++++++++++++++++++++++++---------- 7 files changed, 69 insertions(+), 30 deletions(-)
Title: Data Analysis in Ecology
Description: Miscellaneous functions for data analysis in ecology, with special emphasis on spatial data.
Author: Patrick Giraudoux <patrick.giraudoux@univ-fcomte.fr>
Maintainer: Patrick Giraudoux <patrick.giraudoux@univ-fcomte.fr>
Diff between pgirmess versions 1.6.2 dated 2015-06-07 and 1.6.3 dated 2015-11-04
pgirmess-1.6.2/pgirmess/R/rwhatpoly.r |only pgirmess-1.6.2/pgirmess/man/rwhatpoly.rd |only pgirmess-1.6.3/pgirmess/DESCRIPTION | 8 +- pgirmess-1.6.3/pgirmess/MD5 | 16 +--- pgirmess-1.6.3/pgirmess/NAMESPACE | 8 +- pgirmess-1.6.3/pgirmess/data/preybiom.rda |binary pgirmess-1.6.3/pgirmess/data/siegelp179.rda |binary pgirmess-1.6.3/pgirmess/man/rwhatbufCat.rd | 86 +++++++++++----------- pgirmess-1.6.3/pgirmess/man/rwhatbufCat2.rd | 96 ++++++++++++------------ pgirmess-1.6.3/pgirmess/man/rwhatbufNum.rd | 108 ++++++++++++++-------------- 10 files changed, 162 insertions(+), 160 deletions(-)
Title: Principal Component Analysis for Outlier Detection
Description: Methods to detect genetic markers involved in biological adaptation. 'pcadapt' provides statistical tools for outlier detection based on Principal Component Analysis.
Author: Keurcien Luu, Michael G.B. Blum
Maintainer: Keurcien Luu <keurcien.luu@imag.fr>
Diff between pcadapt versions 1.0 dated 2015-09-05 and 2.0 dated 2015-11-04
pcadapt-1.0/pcadapt/man/fdrCalc.Rd |only pcadapt-1.0/pcadapt/man/fdrControl.Rd |only pcadapt-1.0/pcadapt/man/fdrList.Rd |only pcadapt-1.0/pcadapt/man/kurtosis.Rd |only pcadapt-1.0/pcadapt/man/outlier.Rd |only pcadapt-1.0/pcadapt/man/plot.outlier.Rd |only pcadapt-1.0/pcadapt/man/sdevEstimation.Rd |only pcadapt-1.0/pcadapt/man/sdevList.Rd |only pcadapt-1.0/pcadapt/vignettes/pcadapt.html |only pcadapt-2.0/pcadapt/DESCRIPTION | 13 pcadapt-2.0/pcadapt/MD5 | 47 +- pcadapt-2.0/pcadapt/NAMESPACE | 19 - pcadapt-2.0/pcadapt/R/fst.R |only pcadapt-2.0/pcadapt/R/pcadapt.R | 531 +++++++++-------------------- pcadapt-2.0/pcadapt/R/plotting.R | 229 ++++++------ pcadapt-2.0/pcadapt/R/utilities.R | 70 ++- pcadapt-2.0/pcadapt/build |only pcadapt-2.0/pcadapt/inst/doc |only pcadapt-2.0/pcadapt/inst/extdata/pool3pops |only pcadapt-2.0/pcadapt/man/computeStats.Rd |only pcadapt-2.0/pcadapt/man/corpca.Rd | 18 pcadapt-2.0/pcadapt/man/fstCalc.Rd |only pcadapt-2.0/pcadapt/man/fstGeno.Rd |only pcadapt-2.0/pcadapt/man/manhattanPlot.Rd | 9 pcadapt-2.0/pcadapt/man/pcadapt-package.Rd | 20 - pcadapt-2.0/pcadapt/man/pcadapt.Rd | 79 ++-- pcadapt-2.0/pcadapt/man/plot.pcadapt.Rd | 20 - pcadapt-2.0/pcadapt/man/pval.Rd | 15 pcadapt-2.0/pcadapt/man/read.genotype.Rd | 11 pcadapt-2.0/pcadapt/man/read4pcadapt.Rd | 23 - pcadapt-2.0/pcadapt/man/scoresPlot.Rd | 6 pcadapt-2.0/pcadapt/vignettes/pcadapt.Rmd |only 32 files changed, 482 insertions(+), 628 deletions(-)
Title: Some Additional Multiple Imputation Functions, Especially for
'mice'
Description:
Contains some auxiliary functions for multiple imputation which
complements existing functionality in R.
