Title: Analyzing High-Throughput Single Cell Sequencing Data
Description: A toolkit that allows scientists to work with data from single cell sequencing technologies such as scRNA-seq, scVDJ-seq and CITE-Seq. Single (i) Cell R package ('iCellR') provides unprecedented flexibility at every step of the analysis pipeline, including normalization, clustering, dimensionality reduction, imputation, visualization, and so on. Users can design both unsupervised and supervised models to best suit their research. In addition, the toolkit provides 2D and 3D interactive visualizations, differential expression analysis, filters based on cells, genes and clusters, data merging, normalizing for dropouts, data imputation methods, correcting for batch differences, pathway analysis, tools to find marker genes for clusters and conditions, predict cell types and pseudotime analysis.
Author: Alireza Khodadadi-Jamayran,
Joseph Pucella,
Hua Zhou,
Nicole Doudican,
John Carucci,
Adriana Heguy,
Boris Reizis,
Aristotelis Tsirigos
Maintainer: Alireza Khodadadi-Jamayran <alireza.khodadadi.j@gmail.com>
Diff between iCellR versions 1.2.0 dated 2019-10-15 and 1.2.2 dated 2019-10-22
DESCRIPTION | 6 +++--- MD5 | 14 ++++++++------ NAMESPACE | 1 + R/F018.run.umap.R | 3 +++ R/F020.cluster.plot.R | 4 ++++ R/F031.gene.plot.R | 9 ++++++++- R/globalVariables.R | 5 +++++ R/run.mnn.R |only man/run.mnn.Rd |only 9 files changed, 32 insertions(+), 10 deletions(-)
Title: Access to Current and Historical Basketball Data
Description: Provides simple functions for accessing data/tables on
<http://www.basketball-reference.com>.
Author: Ryan Elmore [cre, aut],
Peter DeWitt [ctb]
Maintainer: Ryan Elmore <rtelmore@gmail.com>
Diff between ballr versions 0.2.3 dated 2018-11-01 and 0.2.4 dated 2019-10-22
DESCRIPTION | 10 MD5 | 10 R/nba-player-per-game-stats.R | 5 README.md | 8 build/vignette.rds |binary inst/doc/use-ballr.html | 579 +++++++++++++++++++++++++++++------------- 6 files changed, 427 insertions(+), 185 deletions(-)
Title: Interface to Species Occurrence Data Sources
Description: A programmatic interface to many species occurrence data sources,
including Global Biodiversity Information Facility ('GBIF'), 'USGSs'
Biodiversity Information Serving Our Nation ('BISON'), 'iNaturalist',
Berkeley 'Ecoinformatics' Engine, 'eBird', Integrated Digitized
'Biocollections' ('iDigBio'), 'VertNet', Ocean 'Biogeographic' Information
System ('OBIS'), and Atlas of Living Australia ('ALA'). Includes
functionality for retrieving species occurrence data, and combining
those data.
Author: Scott Chamberlain [aut, cre] (<https://orcid.org/0000-0003-1444-9135>),
Karthik Ram [ctb],
Ted Hart [ctb],
rOpenSci [fnd] (https://ropensci.org/)
Maintainer: Scott Chamberlain <myrmecocystus@gmail.com>
Diff between spocc versions 0.9.0 dated 2018-11-15 and 1.0.0 dated 2019-10-22
spocc-0.9.0/spocc/inst/doc/spocc_vignette.Rmd |only spocc-0.9.0/spocc/inst/doc/spocc_vignette.html |only spocc-0.9.0/spocc/man/fixnames.Rd |only spocc-0.9.0/spocc/vignettes/spocc_vignette.Rmd |only spocc-1.0.0/spocc/DESCRIPTION | 16 + spocc-1.0.0/spocc/LICENSE | 2 spocc-1.0.0/spocc/MD5 | 98 +++++---- spocc-1.0.0/spocc/NAMESPACE | 7 spocc-1.0.0/spocc/NEWS.md | 26 ++ spocc-1.0.0/spocc/R/as.inat.R | 6 spocc-1.0.0/spocc/R/as.obis.R | 5 spocc-1.0.0/spocc/R/fixnames.r | 25 +- spocc-1.0.0/spocc/R/inat.R | 106 +++++----- spocc-1.0.0/spocc/R/methods.r | 4 spocc-1.0.0/spocc/R/obis_helpers.R | 50 +++- spocc-1.0.0/spocc/R/occ.r | 18 - spocc-1.0.0/spocc/R/occ2df.R | 11 - spocc-1.0.0/spocc/R/plugin_helpers.R | 11 - spocc-1.0.0/spocc/R/plugins.r | 42 ++- spocc-1.0.0/spocc/R/spocc-package.R | 4 spocc-1.0.0/spocc/R/zzz.r | 2 spocc-1.0.0/spocc/README.md | 137 ++++++------- spocc-1.0.0/spocc/build/vignette.rds |binary spocc-1.0.0/spocc/inst/doc/spocc.Rmd |only spocc-1.0.0/spocc/inst/doc/spocc.html |only spocc-1.0.0/spocc/man/as.inat.Rd | 6 spocc-1.0.0/spocc/man/as.obis.Rd | 3 spocc-1.0.0/spocc/man/fixnames-deprecated.Rd |only spocc-1.0.0/spocc/man/obis_search.Rd |only spocc-1.0.0/spocc/man/occ.Rd | 101 +++++++-- spocc-1.0.0/spocc/man/occ2df.Rd | 5 spocc-1.0.0/spocc/man/spocc-package.Rd | 2 spocc-1.0.0/spocc/tests/fixtures |only spocc-1.0.0/spocc/tests/testthat/helper-spocc.R |only spocc-1.0.0/spocc/tests/testthat/test-common_params.R | 23 +- spocc-1.0.0/spocc/tests/testthat/test-geometry.R | 97 ++++----- spocc-1.0.0/spocc/tests/testthat/test-has_coords.R | 56 ++--- spocc-1.0.0/spocc/tests/testthat/test-idbasedsearch.R | 22 -- spocc-1.0.0/spocc/tests/testthat/test-occ.R | 125 ++++++----- spocc-1.0.0/spocc/tests/testthat/test-occ2df.R | 14 - spocc-1.0.0/spocc/tests/testthat/test-options.R | 67 +++--- spocc-1.0.0/spocc/tests/testthat/test-paging.R | 17 - spocc-1.0.0/spocc/tests/testthat/test-taxize-integration.R | 52 +++- spocc-1.0.0/spocc/vignettes/spocc.Rmd |only 44 files changed, 677 insertions(+), 483 deletions(-)
Title: Classes and Methods for Seismic Data Analysis
Description: Provides classes and methods for seismic data analysis. The
base classes and methods are inspired by the python code found in
the 'ObsPy' python toolbox <https://github.com/obsypy/obspy>. Additional classes and
methods support data returned by web services provided by the 'IRIS DMC'
<http://service.iris.edu/>.
Author: Jonathan Callahan [aut],
Rob Casey [aut],
Gillian Sharer [aut, cre],
Mary Templeton [aut],
Chad Trabant [ctb]
Maintainer: Gillian Sharer <gillian@iris.washington.edu>
Diff between IRISSeismic versions 1.5.1 dated 2019-08-06 and 1.5.2 dated 2019-10-22
DESCRIPTION | 6 +- MD5 | 20 ++++----- R/Class-IrisClient.R | 82 +++++++++++++++++++++++++--------------- R/Class-Stream.R | 2 inst/doc/IRISSeismic-intro.html | 4 - man/IRISSeismic-package.Rd | 8 +++ man/IrisClient-class.Rd | 10 +++- man/crossSpectrum.Rd | 3 - man/getDataAvailability.Rd | 43 ++++++++++++++------ man/getEvent.Rd | 1 man/noiseModels.Rd | 1 11 files changed, 116 insertions(+), 64 deletions(-)
Title: Straightforward 'NetCDF' Metadata
Description: Extract metadata from 'NetCDF' data sources, these can be files, file handles or
servers. This package leverages and extends the lower level functions of the 'RNetCDF' package
providing a consistent set of functions that all return data frames. We introduce named concepts
of 'grid', 'axis' and 'source' which are all meaningful entities without formal definition in the
'NetCDF' library <https://www.unidata.ucar.edu/software/netcdf/>. 'RNetCDF' matches the library
itself with only the named concepts of 'variables', 'dimensions' and 'attributes'. 'ncmeta'
provides a required framework for the in-development 'tidync' project <https://github.com/hypertidy/tidync>.
Author: Michael Sumner [aut, cre],
Tomas Remenyi [ctb],
Ben Raymond [ctb],
David Blodgett [ctb]
Maintainer: Michael Sumner <mdsumner@gmail.com>
Diff between ncmeta versions 0.1.0 dated 2019-08-28 and 0.2.0 dated 2019-10-22
DESCRIPTION | 6 +++--- MD5 | 16 ++++++++-------- NEWS.md | 6 ++++++ R/nc_att.R | 10 +++++++--- R/nc_meta.R | 8 ++------ README.md | 29 +++++++++++++---------------- tests/testthat.R | 2 +- tests/testthat/test-attributes.R | 11 +++++++++++ tests/testthat/test-file-bogeys.R | 2 +- 9 files changed, 52 insertions(+), 38 deletions(-)
Title: Analyse Audio Recordings and Automatically Extract Animal
Vocalizations
Description: Contains all the necessary tools to process audio recordings of
various formats (e.g., WAV, WAC, MP3, ZC), filter noisy files,
display audio signals, detect and extract automatically acoustic
features for further analysis such as classification.
Author: Jean Marchal [aut, cre],
Francois Fabianek [aut],
Christopher Scott [aut],
Chris Corben [ctb, cph] (Read ZC files, original C code),
David Riggs [ctb, cph] (Read GUANO metadata, original R code),
Peter Wilson [ctb, cph] (Read ZC files, original R code),
Wildlife Acoustics, inc. [ctb, cph] (Read WAC files, original C code),
WavX, inc. [cph]
Maintainer: Jean Marchal <jean.marchal@wavx.ca>
Diff between bioacoustics versions 0.2.1 dated 2019-08-20 and 0.2.2 dated 2019-10-22
DESCRIPTION | 8 - MD5 | 28 ++-- NEWS.md | 6 + R/metadata_GUANO.R | 264 +++++++++++++++++++++++---------------------- README.md | 108 +++++++++--------- configure | 29 ++-- configure.ac | 15 -- inst/doc/introduction.html | 2 src/Makevars.in | 1 src/Makevars.win | 2 src/bb_extract.cpp | 2 src/fft.cpp | 2 src/fft.h | 1 src/read_wac.cpp | 44 ++++--- src/read_wac.h | 4 15 files changed, 260 insertions(+), 256 deletions(-)
Title: Forecasting Using State Space Models
Description: Functions implementing Single Source of Error state space models for purposes of time series analysis and forecasting.
The package includes Exponential Smoothing (Hyndman et al., 2008, <doi: 10.1007/978-3-540-71918-2>),
SARIMA (Svetunkov & Boylan, 2019 <doi: 10.1080/00207543.2019.1600764>),
Complex Exponential Smoothing (Svetunkov & Kourentzes, 2018, <doi: 10.13140/RG.2.2.24986.29123>),
Simple Moving Average (Svetunkov & Petropoulos, 2018 <doi: 10.1080/00207543.2017.1380326>),
Vector Exponential Smoothing (de Silva et al., 2010, <doi: 10.1177/1471082X0901000401>) in state space forms,
several simulation functions and intermittent demand state space models. It also allows dealing with
intermittent demand based on the iETS framework (Svetunkov & Boylan, 2017, <doi: 10.13140/RG.2.2.35897.06242>).
Author: Ivan Svetunkov [aut, cre] (Lecturer at Centre for Marketing Analytics
and Forecasting, Lancaster University, UK)
Maintainer: Ivan Svetunkov <ivan@svetunkov.ru>
Diff between smooth versions 2.5.3 dated 2019-08-19 and 2.5.4 dated 2019-10-22
DESCRIPTION | 8 +- MD5 | 90 +++++++++++++++--------------- NEWS | 10 +++ R/autoces.R | 3 - R/autogum.R | 3 - R/automsarima.R | 3 - R/autossarima.R | 3 - R/ces.R | 3 - R/es.R | 38 +++++++------ R/gum.R | 3 - R/msarima.R | 3 - R/oes.R | 33 +++-------- R/oesg.R | 31 +++------- R/sma.R | 3 - R/smoothCombine.R | 3 - R/ssarima.R | 3 - R/ssfunctions.R | 67 ++++++++++++++-------- R/ves.R | 11 ++- R/vmethods.R | 3 + R/vssFunctions.R | 31 ++++++---- build/partial.rdb |binary build/vignette.rds |binary inst/doc/ces.html | 49 ++++++++-------- inst/doc/es.html | 115 +++++++++++++++++++-------------------- inst/doc/gum.html | 22 +++---- inst/doc/oes.html | 143 ++++++++++++++++++++++++------------------------- inst/doc/simulate.html | 78 +++++++++++++------------- inst/doc/sma.html | 14 ++-- inst/doc/smooth.html | 4 - inst/doc/ssarima.html | 54 +++++++++--------- inst/doc/ves.html | 12 ++-- man/auto.ces.Rd | 29 +++++---- man/auto.gum.Rd | 17 +++-- man/auto.msarima.Rd | 17 +++-- man/auto.ssarima.Rd | 17 +++-- man/ces.Rd | 17 +++-- man/es.Rd | 17 +++-- man/gum.Rd | 21 ++++--- man/msarima.Rd | 29 +++++---- man/oes.Rd | 29 +++++---- man/oesg.Rd | 27 +++++---- man/sma.Rd | 20 ++++-- man/smoothCombine.Rd | 17 +++-- man/ssarima.Rd | 29 +++++---- man/ves.Rd | 22 ++++--- src/ssGeneral.cpp | 20 ++++-- 46 files changed, 642 insertions(+), 529 deletions(-)
Title: Mixture Hidden Markov Models for Social Sequence Data and Other
Multivariate, Multichannel Categorical Time Series
Description: Designed for fitting hidden (latent) Markov models and mixture
hidden Markov models for social sequence data and other categorical time series.
Also some more restricted versions of these type of models are available: Markov
models, mixture Markov models, and latent class models. The package supports
models for one or multiple subjects with one or multiple parallel sequences
(channels). External covariates can be added to explain cluster membership in
mixture models. The package provides functions for evaluating and comparing
models, as well as functions for visualizing of multichannel sequence data and
hidden Markov models. Models are estimated using maximum likelihood via the EM
algorithm and/or direct numerical maximization with analytical gradients. All
main algorithms are written in C++ with support for parallel computation.
