Title: Summarize CRAN Check Results in the Terminal
Description: The CRAN check results and where your package stands in the
CRAN submission queue in your R terminal.
Author: Francois Michonneau [aut, cre],
Ben Bolker [ctb]
Maintainer: Francois Michonneau <francois.michonneau@gmail.com>
Diff between foghorn versions 1.3.2 dated 2020-12-17 and 1.4.0 dated 2021-05-05
DESCRIPTION | 9 +- MD5 | 24 +++--- NEWS.md | 9 ++ R/cran_flavors.R | 6 - R/cran_queue.R | 67 +++++++++++------ R/foghorn.R | 4 + build/vignette.rds |binary inst/doc/foghorn.html | 125 ++++++++++++--------------------- man/cran_incoming.Rd | 3 man/n_cran_flavors.Rd | 4 - tests/testthat/test-foghorn.R | 4 - tests/testthat/test-incoming.R | 8 +- tests/testthat/test-n_cran_platforms.R | 2 13 files changed, 137 insertions(+), 128 deletions(-)
Title: Bayesian Non- And Semi-Parametric Model Fitting
Description: MCMC algorithms & processing functions for: 1. single response multiple regression, see Papageorgiou, G. (2018) <doi: 10.32614/RJ-2018-069>, 2. multivariate response multiple regression, with nonparametric models for the means, the variances and the correlation matrix, with variable selection, see Papageorgiou, G. and Marshall, B. C. (2020) <doi: 10.1080/10618600.2020.1739534>, 3. joint mean-covariance models for multivariate responses, see Papageorgiou, G. (2020), and 4.Dirichlet process mixtures, see Papageorgiou, G. (2019) <doi: 10.1111/anzs.12273>.
Author: Georgios Papageorgiou
Maintainer: Georgios Papageorgiou <gpapageo@gmail.com>
Diff between BNSP versions 2.1.5 dated 2021-01-07 and 2.1.6 dated 2021-05-05
DESCRIPTION | 10 +++++----- MD5 | 12 ++++++------ R/plot.R | 4 ++-- man/BNSP-package.Rd | 4 ++-- src/LongMult.c | 8 ++++---- src/LongMultG.c | 5 ++--- src/LongMultGV.c | 5 ++--- 7 files changed, 23 insertions(+), 25 deletions(-)
Title: Loading Screen for 'Shiny'
Description: Full screen and partial loading screens for 'Shiny' with spinners, progress bars, and notifications.
Author: John Coene [aut, cre],
Jinhwan Kim [ctb],
Victor Granda [ctb] (<https://orcid.org/0000-0002-0469-1991>)
Maintainer: John Coene <jcoenep@gmail.com>
Diff between waiter versions 0.2.0 dated 2021-01-14 and 0.2.1 dated 2021-05-05
DESCRIPTION | 11 +-- MD5 | 26 +++---- NAMESPACE | 1 NEWS.md | 9 ++ R/garcon.R | 4 - R/steward.R | 2 R/waiter.R | 73 ++++++++++++++++---- README.md | 4 - build/vignette.rds |binary inst/assets/waiter/waiter.css | 6 + inst/assets/waiter/waiter.js | 27 ++++++- inst/doc/introduction.html | 153 +++++++++++++++++------------------------- man/garcon.Rd | 2 man/waiter.Rd | 6 + 14 files changed, 194 insertions(+), 130 deletions(-)
Title: Text Processing for Small or Big Data Files
Description: It offers functions for splitting, parsing, tokenizing and creating a vocabulary for big text data files. Moreover, it includes functions for building a document-term matrix and extracting information from those (term-associations, most frequent terms). It also embodies functions for calculating token statistics (collocations, look-up tables, string dissimilarities) and functions to work with sparse matrices. Lastly, it includes functions for Word Vector Representations (i.e. 'GloVe', 'fasttext') and incorporates functions for the calculation of (pairwise) text document dissimilarities. The source code is based on 'C++11' and exported in R through the 'Rcpp', 'RcppArmadillo' and 'BH' packages.
Author: Lampros Mouselimis [aut, cre] (<https://orcid.org/0000-0002-8024-1546>)
Maintainer: Lampros Mouselimis <mouselimislampros@gmail.com>
Diff between textTinyR versions 1.1.3 dated 2019-04-14 and 1.1.4 dated 2021-05-05
DESCRIPTION | 19 MD5 | 60 NAMESPACE | 5 NEWS.md | 6 R/textTinyR.R |only R/utils.R | 424 ++-- README.md | 85 build/vignette.rds |binary inst/CITATION |only inst/doc/functionality_of_textTinyR_package.R | 138 - inst/doc/functionality_of_textTinyR_package.html | 2207 ++++++++++++----------- inst/doc/word_vectors_doc2vec.R | 30 inst/doc/word_vectors_doc2vec.Rmd | 6 inst/doc/word_vectors_doc2vec.html | 864 +++++---- man/COS_TEXT.Rd | 8 man/Doc2Vec.Rd | 121 + man/JACCARD_DICE.Rd | 8 man/TEXT_DOC_DISSIM.Rd | 11 man/big_tokenize_transform.Rd | 347 ++- man/read_characters.Rd | 3 man/read_rows.Rd | 8 man/select_predictors.Rd | 15 man/sparse_term_matrix.Rd | 311 ++- man/text_file_parser.Rd | 38 man/text_intersect.Rd | 94 man/token_stats.Rd | 256 ++ man/tokenize_transform_text.Rd | 48 man/tokenize_transform_vec_docs.Rd | 42 man/vocabulary_parser.Rd | 41 src/rcpp_similarities.cpp | 11 src/word_vecs_pointer_embedding.cpp | 646 +++--- vignettes/word_vectors_doc2vec.Rmd | 6 32 files changed, 3587 insertions(+), 2271 deletions(-)
Title: Decision Analytic Modelling in Health Economics
Description: Classes and functions for modelling health care interventions
using cohort models (decision trees). Mechanisms are provided for
associating an uncertainty distribution with each source variable and for
ensuring transparency of the mathematical relationships between variables.
The package terminology follows Briggs "Decision Modelling for Health
Economic Evaluation" (2006, ISBN:978-0-19-852662-9).
