Title: Truncated Random Variables
Description: A collection of tools to evaluate probability density
functions, cumulative distribution functions, quantile functions
and random numbers for truncated random variables. These functions are
provided to also compute the expected value and variance. Nadarajah
and Kotz (2006) developed most of the functions. QQ plots can be produced.
All the probability functions in the stats, stats4 and evd
packages are automatically available for truncation..
Author: Frederick Novomestky <fn334@nyu.edu>,
Saralees Nadarajah <saralees.nadarajah@manchester.ac.uk>
Maintainer: Frederick Novomestky <fnovomes@poly.edu>
Diff between truncdist versions 1.0-1 dated 2012-03-16 and 1.0-2 dated 2016-08-29
DESCRIPTION | 28 ++++++++++++++-------------- MD5 | 22 +++++++++++----------- NAMESPACE | 1 + R/dtrunc.R | 5 +++++ R/ptrunc.R | 5 +++++ R/qtrunc.R | 5 +++++ man/extrunc.Rd | 2 +- man/ptrunc.Rd | 2 +- man/qqtrunc.Rd | 2 +- man/qtrunc.Rd | 2 +- man/rtrunc.Rd | 2 +- man/vartrunc.Rd | 2 +- 12 files changed, 47 insertions(+), 31 deletions(-)
Title: The SVM Path Algorithm
Description: Computes the entire regularization path for the two-class svm classifier
with essentially the same cost as a single SVM fit.
Author: Trevor Hastie
Maintainer: Trevor Hastie <hastie@stanford.edu>
Diff between svmpath versions 0.953 dated 2012-12-23 and 0.955 dated 2016-08-29
DESCRIPTION | 16 ++++++++-------- MD5 | 10 +++++----- NAMESPACE | 4 +++- R/onLoad.R | 2 +- man/svmpath.Rd | 3 ++- src/qp.f | 25 ++++++++++++++----------- 6 files changed, 33 insertions(+), 27 deletions(-)
Title: A Soil Survey Toolkit
Description: Miscellaneous soil data management, summary, visualization, and conversion utilities to support soil survey.
Author: USDA-NRCS Soil Survey Staff
Maintainer: Dylan Beaudette <dylan.beaudette@ca.usda.gov>
Diff between sharpshootR versions 0.9.1 dated 2015-12-05 and 1.0 dated 2016-08-29
.Rinstignore |only DESCRIPTION | 15 +++----- MD5 | 30 ++++++++++------- NAMESPACE | 20 +++++++---- R/CDEC_StationInfo.R |only R/diagnosticPropertyPlot.R | 67 +++++++++++++++++++++++++++++++------- R/plotProfileDendrogram.R |only R/plotSoilRelationGraph.R | 48 +++++++++++++++++++++++---- R/sample.by.poly.R | 12 ++++++ R/sampleRasterStackByMU.R |only data/CDEC.snow.courses.rda |binary data/amador.rda |binary man/CDEC_StationInfo.Rd |only man/CDECquery.Rd | 22 +++++++++--- man/constantDensitySampling.Rd |only man/diagnosticPropertyPlot.Rd | 8 +++- man/plotProfileDendrogram.Rd |only man/plotSoilRelationChordGraph.Rd |only man/plotSoilRelationGraph.Rd | 17 +++++---- man/sample.by.poly.Rd | 3 - man/sampleRasterStackByMU.Rd |only 21 files changed, 181 insertions(+), 61 deletions(-)
Title: Tools for Interacting with 'PostgreSQL' / 'PostGIS' Databases
Description: Functions to convert geometry and 'hstore' data types from
'PostgreSQL' into standard R objects, as well as to simplify
the import of R data frames (including spatial data frames) into 'PostgreSQL'.
Author: Philippe Marchand [aut, cre],
Richard Ellison [aut]
Maintainer: Philippe Marchand <pmarchand@sesync.org>
Diff between postGIStools versions 0.1.0 dated 2016-04-21 and 0.2.0 dated 2016-08-29
DESCRIPTION | 16 +++--- MD5 | 22 ++++----- NEWS.md | 6 ++ R/get_postgis_query.R | 88 ++++++++++++++++++++---------------- README.md | 22 +++++++-- build/vignette.rds |binary inst/doc/postGIStools-vignette.R | 9 ++- inst/doc/postGIStools-vignette.Rmd | 14 ++++- inst/doc/postGIStools-vignette.html | 25 +++++++--- man/get_postgis_query.Rd | 5 -- tests/testthat/test_get_query.R | 39 +++++++++++++++ vignettes/postGIStools-vignette.Rmd | 14 ++++- 12 files changed, 180 insertions(+), 80 deletions(-)
Title: Clustering a Dataset using Multi-SOM Algorithm
Description: Implements two version of Multi-SOM algorithm namely stochastic Multi-SOM and batch Multi-SOM. The package determines also the best number of clusters and offers to the user the best clustering scheme from different results.
Author: Sarra Chair and Malika Charrad
Maintainer: Sarra Chair<sarra.chair@gmail.com>
Diff between multisom versions 1.0 dated 2015-12-23 and 1.1 dated 2016-08-29
multisom-1.0/multisom/R/multisom-batch.R |only multisom-1.0/multisom/R/multisom-stochastic.R |only multisom-1.0/multisom/man/multisom-batch.Rd |only multisom-1.0/multisom/man/multisom-stochastic.Rd |only multisom-1.1/multisom/DESCRIPTION | 8 ++++---- multisom-1.1/multisom/MD5 | 10 +++++----- multisom-1.1/multisom/R/multisom.batch.R |only multisom-1.1/multisom/R/multisom.stochastic.R |only multisom-1.1/multisom/man/multisom.batch.Rd |only multisom-1.1/multisom/man/multisom.stochastic.Rd |only 10 files changed, 9 insertions(+), 9 deletions(-)
Title: Easy Handling Discrete Time Markov Chains
Description: Functions and S4 methods to create and manage discrete time Markov
chains (DTMC) more easily. In addition functions to perform statistical (fitting
and drawing random variates) and probabilistic (analysis of DTMC proprieties)
analysis are provided.
Author: Giorgio Alfredo Spedicato [aut,cre], Tae Seung Kang [aut], Sai Bhargav
Yalamanchi [aut], Mildenberger Thoralf [ctb], Deepak Yadav [ctb]
Maintainer: Giorgio Alfredo Spedicato <spedicato_giorgio@yahoo.it>
Diff between markovchain versions 0.6 dated 2016-08-11 and 0.6.5 dated 2016-08-29
ChangeLog | 2 DESCRIPTION | 8 MD5 | 26 +- NEWS | 4 build/vignette.rds |binary inst/doc/an_introduction_to_markovchain_package.R | 10 inst/doc/an_introduction_to_markovchain_package.Rnw | 14 - inst/doc/an_introduction_to_markovchain_package.pdf |binary inst/doc/complicateSteadyStates.pdf |binary inst/doc/markovchainCrashIntro.pdf |binary src/1_functions4Fitting.cpp | 113 +++++++++- vignettes/an_introduction_to_markovchain_package-mcPlot.pdf |only vignettes/an_introduction_to_markovchain_package-mcPlotdiagram.pdf |only vignettes/an_introduction_to_markovchain_package.Rnw | 14 - vignettes/markovchainBiblio.bib | 2 15 files changed, 151 insertions(+), 42 deletions(-)
Title: Relationship Between Species and Groups of Sites
Description: Functions to assess the strength and statistical significance of the relationship between species occurrence/abundance and groups of sites. Also includes functions to measure species niche breadth using resource categories.