Documentation is available via several vignettes in this page, and the
paper by Helske and Helske (2019, <doi:10.18637/jss.v088.i03>).
Author: Jouni Helske [aut, cre] (<https://orcid.org/0000-0001-7130-793X>),
Satu Helske [aut] (<https://orcid.org/0000-0003-0532-0153>)
Maintainer: Jouni Helske <jouni.helske@iki.fi>
Diff between seqHMM versions 1.0.13 dated 2019-06-17 and 1.0.14 dated 2019-10-22
seqHMM-1.0.13/seqHMM/vignettes/code_plottingHMMbasic-1.pdf |only seqHMM-1.0.13/seqHMM/vignettes/code_plottingMHMMbasic-1.pdf |only seqHMM-1.0.13/seqHMM/vignettes/graphicalillustrations2-1.pdf |only seqHMM-1.0.13/seqHMM/vignettes/graphicalillustrations5-1.pdf |only seqHMM-1.0.13/seqHMM/vignettes/gridplot1-1.pdf |only seqHMM-1.0.13/seqHMM/vignettes/plottingHMM-1.pdf |only seqHMM-1.0.13/seqHMM/vignettes/plottingsequences-1.pdf |only seqHMM-1.0.13/seqHMM/vignettes/ssplotHMM-1.pdf |only seqHMM-1.0.14/seqHMM/DESCRIPTION | 8 seqHMM-1.0.14/seqHMM/MD5 | 48 seqHMM-1.0.14/seqHMM/NEWS | 4 seqHMM-1.0.14/seqHMM/R/build_mmm.R | 500 +- seqHMM-1.0.14/seqHMM/R/check_deprecated_args.R | 6 seqHMM-1.0.14/seqHMM/R/colorpalette.R | 58 seqHMM-1.0.14/seqHMM/R/mssplot.R | 786 ++-- seqHMM-1.0.14/seqHMM/R/plot.hmm.R | 80 seqHMM-1.0.14/seqHMM/R/posterior_probs.R | 62 seqHMM-1.0.14/seqHMM/R/simulate_hmm.R | 306 - seqHMM-1.0.14/seqHMM/R/ssplot.R | 496 +- seqHMM-1.0.14/seqHMM/build/vignette.rds |binary seqHMM-1.0.14/seqHMM/inst/doc/seqHMM.pdf | 2060 +++++------ seqHMM-1.0.14/seqHMM/inst/doc/seqHMM_algorithms.pdf |binary seqHMM-1.0.14/seqHMM/inst/doc/seqHMM_estimation.Rnw | 356 - seqHMM-1.0.14/seqHMM/inst/doc/seqHMM_estimation.pdf |binary seqHMM-1.0.14/seqHMM/inst/doc/seqHMM_visualization.Rnw | 808 ++-- seqHMM-1.0.14/seqHMM/inst/doc/seqHMM_visualization.pdf |binary seqHMM-1.0.14/seqHMM/man/plot.hmm.Rd | 33 seqHMM-1.0.14/seqHMM/vignettes/seqHMM_estimation.Rnw | 356 - seqHMM-1.0.14/seqHMM/vignettes/seqHMM_visualization.Rnw | 808 ++-- 29 files changed, 3437 insertions(+), 3338 deletions(-)
Title: Mapping Averaged Pairwise Information
Description: Mapping Averaged Pairwise Information (MAPI) is an
exploratory method providing graphical representations summarizing the
spatial variation of pairwise metrics (eg. distance, similarity
coefficient, ...) computed between georeferenced samples.
Author: Sylvain Piry [aut, cre] (<https://orcid.org/0000-0002-7717-7555>),
Thomas Campolunghi [aut],
Florent Cestier [aut],
Karine Berthier [aut] (<https://orcid.org/0000-0002-2260-7968>)
Maintainer: Sylvain Piry <sylvain.piry@inra.fr>
Diff between mapi versions 1.0.0-62 dated 2018-10-30 and 1.0.1 dated 2019-10-22
DESCRIPTION | 55 ++++++++---- MD5 | 63 +++++++------ NAMESPACE | 21 +++- NEWS.md |only R/MAPI_CheckData.R | 23 +++-- R/MAPI_EstimateHalfwidth.R | 2 R/MAPI_GridAuto.R | 2 R/MAPI_GridHexagonal.R | 1 R/MAPI_Plot.R | 13 +- R/MAPI_Plot2.R |only R/MAPI_RunAuto.R | 6 - R/MAPI_RunOnGrid.R | 24 ++--- R/MAPI_Tails.R | 8 - R/RcppExports.R | 12 +- R/mapi.R | 45 +++++---- README.md |only data/metric.rda |binary data/samples.rda |binary inst/CITATION | 16 +-- inst/WORDLIST |only man/MAPI_CheckData.Rd | 14 +-- man/MAPI_EstimateHalfwidth.Rd | 8 - man/MAPI_GridAuto.Rd | 22 ++-- man/MAPI_GridHexagonal.Rd | 12 +- man/MAPI_Plot.Rd | 18 +-- man/MAPI_Plot2.Rd |only man/MAPI_RunAuto.Rd | 62 +++++++------ man/MAPI_RunOnGrid.Rd | 72 ++++++++------- man/MAPI_Tails.Rd | 32 +++---- man/figures/mapiPlotOutput.png |binary man/mapi.Rd | 185 ++++++++++++++++++++--------------------- man/metric.Rd | 2 man/samples.Rd | 4 src/MAPI.cpp | 30 ++++++ src/RcppExports.cpp | 15 +++ 35 files changed, 445 insertions(+), 322 deletions(-)
Title: A Tidy Data Model for Natural Language Processing
Description: Provides a set of fast tools for converting a textual corpus into
a set of normalized tables. Users may make use of the 'udpipe' back end with
no external dependencies, or two Python back ends with 'spaCy'
<https://spacy.io> or 'CoreNLP' <http://stanfordnlp.github.io/CoreNLP/>.
Exposed annotation tasks include tokenization, part of speech tagging, named
entity recognition, and dependency parsing.
Author: Taylor B. Arnold [aut, cre]
Maintainer: Taylor B. Arnold <taylor.arnold@acm.org>
Diff between cleanNLP versions 2.3.0 dated 2018-11-18 and 3.0.0 dated 2019-10-22
cleanNLP-2.3.0/cleanNLP/R/accessors.R |only cleanNLP-2.3.0/cleanNLP/R/annotate_tools.R |only cleanNLP-2.3.0/cleanNLP/R/backend_tokenizers.R |only cleanNLP-2.3.0/cleanNLP/R/io.R |only cleanNLP-2.3.0/cleanNLP/R/renamed.R |only cleanNLP-2.3.0/cleanNLP/build |only cleanNLP-2.3.0/cleanNLP/data/dep_frequency.rda |only cleanNLP-2.3.0/cleanNLP/data/obama.rda |only cleanNLP-2.3.0/cleanNLP/data/pos_frequency.rda |only cleanNLP-2.3.0/cleanNLP/inst/doc |only cleanNLP-2.3.0/cleanNLP/inst/extdata/CoreNLP-to-HTML.xsl |only cleanNLP-2.3.0/cleanNLP/inst/extdata/StanfordCoreNLP-arabic.properties |only cleanNLP-2.3.0/cleanNLP/inst/extdata/StanfordCoreNLP-chinese.properties |only cleanNLP-2.3.0/cleanNLP/inst/extdata/StanfordCoreNLP-english-all.properties |only cleanNLP-2.3.0/cleanNLP/inst/extdata/StanfordCoreNLP-english-fast.properties |only cleanNLP-2.3.0/cleanNLP/inst/extdata/StanfordCoreNLP-french.properties |only cleanNLP-2.3.0/cleanNLP/inst/extdata/StanfordCoreNLP-german.properties |only cleanNLP-2.3.0/cleanNLP/inst/extdata/StanfordCoreNLP-spanish.properties |only cleanNLP-2.3.0/cleanNLP/inst/extdata/StanfordCoreNLP.properties |only cleanNLP-2.3.0/cleanNLP/inst/extdata/cleanNLP-0.1.jar |only cleanNLP-2.3.0/cleanNLP/inst/py |only cleanNLP-2.3.0/cleanNLP/java |only cleanNLP-2.3.0/cleanNLP/man/cnlp_combine_documents.Rd |only cleanNLP-2.3.0/cleanNLP/man/cnlp_download_udpipe.Rd |only cleanNLP-2.3.0/cleanNLP/man/cnlp_extract_documents.Rd |only cleanNLP-2.3.0/cleanNLP/man/cnlp_get_coreference.Rd |only cleanNLP-2.3.0/cleanNLP/man/cnlp_get_dependency.Rd |only cleanNLP-2.3.0/cleanNLP/man/cnlp_get_document.Rd |only cleanNLP-2.3.0/cleanNLP/man/cnlp_get_entity.Rd |only cleanNLP-2.3.0/cleanNLP/man/cnlp_get_sentence.Rd |only cleanNLP-2.3.0/cleanNLP/man/cnlp_get_token.Rd |only cleanNLP-2.3.0/cleanNLP/man/cnlp_get_vector.Rd |only cleanNLP-2.3.0/cleanNLP/man/cnlp_init_tokenizers.Rd |only cleanNLP-2.3.0/cleanNLP/man/cnlp_quick.Rd |only cleanNLP-2.3.0/cleanNLP/man/cnlp_read_conll.Rd |only cleanNLP-2.3.0/cleanNLP/man/cnlp_read_csv.Rd |only cleanNLP-2.3.0/cleanNLP/man/cnlp_write_conll.Rd |only cleanNLP-2.3.0/cleanNLP/man/cnlp_write_csv.Rd |only cleanNLP-2.3.0/cleanNLP/man/dep_frequency.Rd |only cleanNLP-2.3.0/cleanNLP/man/obama.Rd |only cleanNLP-2.3.0/cleanNLP/man/pos_frequency.Rd |only cleanNLP-2.3.0/cleanNLP/man/print.annotation.Rd |only cleanNLP-2.3.0/cleanNLP/man/renamed.Rd |only cleanNLP-2.3.0/cleanNLP/tests/testthat/test-annotation_utils.R |only cleanNLP-2.3.0/cleanNLP/tests/testthat/test-java.R |only cleanNLP-2.3.0/cleanNLP/tests/testthat/test-python.R |only cleanNLP-2.3.0/cleanNLP/tests/testthat/test-tokenizers.R |only cleanNLP-2.3.0/cleanNLP/tests/testthat/test-udpipe.R |only cleanNLP-2.3.0/cleanNLP/vignettes |only cleanNLP-3.0.0/cleanNLP/DESCRIPTION | 35 cleanNLP-3.0.0/cleanNLP/MD5 | 144 -- cleanNLP-3.0.0/cleanNLP/NAMESPACE | 39 cleanNLP-3.0.0/cleanNLP/NEWS.md | 45 cleanNLP-3.0.0/cleanNLP/R/annotate.R | 235 ---- cleanNLP-3.0.0/cleanNLP/R/backend_corenlp.R | 578 ---------- cleanNLP-3.0.0/cleanNLP/R/backend_spacy.R | 190 --- cleanNLP-3.0.0/cleanNLP/R/backend_stringi.R |only cleanNLP-3.0.0/cleanNLP/R/backend_udpipe.R | 305 ----- cleanNLP-3.0.0/cleanNLP/R/data.R | 33 cleanNLP-3.0.0/cleanNLP/R/download.R | 231 --- cleanNLP-3.0.0/cleanNLP/R/init.R |only cleanNLP-3.0.0/cleanNLP/R/onLoad.R | 32 cleanNLP-3.0.0/cleanNLP/R/pkg.R | 61 - cleanNLP-3.0.0/cleanNLP/R/tools.R | 354 ++---- cleanNLP-3.0.0/cleanNLP/data/datalist | 3 cleanNLP-3.0.0/cleanNLP/data/un.rda |binary cleanNLP-3.0.0/cleanNLP/inst/extdata/README.md |only cleanNLP-3.0.0/cleanNLP/man/cleanNLP-package.Rd | 56 cleanNLP-3.0.0/cleanNLP/man/cnlp_annotate.Rd | 63 - cleanNLP-3.0.0/cleanNLP/man/cnlp_download_corenlp.Rd | 46 cleanNLP-3.0.0/cleanNLP/man/cnlp_download_spacy.Rd |only cleanNLP-3.0.0/cleanNLP/man/cnlp_init_corenlp.Rd | 84 - cleanNLP-3.0.0/cleanNLP/man/cnlp_init_spacy.Rd | 14 cleanNLP-3.0.0/cleanNLP/man/cnlp_init_stringi.Rd |only cleanNLP-3.0.0/cleanNLP/man/cnlp_init_udpipe.Rd | 14 cleanNLP-3.0.0/cleanNLP/man/cnlp_utils_pca.Rd | 33 cleanNLP-3.0.0/cleanNLP/man/cnlp_utils_tfidf.Rd | 83 - cleanNLP-3.0.0/cleanNLP/tests/testthat/test-annotation.R |only cleanNLP-3.0.0/cleanNLP/tests/testthat/test-tools.R | 60 - 79 files changed, 527 insertions(+), 2211 deletions(-)
Title: Functions for Forest Biometrics
Description: Functions for different purposes related to Forest biometrics, including illustrative graphics, numerical computation, modeling height-diameter relationships, prediction of tree volumes, modelling of diameter distributions and estimation off stand density using ITD. Several empirical datasets are also included.
Author: Lauri Mehtatalo
Maintainer: Lauri Mehtatalo <lauri.mehtatalo@uef.fi>
Diff between lmfor versions 1.3 dated 2019-03-13 and 1.4 dated 2019-10-22
lmfor-1.3/lmfor/data/plants.RData |only lmfor-1.3/lmfor/man/plants.Rd |only lmfor-1.4/lmfor/DESCRIPTION | 10 ++++----- lmfor-1.4/lmfor/MD5 | 38 +++++++++++++++++------------------ lmfor-1.4/lmfor/NAMESPACE | 13 ++++++++--- lmfor-1.4/lmfor/R/HTest_cps.R |only lmfor-1.4/lmfor/R/lmfor.R | 13 ++++++++--- lmfor-1.4/lmfor/data/afterthin.RData |binary lmfor-1.4/lmfor/data/alsTree.RData |binary lmfor-1.4/lmfor/data/foto.RData |binary lmfor-1.4/lmfor/data/ips.RData |binary lmfor-1.4/lmfor/data/patti.RData |binary lmfor-1.4/lmfor/data/plants2.RData |binary lmfor-1.4/lmfor/data/spati.RData |binary lmfor-1.4/lmfor/data/spati2.RData |binary lmfor-1.4/lmfor/data/stumplift.RData |binary lmfor-1.4/lmfor/man/HTest_cps.Rd |only lmfor-1.4/lmfor/man/NR.Rd | 4 +-- lmfor-1.4/lmfor/man/NRnum.Rd | 12 +++++------ lmfor-1.4/lmfor/man/ddcomp.Rd | 22 +++++++++++--------- lmfor-1.4/lmfor/man/lmfor-package.Rd | 8 +++---- lmfor-1.4/lmfor/man/spati.Rd | 2 - 22 files changed, 68 insertions(+), 54 deletions(-)
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2014-12-18 1.1.0
2014-11-20 1.0.0
Title: Create Simple Packages Which Do not Upset R Package Checks
Description: Provides a function kitten() which creates cute little
packages which pass R package checks. This sets it apart from
package.skeleton() which it calls, and which leaves imperfect files
behind. As this is not exactly helpful for beginners, kitten() offers
an alternative.