Author: Andrew Sims [aut, cre] (<https://orcid.org/0000-0002-9553-7278>),
Kim Fairbairn [aut] (<https://orcid.org/0000-0001-5108-6279>)
Maintainer: Andrew Sims <andrew.sims@newcastle.ac.uk>
Diff between rdecision versions 1.0.3 dated 2021-03-31 and 1.0.4 dated 2021-05-05
DESCRIPTION | 6 MD5 | 180 - NAMESPACE | 54 R/Action.R | 280 +- R/Arborescence.R | 1086 +++++----- R/Arrow.R | 92 R/BetaModVar.R | 13 R/ChanceNode.R | 4 R/ConstModVar.R | 250 +- R/DecisionNode.R | 108 - R/DecisionTree.R | 2543 +++++++++++++------------ R/Digraph.R | 881 ++++---- R/Edge.R | 152 - R/ExprModVar.R | 794 +++---- R/GammaModVar.R | 338 +-- R/Graph.R | 820 ++++---- R/LeafNode.R | 296 +- R/LogNormModVar.R | 424 ++-- R/ModVar.R | 410 ++-- R/Node.R | 103 - R/NormModVar.R | 260 +- R/Reaction.R | 284 +- R/Stack.R | 144 - R/rdecision.R | 38 README.md | 370 +-- build/partial.rdb |binary build/vignette.rds |binary inst/CITATION | 18 inst/NEWS.md | 240 +- inst/REFERENCES.bib | 670 +++--- inst/WORDLIST | 134 - inst/doc/DT01-Sumatriptan.R | 210 +- inst/doc/DT01-Sumatriptan.Rmd | 344 +-- inst/doc/DT01-Sumatriptan.html | 769 +++---- inst/doc/DT02-Tegaderm.R | 503 ++-- inst/doc/DT02-Tegaderm.Rmd | 818 +++----- inst/doc/DT02-Tegaderm.html | 1331 ++++++------- inst/doc/DT03-ShaleGas.R | 160 - inst/doc/DT03-ShaleGas.Rmd | 310 +-- inst/doc/DT03-ShaleGas.html | 713 +++---- inst/doc/GT01-NewScientistPuzzle.R | 196 - inst/doc/GT01-NewScientistPuzzle.Rmd | 364 +-- inst/doc/GT01-NewScientistPuzzle.html | 517 ++--- inst/national-institute-of-health-research.csl | 416 ++-- man/Action.Rd | 298 +- man/Arborescence.Rd | 482 ++-- man/Arrow.Rd | 210 +- man/BetaModVar.Rd | 394 +-- man/ChanceNode.Rd | 4 man/ConstModVar.Rd | 402 +-- man/DecisionNode.Rd | 2 man/DecisionTree.Rd | 1199 ++++++----- man/Digraph.Rd | 729 +++---- man/Edge.Rd | 228 +- man/ExprModVar.Rd | 832 ++++---- man/GammaModVar.Rd | 438 ++-- man/Graph.Rd | 686 +++--- man/LeafNode.Rd | 294 +- man/LogNormModVar.Rd | 500 ++-- man/ModVar.Rd | 553 ++--- man/Node.Rd | 8 man/NormModVar.Rd | 376 +-- man/Reaction.Rd | 298 +- man/Stack.Rd | 244 +- man/figures/README-treedraw-1.png |binary tests/testthat.R | 8 tests/testthat/setup.R | 156 - tests/testthat/test-Action.R | 84 tests/testthat/test-Arborescence.R | 320 +-- tests/testthat/test-Arrow.R | 66 tests/testthat/test-BetaModVar.R | 231 +- tests/testthat/test-ChanceNode.R | 20 tests/testthat/test-ConstModVar.R | 92 tests/testthat/test-DecisionNode.R | 18 tests/testthat/test-DecisionTree.R | 1406 +++++++------ tests/testthat/test-Digraph.R | 628 +++--- tests/testthat/test-Edge.R | 58 tests/testthat/test-ExprModVar.R | 394 +-- tests/testthat/test-GammaModVar.R | 166 - tests/testthat/test-Graph.R | 524 ++--- tests/testthat/test-LeafNode.R | 74 tests/testthat/test-LogNormModVar.R | 222 +- tests/testthat/test-ModVar.R | 137 - tests/testthat/test-Node.R | 26 tests/testthat/test-NormModVar.R | 158 - tests/testthat/test-Reaction.R | 86 tests/testthat/test-Stack.R | 92 vignettes/DT01-Sumatriptan.Rmd | 344 +-- vignettes/DT02-Tegaderm.Rmd | 818 +++----- vignettes/DT03-ShaleGas.Rmd | 310 +-- vignettes/GT01-NewScientistPuzzle.Rmd | 364 +-- 91 files changed, 16375 insertions(+), 16247 deletions(-)
Title: Various Utilities for Library Science/Assessment and Cataloging
Description: Provides functions for validating and normalizing bibliographic
codes such as ISBN, ISSN, and LCCN. Also includes functions to communicate
with the WorldCat API, translate Call numbers (Library of Congress and
Dewey Decimal) to their subject classifications or subclassifications,
and provides various loadable data files such call number / subject
crosswalks and code tables.
Author: Tony Fischetti [aut, cre]
Maintainer: Tony Fischetti <tony.fischetti@gmail.com>
Diff between libbib versions 1.5 dated 2021-04-24 and 1.6 dated 2021-05-05
DESCRIPTION | 9 - MD5 | 46 +++-- NAMESPACE | 1 NEWS.md | 78 ++++++++- R/marc-field-deconstruction.R | 34 ++- R/utilities.R | 187 ++++++++++++++++++++- R/worldcat-api.R | 207 +++++++++++++++--------- README.md | 31 +-- build |only data/books_serials_etc_sample.rda |binary data/dewey_subject_crosswalk.rda |binary inst |only man/dt_add_to_col_names.Rd | 16 + man/dt_counts_and_percents.Rd | 7 man/dt_na_breakdown.Rd |only man/dt_set_clean_names.Rd | 7 man/get_clean_names.Rd | 14 + man/marc_008_get_info.Rd | 32 ++- man/worldcat_api_bib_read_info_by.Rd | 6 man/worldcat_api_classify_by.Rd | 12 - man/worldcat_api_locations_by.Rd | 6 man/worldcat_api_search.Rd | 52 ++++-- tests/testthat/test-marc-field-deconstruction.R | 2 tests/testthat/test-utilities.R | 13 + vignettes |only 25 files changed, 583 insertions(+), 177 deletions(-)
Title: Density, Probability, Quantile ('DPQ') Computations
Description: Computations for approximations and alternatives for the 'DPQ'
(Density (pdf), Probability (cdf) and Quantile) functions for probability
distributions in R.
Primary focus is on (central and non-central) beta, gamma and related
distributions such as the chi-squared, F, and t.
--
This is for the use of researchers in these numerical approximation
implementations, notably for my own use in order to improve standard
R pbeta(), qgamma(), ..., etc: {'"dpq"'-functions}.
Author: Martin Maechler [aut, cre] (<https://orcid.org/0000-0002-8685-9910>),
Morten Welinder [ctb] (pgamma C code, see PR#7307, Jan. 2005; further
pdhyper()),
Wolfgang Viechtbauer [ctb] (dtWV(), 2002),
Ross Ihaka [ctb] (src/qchisq_appr.c),
Marius Hofert [ctb] (lsum(), lssum()),
R-core [ctb] (src/{dpq.h, algdiv.c, pnchisq.c, bd0.c}),
R Foundation [cph] (src/qchisq-appr.c)
Maintainer: Martin Maechler <maechler@stat.math.ethz.ch>
Diff between DPQ versions 0.4-2 dated 2020-11-09 and 0.4-3 dated 2021-05-05
DPQ-0.4-2/DPQ/tests/hyper-dist-ex.R- |only DPQ-0.4-2/DPQ/tests/ppois-minim.R |only DPQ-0.4-2/DPQ/tests/qgamma-ex.R.save |only DPQ-0.4-3/DPQ/DESCRIPTION | 21 DPQ-0.4-3/DPQ/MD5 | 77 +- DPQ-0.4-3/DPQ/NAMESPACE | 27 - DPQ-0.4-3/DPQ/R/beta-fns.R | 162 +++++- DPQ-0.4-3/DPQ/R/dbinom-nbinom.R |only DPQ-0.4-3/DPQ/R/dgamma.R | 753 +++++++++++++++++++++++++--- DPQ-0.4-3/DPQ/R/dpq-h.R | 1 DPQ-0.4-3/DPQ/R/norm_f.R | 43 + DPQ-0.4-3/DPQ/R/pnchisq.R | 12 DPQ-0.4-3/DPQ/R/qbinomR.R |only DPQ-0.4-3/DPQ/R/qnbinomR.R |only DPQ-0.4-3/DPQ/R/qpoisR.R |only DPQ-0.4-3/DPQ/R/t-nonc-fn.R | 27 - DPQ-0.4-3/DPQ/R/utils.R | 9 DPQ-0.4-3/DPQ/TODO | 6 DPQ-0.4-3/DPQ/build/DPQ.pdf |binary DPQ-0.4-3/DPQ/build/partial.rdb |binary DPQ-0.4-3/DPQ/build/vignette.rds |binary DPQ-0.4-3/DPQ/inst/NEWS.Rd | 56 ++ DPQ-0.4-3/DPQ/inst/doc/Noncentral-Chisq.pdf |binary DPQ-0.4-3/DPQ/inst/doc/comp-beta.pdf |binary DPQ-0.4-3/DPQ/inst/doc/log1pmx-etc.R |only DPQ-0.4-3/DPQ/inst/doc/log1pmx-etc.pdf |only DPQ-0.4-3/DPQ/man/dbinom_raw.Rd |only DPQ-0.4-3/DPQ/man/dgamma-utils.Rd | 154 +++++ DPQ-0.4-3/DPQ/man/dgamma.R.Rd | 1 DPQ-0.4-3/DPQ/man/dnbinomR.Rd |only DPQ-0.4-3/DPQ/man/dnt.Rd | 4 DPQ-0.4-3/DPQ/man/lgamma1p.Rd | 25 DPQ-0.4-3/DPQ/man/log1mexp.Rd | 24 DPQ-0.4-3/DPQ/man/log1pmx.Rd | 124 ++++ DPQ-0.4-3/DPQ/man/logcf.Rd | 44 + DPQ-0.4-3/DPQ/man/p1l1.Rd |only DPQ-0.4-3/DPQ/man/pnormAsymp.Rd |only DPQ-0.4-3/DPQ/man/qbinomR.Rd |only DPQ-0.4-3/DPQ/man/qnbinomR.Rd |only DPQ-0.4-3/DPQ/man/qpoisR.Rd |only DPQ-0.4-3/DPQ/src/DPQ-misc.c |only DPQ-0.4-3/DPQ/src/DPQpkg.h | 97 +++ DPQ-0.4-3/DPQ/src/bd0.c |only DPQ-0.4-3/DPQ/src/chebyshev.c |only DPQ-0.4-3/DPQ/src/init.c | 22 DPQ-0.4-3/DPQ/src/lgammacor.c |only DPQ-0.4-3/DPQ/src/logcf.c |only DPQ-0.4-3/DPQ/tests/dnbinom-tst.R |only DPQ-0.4-3/DPQ/tests/qgamma-ex.R | 17 DPQ-0.4-3/DPQ/vignettes/R-numerics.bib | 9 DPQ-0.4-3/DPQ/vignettes/log1pmx-etc.Rnw |only 51 files changed, 1507 insertions(+), 208 deletions(-)
Title: Tools to Make Developing R Packages Easier
Description: Collection of package development tools.