Author: Miquel De Caceres, Florian Jansen
Maintainer: Miquel De Caceres <miquelcaceres@gmail.com>
Diff between indicspecies versions 1.7.5 dated 2015-04-21 and 1.7.6 dated 2016-08-29
DESCRIPTION | 8 ++++---- MD5 | 18 +++++++++--------- NAMESPACE | 7 ++++++- R/multipatt.r | 14 ++++++++------ R/strassoc.r | 12 +++++++----- build/vignette.rds |binary man/indicspecies-package.Rd | 4 ++-- man/multipatt.Rd | 2 +- man/strassoc.Rd | 2 +- vignettes/PigeonExample-005.pdf |binary 10 files changed, 38 insertions(+), 29 deletions(-)
Title: Extreme Value Analysis
Description: Functions for performing extreme value analysis.
Author: Eric Gilleland
Maintainer: Eric Gilleland <ericg@ucar.edu>
Diff between extRemes versions 2.0-7 dated 2015-12-18 and 2.0-8 dated 2016-08-29
DESCRIPTION | 8 MD5 | 22 +- R/BayesFactor.R | 12 - R/fitdiagnostics.R | 445 ++++++++++++++++++++++++++++++++++++++++----------- R/fitfuns.R | 24 +- R/misc.R | 2 R/thresh.R | 14 + inst/CITATION | 53 ++++-- man/Ozone4H.Rd | 4 man/extremalindex.Rd | 2 man/fevd.Rd | 27 ++- man/postmode.Rd | 2 12 files changed, 470 insertions(+), 145 deletions(-)
Title: Analysis of Dose-Response Curves
Description: Analysis of dose-response data is made available through a suite of flexible and versatile model fitting and after-fitting functions.
Author: Christian Ritz <ritz@bioassay.dk>, Jens C. Strebig <streibig@bioassay.dk>
Maintainer: Christian Ritz <ritz@bioassay.dk>
Diff between drc versions 2.5-12 dated 2015-04-14 and 3.0-1 dated 2016-08-29
drc-2.5-12/drc/R/diagnostics.R |only drc-2.5-12/drc/man/diagnostics.Rd |only drc-3.0-1/drc/DESCRIPTION | 8 +- drc-3.0-1/drc/MD5 | 92 +++++++++++++++++----------------- drc-3.0-1/drc/NAMESPACE | 32 +++++++++-- drc-3.0-1/drc/NEWS | 29 ++++++++++ drc-3.0-1/drc/R/CIcompX.R |only drc-3.0-1/drc/R/ED.drc.R | 17 ++++-- drc-3.0-1/drc/R/EDcomp.R | 29 ++++++++-- drc-3.0-1/drc/R/backfit.R | 11 +++- drc-3.0-1/drc/R/drm.R | 2 drc-3.0-1/drc/R/drmEMbinomial.R | 10 --- drc-3.0-1/drc/R/drmRobust.R | 43 +++++++++------ drc-3.0-1/drc/R/isobole.R | 5 + drc-3.0-1/drc/R/maED.R | 9 ++- drc-3.0-1/drc/R/plot.drc.R | 8 ++ drc-3.0-1/drc/R/predict.drc.R | 33 +++++++++--- drc-3.0-1/drc/R/print.summary.drc.R | 5 + drc-3.0-1/drc/R/relpot.R | 8 +- drc-3.0-1/drc/R/resPrint.R | 13 ++-- drc-3.0-1/drc/R/sandwich.R | 1 drc-3.0-1/drc/R/simDR.R | 2 drc-3.0-1/drc/R/summary.drc.R | 54 ++++++++++++++++--- drc-3.0-1/drc/data/RScompetition.rda |binary drc-3.0-1/drc/data/daphnids.rda |binary drc-3.0-1/drc/data/decontaminants.rda |only drc-3.0-1/drc/data/earthworms.rda |binary drc-3.0-1/drc/data/finney71.rda |binary drc-3.0-1/drc/data/heartrate.rda |binary drc-3.0-1/drc/data/leaflength.rda |binary drc-3.0-1/drc/data/metals.rda |only drc-3.0-1/drc/inst/CITATION | 25 ++++----- drc-3.0-1/drc/man/AR.Rd | 2 drc-3.0-1/drc/man/CIcompX.Rd |only drc-3.0-1/drc/man/ED.drc.Rd | 8 +- drc-3.0-1/drc/man/EDcomp.Rd | 35 ++++++------ drc-3.0-1/drc/man/G.aparine.Rd | 7 +- drc-3.0-1/drc/man/LL.4.Rd | 1 drc-3.0-1/drc/man/MM.Rd | 2 drc-3.0-1/drc/man/boxcox.drc.Rd | 19 ++----- drc-3.0-1/drc/man/chickweed.Rd | 5 - drc-3.0-1/drc/man/comped.Rd | 6 +- drc-3.0-1/drc/man/decontaminants.Rd |only drc-3.0-1/drc/man/deguelin.Rd | 3 - drc-3.0-1/drc/man/drm.Rd | 5 - drc-3.0-1/drc/man/earthworms.Rd | 5 - drc-3.0-1/drc/man/gammadr.Rd | 8 +- drc-3.0-1/drc/man/germination.Rd | 3 - drc-3.0-1/drc/man/metals.Rd |only drc-3.0-1/drc/man/multi2.Rd | 4 + drc-3.0-1/drc/man/plot.drc.Rd | 6 -- 51 files changed, 352 insertions(+), 203 deletions(-)
Title: R Interface to the DataONE REST API
Description: Provides read and write access to data and metadata from
the DataONE network <https://www.dataone.org> of data repositories.
Each DataONE repository implements a consistent repository application
programming interface. Users call methods in R to access these remote
repository functions, such as methods to query the metadata catalog, get
access to metadata for particular data packages, and read the data objects
from the data repository. Users can also insert and update data objects on
repositories that support these methods.
Author: Matthew B. Jones [aut, cre],
Peter Slaughter [aut],
Rob Nahf [aut],
Carl Boettiger [aut],
Chris Jones [aut],
Jordan Read [aut],
Lauren Walker [aut],
Edmund Hart [aut],
Scott Chamberlain [aut],
Regents of the University of California [cph]
Maintainer: Matthew B. Jones <jones@nceas.ucsb.edu>
Diff between dataone versions 2.0.0 dated 2016-05-27 and 2.0.1 dated 2016-08-29
DESCRIPTION | 9 +- MD5 | 63 +++++++++++++----- NEWS | 9 ++ R/D1Node.R | 13 ++- build/vignette.rds |binary inst/doc/dataone-overview.html | 4 - inst/doc/download-data.html | 12 +-- inst/doc/searching-dataone.Rmd | 3 inst/doc/searching-dataone.html | 6 - inst/doc/upload-data.html | 4 - tests/testthat/test.AuthenticationManager.R | 20 ----- tests/testthat/test.CNode.R | 18 ++--- tests/testthat/test.D1Client.R | 98 +++++++++++++--------------- tests/testthat/test.D1Node.R | 31 ++++---- tests/testthat/test.MNode.R | 19 +++-- vignettes/download-data_cache |only vignettes/searching-dataone.Rmd | 3 17 files changed, 169 insertions(+), 143 deletions(-)
Title: A Consistent Interface to Tokenize Natural Language Text
Description: Convert natural language text into tokens. The tokenizers have a
consistent interface and are compatible with Unicode, thanks to being built
on the 'stringi' package. Includes tokenizers for shingled n-grams, skip
n-grams, words, word stems, sentences, paragraphs, characters, lines, and
regular expressions.