Author: Dirk Eddelbuettel
Maintainer: Dirk Eddelbuettel <edd@debian.org>
Diff between pkgKitten versions 0.1.4 dated 2016-11-13 and 0.1.5 dated 2019-10-22
ChangeLog | 36 ++++++++++++++++++++++++ DESCRIPTION | 8 ++--- MD5 | 16 ++++++---- R/pkgKitten.R | 50 +++++++++++++++++++++------------- README.md | 4 +- inst/NEWS.Rd | 17 +++++++++-- inst/replacements/manual-page-stub.Rd | 28 ++----------------- inst/skel |only man/playWithPerPackageHelpPage.Rd | 2 - 9 files changed, 101 insertions(+), 60 deletions(-)
Title: Multilevel Joint Modelling Multiple Imputation
Description: Similarly to Schafer's package 'pan', 'jomo' is a package for multilevel joint modelling multiple imputation (Carpenter and Kenward, 2013) <doi: 10.1002/9781119942283>.
Novel aspects of 'jomo' are the possibility of handling binary and categorical data through latent normal variables, the option to use cluster-specific covariance matrices and to impute compatibly with the substantive model.
Author: Matteo Quartagno, James Carpenter
Maintainer: Matteo Quartagno <m.quartagno@ucl.ac.uk>
Diff between jomo versions 2.6-9 dated 2019-07-29 and 2.6-10 dated 2019-10-22
DESCRIPTION | 8 +++--- MD5 | 58 ++++++++++++++++++++++---------------------- R/jomo.clmm.MCMCchain.R | 5 +++ R/jomo.clmm.R | 5 +++ R/jomo.glmer.MCMCchain.R | 5 +++ R/jomo.glmer.R | 5 +++ R/jomo.lmer.MCMCchain.R | 5 +++ R/jomo.lmer.R | 5 +++ R/jomo1cat.MCMCchain.R | 3 +- R/jomo1cat.R | 1 R/jomo1con.MCMCchain.R | 3 +- R/jomo1con.R | 3 +- R/jomo1mix.MCMCchain.R | 3 +- R/jomo1mix.R | 3 +- R/jomo1rancat.MCMCchain.R | 6 +++- R/jomo1rancat.R | 4 ++- R/jomo1rancathr.MCMCchain.R | 4 ++- R/jomo1rancathr.R | 6 +++- R/jomo1rancon.MCMCchain.R | 6 +++- R/jomo1rancon.R | 6 +++- R/jomo1ranconhr.MCMCchain.R | 6 +++- R/jomo1ranconhr.R | 6 +++- R/jomo1ranmix.MCMCchain.R | 4 ++- R/jomo1ranmix.R | 6 +++- R/jomo1ranmixhr.MCMCchain.R | 4 ++- R/jomo1ranmixhr.R | 6 +++- R/jomo2com.MCMCchain.R | 7 +++-- R/jomo2com.R | 7 +++-- R/jomo2hr.MCMCchain.R | 9 ++++-- R/jomo2hr.R | 7 +++-- 30 files changed, 139 insertions(+), 67 deletions(-)
Title: A Tidy Approach to 'NetCDF' Data Exploration and Extraction
Description: Tidy tools for 'NetCDF' data sources. Explore the contents of a
'NetCDF' source (file or URL) presented as variables organized by grid with a
database-like interface. The hyper_filter() interactive function translates the
filter value or index expressions to array-slicing form. No data is read until
explicitly requested, as a data frame or list of arrays via hyper_tibble() or
hyper_array().
Author: Michael Sumner [aut, cre],
Simon Wotherspoon [ctb],
Tomas Remenyi [ctb],
Ben Raymond [ctb],
Jakub Nowosad [ctb],
Tim Lucas [ctb]
Maintainer: Michael Sumner <mdsumner@gmail.com>
Diff between tidync versions 0.2.1 dated 2019-05-23 and 0.2.2 dated 2019-10-22
DESCRIPTION | 8 ++--- MD5 | 29 ++++++++++--------- NEWS.md | 9 +++++- R/hyper_filter.R | 9 ++++-- R/tidync.R | 1 README.md | 54 ++++++++++++++++++++++-------------- build/vignette.rds |binary inst/blog |only inst/doc/netcdf-with-tidync.Rmd | 2 - inst/doc/netcdf-with-tidync.html | 16 ++++++---- man/hyper_filter.Rd | 3 ++ tests/testthat/test-files-sources.R | 2 - tests/testthat/test-thredds.R | 2 - tests/testthat/test-utils.R | 4 +- vignettes/netcdf-with-tidync.Rmd | 2 - 15 files changed, 87 insertions(+), 54 deletions(-)
Title: (Robust) Mediation Analysis
Description: Perform mediation analysis via a (fast and robust) bootstrap test.
Author: Andreas Alfons [aut, cre]
Maintainer: Andreas Alfons <alfons@ese.eur.nl>
Diff between robmed versions 0.4.0 dated 2019-09-13 and 0.5.0 dated 2019-10-22
robmed-0.4.0/robmed/R/robmed-deprecated.R |only robmed-0.4.0/robmed/man/robmed-deprecated.Rd |only robmed-0.5.0/robmed/DESCRIPTION | 8 robmed-0.5.0/robmed/MD5 | 102 ++++------ robmed-0.5.0/robmed/NAMESPACE | 10 robmed-0.5.0/robmed/NEWS | 10 robmed-0.5.0/robmed/R/coef.R | 10 robmed-0.5.0/robmed/R/confint.R | 12 - robmed-0.5.0/robmed/R/fit_mediation.R | 18 - robmed-0.5.0/robmed/R/fortify.R | 6 robmed-0.5.0/robmed/R/plot.R | 2 robmed-0.5.0/robmed/R/print.R | 8 robmed-0.5.0/robmed/R/summary.R | 44 ++-- robmed-0.5.0/robmed/R/test_mediation.R | 56 ++--- robmed-0.5.0/robmed/README.md | 5 robmed-0.5.0/robmed/build/partial.rdb |binary robmed-0.5.0/robmed/data/BSG2014.RData |binary robmed-0.5.0/robmed/man/fit_mediation.Rd | 4 robmed-0.5.0/robmed/man/plot_mediation.Rd | 4 robmed-0.5.0/robmed/man/test_mediation.Rd | 4 robmed-0.5.0/robmed/tests/testthat/test-median_bootstrap-regression-multiple-covariates.R | 52 ++--- robmed-0.5.0/robmed/tests/testthat/test-median_bootstrap-regression-multiple-no_covariates.R | 52 ++--- robmed-0.5.0/robmed/tests/testthat/test-median_bootstrap-regression-simple-covariates.R | 52 ++--- robmed-0.5.0/robmed/tests/testthat/test-median_bootstrap-regression-simple-no_covariates.R | 52 ++--- robmed-0.5.0/robmed/tests/testthat/test-median_fit-regression-multiple-covariates.R | 14 - robmed-0.5.0/robmed/tests/testthat/test-median_fit-regression-multiple-no_covariates.R | 14 - robmed-0.5.0/robmed/tests/testthat/test-median_fit-regression-simple-covariates.R | 14 - robmed-0.5.0/robmed/tests/testthat/test-median_fit-regression-simple-no_covariates.R | 14 - robmed-0.5.0/robmed/tests/testthat/test-median_sobel-regression.R | 24 +- robmed-0.5.0/robmed/tests/testthat/test-robust_bootstrap-covariance.R | 52 ++--- robmed-0.5.0/robmed/tests/testthat/test-robust_bootstrap-regression-multiple-covariates.R | 52 ++--- robmed-0.5.0/robmed/tests/testthat/test-robust_bootstrap-regression-multiple-no_covariates.R | 52 ++--- robmed-0.5.0/robmed/tests/testthat/test-robust_bootstrap-regression-simple-covariates.R | 52 ++--- robmed-0.5.0/robmed/tests/testthat/test-robust_bootstrap-regression-simple-no_covariates.R | 52 ++--- robmed-0.5.0/robmed/tests/testthat/test-robust_fit-covariance.R | 12 - robmed-0.5.0/robmed/tests/testthat/test-robust_fit-regression-multiple-covariates.R | 14 - robmed-0.5.0/robmed/tests/testthat/test-robust_fit-regression-multiple-no_covariates.R | 14 - robmed-0.5.0/robmed/tests/testthat/test-robust_fit-regression-simple-covariates.R | 14 - robmed-0.5.0/robmed/tests/testthat/test-robust_fit-regression-simple-no_covariates.R | 14 - robmed-0.5.0/robmed/tests/testthat/test-robust_sobel-covariance.R | 24 +- robmed-0.5.0/robmed/tests/testthat/test-robust_sobel-regression.R | 24 +- robmed-0.5.0/robmed/tests/testthat/test-standard_bootstrap-covariance.R | 52 ++--- robmed-0.5.0/robmed/tests/testthat/test-standard_bootstrap-regression-multiple-covariates.R | 52 ++--- robmed-0.5.0/robmed/tests/testthat/test-standard_bootstrap-regression-multiple-no_covariates.R | 52 ++--- robmed-0.5.0/robmed/tests/testthat/test-standard_bootstrap-regression-simple-covariates.R | 52 ++--- robmed-0.5.0/robmed/tests/testthat/test-standard_bootstrap-regression-simple-no_covariates.R | 52 ++--- robmed-0.5.0/robmed/tests/testthat/test-standard_fit-covariance.R | 12 - robmed-0.5.0/robmed/tests/testthat/test-standard_fit-regression-multiple-covariates.R | 16 - robmed-0.5.0/robmed/tests/testthat/test-standard_fit-regression-multiple-no_covariates.R | 16 - robmed-0.5.0/robmed/tests/testthat/test-standard_fit-regression-simple-covariates.R | 16 - robmed-0.5.0/robmed/tests/testthat/test-standard_fit-regression-simple-no_covariates.R | 16 - robmed-0.5.0/robmed/tests/testthat/test-standard_sobel-covariance.R | 24 +- robmed-0.5.0/robmed/tests/testthat/test-standard_sobel-regression.R | 24 +- 53 files changed, 671 insertions(+), 680 deletions(-)
Title: Litter Analysis
Description: Data sets on various litter types like beach litter, riverain
litter, floating litter, and seafloor litter are rapidly growing. This
package offers a simple user interface to analyse these litter data in
a consistent and reproducible way. It also provides functions to
facilitate several kinds of litter analysis, e.g., trend analysis,
power analysis, and baseline analysis. Under the hood, these functions
are also used by the user interface. See Schulz et al. (2019)
<doi:10.1016/j.envpol.2019.02.030> for details. MS-Windows users are
advised to run 'litteR' in 'RStudio'. See our vignette: Installation manual
for 'RStudio' and 'litteR'.
Author: Dennis Walvoort [aut, cre, cph],
Willem van Loon [aut, cph],
Rijkswaterstaat - The Netherlands [cph, fnd, dtc]
Maintainer: Dennis Walvoort <dennis.Walvoort@wur.nl>
Diff between litteR versions 0.6.4 dated 2019-10-17 and 0.6.5 dated 2019-10-22
DESCRIPTION | 8 +- MD5 | 14 ++-- NEWS.md | 5 + build/partial.rdb |binary inst/doc/litter-installation.html | 4 - inst/doc/litter-manual.Rmd | 42 ++++++------ inst/doc/litter-manual.html | 132 +++++++++++++++++++------------------- vignettes/litter-manual.Rmd | 42 ++++++------ 8 files changed, 132 insertions(+), 115 deletions(-)
Title: Causal Effect Identification from Multiple Incomplete Data
Sources
Description: Identification of causal effects from arbitrary observational and experimental probability
distributions via do-calculus and standard probability manipulations using a search-based algorithm.
Allows for the presence of mechanisms related to selection bias (Bareinboim, E. and Tian, J. (2015)
<http://ftp.cs.ucla.edu/pub/stat_ser/r445.pdf>), transportability (Bareinboim, E. and Pearl, J. (2014)
<http://ftp.cs.ucla.edu/pub/stat_ser/r443.pdf>), missing data (Mohan, K. and Pearl, J. and Tian., J.
(2013) <http://ftp.cs.ucla.edu/pub/stat_ser/r410.pdf>) and arbitrary combinations of these. Also supports
identification in the presence of context-specific independence (CSI) relations through labeled directed
acyclic graphs (LDAG). For details on CSIs see Corander et al. (2019) <doi:10.1016/j.apal.2019.04.004>.
For further information on the search-based approach see Tikka et al. (2019) <arXiv:1902.01073>.