In addition to some utility functions, main features include
plausible value imputation, multilevel imputation functions,
imputation using partial least squares (PLS) for high dimensional
predictors, nested multiple imputation, and two-way imputation.
Author: Alexander Robitzsch [aut, cre]
Maintainer: Alexander Robitzsch <robitzsch@ipn.uni-kiel.de>
Diff between miceadds versions 1.3-0 dated 2015-07-10 and 1.4-0 dated 2015-11-04
DESCRIPTION | 12 +-- MD5 | 100 ++++++++++++++++----------------- R/Rhat.mice.R | 5 - R/cppfunction.R | 3 R/draw.pv.ctt.R | 3 R/latent.regression.em.R | 3 R/mi.anova.R | 3 R/mice.impute.2l.contextual.norm.R | 3 R/mice.impute.2l.contextual.pmm.R | 3 R/mice.impute.2l.groupmean.R | 3 R/mice.impute.2l.groupmean.elim.R | 3 R/mice.impute.2l.latentgroupmean.R | 9 +- R/mice.impute.2l.plausible.values.R | 3 R/mice.impute.2l.pls.R | 3 R/mice.impute.2l.pls2.R | 3 R/mice.impute.2l.pls2_aux.R | 3 R/mice.impute.grouped.R | 3 R/mice.impute.norm3.R | 3 R/mice.impute.pmm3.R | 3 R/mice.impute.pmm4.R | 3 R/mice.impute.pmm5.R | 3 R/mice.impute.pmm6.R | 3 R/mice.impute.tricube.pmm.R | 3 R/mice.impute.tricube.pmm2.R | 3 R/mice.impute.weighted.norm.R | 3 R/mice.impute.weighted.pmm.R | 3 R/micombine.F.R | 3 R/micombine.chisquare.R | 3 R/micombine.cor.R | 10 +-- R/pca.covridge.R | 3 R/plausible.value.draw.R | 3 R/plausible.value.imputation.R | 3 R/save.data.R | 5 + R/sumpreserving.rounding.R | 7 -- R/tw.imputation.R | 3 R/tw.mcmc.imputation.R | 3 R/write.mice.imputation.R | 3 R/write.pspp.R | 3 inst/NEWS | 16 +++++ man/Reval.Rd | 2 man/lm.cluster.Rd | 14 ++-- man/load.Rdata.Rd | 2 man/load.data.Rd | 5 - man/mice.impute.2l.plausible.values.Rd | 26 ++++++-- man/mice.impute.2l.pls.Rd | 2 man/mice.impute.pmm3.Rd | 6 + man/miceadds-package.Rd | 9 +- man/micombine.cor.Rd | 42 +++++++++++++ man/pca.covridge.Rd | 2 man/save.data.Rd | 19 +++--- man/with.miceadds.Rd | 6 - 51 files changed, 216 insertions(+), 176 deletions(-)
Title: Designing Multi-Arm Multi-Stage Studies
Description: Designing multi-arm multi-stage studies with normal endpoints and known variance.