Author: Lincoln Mullen [aut, cre],
Dmitriy Selivanov [ctb]
Maintainer: Lincoln Mullen <lincoln@lincolnmullen.com>
Diff between tokenizers versions 0.1.3 dated 2016-08-18 and 0.1.4 dated 2016-08-29
DESCRIPTION | 6 +++--- MD5 | 31 +++++++++++++++++-------------- NAMESPACE | 1 + NEWS.md | 5 +++++ R/basic-tokenizers.R | 4 ++-- R/character-shingles-tokenizers.R |only R/ngram-tokenizers.R | 12 +++++++----- R/stem-tokenizers.R | 4 ++-- README.md | 3 +++ inst/doc/introduction-to-tokenizers.R | 3 +++ inst/doc/introduction-to-tokenizers.Rmd | 7 +++++++ inst/doc/introduction-to-tokenizers.html | 8 ++++++-- man/basic-tokenizers.Rd | 4 ++-- man/ngram-tokenizers.Rd | 4 ++-- man/shingle-tokenizers.Rd |only man/stem-tokenizers.Rd | 4 ++-- tests/testthat/test-shingles.R |only vignettes/introduction-to-tokenizers.Rmd | 7 +++++++ 18 files changed, 69 insertions(+), 34 deletions(-)
Title: Create Interactive Timeline Visualizations in R
Description: Create rich and fully interactive timeline visualizations.
Timelines can be included in Shiny apps and R markdown documents, or viewed
from the R console and RStudio Viewer. 'timevis' includes an extensive API
to manipulate a timeline after creation, and supports getting data out of
the visualization into R. Based on the 'vis.js' Timeline module and the
'htmlwidgets' R package.
Author: Dean Attali [aut, cre] (R interface),
Almende B.V. [aut, cph] (vis.js library, http://visjs.org,
http://www.almende.com/home)
Maintainer: Dean Attali <daattali@gmail.com>
Diff between timevis versions 0.2 dated 2016-08-24 and 0.3 dated 2016-08-29
DESCRIPTION | 7 +- MD5 | 14 ++-- NEWS.md | 6 + README.md | 145 +++++++++++++++++++++--------------------- build |only inst/doc |only inst/htmlwidgets/timevis.yaml | 2 vignettes/overview.Rmd | 74 ++++++++++----------- 8 files changed, 130 insertions(+), 118 deletions(-)
Title: Regularized Linear Models
Description: Algorithms for fitting model-based penalized coefficient paths. Currently the models include penalized Poisson, negative binomial, zero-inflated Poisson and zero-inflated negative binomial regression models. The penalties include least absolute shrinkage and selection operator (LASSO), smoothly clipped absolute deviation (SCAD) and minimax concave penalty (MCP), and each possibly combining with L_2 penalty.
Author: Zhu Wang, with contributions from Achim Zeileis, Simon Jackman, Brian Ripley, Trevor Hastie, Rob Tibshirani, Balasubramanian Narasimhan, Gil Chu and Patrick Breheny
Maintainer: Zhu Wang <zwang@connecticutchildrens.org>
Diff between mpath versions 0.2-1 dated 2016-02-04 and 0.2-3 dated 2016-08-29
mpath-0.2-1/mpath/ToDo |only mpath-0.2-3/mpath/DESCRIPTION | 8 mpath-0.2-3/mpath/MD5 | 37 - mpath-0.2-3/mpath/NAMESPACE | 1 mpath-0.2-3/mpath/NEWS | 17 mpath-0.2-3/mpath/R/glmreg.R | 847 +++++++++++++++++----------------- mpath-0.2-3/mpath/R/glmregNB.R | 351 +++++++------- mpath-0.2-3/mpath/R/predict.glmreg.R | 2 mpath-0.2-3/mpath/build/vignette.rds |binary mpath-0.2-3/mpath/inst/COPYRIGHTS | 2 mpath-0.2-3/mpath/inst/doc/german.pdf |binary mpath-0.2-3/mpath/man/cv.glmreg.Rd | 2 mpath-0.2-3/mpath/man/glmreg.Rd | 1 mpath-0.2-3/mpath/man/glmregNB.Rd | 2 mpath-0.2-3/mpath/man/zipath.Rd | 13 mpath-0.2-3/mpath/src/Makevars | 2 mpath-0.2-3/mpath/src/lmnetGLM.f | 29 - mpath-0.2-3/mpath/src/lmnetGaussian.f | 26 - mpath-0.2-3/mpath/src/midloop.f | 22 mpath-0.2-3/mpath/src/outloop.f | 2 20 files changed, 686 insertions(+), 678 deletions(-)
Title: Item Response Theory
Description: An implementation of Item Response Theory (IRT) in R, comprising of five modules:(1) common and utility functions, (2) estimation/calibration procedures, (3) computerized adaptive testing (CAT) framework, (4) automated test assembly (ATA) framework, and (5) multistage testing (MST) framework. See documentation at https://github.com/xluo11/xxIRT/blob/master/README.md.
Author: Xiao Luo [aut, cre]
Maintainer: Xiao Luo <xluo1986@gmail.com>
Diff between xxIRT versions 1.0.1 dated 2016-08-13 and 1.1.0 dated 2016-08-29
DESCRIPTION | 10 - MD5 | 42 ++++---- NAMESPACE | 11 ++ R/assembly.R | 34 +++++- R/assemblyGUI.R |only R/cat.R | 123 +++++++++++++++++------ R/catGUI.R |only R/commons.R | 90 ++++++++++------- R/estimation.R | 21 ++-- R/estimationGUI.R |only R/mst.R | 45 +++++--- R/mstGUI.R |only R/utility.R | 2 README.md | 237 +++++++++++++++++++++++++++++++++++++++++++--- man/ata.Rd | 5 man/ataGUI.Rd |only man/cat.sim.Rd | 31 +++++- man/catGUI.Rd |only man/estimate.item.jmle.Rd | 9 + man/estimate.theta.mle.Rd | 7 + man/estimationGUI.Rd |only man/gen.irt.Rd | 17 +-- man/irt.Rd | 19 ++- man/mst.Rd | 1 man/mstGUI.Rd |only man/prob.Rd | 8 + 26 files changed, 555 insertions(+), 157 deletions(-)
Title: Spatio-Temporal Modeling of Large Data Using a Spectral SPDE
Approach
Description: Functionality for spatio-temporal modeling of large data sets is provided. A Gaussian process in space and time is defined through a stochastic partial differential equation (SPDE). The SPDE is solved in the spectral space, and after discretizing in time and space, a linear Gaussian state space model is obtained. When doing inference, the main computational difficulty consists in evaluating the likelihood and in sampling from the full conditional of the spectral coefficients, or equivalently, the latent space-time process. In comparison to the traditional approach of using a spatio-temporal covariance function, the spectral SPDE approach is computationally advantageous. This package aims at providing tools for two different modeling approaches. First, the SPDE based spatio-temporal model can be used as a component in a customized hierarchical Bayesian model (HBM). The functions of the package then provide parameterizations of the process part of the model as well as computationally efficient algorithms needed for doing inference with the HBM. Alternatively, the adaptive MCMC algorithm implemented in the package can be used as an algorithm for doing inference without any additional modeling. The MCMC algorithm supports data that follow a Gaussian or a censored distribution with point mass at zero. Covariates can be included in the model through a regression term.