Author: Santtu Tikka [aut, cre] (<https://orcid.org/0000-0003-4039-4342>),
Antti Hyttinen [ctb] (<https://orcid.org/0000-0002-6649-3229>),
Juha Karvanen [ctb] (<https://orcid.org/0000-0001-5530-769X>)
Maintainer: Santtu Tikka <santtuth@gmail.com>
Diff between dosearch versions 1.0.3 dated 2019-10-18 and 1.0.4 dated 2019-10-22
DESCRIPTION | 8 MD5 | 30 - NAMESPACE | 6 NEWS | 33 - R/RcppExports.R | 22 - R/dosearch.R | 42 +- R/get_derivation_dag.R | 822 +++++++++++++++++++-------------------- R/get_derivation_ldag.R | 884 +++++++++++++++++++++---------------------- R/to_dec.R | 6 R/to_vec.R | 16 inst/CITATION | 24 - man/bivariate_missingness.Rd | 44 +- man/dosearch-package.Rd | 256 ++++++------ man/dosearch.Rd | 512 ++++++++++++------------ src/Makevars |only src/Makevars.win |only src/ldag.h | 1 17 files changed, 1356 insertions(+), 1350 deletions(-)
Title: The One-Way Heteroscedastic ANOVA Tests
Description: Contains the heteroscedastic ANOVA tests for normal and two-parameter exponential distributed populations. For normal distributions, Alexander-Govern test by Alexandern and Govern (1994) <doi:10.2307/1165140>, Alvandi et al. Generalized F test by Alvandi et al. (2012) <doi:10.1080/03610926.2011.573160>, Approximate F test by Asiribo and Gurland (1990) <doi:10.1080/03610929008830427>, Box F test by Box (1954) <doi:10.1214/aoms/1177728786>, Brown-Forsythe test by Brown and Forsythe (1974) <do:10.2307/1267501>, B2 test by Ozdemir and Kurt (2006) <http://sjam.selcuk.edu.tr/sjam/article/view/174>, Cochran F test by Cochran (1937) <https://www.jstor.org/stable/pdf/2984123.pdf>, Fiducial Approach test by Li et al. (2011) <doi:10.1016/j.csda.2010.12.009>, Generalized F test by Weerahandi (1995) <doi:10.2307/2532947>, Johansen F test by Johansen (1980) <doi:10.1093/biomet/67.1.85>, Modified Brown-Forsythe test by Mehrotra (1997) <doi:10.1080/03610919708813431>, Modified Welch test by Hartung et al.(2002) <doi:10.1007/s00362-002-0097-8>, One-Stage test by Chen and Chen (1998) <doi:10.1080/03610919808813501>, One-Stage Range test by Chen and Chen (2000) <doi:10.1080/01966324.2000.10737505>, Parametric Bootstrap test by Krishnamoorhty et al.(2007) <doi:10.1016/j.csda.2006.09.039>, Permutation F test by Berry and Mielke (2002) <doi:10.2466/pr0.2002.90.2.495>, Scott-Smith test by Scott and Smith (1971) <doi:10.2307/2346757>, Welch test by Welch(1951) <doi:10.2307/2332579>, and Welch-Aspin test by Aspin (1948) <doi:10.1093/biomet/35.1-2.88>. These tests are used to test the equality of group means under unequal variance. Also, a modified version of Generalized F-test is improved to test the equality of non-normal group means under unequal variances and a revised version of Generalized F-test is given to test the equality of non-normal group means caused by skewness. Furthermore, it consists some procedures for testing equality of several two-parameter exponentially distributed population means under unequal scale parameters such as generalized p-value, parametric bootstrap and fiducial approach test by Malekzadeh and Jafari (2019) <doi:10.1080/03610918.2018.1538452>. There is also Hsieh test by Hsieh (1986) <doi:10.2307/1270452> for testing equality of location parameters of two-parameter exponentially distributed populations under unequal scale parameters.
Author: Mustafa CAVUS, Berna YAZICI
Maintainer: Mustafa CAVUS <mustafacavus@eskisehir.edu.tr>
Diff between doex versions 1.1 dated 2019-05-13 and 1.2 dated 2019-10-22
DESCRIPTION | 8 ++++---- MD5 | 12 +++++++++++- R/FAtestforexponential.R |only R/GPVtestforexponential.R |only R/Hsiehtest.R |only R/PBtestforexponential.R |only R/componentdata.R |only man/FAtestforexponential.Rd |only man/GPVtestforexponential.Rd |only man/Hsiehtest.Rd |only man/PBtestforexponential.Rd |only man/componentdata.Rd |only 12 files changed, 15 insertions(+), 5 deletions(-)
Title: Transformation Models
Description: Formula-based user-interfaces to specific transformation models
implemented in package 'mlt'. Available models include Cox models, some parametric
survival models (Weibull, etc.), models for ordered categorical variables,
normal and non-normal (Box-Cox type) linear models, and continuous outcome logistic regression
(Lohse et al., 2017, <DOI:10.12688/f1000research.12934.1>). The underlying theory
is described in Hothorn et al. (2018) <DOI:10.1111/sjos.12291>. An extension to
transformation models for clustered data is provided.
Author: Torsten Hothorn [aut, cre] (<https://orcid.org/0000-0001-8301-0471>)
Maintainer: Torsten Hothorn <Torsten.Hothorn@R-project.org>
Diff between tram versions 0.2-6 dated 2019-06-23 and 0.3-0 dated 2019-10-22
tram-0.2-6/tram/cleanup |only tram-0.3-0/tram/DESCRIPTION | 19 +- tram-0.3-0/tram/MD5 | 41 ++--- tram-0.3-0/tram/NAMESPACE | 12 + tram-0.3-0/tram/R/methods.R | 32 ++- tram-0.3-0/tram/R/mtram.R |only tram-0.3-0/tram/R/tram.R | 13 + tram-0.3-0/tram/build/partial.rdb |binary tram-0.3-0/tram/build/vignette.rds |binary tram-0.3-0/tram/inst/NEWS.Rd | 23 ++ tram-0.3-0/tram/inst/doc/mtram.R |only tram-0.3-0/tram/inst/doc/mtram.Rnw |only tram-0.3-0/tram/inst/doc/mtram.pdf |only tram-0.3-0/tram/inst/doc/tram.R | 116 ++++++-------- tram-0.3-0/tram/inst/doc/tram.Rnw | 168 ++++++++++---------- tram-0.3-0/tram/inst/doc/tram.pdf |binary tram-0.3-0/tram/man/mtram.Rd |only tram-0.3-0/tram/man/tram-methods.Rd | 3 tram-0.3-0/tram/src |only tram-0.3-0/tram/tests/Coxph-Ex.R | 4 tram-0.3-0/tram/tests/Coxph-Ex.Rout.save | 10 - tram-0.3-0/tram/tests/bugfixes.R | 15 + tram-0.3-0/tram/vignettes/mlt.bib | 251 ++++++++++++++++++++++++++----- tram-0.3-0/tram/vignettes/mtram.Rnw |only tram-0.3-0/tram/vignettes/tram.Rnw | 168 ++++++++++---------- 25 files changed, 562 insertions(+), 313 deletions(-)
Title: Computing F-Statistics from Pool-Seq Data
Description: Functions for the computation of F-statistics from Pool-Seq data in population genomics studies. The package also includes several utilities to manipulate Pool-Seq data stored in standard format ('vcf' or 'rsync' files generated by the the 'PoPoolation' software) and perform conversion to alternative format (as used in the 'BayPass' and 'SelEstim' software).
Author: Mathieu Gautier, Valentin Hivert and Renaud Vitalis
Maintainer: Mathieu Gautier <mathieu.gautier@inra.fr>
Diff between poolfstat versions 1.1.0 dated 2019-06-20 and 1.1.1 dated 2019-10-22
ChangeLog | 9 +++++++-- DESCRIPTION | 6 +++--- MD5 | 16 ++++++++-------- R/pooldata2genobaypass.R | 8 ++++---- R/pooldata2genoselestim.R | 6 +++--- R/vcf2pooldata.R | 5 ++++- inst/CITATION | 10 +++++----- man/pooldata2genobaypass.Rd | 2 +- man/pooldata2genoselestim.Rd | 2 +- 9 files changed, 36 insertions(+), 28 deletions(-)
Title: Effect Stars
Description: Provides functions for the method of effect stars as proposed by Tutz and Schauberger (2013) <doi:10.1080/10618600.2012.701379>. Effect stars can be used to visualize estimates of parameters corresponding to different groups, for example in multinomial logit models. Beside the main function 'effectstars' there exist methods for special objects, for example for 'vglm' objects from the 'VGAM' package.
Author: Gunther Schauberger
Maintainer: Gunther Schauberger <gunther.schauberger@tum.de>
Diff between EffectStars2 versions 0.1-2 dated 2018-04-04 and 0.1-3 dated 2019-10-22
DESCRIPTION | 12 ++++++------ MD5 | 26 +++++++++++++------------- R/EffectStars2-package.R | 6 ++---- R/effect.stars.DIFboost.R | 6 ++---- R/effect.stars.DIFlasso.R | 6 ++---- R/effect.stars.R | 6 ++---- R/effect.stars.vglm.R | 6 ++---- R/star.ctrl.R | 6 ++---- man/EffectStars2-package.Rd | 6 ++---- man/effectstars.DIFboost.Rd | 6 ++---- man/effectstars.DIFlasso.Rd | 6 ++---- man/effectstars.default.Rd | 11 +++++------ man/effectstars.vglm.Rd | 6 ++---- man/star.ctrl.Rd | 6 ++---- 14 files changed, 46 insertions(+), 69 deletions(-)
Title: Visualization of Categorical Response Models
Description: Notice: The package EffectStars2 provides a more up-to-date implementation of effect stars! EffectStars provides functions to visualize regression models with categorical response as proposed by Tutz and Schauberger (2013) <doi:10.1080/10618600.2012.701379>. The effects of the variables are plotted with star plots in order to allow for an optical impression of the fitted model.
Author: Gunther Schauberger
Maintainer: Gunther Schauberger <gunther.schauberger@tum.de>
Diff between EffectStars versions 1.9 dated 2018-04-04 and 1.9-1 dated 2019-10-22
DESCRIPTION | 10 +++++----- MD5 | 10 +++++----- man/EffectStars-package.Rd | 4 ++-- man/star.cumulative.Rd | 4 ++-- man/star.nominal.Rd | 4 ++-- man/star.sequential.Rd | 4 ++-- 6 files changed, 18 insertions(+), 18 deletions(-)
Title: Tensor Regression with Envelope Structure and Three Generic
Envelope Estimation Approaches
Description: Provides three estimators for tensor response regression (TRR) and tensor predictor regression (TPR) models with tensor envelope structure. The three types of estimation approaches are generic and can be applied to any envelope estimation problems. The full Grassmannian (FG) optimization is often associated with likelihood-based estimation but requires heavy computation and good initialization; the one-directional optimization approaches (1D and ECD algorithms) are faster, stable and does not require carefully chosen initial values; the SIMPLS-type is motivated by the partial least squares regression and is computationally the least expensive.
Author: Wenjing Wang [aut],
Jing Zeng [aut, cre],
Xin Zhang [aut]
Maintainer: Jing Zeng <jing.zeng@stat.fsu.edu>
Diff between TRES versions 0.1.0 dated 2018-11-26 and 1.0.0 dated 2019-10-22
TRES-0.1.0/TRES/man/FG_TPR.Rd |only TRES-0.1.0/TRES/man/FG_TRR.Rd |only TRES-0.1.0/TRES/man/Tenv.Rd |only TRES-1.0.0/TRES/DESCRIPTION | 28 +- TRES-1.0.0/TRES/MD5 | 93 +++++--- TRES-1.0.0/TRES/NAMESPACE | 83 ++++--- TRES-1.0.0/TRES/NEWS.md |only TRES-1.0.0/TRES/R/FG_TPR.R | 204 ++++++++++++----- TRES-1.0.0/TRES/R/FG_TRR.R | 170 ++++++++++---- TRES-1.0.0/TRES/R/PMSE.R | 54 +++- TRES-1.0.0/TRES/R/TPR.R | 331 ++++++++++++++++------------- TRES-1.0.0/TRES/R/TPR_sim.R |only TRES-1.0.0/TRES/R/TRES-deprecated.R |only TRES-1.0.0/TRES/R/TRR.R | 163 ++++++++------ TRES-1.0.0/TRES/R/TRR_sim.R |only TRES-1.0.0/TRES/R/TensEnv_dim.R | 96 ++++---- TRES-1.0.0/TRES/R/TensPLS_cv2d3d.R | 146 ++++++------ TRES-1.0.0/TRES/R/TensPLS_fit.R | 102 ++++---- TRES-1.0.0/TRES/R/Tenv.R | 135 +++++++---- TRES-1.0.0/TRES/R/Tenv_Pval.R | 92 ++++---- TRES-1.0.0/TRES/R/bat.R |only TRES-1.0.0/TRES/R/manifold1D.R | 199 ++++++++--------- TRES-1.0.0/TRES/R/manifoldFG.R | 129 +++++------ TRES-1.0.0/TRES/R/plot.Tenv.R |only TRES-1.0.0/TRES/R/predict.Tenv.R |only TRES-1.0.0/TRES/R/print.Tenv.R |only TRES-1.0.0/TRES/R/square.R |only TRES-1.0.0/TRES/R/summary.Tenv.R |only TRES-1.0.0/TRES/R/vcov.Tenv.R |only TRES-1.0.0/TRES/README.md |only TRES-1.0.0/TRES/data |only TRES-1.0.0/TRES/man/EnvMU.Rd | 52 ++-- TRES-1.0.0/TRES/man/FG_TPR-deprecated.Rd |only TRES-1.0.0/TRES/man/FG_TRR-deprecated.Rd |only TRES-1.0.0/TRES/man/MenvU_sim.Rd | 66 ++--- TRES-1.0.0/TRES/man/OptManiMulitBallGBB.Rd | 76 +++--- TRES-1.0.0/TRES/man/OptStiefelGBB.Rd | 130 +++++------ TRES-1.0.0/TRES/man/PMSE.Rd | 73 ++++-- TRES-1.0.0/TRES/man/TPR.Rd | 176 +++++++-------- TRES-1.0.0/TRES/man/TPR_sim.Rd |only TRES-1.0.0/TRES/man/TRES-deprecated.Rd |only TRES-1.0.0/TRES/man/TRR.Rd | 161 +++++++------- TRES-1.0.0/TRES/man/TRR_sim.Rd |only TRES-1.0.0/TRES/man/TensEnv_dim.Rd | 87 +++++-- TRES-1.0.0/TRES/man/TensPLS_cv2d3d.Rd | 89 +++++-- TRES-1.0.0/TRES/man/TensPLS_fit.Rd | 54 ++-- TRES-1.0.0/TRES/man/Tenv-deprecated.Rd |only TRES-1.0.0/TRES/man/Tenv_Pval.Rd | 62 +++-- TRES-1.0.0/TRES/man/ballGBB1D_bic.Rd | 84 +++---- TRES-1.0.0/TRES/man/bat.Rd |only TRES-1.0.0/TRES/man/fun1D.Rd | 52 ++-- TRES-1.0.0/TRES/man/get_ini1D.Rd | 42 +-- TRES-1.0.0/TRES/man/kroncov.Rd | 50 ++-- TRES-1.0.0/TRES/man/manifold1D.Rd | 132 +++++------ TRES-1.0.0/TRES/man/manifoldFG.Rd | 132 +++++------ TRES-1.0.0/TRES/man/plot.Tenv.Rd |only TRES-1.0.0/TRES/man/predict.Tenv.Rd |only TRES-1.0.0/TRES/man/square.Rd |only TRES-1.0.0/TRES/man/summary.Tenv.Rd |only TRES-1.0.0/TRES/man/ttt.Rd | 58 ++--- TRES-1.0.0/TRES/man/vcov.Tenv.Rd |only 61 files changed, 2004 insertions(+), 1597 deletions(-)
More information about TipDatingBeast at CRAN
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Title: Nonparametric Robust Estimation and Inference Methods using
Local Polynomial Regression and Kernel Density Estimation
Description: Tools for data-driven statistical analysis using local polynomial regression and kernel density estimation methods as described in Calonico, Cattaneo and Farrell (2018): lprobust() for local polynomial point estimation and robust bias-corrected inference and kdrobust() for kernel density point estimation and robust bias-corrected inference. Several optimal bandwidth selection procedures are computed by lpbwselect() and kdbwselect() for local polynomial and kernel density estimation, respectively. Finally, nprobust.plot() for density and regression plots with robust confidence interval.