Author: Hadley Wickham [aut],
Jim Hester [aut, cre],
Winston Chang [aut],
RStudio [cph, fnd]
Maintainer: Jim Hester <jim.hester@rstudio.com>
Diff between devtools versions 2.4.0 dated 2021-04-07 and 2.4.1 dated 2021-05-05
DESCRIPTION | 18 +- MD5 | 24 +-- NEWS.md | 12 + R/active.R | 5 R/build-readme.R | 2 R/create.R | 5 R/dev-mode.R | 2 R/install.R | 2 inst/WORDLIST | 1 inst/doc/dependencies.html | 273 +++++---------------------------------------- inst/rstudio/addins.dcf | 16 +- man/create.Rd | 9 + man/install.Rd | 2 13 files changed, 94 insertions(+), 277 deletions(-)
Title: MSigDB Gene Sets for Multiple Organisms in a Tidy Data Format
Description: Provides the 'Molecular Signatures Database' (MSigDB) gene sets
typically used with the 'Gene Set Enrichment Analysis' (GSEA) software
(Subramanian et al. 2005 <doi:10.1073/pnas.0506580102>, Liberzon et al. 2015
<doi:10.1016/j.cels.2015.12.004>) in a standard R data frame with key-value
pairs. The package includes the human genes as listed in MSigDB as well as
the corresponding symbols and IDs for frequently studied model organisms
such as mouse, rat, pig, fly, and yeast.
Author: Igor Dolgalev [aut, cre]
Maintainer: Igor Dolgalev <igor.dolgalev@nyumc.org>
Diff between msigdbr versions 7.2.1 dated 2020-10-02 and 7.4.1 dated 2021-05-05
DESCRIPTION | 21 - LICENSE | 2 MD5 | 28 +- NAMESPACE | 7 NEWS.md | 5 R/functions.R | 84 +++++-- R/sysdata.rda |binary README.md | 5 build/vignette.rds |binary inst/doc/msigdbr-intro.R | 16 - inst/doc/msigdbr-intro.Rmd | 39 +-- inst/doc/msigdbr-intro.html | 477 +++++++++++++--------------------------- man/msigdbr.Rd | 8 tests/testthat/test-functions.R | 99 ++++++-- vignettes/msigdbr-intro.Rmd | 39 +-- 15 files changed, 389 insertions(+), 441 deletions(-)
Title: R Interface to 'pytorch''s 'torchaudio'
Description: Provides access to datasets, models and preprocessing
facilities for deep learning in audio.
Author: Athos Damiani [aut, cre]
Maintainer: Athos Damiani <athos.damiani@gmail.com>
Diff between torchaudio versions 0.1.1.0 dated 2021-01-18 and 0.2.0 dated 2021-05-05
torchaudio-0.1.1.0/torchaudio/R/globals.R |only torchaudio-0.1.1.0/torchaudio/R/torchaudio.R |only torchaudio-0.1.1.0/torchaudio/tests/testthat/test-torchaudio.R |only torchaudio-0.2.0/torchaudio/DESCRIPTION | 16 torchaudio-0.2.0/torchaudio/MD5 | 78 - torchaudio-0.2.0/torchaudio/NAMESPACE | 14 torchaudio-0.2.0/torchaudio/NEWS.md | 7 torchaudio-0.2.0/torchaudio/R/RcppExports.R |only torchaudio-0.2.0/torchaudio/R/backend-audiofile.R |only torchaudio-0.2.0/torchaudio/R/backend-av.R |only torchaudio-0.2.0/torchaudio/R/backend-common.R | 307 ++++++ torchaudio-0.2.0/torchaudio/R/backend-tuneR_backend.R | 83 - torchaudio-0.2.0/torchaudio/R/backend-utils.R | 2 torchaudio-0.2.0/torchaudio/R/dataset-speechcommands.R | 45 torchaudio-0.2.0/torchaudio/R/dataset-yesno.R | 2 torchaudio-0.2.0/torchaudio/R/functional.R | 43 torchaudio-0.2.0/torchaudio/R/internal-misc_ops.R | 12 torchaudio-0.2.0/torchaudio/R/kaldi.R | 4 torchaudio-0.2.0/torchaudio/R/torchaudio-package.R |only torchaudio-0.2.0/torchaudio/R/tranforms.R | 3 torchaudio-0.2.0/torchaudio/README.md | 41 torchaudio-0.2.0/torchaudio/inst/doc/audio_preprocessing_tutorial.R | 219 ++-- torchaudio-0.2.0/torchaudio/inst/doc/audio_preprocessing_tutorial.Rmd | 8 torchaudio-0.2.0/torchaudio/inst/doc/audio_preprocessing_tutorial.html | 495 ++-------- torchaudio-0.2.0/torchaudio/man/audiofile_loader.Rd |only torchaudio-0.2.0/torchaudio/man/av_loader.Rd |only torchaudio-0.2.0/torchaudio/man/figures/torchaudio.png |only torchaudio-0.2.0/torchaudio/man/info.Rd |only torchaudio-0.2.0/torchaudio/man/mp3_info.Rd |only torchaudio-0.2.0/torchaudio/man/set_audio_backend.Rd |only torchaudio-0.2.0/torchaudio/man/speechcommand_dataset.Rd | 9 torchaudio-0.2.0/torchaudio/man/torchaudio_load.Rd | 18 torchaudio-0.2.0/torchaudio/man/torchaudio_loader.Rd |only torchaudio-0.2.0/torchaudio/man/transform_mel_spectrogram.Rd | 3 torchaudio-0.2.0/torchaudio/man/transform_to_tensor.Rd |only torchaudio-0.2.0/torchaudio/man/tuneR_loader.Rd |only torchaudio-0.2.0/torchaudio/man/wav_info.Rd |only torchaudio-0.2.0/torchaudio/src |only torchaudio-0.2.0/torchaudio/tests/testthat/temp16jp86mz2.mp3 |only torchaudio-0.2.0/torchaudio/tests/testthat/test-backend-audiofile.R |only torchaudio-0.2.0/torchaudio/tests/testthat/test-backend-av_backend.R |only torchaudio-0.2.0/torchaudio/tests/testthat/test-backend-common.R | 144 ++ torchaudio-0.2.0/torchaudio/tests/testthat/test-backend-tuneR_backend.R | 20 torchaudio-0.2.0/torchaudio/tests/testthat/test-dataset-speechcommands.R | 24 torchaudio-0.2.0/torchaudio/tests/testthat/test-functional.R | 8 torchaudio-0.2.0/torchaudio/tests/testthat/test-internal-misc_ops.R | 10 torchaudio-0.2.0/torchaudio/tests/testthat/test-transforms.R | 4 torchaudio-0.2.0/torchaudio/vignettes/audio_preprocessing_tutorial.Rmd | 8 48 files changed, 965 insertions(+), 662 deletions(-)
Title: 'systemPipeShiny' Utility Functions
Description: The systemPipeShiny (SPS) framework comes with many useful utility functions. However, installing the whole framework is heavy and takes some time. If you like only a few useful utility functions from SPS, install this package is enough.