Author: Fabio Sigrist, Hans R. Kuensch, Werner A. Stahel
Maintainer: Fabio Sigrist <sigrist@stat.math.ethz.ch>
Diff between spate versions 1.4 dated 2015-01-25 and 1.5 dated 2016-08-29
DESCRIPTION | 10 MD5 | 11 NAMESPACE | 5 R/spateFcts.R | 1349 ++++++++++++++++++++++++++++++------------------- build/vignette.rds |binary man/map.obs.to.grid.Rd |only man/spate.mcmc.Rd | 6 7 files changed, 857 insertions(+), 524 deletions(-)
Title: Path Manipulation Utilities
Description: Utilities for paths, files and directories.
Author: Richard Cotton [aut, cre], Janko Thyson [ctb]
Maintainer: Richard Cotton <richierocks@gmail.com>
Diff between pathological versions 0.0-9 dated 2016-06-15 and 0.1-0 dated 2016-08-29
pathological-0.0-9/pathological/R/paths.R |only pathological-0.0-9/pathological/man/get_drive.Rd |only pathological-0.1-0/pathological/DESCRIPTION | 17 +- pathological-0.1-0/pathological/MD5 | 63 ++++++---- pathological-0.1-0/pathological/NAMESPACE | 16 +- pathological-0.1-0/pathological/NEWS | 4 pathological-0.1-0/pathological/R/choose.R |only pathological-0.1-0/pathological/R/copy.R |only pathological-0.1-0/pathological/R/create.R |only pathological-0.1-0/pathological/R/decompose.R |only pathological-0.1-0/pathological/R/internal.R |only pathological-0.1-0/pathological/R/os-path.R |only pathological-0.1-0/pathological/R/parent.R |only pathological-0.1-0/pathological/R/rstudio.R |only pathological-0.1-0/pathological/R/split.R |only pathological-0.1-0/pathological/R/standardize.R |only pathological-0.1-0/pathological/R/windows.R |only pathological-0.1-0/pathological/R/wrappers.R |only pathological-0.1-0/pathological/build |only pathological-0.1-0/pathological/inst |only pathological-0.1-0/pathological/man/choose_files.Rd | 2 pathological-0.1-0/pathological/man/copy_dir.Rd | 4 pathological-0.1-0/pathological/man/create_dirs.Rd | 2 pathological-0.1-0/pathological/man/cygwinify_path.Rd | 5 pathological-0.1-0/pathological/man/decompose_path.Rd | 14 ++ pathological-0.1-0/pathological/man/get_libraries.Rd | 4 pathological-0.1-0/pathological/man/get_windows_drive.Rd |only pathological-0.1-0/pathological/man/is_windows_drive.Rd | 2 pathological-0.1-0/pathological/man/os_path.Rd | 2 pathological-0.1-0/pathological/man/parent_dir.Rd | 4 pathological-0.1-0/pathological/man/r_home.Rd | 7 - pathological-0.1-0/pathological/man/r_profile.Rd | 2 pathological-0.1-0/pathological/man/rstudio_project_dir.Rd | 2 pathological-0.1-0/pathological/man/split_path.Rd | 45 ++++++- pathological-0.1-0/pathological/man/standardize_path.Rd | 4 pathological-0.1-0/pathological/man/sys_which.Rd | 2 pathological-0.1-0/pathological/man/system_file.Rd | 2 pathological-0.1-0/pathological/man/temp_dir.Rd | 2 pathological-0.1-0/pathological/tests/testthat/test_decompose_path.R | 36 +++++ pathological-0.1-0/pathological/vignettes |only 40 files changed, 176 insertions(+), 65 deletions(-)
Title: Less Code, More Results
Description: Each function accomplishes the work of several or more standard R functions. For example, two function calls, Read() and CountAll(), read the data and generate summary statistics for all variables in the data frame, plus histograms and bar charts as appropriate. Other functions provide for descriptive statistics, a comprehensive regression analysis, analysis of variance and t-test, plotting, bar chart, histogram, box plot, density curves, calibrated power curve, reading multiple data formats with the same function call, variable labels, color themes, and a built-in help system. A confirmatory factor analysis of multiple indicator measurement models is available, as are pedagogical routines for data simulation such as for the Central Limit Theorem. Compatible with 'RStudio' and 'knitr' including generation of R markdown instructions for interpretative output.
Author: David W. Gerbing, School of Business Administration, Portland State University
Maintainer: David W. Gerbing <gerbing@pdx.edu>
Diff between lessR versions 3.4.8 dated 2016-05-02 and 3.5.0 dated 2016-08-29
DESCRIPTION | 10 +- MD5 | 96 ++++++++++---------- NEWS | 46 +++++++++ R/ANOVA.R | 20 +++- R/ANOVAz1.R | 91 +++++++++---------- R/ANOVAz2.R | 12 +- R/BarChart.R | 6 - R/BoxPlot.R | 2 R/CountAll.R | 37 ++++--- R/Density.R | 11 +- R/Help.R | 66 +++++++------ R/Histogram.R | 2 R/LineChart.R | 2 R/Plot.R | 99 +++++++++++++++----- R/Read.R | 24 ++--- R/bc.data.frame.R | 11 -- R/bc.zmain.R | 100 ++------------------- R/bx.zmain.R | 2 R/dn.zmain.R | 17 ++- R/dpmat.zmain.R | 10 +- R/hst.zmain.R | 2 R/lc.zmain.R | 2 R/plt.by.zlegend.R | 25 ++++- R/plt.zlegend.R | 33 +++++- R/plt.zmain.R | 237 ++++++++++++++++++++++++++++++++++++-------------- R/reg.z3dnResidual.R | 7 - R/reg.z4Pred.R | 5 - R/reg.z5Plot.R | 56 ++++++----- R/simCLT.R | 5 - R/theme.R | 14 +- R/tt.z2graph.R | 2 R/tt.z2group.R | 4 R/ttest.R | 3 R/zzz.R | 80 +++++++++------- man/ANOVA.Rd | 11 +- man/BarChart.Rd | 9 + man/BoxPlot.Rd | 2 man/CountAll.Rd | 3 man/Density.Rd | 9 - man/LineChart.Rd | 2 man/Merge.Rd | 2 man/PieChart.Rd | 2 man/Plot.Rd | 102 ++++++++++++++------- man/Regression.Rd | 8 + man/Subset.Rd | 7 - man/corCFA.Rd | 4 man/print_outall.Rd | 4 man/print_outpiece.Rd | 8 + man/theme.Rd | 2 49 files changed, 776 insertions(+), 538 deletions(-)
Title: Joint Mean-Covariance Models using 'Armadillo' and S4
Description: Fit joint mean-covariance models for longitudinal data. The models
and their components are represented using S4 classes and methods. The core
computational algorithms are implemented using the 'Armadillo' C++ library
for numerical linear algebra and 'RcppArmadillo' glue.