Author: Sebastian Calonico <sebastian.calonico@columbia.edu>, Matias D. Cattaneo <cattaneo@princeton.edu>, Max H. Farrell <max.farrell@chicagobooth.edu>
Maintainer: Sebastian Calonico <sebastian.calonico@columbia.edu>
Diff between nprobust versions 0.1.4 dated 2019-01-10 and 0.2.0 dated 2019-10-22
DESCRIPTION | 12 ++++++------ MD5 | 14 +++++++------- man/kdbwselect.Rd | 14 +++++++------- man/kdrobust.Rd | 16 ++++++++-------- man/lpbwselect.Rd | 18 +++++++++--------- man/lprobust.Rd | 16 ++++++++-------- man/nprobust-package.Rd | 8 ++++---- man/nprobust.plot.Rd | 8 ++++---- 8 files changed, 53 insertions(+), 53 deletions(-)
Title: Fitting Finite Mixture of Scale Mixture of Skew-Normal
Distributions
Description: Functions to fit finite mixture of scale mixture of skew-normal (FM-SMSN) distributions, details in Prates, Lachos and Cabral (2013) <doi: 10.18637/jss.v054.i12>, Cabral, Lachos and Prates (2012) <doi:10.1016/j.csda.2011.06.026> and Basso, Lachos, Cabral and Ghosh (2010) <doi:10.1016/j.csda.2009.09.031>.
Author: Marcos Prates [aut, cre, trl],
Victor Lachos [aut],
Celso Cabral [aut]
Maintainer: Marcos Prates <marcosop@est.ufmg.br>
Diff between mixsmsn versions 1.1-5 dated 2018-05-30 and 1.1-6 dated 2019-10-22
ChangeLog | 6 ++++- DESCRIPTION | 11 ++++------ MD5 | 8 +++---- R/mix.hist.R | 60 ++++++++++++++++++++++++++++---------------------------- man/mix.hist.Rd | 5 +++- 5 files changed, 48 insertions(+), 42 deletions(-)
Title: Markov Models for Health Economic Evaluations
Description: An implementation of the modelling and reporting features described
in reference textbook and guidelines (Briggs, Andrew, et al. Decision
Modelling for Health Economic Evaluation. Oxford Univ. Press, 2011;
Siebert, U. et al. State-Transition Modeling. Medical Decision Making
32, 690-700 (2012).): deterministic and probabilistic sensitivity analysis,
heterogeneity analysis, time dependency on state-time and model-time
(semi-Markov and non-homogeneous Markov models), etc.
Author: Kevin Zarca [aut, cre],
Antoine Filipovic-Pierucci [aut],
Matthew Wiener [ctb],
Zdenek Kabat [ctb],
Vojtech Filipec [ctb],
Jordan Amdahl [ctb],
Yonatan Carranza Alarcon [ctb],
Vince Daniels [ctb]
Maintainer: Kevin Zarca <kevin.zarca@gmail.com>
Diff between heemod versions 0.10.0 dated 2019-07-03 and 0.11.0 dated 2019-10-22
DESCRIPTION | 11 +- MD5 | 115 ++++++++++++++------------- NAMESPACE | 12 +- NEWS.md | 16 +++ R/acceptability_curve.R | 18 ++-- R/calibration.R | 26 ++---- R/combine.R | 8 - R/compat-lazyeval.R |only R/correct_counts.R | 29 +++++- R/covariance.R | 34 ++++---- R/efficiency_frontier.R | 18 +--- R/evpi.R | 26 +++--- R/expand.R | 18 +++- R/gho_mortality.R | 22 ++--- R/heemod.R | 10 -- R/matrix_eval.R | 10 +- R/newdata.R | 12 +- R/param_define.R | 15 +++ R/param_eval.R | 19 +++- R/part_surv.R | 36 ++++---- R/resamp_define.R | 2 R/resamp_eval.R | 18 ++-- R/resamp_print.R | 18 ++-- R/run_model_define.R | 19 +--- R/run_model_summary.R | 28 +++--- R/sensitivity_define.R | 2 R/sensitivity_eval.R | 10 +- R/sensitivity_print.R | 100 +++++++++++------------ R/states_define.R | 4 R/states_eval.R | 19 ++-- R/states_print.R | 1 R/strategy_eval.R | 106 +++++++++++++++++-------- R/survival_eval.R | 16 +-- R/survival_operations.R | 2 R/tabular_input.R | 24 ++--- R/update.R | 45 +++++----- R/utils.R | 42 +++++++++- README.md | 4 build/vignette.rds |binary inst/CITATION | 3 inst/doc/a_introduction.html | 10 +- inst/doc/b_time_dependency.html | 10 +- inst/doc/c_homogeneous.html | 10 +- inst/doc/d_non_homogeneous.html | 20 ++-- inst/doc/e_probabilistic.html | 48 ++++++----- inst/doc/f_sensitivity.html | 58 ++++++++----- inst/doc/g_heterogeneity.html | 142 +++++++++++++++++----------------- inst/doc/h_tabular.html | 15 ++- inst/doc/i_reproduction.html | 10 +- inst/doc/j_survival.html | 14 ++- inst/doc/k_calibration.html | 10 +- man/compute_values.Rd | 2 man/define_starting_values.Rd | 15 +++ man/get_counts_diff.Rd |only man/get_mat_total.Rd |only tests/testthat/Rplots.pdf |binary tests/testthat/test_matrix.R | 27 ++++++ tests/testthat/test_model.R | 20 +++- tests/testthat/test_starting_values.R | 119 ++++++++++++++++++++++------ tests/testthat/test_states.R | 4 60 files changed, 881 insertions(+), 571 deletions(-)
Title: Nested and Crossed Block Designs for Factorial, Fractional
Factorial and Unstructured Treatment Sets
Description: Constructs D-optimal or near D-optimal nested and crossed
block designs for unstructured or general factorial treatment designs.
The treatment design, if required, is found from a model
matrix design formula and can be added sequentially, if required.
The block design is found from a defined
set of block factors and is conditional on the defined treatment design.
The block factors are added in sequence and each added block factor
is optimized conditional on all previously added block factors.
The block design can have repeated nesting down to any required
depth of nesting with either simple nested blocks or a
crossed blocks design at each level of nesting. Outputs include a table
showing the allocation of treatments to blocks and tables showing
the achieved D-efficiency factors for each block and treatment design.
Author: R. N. Edmondson.
Maintainer: Rodney Edmondson <rodney.edmondson@gmail.com>
Diff between blocksdesign versions 3.6 dated 2019-10-08 and 3.7 dated 2019-10-22
blocksdesign-3.6/blocksdesign/R/Efficiencies.R |only blocksdesign-3.6/blocksdesign/R/Lattice.R |only blocksdesign-3.6/blocksdesign/R/blockEfficiencies.R |only blocksdesign-3.6/blocksdesign/R/fullModel.R |only blocksdesign-3.6/blocksdesign/man/EstEffics.Rd |only blocksdesign-3.6/blocksdesign/man/blockEfficiencies.Rd |only blocksdesign-3.6/blocksdesign/man/lattices.Rd |only blocksdesign-3.7/blocksdesign/DESCRIPTION | 8 blocksdesign-3.7/blocksdesign/MD5 | 40 blocksdesign-3.7/blocksdesign/NAMESPACE | 3 blocksdesign-3.7/blocksdesign/R/blocks.r | 941 ++++---- blocksdesign-3.7/blocksdesign/R/blocksdesign-package.r | 13 blocksdesign-3.7/blocksdesign/R/design.r | 1384 ++++++------- blocksdesign-3.7/blocksdesign/R/fullRankModel.R |only blocksdesign-3.7/blocksdesign/R/isPrime.R | 8 blocksdesign-3.7/blocksdesign/R/isPrmePower.R | 15 blocksdesign-3.7/blocksdesign/R/ppMOLS.R | 395 +-- blocksdesign-3.7/blocksdesign/inst/doc/design_Vignette.pdf |binary blocksdesign-3.7/blocksdesign/man/MOLS.Rd | 44 blocksdesign-3.7/blocksdesign/man/blocks.Rd | 15 blocksdesign-3.7/blocksdesign/man/blocksdesign-package.Rd | 12 blocksdesign-3.7/blocksdesign/man/design.Rd | 28 blocksdesign-3.7/blocksdesign/man/fullrankModel.Rd | 2 blocksdesign-3.7/blocksdesign/man/isPrime.Rd | 7 blocksdesign-3.7/blocksdesign/man/isPrimePower.Rd | 10 25 files changed, 1535 insertions(+), 1390 deletions(-)
Title: Multi-Locus Random-SNP-Effect Mixed Linear Model Tools for
Genome-Wide Association Study with Graphical User Interface
Description: Conduct multi-locus genome-wide association study under the framework of multi-locus random-SNP-effect mixed linear model (mrMLM). First, each marker on the genome is scanned. Bonferroni correction is replaced by a less stringent selection criterion for significant test. Then, all the markers that are potentially associated with the trait are included in a multi-locus genetic model, their effects are estimated by empirical Bayes and all the nonzero effects were further identified by likelihood ratio test for true QTL. Wen YJ, Zhang H, Ni YL, Huang B, Zhang J, Feng JY, Wang SB, Dunwell JM, Zhang YM, Wu R (2018) <doi:10.1093/bib/bbw145>.
Author: Zhang Ya-Wen, Li Pei, and Zhang Yuan-Ming
Maintainer: Yuanming Zhang<soyzhang@mail.hzau.edu.cn>
Diff between mrMLM.GUI versions 3.2 dated 2018-08-25 and 4.0 dated 2019-10-22
DESCRIPTION | 18 MD5 | 60 NAMESPACE | 23 R/FASTmrEMMA.R | 2596 ++++++++++++++++++------------------------ R/FASTmrMLM.R | 60 R/ISIS.R | 42 R/mrMLM.GUI.R | 1258 ++++++++++---------- R/mrMLMFun.R | 111 - R/pKWmEB.R | 60 R/pLARmEB.R | 129 +- data/fmegen.rda |binary data/fmegenraw.rda |binary data/mrgen.rda |binary data/mrgenraw.rda |binary data/mrphe.rda |binary inst/doc/Instruction.pdf |binary inst/extdata/Genotype_Hmp.csv | 2 inst/extdata/Genotype_Hmp.txt | 2 inst/extdata/PopStr.csv | 4 inst/extdata/PopStr.txt | 4 man/FASTmrEMMA.Rd | 10 man/FASTmrMLM.Rd | 6 man/ISIS.Rd | 7 man/fmegen.Rd | 2 man/fmegenraw.Rd | 2 man/mrMLM.GUI-package.Rd | 34 man/mrMLMFun.Rd | 6 man/mrgen.Rd | 2 man/mrgenraw.Rd | 2 man/pKWmEB.Rd | 7 man/pLARmEB.Rd | 7 31 files changed, 2073 insertions(+), 2381 deletions(-)
Title: Multi-Locus Random-SNP-Effect Mixed Linear Model Tools for
Genome-Wide Association Study
Description: Conduct multi-locus genome-wide association study under the framework of multi-locus random-SNP-effect mixed linear model (mrMLM). First, each marker on the genome is scanned. Bonferroni correction is replaced by a less stringent selection criterion for significant test. Then, all the markers that are potentially associated with the trait are included in a multi-locus genetic model, their effects are estimated by empirical Bayes and all the nonzero effects were further identified by likelihood ratio test for true QTL. Wen YJ, Zhang H, Ni YL, Huang B, Zhang J, Feng JY, Wang SB, Dunwell JM, Zhang YM, Wu R (2018) <doi:10.1093/bib/bbw145>.
Author: Zhang Ya-Wen, Li Pei, and Zhang Yuan-Ming
Maintainer: Yuanming Zhang<soyzhang@mail.hzau.edu.cn>
Diff between mrMLM versions 3.1 dated 2018-08-25 and 4.0 dated 2019-10-22
DESCRIPTION | 16 MD5 | 58 - NAMESPACE | 22 R/FASTmrEMMA.R | 928 +++++----------- R/FASTmrMLM.R | 52 R/ISIS.R | 51 R/mrMLM.R | 1358 ++++++++++++----------- R/mrMLMFun.R | 96 - R/pKWmEB.R | 56 R/pLARmEB.R | 2426 +++++++++++++++++++++--------------------- data/Gen.rda |binary data/Genotype.rda |only data/Phe.rda |binary data/Phenotype.rda |only inst/doc/Instruction.pdf |binary inst/extdata/Genotype_Hmp.csv | 2 inst/extdata/Genotype_Hmp.txt | 2 inst/extdata/PopStr.csv | 4 inst/extdata/PopStr.txt | 4 man/DoData.Rd | 13 man/FASTmrEMMA.Rd | 2 man/FASTmrMLM.Rd | 2 man/Gennotype.Rd |only man/ISIS.Rd | 2 man/Phe.Rd | 6 man/Phenotype.Rd |only man/ReadData.Rd | 7 man/inputData.Rd | 10 man/mrMLM.Rd | 55 man/mrMLMFun.Rd | 2 man/pKWmEB.Rd | 2 man/pLARmEB.Rd | 4 32 files changed, 2486 insertions(+), 2694 deletions(-)
Title: R to Symbolic Data Analysis
Description: Symbolic Data Analysis (SDA) was proposed by professor Edwin Diday in 1987, the main purpose of SDA is to substitute the set of rows (cases) in the data table for a concept (second order statistical unit). This package implements, to the symbolic case, certain techniques of automatic classification, as well as some linear models.