Author: Thomas Jaki <jaki.thomas@gmail.com>, Dominic Magirr <d.magirr@gmail.com>, Philip Pallmann <p.pallmann@lancaster.ac.uk>
Maintainer: Thomas Jaki <jaki.thomas@gmail.com>
Diff between MAMS versions 0.6 dated 2015-09-29 and 0.7 dated 2015-11-04
DESCRIPTION | 6 +++--- MD5 | 8 ++++---- R/generics.R | 8 ++++---- R/mams.R | 49 ++++++++++++++++++++++++++++++------------------- inst/NEWS | 6 ++++++ 5 files changed, 47 insertions(+), 30 deletions(-)
Title: Item Response Models for Multiple Ratings
Description:
Implements some item response models for multiple
ratings, including the hierarchical rater model,
conditional maximum likelihood estimation of linear
logistic partial credit model and a wrapper function
to the commercial FACETS program.
Author: Alexander Robitzsch [aut, cre], Jan Steinfeld [aut]
Maintainer: Alexander Robitzsch <robitzsch@ipn.uni-kiel.de>
Diff between immer versions 0.1-1 dated 2015-09-14 and 0.2-0 dated 2015-11-04
DESCRIPTION | 10 ++-- MD5 | 23 +++++------ R/immer_reshape_wideformat.R | 31 +++++++++++++- R/lpcm_data_prep.R | 2 data/data.immer07.rda |only inst/NEWS | 18 +++++++- man/data.immer.Rd | 12 +++++ man/immer-package.Rd | 5 -- man/immer_HRM.Rd | 2 man/immer_cml.Rd | 83 +++++++++++++++++++++++++++++++++++++++- man/immer_opcat.Rd | 2 man/immer_reshape_wideformat.Rd | 19 ++++++++- man/simulate_HRM.Rd | 2 13 files changed, 177 insertions(+), 32 deletions(-)
Title: Tools for Evolutionary Quantitative Genetics
Description: Provides functions for covariance matrix comparisons, estimation
of repeatabilities in measurements and matrices, and general evolutionary
quantitative genetics tools.
Author: Ana Paula Assis, Diogo Melo, Edgar Zanella, Fabio Machado, Guilherme
Garcia
Maintainer: Diogo Melo <diogro@usp.br>
Diff between evolqg versions 0.1-9 dated 2015-09-11 and 0.2-1 dated 2015-11-04
DESCRIPTION | 18 ++- MD5 | 112 ++++++++++++----------- NAMESPACE | 6 + R/DriftTest.R | 2 R/LinearParsimony.R |only R/MonteCarloStat.R | 4 R/Rarefaction.R | 166 ++++++++++++++++++++++++----------- inst/tests/test.DriftTest.r | 6 - inst/tests/test.PCScoreCorrelation.r | 2 inst/tests/test.Rarefaction.r | 10 +- man/AlphaRep.Rd | 2 man/AncestralStates.Rd | 3 man/BootstrapR2.Rd | 4 man/BootstrapRep.Rd | 4 man/BootstrapStat.Rd | 4 man/CalcICV.Rd | 4 man/CalcR2.Rd | 4 man/CalcR2CvCorrected.Rd | 8 - man/CalcRepeatability.Rd | 2 man/CalculateMatrix.Rd | 2 man/ComparisonMap.Rd | 2 man/DriftTest.Rd | 7 - man/ExtendMatrix.Rd | 2 man/KrzCor.Rd | 5 - man/KrzProjection.Rd | 2 man/LModularity.Rd | 2 man/LinearParsimony.Rd |only man/MantelCor.Rd | 6 - man/MatrixCompare.Rd | 3 man/MatrixDistance.Rd | 2 man/MeanMatrixStatistics.Rd | 2 man/MonteCarloR2.Rd | 2 man/MonteCarloRep.Rd | 4 man/MonteCarloStat.Rd | 2 man/MultiMahalanobis.Rd | 4 man/MultivDriftTest.Rd | 16 +-- man/Normalize.Rd | 2 man/OverlapDist.Rd | 6 - man/PCAsimilarity.Rd | 2 man/PCScoreCorrelation.Rd | 6 - man/PhyloCompare.Rd | 2 man/PhyloW.Rd | 2 man/PlotRarefaction.Rd |only man/PlotTreeDriftTest.Rd | 2 man/PrintMatrix.Rd | 2 man/RandCorr.Rd | 2 man/RandomMatrix.Rd | 2 man/RandomSkewers.Rd | 5 - man/Rarefaction.Rd | 42 +------- man/RarefactionStat.Rd |only man/RemoveSize.Rd | 2 man/RiemannDist.Rd | 2 man/SRD.Rd | 2 man/SingleComparisonMap.Rd | 2 man/TestModularity.Rd | 2 man/TreeDriftTest.Rd | 2 man/dentus.Rd | 12 +- man/dentus.tree.Rd | 2 man/evolqg.Rd | 2 59 files changed, 295 insertions(+), 232 deletions(-)
Title: Symbolic Differentiation
Description: R-based solution for symbolic differentiation. It admits
user-defined function as well as function substitution
in arguments of functions to be differentiated. Some symbolic
simplification is part of the work.