Author: Jianxin Pan [aut, cre],
Yi Pan [aut]
Maintainer: Jianxin Pan <Jianxin.Pan@manchester.ac.uk>
Diff between jmcm versions 0.1.5.0 dated 2016-08-04 and 0.1.6.0 dated 2016-08-29
DESCRIPTION | 6 MD5 | 6 R/utilities.R | 1078 +++++++++++++++++++++++++++---------------------------- src/external.cpp | 33 + 4 files changed, 578 insertions(+), 545 deletions(-)
Title: Query Cache for HTTP Clients
Description: In order to improve performance for HTTP API clients, 'httpcache'
provides simple tools for caching and invalidating cache. It includes the
HTTP verb functions GET, PUT, PATCH, POST, and DELETE, which are drop-in
replacements for those in the 'httr' package. These functions are cache-aware
and provide default settings for cache invalidation suitable for RESTful
APIs; the package also enables custom cache-management strategies.
Finally, 'httpcache' includes a basic logging framework to facilitate the
measurement of HTTP request time and cache performance.
Author: Neal Richardson [aut, cre]
Maintainer: Neal Richardson <neal.p.richardson@gmail.com>
Diff between httpcache versions 0.1.4 dated 2016-03-28 and 0.1.8 dated 2016-08-29
DESCRIPTION | 11 ++-- MD5 | 20 ++++--- R/cache.R | 74 ++++++++++++++-------------- R/http-verbs.R | 91 ++++++++++++++++++----------------- R/log.R | 100 +++++++++++++++++++-------------------- build |only inst |only tests/testthat/helper-mocks.R | 10 +++ tests/testthat/test-cache.R | 11 ++++ tests/testthat/test-logging.R | 4 + tests/testthat/test-zzz-helper.R | 9 +++ 11 files changed, 186 insertions(+), 144 deletions(-)
Title: Sustainable Transport Planning
Description: Functionality and data access tools for transport planning,
including origin-destination analysis, route allocation and modelling travel
patterns.
Author: Robin Lovelace [aut, cre],
Richard Ellison [aut],
Barry Rowlingson [aut] (Author of overline),
Nick Bearman [aut] (Co-author of gclip),
Malcolm Morgan [aut] (Co-author of angle_diff)
Maintainer: Robin Lovelace <rob00x@gmail.com>
Diff between stplanr versions 0.1.2 dated 2016-05-30 and 0.1.4 dated 2016-08-29
DESCRIPTION | 16 + MD5 | 74 +++++---- NAMESPACE | 11 + NEWS | 48 +++++ R/crs-funs.R | 57 ++++++- R/data.r | 2 R/google-functions.R | 12 + R/linefuns.R | 77 +++++++++ R/od-funs.R | 186 +++++++++++++++++++---- R/osrmfunctions.R | 306 +++++++++++++++++++++++++++++++------- R/overline.R | 247 +++++++++++++++++++----------- R/stplanr-package.R | 1 R/toptail.R | 12 - README.md | 162 +++++++------------- build/vignette.rds |binary inst/doc/introducing-stplanr.Rmd | 4 inst/doc/introducing-stplanr.html | 24 +- man/angle_diff.Rd |only man/buff_geo.Rd | 4 man/crs_select_aeq.Rd | 4 man/decode_gl.Rd | 5 man/flow.Rd | 2 man/gprojected.Rd |only man/line2df.Rd | 12 - man/line2points.Rd | 21 ++ man/line2route.Rd | 4 man/line_bearing.Rd |only man/line_midpoint.Rd |only man/locate2spdf.Rd | 2 man/nearest2spdf.Rd | 3 man/nearest_osm.Rd | 12 + man/od2line.Rd | 17 +- man/od2odf.Rd |only man/od_dist.Rd |only man/onewayid.Rd | 43 +++-- man/overline.Rd | 16 + man/points2line.Rd |only man/points2odf.Rd | 3 man/reproject.Rd |only man/table2matrix.Rd | 26 ++- man/viaroute.Rd | 18 +- vignettes/introducing-stplanr.Rmd | 4 42 files changed, 1046 insertions(+), 389 deletions(-)
Title: Smoothing for Stream Network Data
Description: Fits flexible additive models to data on stream networks, taking account of flow-connectivity of the network. Models are fitted using penalised least squares.
Author: Alastair Rushworth
Maintainer: Alastair Rushworth <alastair.rushworth@strath.ac.uk>
Diff between smnet versions 2.0 dated 2015-06-08 and 2.1 dated 2016-08-29
smnet-2.0/smnet/R/bbase.R |only smnet-2.0/smnet/R/get_crit.R |only smnet-2.0/smnet/R/get_max_df.R |only smnet-2.0/smnet/R/plot_node.R |only smnet-2.0/smnet/R/predictNewDataObject.R |only smnet-2.1/smnet/DESCRIPTION | 15 +- smnet-2.1/smnet/MD5 | 74 +++++------ smnet-2.1/smnet/NAMESPACE | 4 smnet-2.1/smnet/R/b_spline_basis.R |only smnet-2.1/smnet/R/box_product_spam.R | 5 smnet-2.1/smnet/R/check_weight.R | 13 + smnet-2.1/smnet/R/construct_bspline_basis.R |only smnet-2.1/smnet/R/construct_bspline_penalty.R |only smnet-2.1/smnet/R/create_component_design.R | 2 smnet-2.1/smnet/R/cyclic_bspline_basis.R |only smnet-2.1/smnet/R/get_block_penalty.R | 10 - smnet-2.1/smnet/R/get_crit_approx.R |only smnet-2.1/smnet/R/get_crit_exact.R | 8 - smnet-2.1/smnet/R/get_fixed_df.R |only smnet-2.1/smnet/R/get_model_objects.R | 101 ++++++--------- smnet-2.1/smnet/R/get_optimal_smooth.R | 107 ++++++++------- smnet-2.1/smnet/R/get_penalty.R | 24 ++- smnet-2.1/smnet/R/grid.to.ll.R |only smnet-2.1/smnet/R/m.R | 4 smnet-2.1/smnet/R/make_functions.R | 24 +-- smnet-2.1/smnet/R/network.R | 4 smnet-2.1/smnet/R/plot.smnet.R | 40 ++++- smnet-2.1/smnet/R/plot_cov.R | 174 ++++++++++++++------------ smnet-2.1/smnet/R/plot_full.R | 41 ++++-- smnet-2.1/smnet/R/plot_segments.R | 43 ++++-- smnet-2.1/smnet/R/predictSSNobject.R | 21 +-- smnet-2.1/smnet/R/re_map_rid.R | 4 smnet-2.1/smnet/R/show_weights.R | 17 +- smnet-2.1/smnet/R/smnet.R | 44 +++--- smnet-2.1/smnet/R/summary.smnet.R | 2 smnet-2.1/smnet/inst/NEWS | 21 ++- smnet-2.1/smnet/man/get_adjacency.Rd | 1 smnet-2.1/smnet/man/m.Rd | 6 smnet-2.1/smnet/man/network.Rd | 5 smnet-2.1/smnet/man/plot.smnet.Rd | 23 +-- smnet-2.1/smnet/man/predict.smnet.Rd | 7 - smnet-2.1/smnet/man/show_weights.Rd | 5 smnet-2.1/smnet/man/smnet.Rd | 37 ++--- smnet-2.1/smnet/man/summary.smnet.Rd | 1 44 files changed, 490 insertions(+), 397 deletions(-)
Title: R Interface to the Protocol Buffers API (v2 or v3)
Description: Protocol Buffers are a way of encoding structured data in an
efficient yet extensible format. Google uses Protocol Buffers for almost all
of its internal 'RPC' protocols and file formats. Additional documentation
is available in two included vignettes one of which corresponds to our paper
in the Journal of Statistical Software (2016, v71i02). Either version 2 or 3
of the Protocol Buffers API is supported.