Author: Le Zhang [aut, cre]
Maintainer: Le Zhang <lezhang100@gmail.com>
Diff between spsUtil versions 0.1.0 dated 2021-02-16 and 0.1.2 dated 2021-05-05
DESCRIPTION | 11 +++----- MD5 | 17 ++++++------ NAMESPACE | 1 NEWS.md |only R/spsUtil.R | 66 ++++++++++++++++++++++++++++++++++---------------- README.md | 26 ++++++++++++++++--- man/checkNameSpace.Rd | 2 - man/msg.Rd | 2 - man/quiet.Rd | 23 +++++++++++++---- man/remove_ANSI.Rd | 8 +++--- 10 files changed, 108 insertions(+), 48 deletions(-)
Title: Learning with Data on Riemannian Manifolds
Description: We provide a variety of algorithms for manifold-valued data, including Fréchet summaries, hypothesis testing, clustering, visualization, and other learning tasks. See Bhattacharya and Bhattacharya (2012) <doi:10.1017/CBO9781139094764> for general exposition to statistics on manifolds.
Author: Kisung You [aut, cre] (<https://orcid.org/0000-0002-8584-459X>)
Maintainer: Kisung You <kyoustat@gmail.com>
Diff between Riemann versions 0.1.0 dated 2020-09-22 and 0.1.1 dated 2021-05-05
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Title: A Collection of Neural Networks
Description: Contains versions of Autoencoder, BP, LVQ, MAM NN and a module to define custom neural networks.
Author: Vasilis Nikolaidis [aut, cph, cre]
(<https://orcid.org/0000-0003-1471-8788>)
Maintainer: Vasilis Nikolaidis <vnikolaidis@us.uop.gr>
Diff between nnlib2Rcpp versions 0.1.6 dated 2021-03-03 and 0.1.7 dated 2021-05-05
DESCRIPTION | 7 - LICENSE | 4 - MD5 | 20 ++--- NAMESPACE | 8 +- R/NNClasses.R | 8 +- build/vignette.rds |binary inst/doc/manual.pdf |binary man/LVQs-class.Rd | 174 +++++++++++++++++++++++------------------------ man/LVQu.Rd | 144 +++++++++++++++++++-------------------- man/MAM-class.Rd | 190 ++++++++++++++++++++++++++-------------------------- src/nnlib2.h | 4 - 11 files changed, 280 insertions(+), 279 deletions(-)
Title: A Grammar of Data Manipulation
Description: A fast, consistent tool for working with data frame
like objects, both in memory and out of memory.
Author: Hadley Wickham [aut, cre] (<https://orcid.org/0000-0003-4757-117X>),
Romain François [aut] (<https://orcid.org/0000-0002-2444-4226>),
Lionel Henry [aut],
Kirill Müller [aut] (<https://orcid.org/0000-0002-1416-3412>),
RStudio [cph, fnd]
Maintainer: Hadley Wickham <hadley@rstudio.com>
Diff between dplyr versions 1.0.5 dated 2021-03-05 and 1.0.6 dated 2021-05-05
dplyr-1.0.5/dplyr/R/compat-tibble.R |only dplyr-1.0.5/dplyr/R/utils-expr.R |only dplyr-1.0.6/dplyr/DESCRIPTION | 9 dplyr-1.0.6/dplyr/MD5 | 127 ++-- dplyr-1.0.6/dplyr/NAMESPACE | 7 dplyr-1.0.6/dplyr/NEWS.md | 33 + dplyr-1.0.6/dplyr/R/across.R | 361 ++++++++++---- dplyr-1.0.6/dplyr/R/bind.r | 2 dplyr-1.0.6/dplyr/R/compute-collect.r | 5 dplyr-1.0.6/dplyr/R/conditions.R | 15 dplyr-1.0.6/dplyr/R/context.R | 3 dplyr-1.0.6/dplyr/R/count-tally.R | 25 dplyr-1.0.6/dplyr/R/data-mask.R | 2 dplyr-1.0.6/dplyr/R/distinct.R | 21 dplyr-1.0.6/dplyr/R/filter.R | 22 dplyr-1.0.6/dplyr/R/generics.R | 9 dplyr-1.0.6/dplyr/R/group-by.r | 37 - dplyr-1.0.6/dplyr/R/grouped-df.r | 4 dplyr-1.0.6/dplyr/R/mutate.R | 53 +- dplyr-1.0.6/dplyr/R/select.R | 12 dplyr-1.0.6/dplyr/R/summarise.R | 28 - dplyr-1.0.6/dplyr/R/utils.r | 19 dplyr-1.0.6/dplyr/README.md | 30 - dplyr-1.0.6/dplyr/build/dplyr.pdf |binary dplyr-1.0.6/dplyr/inst/doc/base.html | 151 +++-- dplyr-1.0.6/dplyr/inst/doc/colwise.html | 45 + dplyr-1.0.6/dplyr/inst/doc/compatibility.html | 9 dplyr-1.0.6/dplyr/inst/doc/dplyr.html | 221 ++++---- dplyr-1.0.6/dplyr/inst/doc/grouping.html | 93 +-- dplyr-1.0.6/dplyr/inst/doc/programming.R | 4 dplyr-1.0.6/dplyr/inst/doc/programming.Rmd | 4 dplyr-1.0.6/dplyr/inst/doc/programming.html | 13 dplyr-1.0.6/dplyr/inst/doc/rowwise.html | 75 +- dplyr-1.0.6/dplyr/inst/doc/two-table.html | 51 + dplyr-1.0.6/dplyr/inst/doc/window-functions.html | 9 dplyr-1.0.6/dplyr/man/across.Rd | 48 + dplyr-1.0.6/dplyr/man/compute.Rd | 6 dplyr-1.0.6/dplyr/man/group_by_prepare.Rd | 9 dplyr-1.0.6/dplyr/man/n_distinct.Rd | 2 dplyr-1.0.6/dplyr/man/select.Rd | 15 dplyr-1.0.6/dplyr/src/chop.cpp | 2 dplyr-1.0.6/dplyr/src/filter.cpp | 52 -- dplyr-1.0.6/dplyr/src/init.cpp | 3 dplyr-1.0.6/dplyr/tests/testthat/_snaps/across.md | 49 + dplyr-1.0.6/dplyr/tests/testthat/_snaps/arrange.md | 11 dplyr-1.0.6/dplyr/tests/testthat/_snaps/bind.md | 8 dplyr-1.0.6/dplyr/tests/testthat/_snaps/colwise-mutate.md | 8 dplyr-1.0.6/dplyr/tests/testthat/_snaps/deprec-combine.md | 2 dplyr-1.0.6/dplyr/tests/testthat/_snaps/distinct.md | 4 dplyr-1.0.6/dplyr/tests/testthat/_snaps/filter.md | 36 - dplyr-1.0.6/dplyr/tests/testthat/_snaps/group-by.md | 4 dplyr-1.0.6/dplyr/tests/testthat/_snaps/join-rows.md | 2 dplyr-1.0.6/dplyr/tests/testthat/_snaps/mutate.md | 92 +-- dplyr-1.0.6/dplyr/tests/testthat/_snaps/select.md | 18 dplyr-1.0.6/dplyr/tests/testthat/_snaps/summarise.md | 74 +- dplyr-1.0.6/dplyr/tests/testthat/_snaps/transmute.md |only dplyr-1.0.6/dplyr/tests/testthat/helper-dplyr.R | 12 dplyr-1.0.6/dplyr/tests/testthat/test-across.R | 243 +++++++++ dplyr-1.0.6/dplyr/tests/testthat/test-bind.R | 71 ++ dplyr-1.0.6/dplyr/tests/testthat/test-distinct.R | 5 dplyr-1.0.6/dplyr/tests/testthat/test-group-by.r | 19 dplyr-1.0.6/dplyr/tests/testthat/test-mutate.r | 12 dplyr-1.0.6/dplyr/tests/testthat/test-select.r | 20 dplyr-1.0.6/dplyr/tests/testthat/test-summarise.r | 6 dplyr-1.0.6/dplyr/tests/testthat/test-transmute.R | 8 dplyr-1.0.6/dplyr/vignettes/programming.Rmd | 4 66 files changed, 1570 insertions(+), 774 deletions(-)
Title: Estimating Asset Correlations from Default Data
Description: Functions for the estimation of intra- and inter-cohort correlations in the Vasicek credit portfolio model. For intra-cohort correlations, the package covers the two method of moments estimators of Gordy (2000) <doi:10.1016/S0378-4266(99)00054-0>, the method of moments estimator of Lucas (1995) <https://jfi.pm-research.com/content/4/4/76> and a Binomial approximation extension of this approach. Moreover, the maximum likelihood estimators of Gordy and Heitfield (2010) <http://elsa.berkeley.edu/~mcfadden/e242_f03/heitfield.pdf> and Duellmann and Gehde-Trapp (2004) <http://hdl.handle.net/10419/19729> are implemented. For inter-cohort correlations, the method of moments estimator of Bluhm and Overbeck (2003) <doi:10.1007/978-3-642-59365-9_2>/Bams et al. (2016) <https://papers.ssrn.com/sol3/papers.cfm?abstract_id=2676595> is provided and the maximum likelihood estimators comprise the approaches of Gordy and Heitfield (2010)/Kalkbrener and Onwunta (2010) <ISBN: 978-1906348250> and Pfeuffer et al. (2020). Bootstrap and Jackknife procedures for bias correction are included as well as the method of moments estimator of Frei and Wunsch (2018) <doi:10.21314/JCR.2017.231> for auto-correlated time series.