Author: Oldemar Rodriguez [cre],
Carlos Aguero [aut],
Olger Calderon [cph],
Roberto Zuniga [cph],
Jorge Arce [cph]
Maintainer: Oldemar Rodriguez <oldemar.rodriguez@ucr.ac.cr>
Diff between RSDA versions 2.0.8 dated 2018-10-10 and 3.0 dated 2019-10-22
RSDA-2.0.8/RSDA/R/R2.L.R |only RSDA-2.0.8/RSDA/R/R2.U.R |only RSDA-2.0.8/RSDA/R/RMSE.L.R |only RSDA-2.0.8/RSDA/R/RMSE.U.R |only RSDA-2.0.8/RSDA/R/RSDA.to.latex.j.r |only RSDA-2.0.8/RSDA/R/SDS.to.RSDA.R |only RSDA-2.0.8/RSDA/R/SODAS.to.RSDA.R |only RSDA-2.0.8/RSDA/R/calc.burt.sym.2.r |only RSDA-2.0.8/RSDA/R/calc.burt.sym.r |only RSDA-2.0.8/RSDA/R/calc.k.r |only RSDA-2.0.8/RSDA/R/calc.matrix.min.r |only RSDA-2.0.8/RSDA/R/calculate.probs.R |only RSDA-2.0.8/RSDA/R/centers.interval.R |only RSDA-2.0.8/RSDA/R/centers.interval.j.r |only RSDA-2.0.8/RSDA/R/centers.interval2.r |only RSDA-2.0.8/RSDA/R/cfa.CVPRealz.R |only RSDA-2.0.8/RSDA/R/cfa.Czz.R |only RSDA-2.0.8/RSDA/R/cfa.MatrixZ.R |only RSDA-2.0.8/RSDA/R/cfa.minmax.r |only RSDA-2.0.8/RSDA/R/cfa.scatterplot.R |only RSDA-2.0.8/RSDA/R/cfa.scatterplot.gg.R |only RSDA-2.0.8/RSDA/R/cfa.totals.R |only RSDA-2.0.8/RSDA/R/change.coord.j.r |only RSDA-2.0.8/RSDA/R/classic.to.sym.R |only RSDA-2.0.8/RSDA/R/cor.sym.data.table.R |only RSDA-2.0.8/RSDA/R/cov.sym.data.table.R |only RSDA-2.0.8/RSDA/R/data.frame.to.RSDA.interval.table.r |only RSDA-2.0.8/RSDA/R/data.frame.to.RSDA.inteval.table.j.r |only RSDA-2.0.8/RSDA/R/data.frame.to.sym.inteval.j.r |only RSDA-2.0.8/RSDA/R/desv.fun.j.r |only RSDA-2.0.8/RSDA/R/deter.coefficient.R |only RSDA-2.0.8/RSDA/R/display.sym.table.R |only RSDA-2.0.8/RSDA/R/dist.R |only RSDA-2.0.8/RSDA/R/dist.interval.R |only RSDA-2.0.8/RSDA/R/dist.modal.R |only RSDA-2.0.8/RSDA/R/dist.set.R |only RSDA-2.0.8/RSDA/R/dist.vect.R |only RSDA-2.0.8/RSDA/R/dist.vect.matrix.R |only RSDA-2.0.8/RSDA/R/downarrow.matrix.R |only RSDA-2.0.8/RSDA/R/generate.columns.interval.j.r |only RSDA-2.0.8/RSDA/R/generate.columns.multivalued.j.r |only RSDA-2.0.8/RSDA/R/generate.columns.set.j.r |only RSDA-2.0.8/RSDA/R/generate.sym.table.R |only RSDA-2.0.8/RSDA/R/get.rotation.matrix.j.r |only RSDA-2.0.8/RSDA/R/interscal.B.R |only RSDA-2.0.8/RSDA/R/interscal.R |only RSDA-2.0.8/RSDA/R/interscal.delta.R |only RSDA-2.0.8/RSDA/R/interval.dist.R |only RSDA-2.0.8/RSDA/R/interval.dist.tobj.R |only RSDA-2.0.8/RSDA/R/interval.histogram.plot.R |only RSDA-2.0.8/RSDA/R/is.vertex.j.r |only RSDA-2.0.8/RSDA/R/mean.sym.data.table.R |only RSDA-2.0.8/RSDA/R/median.sym.data.table.R |only RSDA-2.0.8/RSDA/R/meta.to.RSDA.j.r |only RSDA-2.0.8/RSDA/R/neg.desv.fun.j.r |only RSDA-2.0.8/RSDA/R/neighbors.vertex.R |only RSDA-2.0.8/RSDA/R/newSobject.R |only RSDA-2.0.8/RSDA/R/norm.vect.R |only RSDA-2.0.8/RSDA/R/optim.desv.fun.interval.j.r |only RSDA-2.0.8/RSDA/R/optim.pca.distance.j.r |only RSDA-2.0.8/RSDA/R/optim.pca.variance.j.r |only RSDA-2.0.8/RSDA/R/pca.supplementary.vertex.fun.j.r |only RSDA-2.0.8/RSDA/R/pca.supplementary.vertex.lambda.fun.j.r |only RSDA-2.0.8/RSDA/R/plot.sym.data.table.R |only RSDA-2.0.8/RSDA/R/plotX.slice.R |only RSDA-2.0.8/RSDA/R/predictsym.glm.R |only RSDA-2.0.8/RSDA/R/predictsym.lm.R |only RSDA-2.0.8/RSDA/R/principal.axis.i.j.r |only RSDA-2.0.8/RSDA/R/process.continue.variable.R |only RSDA-2.0.8/RSDA/R/process.continuum.variable.R |only RSDA-2.0.8/RSDA/R/process.histogram.variable.R |only RSDA-2.0.8/RSDA/R/process.inter.cont.variable.R |only RSDA-2.0.8/RSDA/R/process.interval.variable.R |only RSDA-2.0.8/RSDA/R/process.modal.variable.R |only RSDA-2.0.8/RSDA/R/process.mult.nominal.modif.variable.R |only RSDA-2.0.8/RSDA/R/process.mult.nominal.variable.R |only RSDA-2.0.8/RSDA/R/process.nominal.variable.R |only RSDA-2.0.8/RSDA/R/process.set.variable.R |only RSDA-2.0.8/RSDA/R/read.sym.table.R |only RSDA-2.0.8/RSDA/R/rightarrow.matrix.R |only RSDA-2.0.8/RSDA/R/scatter.sym.j.r |only RSDA-2.0.8/RSDA/R/sd.sym.data.table.R |only RSDA-2.0.8/RSDA/R/sym.cfa.R |only RSDA-2.0.8/RSDA/R/sym.circle.plot.R |only RSDA-2.0.8/RSDA/R/sym.continuos.plot.R |only RSDA-2.0.8/RSDA/R/sym.cor.R |only RSDA-2.0.8/RSDA/R/sym.cov.R |only RSDA-2.0.8/RSDA/R/sym.data.table.to.sym.var.R |only RSDA-2.0.8/RSDA/R/sym.glm.R |only RSDA-2.0.8/RSDA/R/sym.hclust.R |only RSDA-2.0.8/RSDA/R/sym.hist.plot.R |only RSDA-2.0.8/RSDA/R/sym.histogram.pca.R |only RSDA-2.0.8/RSDA/R/sym.interval.pc.2.j.r |only RSDA-2.0.8/RSDA/R/sym.interval.pc.R |only RSDA-2.0.8/RSDA/R/sym.interval.pc.limits.2.j.r |only RSDA-2.0.8/RSDA/R/sym.interval.pc.limits.R |only RSDA-2.0.8/RSDA/R/sym.interval.pca.R |only RSDA-2.0.8/RSDA/R/sym.interval.pca.limits.new.j.r |only RSDA-2.0.8/RSDA/R/sym.interval.plot.R |only RSDA-2.0.8/RSDA/R/sym.interval.vertex.pca.j.r |only RSDA-2.0.8/RSDA/R/sym.kmeans.R |only RSDA-2.0.8/RSDA/R/sym.lm.R |only RSDA-2.0.8/RSDA/R/sym.lm.bi.R |only RSDA-2.0.8/RSDA/R/sym.mcfa.r |only RSDA-2.0.8/RSDA/R/sym.mds.R |only RSDA-2.0.8/RSDA/R/sym.mean.R |only RSDA-2.0.8/RSDA/R/sym.median.R |only RSDA-2.0.8/RSDA/R/sym.modal.plot.R |only RSDA-2.0.8/RSDA/R/sym.normalize.R |only RSDA-2.0.8/RSDA/R/sym.obj.R |only RSDA-2.0.8/RSDA/R/sym.radar.plot.R |only RSDA-2.0.8/RSDA/R/sym.scale.interval.j.r |only RSDA-2.0.8/RSDA/R/sym.scatterplot.R |only RSDA-2.0.8/RSDA/R/sym.scatterplot.ggplot.R |only RSDA-2.0.8/RSDA/R/sym.scatterplot3d.R |only RSDA-2.0.8/RSDA/R/sym.sd.R |only RSDA-2.0.8/RSDA/R/sym.set.plot.R |only RSDA-2.0.8/RSDA/R/sym.table.to.latex.j.r |only RSDA-2.0.8/RSDA/R/sym.var.R |only RSDA-2.0.8/RSDA/R/sym.variance.R |only RSDA-2.0.8/RSDA/R/transpose.sym.r |only RSDA-2.0.8/RSDA/R/var.sym.data.table.R |only RSDA-2.0.8/RSDA/R/variance.princ.curve.R |only RSDA-2.0.8/RSDA/R/vertex.interval.R |only RSDA-2.0.8/RSDA/R/vertex.interval.new.j.r |only RSDA-2.0.8/RSDA/R/vertex.pca.j.r |only RSDA-2.0.8/RSDA/R/whiskers.j.r |only RSDA-2.0.8/RSDA/R/write.sym.table.R |only RSDA-2.0.8/RSDA/data/StudentsGrades.rda |only RSDA-2.0.8/RSDA/data/lynne2.rda |only RSDA-2.0.8/RSDA/data/sodasXML.rda |only RSDA-2.0.8/RSDA/data/table7.rda |only RSDA-2.0.8/RSDA/man/RSDA.to.latex.Rd |only RSDA-2.0.8/RSDA/man/StudentsGrades.Rd |only RSDA-2.0.8/RSDA/man/Table7.Rd |only RSDA-2.0.8/RSDA/man/add_concept.Rd |only RSDA-2.0.8/RSDA/man/calculate.probs.Rd |only RSDA-2.0.8/RSDA/man/cfa.scatterplot.Rd |only RSDA-2.0.8/RSDA/man/change.coord.Rd |only RSDA-2.0.8/RSDA/man/cont.distance.Rd |only RSDA-2.0.8/RSDA/man/create.meta.data.Rd |only RSDA-2.0.8/RSDA/man/data.fame.to.sym.inteval.Rd |only RSDA-2.0.8/RSDA/man/display.sym.table.Rd |only RSDA-2.0.8/RSDA/man/dist.Rd |only RSDA-2.0.8/RSDA/man/dist.mod.Rd |only RSDA-2.0.8/RSDA/man/dist.modal.Rd |only RSDA-2.0.8/RSDA/man/downarrow.matrix.Rd |only RSDA-2.0.8/RSDA/man/extract_length_starts.Rd |only RSDA-2.0.8/RSDA/man/extract_sym_types.Rd |only RSDA-2.0.8/RSDA/man/format_continuous_var.Rd |only RSDA-2.0.8/RSDA/man/format_hist_var.Rd |only RSDA-2.0.8/RSDA/man/format_interval_var.Rd |only RSDA-2.0.8/RSDA/man/format_modal_var.Rd |only RSDA-2.0.8/RSDA/man/format_set_var.Rd |only RSDA-2.0.8/RSDA/man/format_sym_vars.Rd |only RSDA-2.0.8/RSDA/man/generate.columns.interval.Rd |only RSDA-2.0.8/RSDA/man/generate.columns.multivalued.Rd |only RSDA-2.0.8/RSDA/man/generate.columns.set.Rd |only RSDA-2.0.8/RSDA/man/generate.sym.table.Rd |only RSDA-2.0.8/RSDA/man/get.rotation.matrix.Rd |only RSDA-2.0.8/RSDA/man/hist.distance.Rd |only RSDA-2.0.8/RSDA/man/interscal.B.Rd |only RSDA-2.0.8/RSDA/man/interscal.Rd |only RSDA-2.0.8/RSDA/man/interscal.delta.Rd |only RSDA-2.0.8/RSDA/man/interval.dist.Rd |only RSDA-2.0.8/RSDA/man/interval.dist.tobj.Rd |only RSDA-2.0.8/RSDA/man/interval.distance.Rd |only RSDA-2.0.8/RSDA/man/is.vertex.Rd |only RSDA-2.0.8/RSDA/man/lynne2.Rd |only RSDA-2.0.8/RSDA/man/mean.sym.data.table.Rd |only RSDA-2.0.8/RSDA/man/median.sym.data.table.Rd |only RSDA-2.0.8/RSDA/man/meta.to.RSDA.Rd |only RSDA-2.0.8/RSDA/man/modal.distance.Rd |only RSDA-2.0.8/RSDA/man/neg.desv.fun.Rd |only RSDA-2.0.8/RSDA/man/optim.desv.fun.interval.Rd |only RSDA-2.0.8/RSDA/man/pander.sym.data.table.Rd |only RSDA-2.0.8/RSDA/man/plot.sym.data.table.Rd |only RSDA-2.0.8/RSDA/man/predictsym.glm.Rd |only RSDA-2.0.8/RSDA/man/predictsym.lm.Rd |only RSDA-2.0.8/RSDA/man/principal.axis.i.Rd |only RSDA-2.0.8/RSDA/man/print.sym.data.table.Rd |only RSDA-2.0.8/RSDA/man/process.continuum.variable.Rd |only RSDA-2.0.8/RSDA/man/process.histogram.variable.Rd |only RSDA-2.0.8/RSDA/man/process.interval.variable.Rd |only RSDA-2.0.8/RSDA/man/process.modal.variable.Rd |only RSDA-2.0.8/RSDA/man/process.set.variable.Rd |only RSDA-2.0.8/RSDA/man/remove_meta_info.Rd |only RSDA-2.0.8/RSDA/man/rightarrow.matrix.Rd |only RSDA-2.0.8/RSDA/man/select.dist.Rd |only RSDA-2.0.8/RSDA/man/set.distance.Rd |only RSDA-2.0.8/RSDA/man/sodasXML.Rd |only RSDA-2.0.8/RSDA/man/spark_bar.Rd |only RSDA-2.0.8/RSDA/man/sym.Multieval.distance.Rd |only RSDA-2.0.8/RSDA/man/sym.cor.Rd |only RSDA-2.0.8/RSDA/man/sym.cov.Rd |only RSDA-2.0.8/RSDA/man/sym.data.table.to.sym.var.Rd |only RSDA-2.0.8/RSDA/man/sym.dist.set.Rd |only RSDA-2.0.8/RSDA/man/sym.hclust.Rd |only RSDA-2.0.8/RSDA/man/sym.histogram.pca.Rd |only RSDA-2.0.8/RSDA/man/sym.interval.pc.2.j.Rd |only RSDA-2.0.8/RSDA/man/sym.interval.pc.limits.2.j.Rd |only RSDA-2.0.8/RSDA/man/sym.interval.pca.Rd |only RSDA-2.0.8/RSDA/man/sym.lm.bi.Rd |only RSDA-2.0.8/RSDA/man/sym.mds.Rd |only RSDA-2.0.8/RSDA/man/sym.mean.Rd |only RSDA-2.0.8/RSDA/man/sym.median.Rd |only RSDA-2.0.8/RSDA/man/sym.normalize.Rd |only RSDA-2.0.8/RSDA/man/sym.obj.Rd |only RSDA-2.0.8/RSDA/man/sym.scatterplot.ggplot.Rd |only RSDA-2.0.8/RSDA/man/sym.scatterplot3d.Rd |only RSDA-2.0.8/RSDA/man/sym.sd.Rd |only RSDA-2.0.8/RSDA/man/sym.table.latex.Rd |only RSDA-2.0.8/RSDA/man/sym.variance.Rd |only RSDA-2.0.8/RSDA/man/type.continuous.Rd |only RSDA-2.0.8/RSDA/man/type.histogram.Rd |only RSDA-2.0.8/RSDA/man/type.interval.Rd |only RSDA-2.0.8/RSDA/man/type.modal.Rd |only RSDA-2.0.8/RSDA/man/type.set.Rd |only RSDA-2.0.8/RSDA/man/type.symbolic.Rd |only RSDA-2.0.8/RSDA/man/whiskers.Rd |only RSDA-3.0/RSDA/DESCRIPTION | 37 RSDA-3.0/RSDA/MD5 | 560 +++++-------- RSDA-3.0/RSDA/NAMESPACE | 233 ++++- RSDA-3.0/RSDA/R/RMSE.R |only RSDA-3.0/RSDA/R/RSDA.R | 42 RSDA-3.0/RSDA/R/centers_interval.R |only RSDA-3.0/RSDA/R/centers_interval_j.R |only RSDA-3.0/RSDA/R/data.R | 487 ++++------- RSDA-3.0/RSDA/R/data_frame_to_RSDA_inteval_table_j.R |only RSDA-3.0/RSDA/R/deter_coefficient.R |only RSDA-3.0/RSDA/R/dist_interval.R |only RSDA-3.0/RSDA/R/dist_vect.R |only RSDA-3.0/RSDA/R/dist_vect_matrix.R |only RSDA-3.0/RSDA/R/interval_histogram_plot.R |only RSDA-3.0/RSDA/R/mcfa_scatterplot.R |only RSDA-3.0/RSDA/R/neighbors_vertex.R |only RSDA-3.0/RSDA/R/norm_vect.R |only RSDA-3.0/RSDA/R/optim_pca_distance_j.R |only RSDA-3.0/RSDA/R/plot.symbolic_df.R |only RSDA-3.0/RSDA/R/r2.R |only RSDA-3.0/RSDA/R/read_sym_table.R |only RSDA-3.0/RSDA/R/sds_to_rsda.R |only RSDA-3.0/RSDA/R/sodas_to_rsda.R |only RSDA-3.0/RSDA/R/sym.data.table_subset.R |only RSDA-3.0/RSDA/R/sym.predict.R |only RSDA-3.0/RSDA/R/sym_circle_plot.R |only RSDA-3.0/RSDA/R/sym_glm.R |only RSDA-3.0/RSDA/R/sym_interval_pc.R |only RSDA-3.0/RSDA/R/sym_interval_pc_limits.R |only RSDA-3.0/RSDA/R/sym_interval_pca.R |only RSDA-3.0/RSDA/R/sym_interval_pca_limits_new_j.R |only RSDA-3.0/RSDA/R/sym_kmeans.R |only RSDA-3.0/RSDA/R/sym_lm.R |only RSDA-3.0/RSDA/R/sym_mcfa.R |only RSDA-3.0/RSDA/R/sym_radar_plot.R |only RSDA-3.0/RSDA/R/sym_scatterplot.R |only RSDA-3.0/RSDA/R/sym_var.R |only RSDA-3.0/RSDA/R/symbolic_df.R |only RSDA-3.0/RSDA/R/symbolic_objects.R |only RSDA-3.0/RSDA/R/utils-pipe.R |only RSDA-3.0/RSDA/R/variance_princ_curve.R |only RSDA-3.0/RSDA/R/vertex_interval.R |only RSDA-3.0/RSDA/R/vertex_interval_new_j.R |only RSDA-3.0/RSDA/R/vertex_pca_j.R |only RSDA-3.0/RSDA/R/write_sym_table.R |only RSDA-3.0/RSDA/R/zzz.R |only RSDA-3.0/RSDA/build |only RSDA-3.0/RSDA/data/Cardiological.rda |binary RSDA-3.0/RSDA/data/USCrime.rda |binary RSDA-3.0/RSDA/data/VeterinaryData.rda |binary RSDA-3.0/RSDA/data/abalone.rda |binary RSDA-3.0/RSDA/data/ex1_db2so.rda |binary RSDA-3.0/RSDA/data/ex_cfa1.rda |binary RSDA-3.0/RSDA/data/ex_cfa2.rda |binary RSDA-3.0/RSDA/data/ex_mcfa1.rda |binary RSDA-3.0/RSDA/data/ex_mcfa2.rda |binary RSDA-3.0/RSDA/data/example1.rda |binary RSDA-3.0/RSDA/data/example2.rda |binary RSDA-3.0/RSDA/data/example3.rda |binary RSDA-3.0/RSDA/data/example4.rda |binary RSDA-3.0/RSDA/data/example5.rda |binary RSDA-3.0/RSDA/data/example6.rda |binary RSDA-3.0/RSDA/data/example7.rda |binary RSDA-3.0/RSDA/data/facedata.rda |binary RSDA-3.0/RSDA/data/int_prost_test.rda |binary RSDA-3.0/RSDA/data/int_prost_train.rda |binary RSDA-3.0/RSDA/data/lynne1.rda |binary RSDA-3.0/RSDA/data/oils.rda |binary RSDA-3.0/RSDA/data/uscrime_int.rda |binary RSDA-3.0/RSDA/inst |only RSDA-3.0/RSDA/man/Cardiological.Rd | 17 RSDA-3.0/RSDA/man/Maxima_and_Minima.Rd |only RSDA-3.0/RSDA/man/R2.L.Rd | 19 RSDA-3.0/RSDA/man/R2.U.Rd | 19 RSDA-3.0/RSDA/man/RMSE.L.Rd | 20 RSDA-3.0/RSDA/man/RMSE.U.Rd | 20 RSDA-3.0/RSDA/man/RSDA.Rd | 35 RSDA-3.0/RSDA/man/SDS.to.RSDA.Rd | 2 RSDA-3.0/RSDA/man/SODAS.to.RSDA.Rd | 21 RSDA-3.0/RSDA/man/Symbolic_mean.Rd |only RSDA-3.0/RSDA/man/USCrime.Rd | 16 RSDA-3.0/RSDA/man/VeterinaryData.Rd | 2 RSDA-3.0/RSDA/man/abalone.Rd | 14 RSDA-3.0/RSDA/man/as.data.frame.symbolic_histogram.Rd |only RSDA-3.0/RSDA/man/as.data.frame.symbolic_interval.Rd |only RSDA-3.0/RSDA/man/as.data.frame.symbolic_modal.Rd |only RSDA-3.0/RSDA/man/as.data.frame.symbolic_set.Rd |only RSDA-3.0/RSDA/man/calc.burt.sym.Rd | 2 RSDA-3.0/RSDA/man/calc.k.Rd |only RSDA-3.0/RSDA/man/calc.matrix.min.Rd |only RSDA-3.0/RSDA/man/cash-.symbolic_histogram.Rd |only RSDA-3.0/RSDA/man/cash-.symbolic_modal.Rd |only RSDA-3.0/RSDA/man/cash-.symbolic_set.Rd |only RSDA-3.0/RSDA/man/centers.interval.Rd | 2 RSDA-3.0/RSDA/man/centers.interval.j.Rd | 2 RSDA-3.0/RSDA/man/cfa.CVPRealz.Rd | 2 RSDA-3.0/RSDA/man/cfa.Czz.Rd | 2 RSDA-3.0/RSDA/man/cfa.MatrixZ.Rd | 2 RSDA-3.0/RSDA/man/cfa.minmax.Rd | 2 RSDA-3.0/RSDA/man/cfa.minmax.new.Rd | 6 RSDA-3.0/RSDA/man/cfa.totals.Rd | 2 RSDA-3.0/RSDA/man/check_quo_duplicated_names.Rd |only RSDA-3.0/RSDA/man/classic.to.sym.Rd | 42 RSDA-3.0/RSDA/man/cor.Rd | 15 RSDA-3.0/RSDA/man/cov.Rd | 16 RSDA-3.0/RSDA/man/data.frame.to.RSDA.inteval.table.Rd |only RSDA-3.0/RSDA/man/data.frame.to.RSDA.inteval.table.j.Rd | 2 RSDA-3.0/RSDA/man/deter.coefficient.Rd | 19 RSDA-3.0/RSDA/man/dist.vect.Rd | 2 RSDA-3.0/RSDA/man/dist.vect.matrix.Rd | 2 RSDA-3.0/RSDA/man/dot-onAttach.Rd |only RSDA-3.0/RSDA/man/ex1_db2so.Rd | 13 RSDA-3.0/RSDA/man/ex_cfa1.Rd | 2 RSDA-3.0/RSDA/man/ex_cfa2.Rd | 2 RSDA-3.0/RSDA/man/ex_mcfa1.Rd | 28 RSDA-3.0/RSDA/man/ex_mcfa2.Rd | 19 RSDA-3.0/RSDA/man/example1.Rd | 1 RSDA-3.0/RSDA/man/example2.Rd | 2 RSDA-3.0/RSDA/man/example3.Rd | 2 RSDA-3.0/RSDA/man/example4.Rd | 4 RSDA-3.0/RSDA/man/example5.Rd | 2 RSDA-3.0/RSDA/man/example6.Rd | 2 RSDA-3.0/RSDA/man/example7.Rd | 2 RSDA-3.0/RSDA/man/extract_data.Rd |only RSDA-3.0/RSDA/man/extract_meta.Rd |only RSDA-3.0/RSDA/man/facedata.Rd | 2 RSDA-3.0/RSDA/man/format.symbolic_histogram.Rd |only RSDA-3.0/RSDA/man/format.symbolic_interval.Rd |only RSDA-3.0/RSDA/man/format.symbolic_modal.Rd |only RSDA-3.0/RSDA/man/format.symbolic_set.Rd |only RSDA-3.0/RSDA/man/get_cats.Rd |only RSDA-3.0/RSDA/man/get_props.Rd |only RSDA-3.0/RSDA/man/int_prost_test.Rd | 26 RSDA-3.0/RSDA/man/int_prost_train.Rd | 26 RSDA-3.0/RSDA/man/interval.centers.Rd |only RSDA-3.0/RSDA/man/interval.histogram.plot.Rd | 4 RSDA-3.0/RSDA/man/interval.max.Rd |only RSDA-3.0/RSDA/man/interval.min.Rd |only RSDA-3.0/RSDA/man/interval.ranges.Rd |only RSDA-3.0/RSDA/man/is.sym.histogram.Rd |only RSDA-3.0/RSDA/man/is.sym.interval.Rd |only RSDA-3.0/RSDA/man/is.sym.modal.Rd |only RSDA-3.0/RSDA/man/is.sym.set.Rd |only RSDA-3.0/RSDA/man/lynne1.Rd | 4 RSDA-3.0/RSDA/man/map_symbolic_tbl.Rd |only RSDA-3.0/RSDA/man/mcfa.scatterplot.Rd | 16 RSDA-3.0/RSDA/man/median.symbolic_interval.Rd |only RSDA-3.0/RSDA/man/neighbors.vertex.Rd | 2 RSDA-3.0/RSDA/man/new.sym.histogram.Rd |only RSDA-3.0/RSDA/man/new.sym.intreval.Rd |only RSDA-3.0/RSDA/man/new.sym.modal.Rd |only RSDA-3.0/RSDA/man/new.sym.set.Rd |only RSDA-3.0/RSDA/man/newSobject.Rd | 2 RSDA-3.0/RSDA/man/norm.vect.Rd | 2 RSDA-3.0/RSDA/man/oils.Rd | 2 RSDA-3.0/RSDA/man/optim.pca.distance.j.Rd | 2 RSDA-3.0/RSDA/man/optim.pca.variance.j.Rd | 2 RSDA-3.0/RSDA/man/pca.supplementary.vertex.fun.j.Rd |only RSDA-3.0/RSDA/man/pca.supplementary.vertex.lambda.fun.j.Rd | 2 RSDA-3.0/RSDA/man/pipe.Rd |only RSDA-3.0/RSDA/man/plot.symbolic_pca.Rd |only RSDA-3.0/RSDA/man/plot.symbolic_tbl.Rd |only RSDA-3.0/RSDA/man/plotX.slice.Rd | 2 RSDA-3.0/RSDA/man/process.continue.variable.Rd | 2 RSDA-3.0/RSDA/man/process.inter.cont.variable.Rd | 2 RSDA-3.0/RSDA/man/process.mult.nominal.modif.variable.Rd | 2 RSDA-3.0/RSDA/man/process.mult.nominal.variable.Rd | 2 RSDA-3.0/RSDA/man/process.nominal.variable.Rd | 6 RSDA-3.0/RSDA/man/read.sym.table.Rd | 10 RSDA-3.0/RSDA/man/sd.Rd | 18 RSDA-3.0/RSDA/man/sub-.sym.data.table.Rd | 2 RSDA-3.0/RSDA/man/sub-.symbolic_tbl.Rd |only RSDA-3.0/RSDA/man/sym.Interval.distance.Rd | 2 RSDA-3.0/RSDA/man/sym.circle.plot.Rd | 5 RSDA-3.0/RSDA/man/sym.continuos.plot.Rd | 2 RSDA-3.0/RSDA/man/sym.dist.interval.Rd | 16 RSDA-3.0/RSDA/man/sym.glm.Rd | 18 RSDA-3.0/RSDA/man/sym.hist.plot.Rd | 6 RSDA-3.0/RSDA/man/sym.histogram.Rd |only RSDA-3.0/RSDA/man/sym.interval.Rd |only RSDA-3.0/RSDA/man/sym.interval.pc.Rd | 20 RSDA-3.0/RSDA/man/sym.interval.pc.limits.Rd | 2 RSDA-3.0/RSDA/man/sym.interval.pca.limits.new.j.Rd | 2 RSDA-3.0/RSDA/man/sym.interval.plot.Rd | 5 RSDA-3.0/RSDA/man/sym.interval.vertex.pca.j.Rd | 2 RSDA-3.0/RSDA/man/sym.kmeans.Rd | 4 RSDA-3.0/RSDA/man/sym.lm.Rd | 11 RSDA-3.0/RSDA/man/sym.mcfa.Rd | 17 RSDA-3.0/RSDA/man/sym.modal.Rd |only RSDA-3.0/RSDA/man/sym.modal.plot.Rd | 6 RSDA-3.0/RSDA/man/sym.pca.Rd |only RSDA-3.0/RSDA/man/sym.predict.Rd |only RSDA-3.0/RSDA/man/sym.radar.data.Rd | 2 RSDA-3.0/RSDA/man/sym.radar.plot.Rd | 6 RSDA-3.0/RSDA/man/sym.scale.interval.Rd |only RSDA-3.0/RSDA/man/sym.scatterplot.Rd | 41 RSDA-3.0/RSDA/man/sym.set.Rd |only RSDA-3.0/RSDA/man/sym.set.plot.Rd | 2 RSDA-3.0/RSDA/man/sym.var.Rd | 8 RSDA-3.0/RSDA/man/to.v2.Rd |only 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Title: Tools for Descriptive Statistics
Description: A collection of miscellaneous basic statistic functions and convenience wrappers for efficiently describing data. The author's intention was to create a toolbox, which facilitates the (notoriously time consuming) first descriptive tasks in data analysis, consisting of calculating descriptive statistics, drawing graphical summaries and reporting the results. The package contains furthermore functions to produce documents using MS Word (or PowerPoint) and functions to import data from Excel. Many of the included functions can be found scattered in other packages and other sources written partly by Titans of R. The reason for collecting them here, was primarily to have them consolidated in ONE instead of dozens of packages (which themselves might depend on other packages which are not needed at all), and to provide a common and consistent interface as far as function and arguments naming, NA handling, recycling rules etc. are concerned. Google style guides were used as naming rules (in absence of convincing alternatives). The 'camel style' was consequently applied to functions borrowed from contributed R packages as well.