Author: Romain Francois, Dirk Eddelbuettel, Murray Stokely and Jeroen Ooms
Maintainer: Dirk Eddelbuettel <edd@debian.org>
Diff between RProtoBuf versions 0.4.4 dated 2016-07-11 and 0.4.5 dated 2016-08-29
RProtoBuf-0.4.4/RProtoBuf/vignettes/jss.cls |only RProtoBuf-0.4.5/RProtoBuf/ChangeLog | 36 +++++++++ RProtoBuf-0.4.5/RProtoBuf/DESCRIPTION | 18 ++-- RProtoBuf-0.4.5/RProtoBuf/MD5 | 37 ++++------ RProtoBuf-0.4.5/RProtoBuf/configure | 3 RProtoBuf-0.4.5/RProtoBuf/inst/doc/RProtoBuf-intro.pdf |binary RProtoBuf-0.4.5/RProtoBuf/inst/doc/RProtoBuf-paper.pdf |binary RProtoBuf-0.4.5/RProtoBuf/inst/doc/RProtoBuf-quickref.pdf |binary RProtoBuf-0.4.5/RProtoBuf/inst/doc/RProtoBuf-unitTests.pdf |binary RProtoBuf-0.4.5/RProtoBuf/inst/proto/addressbook.proto | 3 RProtoBuf-0.4.5/RProtoBuf/inst/proto/helloworld.proto | 9 +- RProtoBuf-0.4.5/RProtoBuf/inst/proto/rexp.proto | 3 RProtoBuf-0.4.5/RProtoBuf/inst/unitTests/data/bytes.proto | 3 RProtoBuf-0.4.5/RProtoBuf/inst/unitTests/data/encoding.proto | 3 RProtoBuf-0.4.5/RProtoBuf/inst/unitTests/data/nested.proto | 3 RProtoBuf-0.4.5/RProtoBuf/inst/unitTests/data/unittest.proto | 3 RProtoBuf-0.4.5/RProtoBuf/inst/unitTests/data/unittest_import.proto | 2 RProtoBuf-0.4.5/RProtoBuf/inst/unitTests/runit.addressbook.R | 18 ++-- RProtoBuf-0.4.5/RProtoBuf/vignettes/figures/fig-SER.pdf |binary RProtoBuf-0.4.5/RProtoBuf/vignettes/proto/int64.proto | 3 20 files changed, 104 insertions(+), 40 deletions(-)
Title: Rolling Statistics
Description: Parallel functions for computing rolling statistics of time-series
data.
Author: Jason Foster
Maintainer: Jason Foster <jason.j.foster@gmail.com>
Diff between roll versions 1.0.4 dated 2016-07-05 and 1.0.5 dated 2016-08-29
DESCRIPTION | 8 ++++---- MD5 | 10 +++++----- NEWS.md | 10 +++++++++- README.md | 12 ++++++++---- src/Makevars | 1 + src/Makevars.win | 5 ++++- 6 files changed, 31 insertions(+), 15 deletions(-)
Title: Multivariate ARIMA and ARIMA-X Analysis
Description: Multivariate ARIMA and ARIMA-X estimation using Spliid's algorithm
algorithm (marima()) and simulation (marima.sim()).
Author: Henrik Spliid
Maintainer: Henrik Spliid <hspl@dtu.dk>
Diff between marima versions 2.0 dated 2016-06-17 and 2.1 dated 2016-08-29
DESCRIPTION | 12 - MD5 | 18 +- NAMESPACE | 1 R/arma.forecasting.R | 71 +++++++--- R/marima.R | 341 +++++++++++++++++++++++++++++++-------------------- R/marima.sim.R | 41 +++--- man/arma.filter.Rd | 14 +- man/arma.forecast.Rd | 28 ++-- man/marima.Rd | 42 ++++-- man/marima.sim.Rd | 26 +-- 10 files changed, 369 insertions(+), 225 deletions(-)
Title: Langevin Analysis in One and Two Dimensions
Description: Estimate drift and diffusion functions from time series and
generate synthetic time series from given drift and diffusion coefficients.
Author: Philip Rinn [aut, cre],
Pedro G. Lind [aut],
David Bastine [ctb]
Maintainer: Philip Rinn <philip.rinn@uni-oldenburg.de>
Diff between Langevin versions 1.1.1 dated 2015-11-03 and 1.2 dated 2016-08-29
ChangeLog | 15 + DESCRIPTION | 11 - MD5 | 43 ++-- NAMESPACE | 2 README.md |only build/vignette.rds |binary inst/CITATION | 27 +- inst/doc/Langevin.Rnw | 262 +++++++++++++------------- inst/doc/Langevin.pdf |binary man/Langevin-package.Rd | 2 man/Langevin1D.Rd | 3 man/Langevin2D.Rd | 2 man/plot.Langevin.Rd | 2 man/print.Langevin.Rd | 2 man/summary.Langevin.Rd | 2 man/timeseries1D.Rd | 6 man/timeseries2D.Rd | 2 src/Langevin1D.cpp | 3 src/Langevin2D.cpp | 3 src/timeseries1D.cpp | 6 vignettes/Langevin.Rnw | 262 +++++++++++++------------- vignettes/Langevin.bib | 87 ++++++-- vignettes/images/Langevin-1D-example-D1D2.pdf |binary 23 files changed, 410 insertions(+), 332 deletions(-)
Title: Hierarchical Inference Testing
Description: Hierarchical inference testing (HIT) for (generalized) linear models with
correlated covariates applicable to high-dimensional settings.