Author: Andrew Clausen [aut],
Serguei Sokol [aut, cre]
Maintainer: Serguei Sokol <sokol@insa-toulouse.fr>
Diff between Deriv versions 3.5.6 dated 2015-09-24 and 3.6.0 dated 2015-11-04
DESCRIPTION | 8 +- MD5 | 20 +++--- NAMESPACE | 2 NEWS | 9 ++ R/Deriv.R | 134 ++++++++++++++++++++++++++--------------- R/Simplify.R | 4 - inst/CITATION | 2 man/Deriv-package.Rd | 4 - man/Deriv.Rd | 26 +++++-- tests/testthat/test_Deriv.R | 16 ++++ tests/testthat/test_Simplify.R | 6 - 11 files changed, 154 insertions(+), 77 deletions(-)
Title: Cognitive Diagnosis Modeling
Description: Functions for cognitive diagnosis modeling
and multidimensional item response modeling for dichotomous
and polytomous data. This package enables the estimation of the
DINA and DINO model, the multiple group (polytomous) GDINA model,
the multiple choice DINA model, the general diagnostic model (GDM),
the multidimensional linear compensatory item response model and
the structured latent class model (SLCA).
Author: Alexander Robitzsch [aut, cre], Thomas Kiefer [aut],
Ann Cathrice George [aut], Ali Uenlue [aut]
Maintainer: Alexander Robitzsch <robitzsch@ipn.uni-kiel.de>
Diff between CDM versions 4.5-0 dated 2015-08-29 and 4.6-0 dated 2015-11-04
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Title: Tools for Survey Statistics in Educational Assessment
Description:
Contains tools for survey statistics (especially in educational
assessment) for datasets with replication designs (jackknife,
bootstrap, replicate weights). Descriptive statistics, linear
and logistic regression, path models for manifest variables
with measurement error correction and two-level hierarchical
regressions for weighted samples are included. Statistical
inference can be conducted for multiply imputed datasets and
nested multiply imputed datasets.
This package is developed by BIFIE (Federal Institute for
Educational Research, Innovation and Development of the Austrian
School System; Salzburg, Austria).
Author: BIFIE
Maintainer: Alexander Robitzsch <robitzsch@ipn.uni-kiel.de>
Diff between BIFIEsurvey versions 1.6-0 dated 2015-10-15 and 1.7-0 dated 2015-11-04
DESCRIPTION | 10 ++++---- MD5 | 11 +++++---- R/BIFIE.univar.R | 2 - R/BIFIE.univar.test.R | 48 ++++++++++++++++++++++++------------------- R/BIFIE_create_pseudogroup.R |only inst/NEWS | 14 ++++++++++++ man/BIFIEsurvey-package.Rd | 6 +++-- 7 files changed, 57 insertions(+), 34 deletions(-)