Author: Andri Signorell [aut, cre],
Ken Aho [ctb],
Andreas Alfons [ctb],
Nanina Anderegg [ctb],
Tomas Aragon [ctb],
Antti Arppe [ctb],
Adrian Baddeley [ctb],
Kamil Barton [ctb],
Ben Bolker [ctb],
Hans W. Borchers [ctb],
Frederico Caeiro [ctb],
Stephane Champely [ctb],
Daniel Chessel [ctb],
Leanne Chhay [ctb],
Clint Cummins [ctb],
Michael Dewey [ctb],
Harold C. Doran [ctb],
Stephane Dray [ctb],
Charles Dupont [ctb],
Dirk Eddelbuettel [ctb],
Jeff Enos [ctb],
Claus Ekstrom [ctb],
Martin Elff [ctb],
Kamil Erguler [ctb],
Richard W. Farebrother [ctb],
John Fox [ctb],
Romain Francois [ctb],
Michael Friendly [ctb],
Tal Galili [ctb],
Matthias Gamer [ctb],
Joseph L. Gastwirth [ctb],
Yulia R. Gel [ctb],
Vilmantas Gegzna [ctb],
Juergen Gross [ctb],
Gabor Grothendieck [ctb],
Frank E. Harrell Jr [ctb],
Richard Heiberger [ctb],
Michael Hoehle [ctb],
Christian W. Hoffmann [ctb],
Soeren Hojsgaard [ctb],
Torsten Hothorn [ctb],
Markus Huerzeler [ctb],
Wallace W. Hui [ctb],
Pete Hurd [ctb],
Rob J. Hyndman [ctb],
Pablo J. Villacorta Iglesias [ctb],
Christopher Jackson [ctb],
Matthias Kohl [ctb],
Mikko Korpela [ctb],
Max Kuhn [ctb],
Detlew Labes [ctb],
Duncan Temple Lang [ctb],
Friederich Leisch [ctb],
Jim Lemon [ctb],
Dong Li [ctb],
Martin Maechler [ctb],
Arni Magnusson [ctb],
Daniel Malter [ctb],
George Marsaglia [ctb],
John Marsaglia [ctb],
Alina Matei [ctb],
David Meyer [ctb],
Weiwen Miao [ctb],
Giovanni Millo [ctb],
Yongyi Min [ctb],
David Mitchell [ctb],
Franziska Mueller [ctb],
Markus Naepflin [ctb],
Daniel Navarro [ctb],
Henric Nilsson [ctb],
Klaus Nordhausen [ctb],
Derek Ogle [ctb],
Hong Ooi [ctb],
Nick Parsons [ctb],
Sandrine Pavoine [ctb],
Tony Plate [ctb],
Roland Rapold [ctb],
William Revelle [ctb],
Tyler Rinker [ctb],
Brian D. Ripley [ctb],
Caroline Rodriguez [ctb],
Nathan Russell [ctb],
Nick Sabbe [ctb],
Venkatraman E. Seshan [ctb],
Greg Snow [ctb],
Michael Smithson [ctb],
Karline Soetaert [ctb],
Werner A. Stahel [ctb],
Alec Stephenson [ctb],
Mark Stevenson [ctb],
Ralf Stubner [ctb],
Matthias Templ [ctb],
Terry Therneau [ctb],
Yves Tille [ctb],
Adrian Trapletti [ctb],
Joshua Ulrich [ctb],
Kevin Ushey [ctb],
Jeremy VanDerWal [ctb],
Bill Venables [ctb],
John Verzani [ctb],
Gregory R. Warnes [ctb],
Stefan Wellek [ctb],
Hadley Wickham [ctb],
Rand R. Wilcox [ctb],
Peter Wolf [ctb],
Daniel Wollschlaeger [ctb],
Joseph Wood [ctb],
Ying Wu [ctb],
Thomas Yee [ctb],
Achim Zeileis [ctb]
Maintainer: Andri Signorell <andri@signorell.net>
Diff between DescTools versions 0.99.29 dated 2019-09-26 and 0.99.30 dated 2019-10-22
DESCRIPTION | 236 ++++++++++++++++++++++++++++++++- MD5 | 51 +++---- NAMESPACE | 5 NEWS | 71 +++++++-- R/Desc.R | 33 ++++ R/DescTools.r | 285 +++++++++++++++++++++++++++++++++++----- R/LinMod.R | 20 ++ R/RcppExports.R | 4 R/StatsAndCIs.r | 29 +++- inst/CITATION | 2 inst/doc/Combinatorics.pdf |binary inst/doc/DescToolsCompanion.pdf |binary inst/doc/TablesInR.pdf |binary man/ColumnWrap.Rd | 2 man/CompleteColumns.Rd | 1 man/ConvUnit.Rd | 7 man/DatasetsforSimulation.Rd | 3 man/Mode.Rd | 5 man/SpreadOut.Rd | 19 +- man/StrRev.Rd | 2 man/ToWrdB.Rd |only man/ToWrdPlot.Rd |only man/WrdBookmark.Rd |only man/WrdSaveAs.Rd | 6 man/split.formula.Rd | 2 src/RcppExports.cpp | 11 + src/extremes.cpp | 58 ++++++++ src/init.c | 2 28 files changed, 743 insertions(+), 111 deletions(-)
Title: Parallel Bayesian Optimization of Hyperparameters
Description: Fast, flexible framework for implementing Bayesian optimization of model
hyperparameters according to the methods described in Snoek et al. <arXiv:1206.2944>.
The package allows the user to run scoring function in parallel, save intermediary
results, and tweak other aspects of the process to fully utilize the computing resources
available to the user.
Author: Samuel Wilson [aut, cre]
Maintainer: Samuel Wilson <samwilson303@gmail.com>
Diff between ParBayesianOptimization versions 0.1.2 dated 2019-07-31 and 0.2.0 dated 2019-10-22
ParBayesianOptimization-0.1.2/ParBayesianOptimization/inst/doc/advancedFeatures.R |only ParBayesianOptimization-0.1.2/ParBayesianOptimization/inst/doc/advancedFeatures.Rmd |only ParBayesianOptimization-0.1.2/ParBayesianOptimization/inst/doc/advancedFeatures.html |only ParBayesianOptimization-0.1.2/ParBayesianOptimization/vignettes/advancedFeatures.Rmd |only ParBayesianOptimization-0.2.0/ParBayesianOptimization/DESCRIPTION | 11 ParBayesianOptimization-0.2.0/ParBayesianOptimization/MD5 | 59 - ParBayesianOptimization-0.2.0/ParBayesianOptimization/NAMESPACE | 8 ParBayesianOptimization-0.2.0/ParBayesianOptimization/NEWS.md | 4 ParBayesianOptimization-0.2.0/ParBayesianOptimization/R/BayesianOptimization.R | 504 +++++----- ParBayesianOptimization-0.2.0/ParBayesianOptimization/R/applyCluster.R | 186 ++- ParBayesianOptimization-0.2.0/ParBayesianOptimization/R/applyNoise.R | 32 ParBayesianOptimization-0.2.0/ParBayesianOptimization/R/calcAcq.R | 5 ParBayesianOptimization-0.2.0/ParBayesianOptimization/R/maxAcq.R | 43 ParBayesianOptimization-0.2.0/ParBayesianOptimization/R/plotProg.R |only ParBayesianOptimization-0.2.0/ParBayesianOptimization/R/smallFuncs.R | 133 +- ParBayesianOptimization-0.2.0/ParBayesianOptimization/build/vignette.rds |binary ParBayesianOptimization-0.2.0/ParBayesianOptimization/inst/doc/multiParameterSampling.R |only ParBayesianOptimization-0.2.0/ParBayesianOptimization/inst/doc/multiParameterSampling.Rmd |only ParBayesianOptimization-0.2.0/ParBayesianOptimization/inst/doc/multiParameterSampling.html |only ParBayesianOptimization-0.2.0/ParBayesianOptimization/inst/doc/runningInParallel.R |only ParBayesianOptimization-0.2.0/ParBayesianOptimization/inst/doc/runningInParallel.Rmd |only ParBayesianOptimization-0.2.0/ParBayesianOptimization/inst/doc/runningInParallel.html |only ParBayesianOptimization-0.2.0/ParBayesianOptimization/inst/doc/savingProgress.R |only ParBayesianOptimization-0.2.0/ParBayesianOptimization/inst/doc/savingProgress.Rmd |only ParBayesianOptimization-0.2.0/ParBayesianOptimization/inst/doc/savingProgress.html |only ParBayesianOptimization-0.2.0/ParBayesianOptimization/inst/doc/standardFeatures.R | 66 - ParBayesianOptimization-0.2.0/ParBayesianOptimization/inst/doc/standardFeatures.Rmd | 70 - ParBayesianOptimization-0.2.0/ParBayesianOptimization/inst/doc/standardFeatures.html | 125 +- ParBayesianOptimization-0.2.0/ParBayesianOptimization/inst/doc/whenToStop.R |only ParBayesianOptimization-0.2.0/ParBayesianOptimization/inst/doc/whenToStop.Rmd |only ParBayesianOptimization-0.2.0/ParBayesianOptimization/inst/doc/whenToStop.html |only ParBayesianOptimization-0.2.0/ParBayesianOptimization/man/BayesianOptimization.Rd | 200 ++- ParBayesianOptimization-0.2.0/ParBayesianOptimization/man/applyCluster.Rd | 2 ParBayesianOptimization-0.2.0/ParBayesianOptimization/man/assignKern.Rd | 4 ParBayesianOptimization-0.2.0/ParBayesianOptimization/man/checkDup.Rd |only ParBayesianOptimization-0.2.0/ParBayesianOptimization/man/plotProg.Rd |only ParBayesianOptimization-0.2.0/ParBayesianOptimization/man/zeroOneScale.Rd |only ParBayesianOptimization-0.2.0/ParBayesianOptimization/vignettes/multiParameterSampling.Rmd |only ParBayesianOptimization-0.2.0/ParBayesianOptimization/vignettes/progressPlot.png |only ParBayesianOptimization-0.2.0/ParBayesianOptimization/vignettes/runningInParallel.Rmd |only ParBayesianOptimization-0.2.0/ParBayesianOptimization/vignettes/savingProgress.Rmd |only ParBayesianOptimization-0.2.0/ParBayesianOptimization/vignettes/standardFeatures.Rmd | 70 - ParBayesianOptimization-0.2.0/ParBayesianOptimization/vignettes/whenToStop.Rmd |only 43 files changed, 841 insertions(+), 681 deletions(-)
More information about ParBayesianOptimization at CRAN
Permanent link
Title: Latin Hypercube Designs (LHDs) Algorithms
Description: Contains functions for finding space-filling Latin Hypercube Designs (LHDs), e.g. maximin distance LHDs. Unlike other packages, our package is particularly useful in the area of Design and Analysis of Experiments (DAE). More specifically, it is very useful in design of computer experiments. One advantage of our package is its comprehensiveness. It contains a variety of heuristic algorithms (and their modifications) for searching maximin distance LHDs. In addition to that, it also contains other useful tools for developing and constructing maximin distance LHDs. In the future, algebraic construction methods will be added. Please refer to the function documentations for the detailed references of each function. Among all the references we used, one reference should be highlighted here, which is Ruichen Jin, Wei Chen, Agus Sudjianto (2005) <doi:10.1016/j.jspi.2004.02.014>. They provided a new form of phi_p criterion, which does not lose the space-filling property and simultaneously reduces the computational complexity when evaluating (or re-evaluating) an LHD. Their new phi_p criterion is a fundamental component of our many functions. Besides, the computation nature of the new phi_p criterion enables our functions to have less CPU time.
Author: Hongzhi Wang, Qian Xiao, Abhyuday Mandal
Maintainer: Hongzhi Wang <hw34508@uga.edu>
Diff between LHD versions 0.1.1 dated 2019-10-14 and 0.1.2 dated 2019-10-22
DESCRIPTION | 6 MD5 | 40 +++--- NEWS.md | 12 + R/GA.R | 14 +- R/LaPSO.R | 16 +- R/OASA.R | 8 - R/SA.R | 10 - R/SA2008.R | 8 - R/SLHD.R | 14 +- inst/doc/Vignette_for_LHD.R | 54 ++++---- inst/doc/Vignette_for_LHD.Rmd | 54 ++++---- inst/doc/Vignette_for_LHD.html | 210 ++++++++++++++++----------------- man/GA.Rd | 10 - man/LaPSO.Rd | 10 - man/OASA.Rd | 2 man/SA.Rd | 4 man/SA2008.Rd | 2 man/SLHD.Rd | 2 tests/testthat/testmyfunctions_part1.R | 24 +-- tests/testthat/testmyfunctions_part2.R | 6 vignettes/Vignette_for_LHD.Rmd | 54 ++++---- 21 files changed, 285 insertions(+), 275 deletions(-)