Author: Maximilian Nagl [aut,cre], Yevhen Havrylenko [aut], Marius Pfeuffer [aut], Kevin Jakob [aut], Matthias Fischer [aut], Daniel Roesch [aut]
Maintainer: Maximilian Nagl <maximilian.nagl@ur.de>
Diff between AssetCorr versions 1.0.3 dated 2018-08-30 and 1.0.4 dated 2021-05-05
DESCRIPTION | 17 +++++------ MD5 | 56 ++++++++++++++++++------------------- NAMESPACE | 2 - R/interCMM.R | 2 - R/interCopula.R | 2 - R/interCov.R | 2 - R/interJDP.R | 2 - R/interMLE.R | 2 - R/intraAMLE.R | 2 - R/intraAMM.R | 2 - R/intraBeta.R | 2 - R/intraCMM.R | 2 - R/intraFMM.R | 2 - R/intraJDP1.R | 2 - R/intraJDP2.R | 2 - R/intraMLE.R | 2 - R/intraMode.R | 2 - build/partial.rdb |binary build/vignette.rds |binary inst/NEWS.Rd | 19 ++++++++++++ inst/REFERENCES.bib | 8 +++-- inst/REFERENCES.bib.sav | 2 - inst/doc/AssetCorr_vignette.R | 24 +++++++-------- inst/doc/AssetCorr_vignette.Rmd | 10 +++--- inst/doc/AssetCorr_vignette.html | 59 ++++++++++++++++++++------------------- man/AssetCorr-package.Rd | 4 +- man/intraAMM.Rd | 2 - man/intraCMM.Rd | 2 - vignettes/AssetCorr_vignette.Rmd | 10 +++--- 29 files changed, 134 insertions(+), 109 deletions(-)
Title: Estimation and Prediction Methods for High-Dimensional Mixed
Frequency Time Series Data
Description: The 'midasml' package implements estimation and prediction methods for high-dimensional mixed-frequency (MIDAS) time-series and panel data regression models. The regularized MIDAS models are estimated using orthogonal (e.g. Legendre) polynomials and sparse-group LASSO (sg-LASSO) estimator. For more information on the 'midasml' approach see Babii, Ghysels, and Striaukas (2021, JBES forthcoming) <doi:10.1080/07350015.2021.1899933>. The package is equipped with the fast implementation of the sg-LASSO estimator by means of proximal block coordinate descent. High-dimensional mixed frequency time-series data can also be easily manipulated with functions provided in the package.
Author: Jonas Striaukas [cre, aut],
Andrii Babii [aut],
Eric Ghysels [aut],
Alex Kostrov [ctb] (Contributions to analytical gradients for
non-linear low-dimensional MIDAS estimation code)
Maintainer: Jonas Striaukas <jonas.striaukas@gmail.com>
Diff between midasml versions 0.1.4 dated 2021-04-23 and 0.1.5 dated 2021-05-05
DESCRIPTION | 8 ++++---- MD5 | 14 +++++++------- R/date.functions.R | 8 ++++---- R/ic.panel.sglfit.R | 2 +- R/ic.sglfit.R | 2 +- README.md | 8 +++----- man/mixed_freq_data.Rd | 4 ++-- man/mixed_freq_data_single.Rd | 4 ++-- 8 files changed, 24 insertions(+), 26 deletions(-)
Title: Bayesian Seemingly Unrelated Regression
Description: Bayesian seemingly unrelated regression with general variable selection and dense/sparse covariance matrix. The sparse seemingly unrelated regression is described in Bottolo et al. (2020) <doi:10.1101/467019>, and the software paper is in Zhao et al. (2021) <arXiv:2104.14008>.
Author: Marco Banterle [aut],
Zhi Zhao [aut, cre],
Leonardo Bottolo [ctb],
Sylvia Richardson [ctb],
Waldir Leoncio [ctb],
Alex Lewin [aut],
Manuela Zucknick [ctb]
Maintainer: Zhi Zhao <zhi.zhao@medisin.uio.no>
Diff between BayesSUR versions 1.2-4 dated 2020-12-08 and 2.0-0 dated 2021-05-05
DESCRIPTION | 10 +++++----- MD5 | 20 ++++++++++---------- R/BayesSUR.R | 4 ++-- R/exampleGDSC.R | 4 ++-- R/getEstimator.R | 6 +++--- build/vignette.rds |binary data/exampleGDSC.rda |binary inst/doc/BayesSUR.pdf |binary man/BayesSUR.Rd | 3 +++ man/exampleGDSC.Rd | 4 ++-- src/drive.cpp | 29 +++++++++++++++++++++-------- 11 files changed, 48 insertions(+), 32 deletions(-)
Title: Extensible Style-Sheet Language Transformations
Description: An extension for the 'xml2' package to transform XML documents
by applying an 'xslt' style-sheet.
Author: Jeroen Ooms [aut, cre] (<https://orcid.org/0000-0002-4035-0289>)
Maintainer: Jeroen Ooms <jeroen@berkeley.edu>
Diff between xslt versions 1.4.2 dated 2020-05-17 and 1.4.3 dated 2021-05-05
DESCRIPTION | 8 ++++---- MD5 | 9 +++++---- NEWS | 9 ++++++--- configure | 17 ++++++++--------- src/Makevars.ucrt |only src/Makevars.win | 4 ++-- 6 files changed, 25 insertions(+), 22 deletions(-)
Title: Growth Charts via Smooth Regression Quantiles with Automatic
Smoothness Estimation and Additive Terms
Description: Fits non-crossing regression quantiles as a function of linear covariates and multiple smooth terms via B-splines with L1-norm difference penalties. The smoothing parameters are estimated as part of the model fitting. Monotonicity and concavity constraints on the fitted curves are allowed. See Muggeo, Sciandra, Tomasello and Calvo (2013) <doi:10.1007/s10651-012-0232-1> and <doi:10.13140/RG.2.2.12924.85122> for some code examples.
Smoothing parameter selection with additive terms is discussed in Muggeo and others (2020) <doi:10.1177/1471082X20929802>.