Author: Jonas Klasen [aut, cre]
Maintainer: Jonas Klasen <qtcat@gmx.de>
Diff between hit versions 0.2-2 dated 2016-04-27 and 0.3.0 dated 2016-08-29
hit-0.2-2/hit/man/heightHierarchy.Rd |only hit-0.3.0/hit/DESCRIPTION | 10 - hit-0.3.0/hit/MD5 | 31 ++-- hit-0.3.0/hit/NEWS.md | 26 +++ hit-0.3.0/hit/R/anova.R | 45 +++--- hit-0.3.0/hit/R/hierarchy.R | 52 +++---- hit-0.3.0/hit/R/hit.R | 210 +++++++++----------------------- hit-0.3.0/hit/README.md | 3 hit-0.3.0/hit/man/as.hierarchy.Rd | 17 +- hit-0.3.0/hit/man/fast.anova.Rd | 18 +- hit-0.3.0/hit/man/fast.glmanova.Rd | 13 - hit-0.3.0/hit/man/fast.lmanova.Rd | 4 hit-0.3.0/hit/man/hit.Rd | 67 ++++------ hit-0.3.0/hit/man/opt.penalty.Rd | 24 +-- hit-0.3.0/hit/man/reorder.hierarchy.Rd | 4 hit-0.3.0/hit/man/samp1.lasso.Rd | 8 - hit-0.3.0/hit/man/samp2.sigHierarchy.Rd | 8 - 17 files changed, 221 insertions(+), 319 deletions(-)
Title: A Parallel Simulation Framework
Description: Functions for easy and reproducible simulation.
Author: Andrew Redd
Maintainer: Andrew Redd <andrew.redd@hsc.utah.edu>
Diff between harvestr versions 0.7.0 dated 2016-07-21 and 0.7.1 dated 2016-08-29
DESCRIPTION | 9 +++++---- MD5 | 10 +++++++--- NEWS | 4 ++++ build |only inst/doc |only vignettes/harvestr.Rmd | 10 +++++----- 6 files changed, 21 insertions(+), 12 deletions(-)
Title: Ensemble Partial Least Squares Regression
Description: An algorithmic framework for measuring feature importance, outlier detection, and ensemble modeling based on (sparse) partial least squares regressions.
Author: Nan Xiao <me@nanx.me>, Dong-Sheng Cao <oriental-cds@163.com>,
Miao-Zhu Li <miaozhu.li@duke.edu>, Qing-Song Xu <qsxu@csu.edu.cn>
Maintainer: Nan Xiao <me@nanx.me>
Diff between enpls versions 3.0 dated 2016-06-29 and 4.0 dated 2016-08-29
DESCRIPTION | 12 ++--- MD5 | 100 +++++++++++++++++++++++----------------------- NEWS.md | 8 +++ R/cv.enpls.R | 16 +++---- R/cv.enspls.R | 16 +++---- R/enpls-datalist.R | 9 +--- R/enpls-package.R | 3 - R/enpls.fit.R | 48 ++++++++++------------ R/enpls.fs.R | 51 +++++++++++------------ R/enpls.od.R | 61 ++++++++++++---------------- R/enspls.fit.R | 42 ++++++++++--------- R/enspls.fs.R | 46 +++++++++++---------- R/enspls.od.R | 52 ++++++++++++----------- R/plot.enpls.R | 48 +++++++++++----------- R/plot.enspls.R | 44 ++++++++++---------- R/predict.enpls.R | 11 ++--- R/predict.enspls.R | 11 ++--- R/print.enpls.R | 30 ++++++------- R/print.enspls.R | 30 ++++++------- inst/doc/enpls.R | 8 +-- inst/doc/enpls.Rmd | 12 ++--- inst/doc/enpls.html | 22 +++++----- man/alkanes.Rd | 7 +-- man/cv.enpls.Rd | 16 +++---- man/cv.enspls.Rd | 16 +++---- man/enpls-package.Rd | 3 - man/enpls.fit.Rd | 34 ++++++--------- man/enpls.fs.Rd | 37 +++++++---------- man/enpls.od.Rd | 41 +++++++----------- man/enspls.fit.Rd | 28 ++++++------ man/enspls.fs.Rd | 32 +++++++------- man/enspls.od.Rd | 32 +++++++------- man/logd1k.Rd | 2 man/plot.cv.enpls.Rd | 14 +++--- man/plot.cv.enspls.Rd | 14 +++--- man/plot.enpls.fs.Rd | 14 +++--- man/plot.enpls.od.Rd | 16 +++---- man/plot.enspls.fs.Rd | 14 +++--- man/plot.enspls.od.Rd | 12 ++--- man/predict.enpls.fit.Rd | 11 ++--- man/predict.enspls.fit.Rd | 11 ++--- man/print.cv.enpls.Rd | 6 +- man/print.cv.enspls.Rd | 6 +- man/print.enpls.fit.Rd | 6 +- man/print.enpls.fs.Rd | 8 +-- man/print.enpls.od.Rd | 4 - man/print.enspls.fit.Rd | 6 +- man/print.enspls.fs.Rd | 8 +-- man/print.enspls.od.Rd | 4 - vignettes/enpls.Rmd | 12 ++--- vignettes/enpls.bib | 2 51 files changed, 544 insertions(+), 552 deletions(-)
Title: R Commander Plug-in for the EZR (Easy R) Package
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: 978-4-498-10901-8 or Nankodo, ISBN: 978-4-524-26158-1), 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 <ycanda-tky@umin.ac.jp>
Diff between RcmdrPlugin.EZR versions 1.32 dated 2016-02-03 and 1.33 dated 2016-08-29
DESCRIPTION | 10 MD5 | 22 NEWS | 8 R/EZR.R | 727 ++++++++++++++++++++-------- inst/CHANGES | 8 inst/doc/EZR.htm | 6 inst/doc/EZR.pdf |binary inst/etc/menus.txt | 7 inst/etc/menus_old.txt |only inst/po/ja/LC_MESSAGES/R-RcmdrPlugin.EZR.mo |binary man/EZR.Rd | 5 man/rmean.table.Rd |only po/R-RcmdrPlugin.EZR.po | 10 13 files changed, 590 insertions(+), 213 deletions(-)
More information about RcmdrPlugin.EZR at CRAN
Permanent link
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], Simon Grund [aut],
Thorsten Henke [aut]
Maintainer:
Alexander Robitzsch <robitzsch@ipn.uni-kiel.de>
Diff between miceadds versions 1.9-0 dated 2016-07-13 and 2.0-0 dated 2016-08-29
DESCRIPTION | 8 - MD5 | 36 ++++---- NAMESPACE | 1 R/file_path.R |only R/include.2l.predictors_v1.R |only R/load.data.R | 12 +- R/mice.impute.2l.lmer.R | 5 - R/mice.impute.hotDeck.R |only R/mice.impute.plausible.values.R | 13 +-- R/mice_multilevel_imputation_pmm5.R | 15 +-- R/micombine.F.R | 4 R/micombine.chisquare.R | 145 ++++++++++++++++++++++++++++++++---- inst/NEWS | 19 ++++ man/load.data.Rd | 8 + man/mice.impute.2l.lmer.Rd | 17 +++- man/mice.impute.2lonly.function.Rd | 12 ++ man/mice.impute.hotDeck.Rd |only man/miceadds-package.Rd | 2 man/micombine.F.Rd | 17 +++- man/micombine.chisquare.Rd | 9 +- man/tw.imputation.Rd | 9 +- 21 files changed, 261 insertions(+), 71 deletions(-)
Title: Tools for Pre-Processing Emission-Excitation-Matrix (EEM)
Fluorescence Data
Description: Provides various tools to calculate EEM fluorescence metrics and
preprocess EEM for PARAFAC analysis.