Author: Vito M. R. Muggeo [aut, cre] (<https://orcid.org/0000-0002-3386-4054>)
Maintainer: Vito M. R. Muggeo <vito.muggeo@unipa.it>
Diff between quantregGrowth versions 1.1-0 dated 2021-03-27 and 1.2-0 dated 2021-05-05
DESCRIPTION | 8 MD5 | 41 +- NAMESPACE | 6 NEWS | 12 R/AIC.gcrq.R |only R/gcrq.r | 233 +++++++++------ R/gcrq.rq.cv.R | 6 R/logLik.gcrq.R |only R/ncross.rq.fitX.R | 252 ++++++++++------- R/ncross.rq.fitXB.r | 613 +++++++++++++++++++++++++----------------- R/plot.gcrq.R | 198 ++++++------- R/predict.gcrq.R | 165 +++++------ R/print.gcrq.R | 12 R/summary.gcrq.R | 86 +++-- man/gcrq.Rd | 34 +- man/logLik.gcrq.Rd |only man/ncross.rq.fitXB.Rd | 21 + man/plot.gcrq.Rd | 28 - man/predict.gcrq.Rd | 5 man/ps.Rd | 9 man/quantregGrowth-package.Rd | 15 - man/summary.gcrq.Rd | 2 man/vcov.gcrq.Rd | 7 23 files changed, 1008 insertions(+), 745 deletions(-)
More information about quantregGrowth at CRAN
Permanent link
Title: Text Extraction, Rendering and Converting of PDF Documents
Description: Utilities based on 'libpoppler' for extracting text, fonts, attachments and
metadata from a PDF file. Also supports high quality rendering of PDF documents into
PNG, JPEG, TIFF format, or into raw bitmap vectors for further processing in R.
Author: Jeroen Ooms [aut, cre] (<https://orcid.org/0000-0002-4035-0289>)
Maintainer: Jeroen Ooms <jeroen@berkeley.edu>
Diff between pdftools versions 2.3.1 dated 2020-05-22 and 3.0.0 dated 2021-05-05
DESCRIPTION | 10 +++++----- MD5 | 21 +++++++++++---------- NEWS | 7 +++++++ R/RcppExports.R | 4 ++-- R/tools.R | 7 +++++-- configure | 8 ++------ man/pdftools.Rd | 5 ++++- man/qpdf.Rd | 2 +- src/Makevars.ucrt |only src/Makevars.win | 17 ++++++++++++----- src/RcppExports.cpp | 9 +++++---- src/bindings.cpp | 52 ++++++++++++++++++++++++++++++++++++++++++++++++---- 12 files changed, 102 insertions(+), 40 deletions(-)
Title: 'SciViews' - Socket Server
Description: Implements a socket server allowing to connect clients to R.
Author: Philippe Grosjean [aut, cre] (<https://orcid.org/0000-0002-2694-9471>),
Matthew Dowle [ctb]
Maintainer: Philippe Grosjean <phgrosjean@sciviews.org>
Diff between svSocket versions 1.0.1 dated 2020-11-11 and 1.0.2 dated 2021-05-05
DESCRIPTION | 9 - MD5 | 32 +-- NEWS.md | 4 R/parSocket.R | 6 R/socketClientConnection.R | 5 R/startSocketServer.R | 2 R/svSocket-package.R | 14 - build/vignette.rds |binary inst/CITATION | 4 inst/WORDLIST | 1 inst/doc/svSocket.R | 117 +++++++------ inst/doc/svSocket.Rmd | 33 ++- inst/doc/svSocket.html | 365 ++++++++++-------------------------------- man/parSocket.Rd | 6 man/socketClientConnection.Rd | 4 man/svSocket-package.Rd | 14 - vignettes/svSocket.Rmd | 33 ++- 17 files changed, 243 insertions(+), 406 deletions(-)
Title: MR Spectroscopy Analysis Tools
Description: Tools for reading, visualising and processing Magnetic Resonance
Spectroscopy data. The package includes methods for spectral fitting: Wilson
(2021) <DOI:10.1002/mrm.28385> and spectral alignment: Wilson (2018)
<DOI:10.1002/mrm.27605>.
Author: Martin Wilson [cre, aut] (<https://orcid.org/0000-0002-2089-3956>),
Yong Wang [ctb],
John Muschelli [ctb]
Maintainer: Martin Wilson <martin@pipegrep.co.uk>
Diff between spant versions 1.11.0 dated 2021-03-27 and 1.12.0 dated 2021-05-05
DESCRIPTION | 10 MD5 | 64 ++-- NAMESPACE | 1 NEWS.md | 7 R/abfit.R | 130 ++++++--- R/mol_parameters.R | 409 +++++++++++++++++++----------- R/mrs_read_lcm_raw.R | 2 build/vignette.rds |binary inst/doc/abfit-baseline-opts.R | 4 inst/doc/abfit-baseline-opts.Rmd | 4 inst/doc/abfit-baseline-opts.html | 12 inst/doc/spant-basis-simulation.R |only inst/doc/spant-basis-simulation.Rmd |only inst/doc/spant-basis-simulation.html |only inst/doc/spant-intro.R | 4 inst/doc/spant-intro.Rmd | 4 inst/doc/spant-intro.html | 64 ++-- inst/doc/spant-metabolite-simulation.R |only inst/doc/spant-metabolite-simulation.Rmd |only inst/doc/spant-metabolite-simulation.html |only inst/doc/spant-preprocessing.R | 4 inst/doc/spant-preprocessing.Rmd | 4 inst/doc/spant-preprocessing.html | 14 - man/abfit_opts.Rd | 5 man/get_uncoupled_mol.Rd | 14 - tests/testthat/abfit_res_coarse.rds |binary tests/testthat/abfit_res_default.rds |binary tests/testthat/abfit_res_fine.rds |binary tests/testthat/abfit_res_no_optim.rds |binary tests/testthat/abfit_sim_mrs_data.rds |binary tests/testthat/abfit_sim_res.rds |binary tests/testthat/def_basis.rds |binary vignettes/abfit-baseline-opts.Rmd | 4 vignettes/spant-basis-simulation.Rmd |only vignettes/spant-intro.Rmd | 4 vignettes/spant-metabolite-simulation.Rmd |only vignettes/spant-preprocessing.Rmd | 4 37 files changed, 489 insertions(+), 279 deletions(-)
Title: Calculating Likelihoods by Pedigree Paring
Description: A fast and general implementation of the Elston-Stewart algorithm
that can calculate the likelihoods of large and complex pedigrees.
References for the Elston-Stewart algorithm are
Elston & Stewart (1971) <doi:10.1159/000152448>,
Lange & Elston (1975) <doi:10.1159/000152714> and
Cannings et al. (1978) <doi:10.2307/1426718>.
Author: James Dowty [aut, cre],
Kevin Wong [aut]
Maintainer: James Dowty <jgdowty@gmail.com>
Diff between clipp versions 0.1.0 dated 2020-07-06 and 1.0.0 dated 2021-05-05
clipp-0.1.0/clipp/R/geno_freq_HWE.R |only clipp-0.1.0/clipp/man/geno_freq_HWE.Rd |only clipp-1.0.0/clipp/DESCRIPTION | 8 clipp-1.0.0/clipp/MD5 | 52 +- clipp-1.0.0/clipp/NAMESPACE | 7 clipp-1.0.0/clipp/R/clipp-package.R | 17 clipp-1.0.0/clipp/R/combine_loci.R |only clipp-1.0.0/clipp/R/dat_large.R | 18 clipp-1.0.0/clipp/R/dat_small.R | 26 - clipp-1.0.0/clipp/R/geno_freq_monogenic.R |only clipp-1.0.0/clipp/R/geno_freq_phased.R |only clipp-1.0.0/clipp/R/geno_freq_polygenic.R |only clipp-1.0.0/clipp/R/genotype_probabilities.R | 160 ++++++-- clipp-1.0.0/clipp/R/pedigree_loglikelihood.R | 151 ++++++-- clipp-1.0.0/clipp/R/pedigree_loglikelihood_g.R | 446 +++++++++++++++--------- clipp-1.0.0/clipp/R/penet_large.R | 4 clipp-1.0.0/clipp/R/penet_small.R | 4 clipp-1.0.0/clipp/R/trans_monogenic.R | 24 - clipp-1.0.0/clipp/R/trans_phased.R |only clipp-1.0.0/clipp/R/trans_polygenic.R |only clipp-1.0.0/clipp/man/clipp-package.Rd | 17 clipp-1.0.0/clipp/man/combine_loci.Rd |only clipp-1.0.0/clipp/man/dat_large.Rd | 18 clipp-1.0.0/clipp/man/dat_small.Rd | 20 - clipp-1.0.0/clipp/man/geno_freq_monogenic.Rd |only clipp-1.0.0/clipp/man/geno_freq_phased.Rd |only clipp-1.0.0/clipp/man/geno_freq_polygenic.Rd |only clipp-1.0.0/clipp/man/genotype_probabilities.Rd | 88 +++- clipp-1.0.0/clipp/man/pedigree_loglikelihood.Rd | 116 ++++-- clipp-1.0.0/clipp/man/penet_large.Rd | 4 clipp-1.0.0/clipp/man/penet_small.Rd | 4 clipp-1.0.0/clipp/man/trans_monogenic.Rd | 24 - clipp-1.0.0/clipp/man/trans_phased.Rd |only clipp-1.0.0/clipp/man/trans_polygenic.Rd |only 34 files changed, 798 insertions(+), 410 deletions(-)
More information about CALIBERrfimpute at CRAN
Permanent link
Title: Colour Palettes for Data
Description: Colour palettes for data, based on some well known public data
sets. Includes helper functions to map absolute values to known palettes, and
capture the work of image colour mapping as raster data sets.
Author: Michael D. Sumner [aut, cre],
Abigael Proctor [ctb] (Named the package),
Tomas Remenyi [ctb] (Provided colours for element_pal),
R Core Team and contributors worldwide [ctb] (source code of
image.default)
Maintainer: Michael D. Sumner <mdsumner@gmail.com>
Diff between palr versions 0.2.0 dated 2020-01-30 and 0.3.0 dated 2021-05-05
DESCRIPTION | 10 - MD5 | 23 ++-- NAMESPACE | 3 NEWS.md | 7 + R/data_pal.R |only R/image_pal.R | 1 R/mesh_pal.R |only R/palr-package.r | 7 - build/vignette.rds |binary inst/doc/nasa_chla.html | 267 +++++++++--------------------------------------- inst/doc/palr.html | 267 +++++++++--------------------------------------- man/d_pal.Rd |only man/oisst.Rd | 5 man/palr.Rd | 2 14 files changed, 144 insertions(+), 448 deletions(-)
More information about NHSDataDictionaRy at CRAN
Permanent link
Title: Atlas of Living Australia (ALA) Data and Resources in R
Description: The Atlas of Living Australia ('ALA') provides tools to enable users
of biodiversity information to find, access, combine and visualise data on
Australian plants and animals; these have been made available from
<https://ala.org.au/>. 'galah' provides a subset of the tools to be
directly used within R. It enables the R community to directly access data
and resources hosted by the 'ALA'.
Author: Matilda Stevenson [aut, cre],
Martin Westgate [aut],
Peggy Newman [aut]
Maintainer: Matilda Stevenson <matilda.stevenson@csiro.au>
Diff between galah versions 1.0.0 dated 2021-04-06 and 1.1.0 dated 2021-05-05
DESCRIPTION | 6 MD5 | 64 +++--- NAMESPACE | 1 NEWS.md | 24 ++ R/ala_GET.R | 2 R/ala_POST.R | 4 R/ala_counts.R | 11 - R/ala_media.R | 316 +++++++++++++++++++++------------ R/ala_occurrences.R | 17 + R/galah.R | 2 R/search_fields.R | 24 ++ R/select_columns.R | 17 + R/select_filters.R | 2 R/select_locations.R | 37 +-- R/select_taxa.R | 98 ++++++---- R/utilities_internal.R | 9 README.md | 11 - inst/doc/galah.R | 17 + inst/doc/galah.Rmd | 29 +-- inst/doc/galah.html | 54 +++-- man/ala_media.Rd | 76 +++++-- man/ala_occurrences.Rd | 4 man/search_fields.Rd | 2 man/select_columns.Rd | 2 man/select_locations.Rd | 18 - man/select_taxa.Rd | 29 +-- tests/testthat/test-ala_counts.R | 2 tests/testthat/test-ala_media.R | 60 +----- tests/testthat/test-ala_occurrences.R | 9 tests/testthat/test-search_fields.R | 2 tests/testthat/test-select_locations.R | 13 - tests/testthat/test-select_taxa.R | 34 +-- vignettes/galah.Rmd | 29 +-- 33 files changed, 602 insertions(+), 423 deletions(-)
Title: A Graphical User Interface for Dexter
Description: Classical Test and Item analysis,
Item Response analysis and data management for educational and psychological tests.
Author: jesse koops [aut, cre],
Eva de Schipper [aut],
Ivailo Partchev [aut, ctb],
Gunter Maris [aut, ctb],
Timo Bechger [aut, ctb],
Gareth Watts [cph] (author of jquery.sparkline),
Hakim El Hattab [cph] (author of zoom.js)
Maintainer: jesse koops <jesse.koops@cito.nl>
Diff between dextergui versions 0.2.2 dated 2020-02-20 and 0.2.3 dated 2021-05-05
DESCRIPTION | 22 +++++----- MD5 | 22 +++++----- NEWS.md | 4 + R/serve.R | 7 +-- README.md | 2 build/vignette.rds |binary inst/doc/dextergui.Rmd | 2 inst/doc/dextergui.html | 37 ++++++++++++++++- inst/extdata/manual.html | 2 inst/www/jquery.mousewheel.min.js | 14 +++--- man/dextergui.Rd | 82 +++++++++++++++++++------------------- vignettes/dextergui.Rmd | 2 12 files changed, 116 insertions(+), 80 deletions(-)
Title: BioConductor Package Downloads Stats
Description: Download stats reported from the BioConductor.org stats website.
Author: Marcelo Ponce [aut, cre]
Maintainer: Marcelo Ponce <mponce@scinet.utoronto.ca>
Diff between bioC.logs versions 1.1 dated 2020-02-13 and 1.2 dated 2021-05-05
DESCRIPTION | 14 +++++------ MD5 | 14 +++++------ NEWS | 3 ++ R/bioC_logs.R | 8 +++--- README.md | 31 ++++++++++++++++++++----- build/vignette.rds |binary inst/doc/bioC.logs.html | 59 ++++++++++++++++++++++++++++++++++-------------- man/bioC_downloads.Rd | 2 - 8 files changed, 90 insertions(+), 41 deletions(-)
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2017-10-06 0.2.11
2017-04-02 0.2.1
2017-02-12 0.1.7
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2021-02-08 0.1.0
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2020-12-21 0.7
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2021-04-09 1.0.1
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2020-03-22 1.4.1
2018-12-04 1.4
2015-12-14 1.3
2014-11-11 1.2
2014-04-08 1.1
2014-01-27 1.0
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2017-04-27 3.0
2015-10-10 2.0
2012-09-22 1.0
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2020-10-16 1.1.3
2020-07-23 1.1.2
2020-02-05 1.1.1
2019-11-17 1.1.0
2019-10-22 1.0.0
2018-11-26 0.1.0
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2019-03-06 0.99.2
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2020-06-04 1.0.5
2020-04-20 1.0.4
2019-10-25 1.0.2
2019-08-06 1.0.1
2019-07-30 1.0.0
2019-07-28 0.99.5
2018-09-16 0.99.4
2018-06-04 0.99.1
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2020-12-13 0.2.0
2020-03-20 0.1.0
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2021-04-04 1.1
2021-01-08 1.0
Title: Spatio-Temporal Regression Modeling
Description: Implements a spatio-temporal regression model based on Chi, G. and Zhu, J. (2019) Spatial Regression Models for the Social Sciences <isbn:9781544302072>. The approach here fits a spatial error model while incorporating a temporally lagged response variable and temporally lagged explanatory variables. This package builds on the errorsarlm() function from the spatialreg package.