Author: Philippe Massicotte [aut, cre]
Maintainer: Philippe Massicotte <pm@bios.au.dk>
Diff between eemR versions 0.1.3 dated 2016-05-03 and 0.1.4 dated 2016-08-29
DESCRIPTION | 14 +- MD5 | 43 +++--- NAMESPACE | 4 NEWS.md | 28 ++++ R/eem_correction.R | 119 +++++++++++------ R/eem_read.R | 17 +- R/eem_utils.R | 220 +++++++++++++++++++++------------ build/vignette.rds |binary inst/doc/introduction.R | 14 -- inst/doc/introduction.Rmd | 16 +- inst/doc/introduction.html | 177 ++++++++++++-------------- inst/doc/parafac.R |only inst/doc/parafac.Rmd |only inst/doc/parafac.html |only man/eem.Rd | 4 man/eem_cut.Rd | 16 +- man/eem_extract.Rd | 17 +- man/eem_extract_blank.Rd |only man/eem_inner_filter_effect.Rd | 4 man/eem_raman_normalisation.Rd | 21 +-- man/eem_remove_blank.Rd | 26 +-- man/print.eemlist.Rd |only man/summary.eem.Rd | 17 ++ man/summary.eemlist.Rd | 14 ++ tests/testthat/test-blank-correction.R | 68 +++++----- 25 files changed, 504 insertions(+), 335 deletions(-)
Title: Package for Community Ecology and Suitability Analysis
Description: Graphical User Interface (via the R-Commander) and utility functions (often based on the vegan package) for statistical analysis of biodiversity and ecological communities, including species accumulation curves, diversity indices, Renyi profiles, GLMs for analysis of species abundance and presence-absence, distance matrices, Mantel tests, and cluster, constrained and unconstrained ordination analysis. A book on biodiversity and community ecology analysis is available for free download from the website. In 2012, methods for (ensemble) suitability modelling and mapping were expanded in the package.
Author: Roeland Kindt
Maintainer: Roeland Kindt <R.KINDT@CGIAR.ORG>
Diff between BiodiversityR versions 2.7-1 dated 2016-04-18 and 2.7-2 dated 2016-08-29
DESCRIPTION | 12 MD5 | 55 +-- NAMESPACE | 3 R/BiodiversityRGUI.R | 4 R/distdisplayed.R | 13 R/disttransform.R | 4 R/ensemble.analogue.R | 10 R/ensemble.batch.R | 9 R/ensemble.bioclim.R |only R/ensemble.mean.R | 67 ---- R/ensemble.novel.R | 212 +++++++------ R/ensemble.plot.R | 82 +---- R/ensemble.strategy.R | 4 R/ensemble.test.R | 202 ++++-------- R/ensemble.test.splits.R | 14 R/ensemble.threshold.R |only R/makecommunitydataset.R | 34 +- R/renyiplot.R | 46 +- R/renyiresult.R | 4 inst/ChangeLog | 72 ++++ inst/etc/BiodiversityGUI.R | 697 +++++++++++++++++++++++++++++++------------- inst/etc/Rcmdr-menus.txt | 13 inst/etc/dune.xls |binary inst/etc/dunestacked.csv |only man/CAPdiscrim.Rd | 2 man/disttransform.Rd | 6 man/ensemble.Rd | 20 + man/ensemble.batch.Rd | 16 - man/makecommunitydataset.Rd | 17 - man/renyiresult.Rd | 11 30 files changed, 964 insertions(+), 665 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 5.0-0 dated 2016-07-11 and 5.1-0 dated 2016-08-29
CDM-5.0-0/CDM/R/gdina_aux.R |only CDM-5.1-0/CDM/DESCRIPTION | 8 - CDM-5.1-0/CDM/MD5 | 26 +++--- CDM-5.1-0/CDM/R/gdd.R | 23 +---- CDM-5.1-0/CDM/R/gdina.R | 150 +++++++++--------------------------- CDM-5.1-0/CDM/R/gdina.dif_aux.R | 75 +++++++++++------- CDM-5.1-0/CDM/R/gdina.wald.R | 4 CDM-5.1-0/CDM/R/gdina_se_itemwise.R |only CDM-5.1-0/CDM/R/mcdina.R | 9 -- CDM-5.1-0/CDM/R/numerical_Hessian.R | 1 CDM-5.1-0/CDM/R/solve_add_ridge.R |only CDM-5.1-0/CDM/R/squeeze.cdm.R |only CDM-5.1-0/CDM/inst/NEWS | 13 +++ CDM-5.1-0/CDM/man/CDM-package.Rd | 90 +++++++++++---------- CDM-5.1-0/CDM/man/deltaMethod.Rd | 5 - CDM-5.1-0/CDM/man/gdina.Rd | 8 + 16 files changed, 184 insertions(+), 228 deletions(-)
Title: Correspondence Analysis Variants
Description: Provides six variants of two-way correspondence analysis (ca):
simple ca, singly ordered ca, doubly ordered ca, non symmetrical ca,
singly ordered non symmetrical ca, and doubly ordered non symmetrical
ca.
Author: Rosaria Lombardo and Eric J Beh
Maintainer: Rosaria Lombardo <rosaria.lombardo@unina2.it>
Diff between CAvariants versions 3.2 dated 2016-08-18 and 3.3 dated 2016-08-29
DESCRIPTION | 10 +++++----- MD5 | 8 ++++---- man/CAvariants.Rd | 19 ++++++++++--------- man/plot.CAvariants.Rd | 21 +++++++++++++++------ man/print.CAvariants.Rd | 15 +++++++++------ 5 files changed, 43 insertions(+), 30 deletions(-)
Title: Genetic Analysis of Populations with Mixed Reproduction
Description: Population genetic analyses for hierarchical analysis of partially
clonal populations built upon the architecture of the 'adegenet' package.
Author: Zhian N. Kamvar [cre, aut],
Javier F. Tabima [aut],
Sydney E. Everhart [ctb, dtc],
Jonah C. Brooks [aut],
Stacy A. Krueger-Hadfield [ctb],
Erik Sotka [ctb],
Brian J. Knaus [ctb],
Niklaus J. Grunwald [ths]
Maintainer: Zhian N. Kamvar <kamvarz@science.oregonstate.edu>
Diff between poppr versions 2.2.0 dated 2016-06-13 and 2.2.1 dated 2016-08-29
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More information about MetaheuristicFPA at CRAN
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Title: Generalized Partial Linear Models (GPLM)
Description: Provides functions for estimating a generalized partial
linear model, a semiparametric variant of the generalized linear model
(GLM) which replaces the linear predictor by the sum of a linear
and a nonparametric function.
Author: Marlene Mueller
Maintainer: Marlene Mueller <marlene.mueller@gmx.de>
Diff between gplm versions 0.7-3 dated 2016-08-27 and 0.7-4 dated 2016-08-29
CHANGES | 2 - DESCRIPTION | 8 ++-- MD5 | 10 +++--- inst/doc/gplm-examples.R | 72 ++++++++++++++++++++++---------------------- inst/doc/gplm-examples.Rnw | 1 vignettes/gplm-examples.Rnw | 1 6 files changed, 48 insertions(+), 46 deletions(-)