Author: Maria Kamenetsky [aut, cre],
Guangqing Chi [aut],
Jun Zhu [aut]
Maintainer: Maria Kamenetsky <maria.kamenetsky@gmail.com>
Diff between strm versions 0.1.1 dated 2020-11-02 and 0.1.2 dated 2021-05-05
strm-0.1.1/strm/vignettes/desktop.ini |only strm-0.1.2/strm/DESCRIPTION | 26 strm-0.1.2/strm/MD5 | 23 strm-0.1.2/strm/NEWS.md | 5 strm-0.1.2/strm/README.md | 10 strm-0.1.2/strm/build/vignette.rds |binary strm-0.1.2/strm/inst/doc/strm_intro.Rmd | 16 strm-0.1.2/strm/inst/doc/strm_intro.html | 542 ++++--- strm-0.1.2/strm/inst/doc/strm_withcensusdata.R | 25 strm-0.1.2/strm/inst/doc/strm_withcensusdata.Rmd | 47 strm-0.1.2/strm/inst/doc/strm_withcensusdata.html | 1617 +++++++++++++++------- strm-0.1.2/strm/vignettes/strm_intro.Rmd | 16 strm-0.1.2/strm/vignettes/strm_withcensusdata.Rmd | 47 13 files changed, 1626 insertions(+), 748 deletions(-)
Title: Core Utilities for Single-Cell RNA-Seq
Description: Core utilities for single-cell RNA-seq data analysis. Contained within are utility functions for working with differential expression (DE) matrices and count matrices, a collection of functions for manipulating and plotting data via 'ggplot2', and functions to work with cell graphs and cell embeddings. Graph-based methods include embedding kNN cell graphs into a UMAP <doi:10.21105/joss.00861>, collapsing vertices of each cluster in the graph, and propagating graph labels.
Author: Viktor Petukhov [aut],
Ramus Rydbirk [aut],
Peter Kharchenko [aut],
Evan Biederstedt [aut, cre]
Maintainer: Evan Biederstedt <evan.biederstedt@gmail.com>
Diff between sccore versions 0.1.2 dated 2021-02-23 and 0.1.3 dated 2021-05-05
sccore-0.1.2/sccore/man/colSumByFac.Rd |only sccore-0.1.2/sccore/src/colSumByFac.cpp |only sccore-0.1.2/sccore/src/include |only sccore-0.1.2/sccore/src/jsDist.cpp |only sccore-0.1.3/sccore/DESCRIPTION | 6 ++-- sccore-0.1.3/sccore/MD5 | 28 ++++++++++---------- sccore-0.1.3/sccore/NAMESPACE | 2 - sccore-0.1.3/sccore/R/RcppExports.R | 23 +++++++--------- sccore-0.1.3/sccore/R/diff_expression.R | 31 ++++++++++++++++++++-- sccore-0.1.3/sccore/R/helpers.R | 2 - sccore-0.1.3/sccore/README.md | 2 - sccore-0.1.3/sccore/inst |only sccore-0.1.3/sccore/man/colSumByFactor.Rd |only sccore-0.1.3/sccore/man/collapseCellsByType.Rd |only sccore-0.1.3/sccore/man/jsDist.Rd | 4 -- sccore-0.1.3/sccore/src/Makevars | 2 - sccore-0.1.3/sccore/src/Makevars.win | 2 - sccore-0.1.3/sccore/src/RcppExports.cpp | 35 ++++++++++++------------- sccore-0.1.3/sccore/src/matrix_utils.cpp |only 19 files changed, 79 insertions(+), 58 deletions(-)
Title: Graphical Tools for Exploring Data with 'iNZight'
Description: Simple plotting function(s) for exploratory data analysis with flexible options allowing for easy plot customisation. The goal is to make it easy for beginners to start exploring a dataset through simple R function calls, as well as provide a similar interface to summary statistics and inference information. Includes functionality to generate interactive HTML-driven graphs. Used by 'iNZight', a graphical user interface providing easy exploration and visualisation of data for students of statistics, available in both desktop and online versions.
Author: Tom Elliott [aut, cre] (<https://orcid.org/0000-0002-7815-6318>),
Yu Han Soh [aut],
Daniel Barnett [aut]
Maintainer: Tom Elliott <tom.elliott@auckland.ac.nz>
Diff between iNZightPlots versions 2.12.6 dated 2021-02-11 and 2.13.0 dated 2021-05-05
iNZightPlots-2.12.6/iNZightPlots/tests/testthat/chis.csv |only iNZightPlots-2.12.6/iNZightPlots/tests/testthat/nhanes.csv |only iNZightPlots-2.13.0/iNZightPlots/DESCRIPTION | 12 - iNZightPlots-2.13.0/iNZightPlots/MD5 | 57 +++-- iNZightPlots-2.13.0/iNZightPlots/NAMESPACE | 2 iNZightPlots-2.13.0/iNZightPlots/R/drawAxes.R | 18 + iNZightPlots-2.13.0/iNZightPlots/R/getSummary.R | 109 +--------- iNZightPlots-2.13.0/iNZightPlots/R/iNZightPlot.R | 21 + iNZightPlots-2.13.0/iNZightPlots/R/inzDataframe.R | 8 iNZightPlots-2.13.0/iNZightPlots/R/inzbarplot.R | 11 - iNZightPlots-2.13.0/iNZightPlots/R/inzdotplot.R | 5 iNZightPlots-2.13.0/iNZightPlots/R/inzhexplot.R | 49 ++-- iNZightPlots-2.13.0/iNZightPlots/R/inzinference.R |only iNZightPlots-2.13.0/iNZightPlots/R/inzplot.R | 1 iNZightPlots-2.13.0/iNZightPlots/R/inzsummary.R |only iNZightPlots-2.13.0/iNZightPlots/R/methods-survey.R | 2 iNZightPlots-2.13.0/iNZightPlots/R/sysdata.rda |binary iNZightPlots-2.13.0/iNZightPlots/man/figures |only iNZightPlots-2.13.0/iNZightPlots/man/inzinference.Rd |only iNZightPlots-2.13.0/iNZightPlots/man/inzplot.Rd | 36 --- iNZightPlots-2.13.0/iNZightPlots/man/inzsummary.Rd |only iNZightPlots-2.13.0/iNZightPlots/tests/testthat/apiclus2-jk1.csv |only iNZightPlots-2.13.0/iNZightPlots/tests/testthat/test_axes.R | 8 iNZightPlots-2.13.0/iNZightPlots/tests/testthat/test_datetimes.R | 5 iNZightPlots-2.13.0/iNZightPlots/tests/testthat/test_dot.R | 4 iNZightPlots-2.13.0/iNZightPlots/tests/testthat/test_repweights.R | 4 iNZightPlots-2.13.0/iNZightPlots/tests/testthat/test_summary.R | 4 iNZightPlots-2.13.0/iNZightPlots/tests/testthat/test_survey.R | 3 iNZightPlots-2.13.0/iNZightPlots/tests/testthat/test_survey_inference.R | 22 +- iNZightPlots-2.13.0/iNZightPlots/tests/testthat/test_survey_methods.R | 24 ++ 30 files changed, 203 insertions(+), 202 deletions(-)
Title: Global Optimization by Differential Evolution
Description: Implements the Differential Evolution algorithm for global optimization of a real-valued function
of a real-valued parameter vector as described in Mullen et al. (2011) <doi:10.18637/jss.v040.i06>.
Author: David Ardia [aut] (<https://orcid.org/0000-0003-2823-782X>),
Katharine Mullen [aut, cre],
Brian Peterson [aut],
Joshua Ulrich [aut],
Kris Boudt [ctb]
Maintainer: Katharine Mullen <mullenkate@gmail.com>
Diff between DEoptim versions 2.2-5 dated 2020-02-23 and 2.2-6 dated 2021-05-05
DEoptim-2.2-5/DEoptim/README |only DEoptim-2.2-5/DEoptim/build/vignette.rds |only DEoptim-2.2-5/DEoptim/inst/doc |only DEoptim-2.2-5/DEoptim/vignettes |only DEoptim-2.2-6/DEoptim/DESCRIPTION | 23 +- DEoptim-2.2-6/DEoptim/MD5 | 29 -- DEoptim-2.2-6/DEoptim/NEWS | 4 DEoptim-2.2-6/DEoptim/README.md |only DEoptim-2.2-6/DEoptim/build/partial.rdb |only DEoptim-2.2-6/DEoptim/inst/CITATION | 64 ----- DEoptim-2.2-6/DEoptim/man/DEoptim-methods.Rd | 302 +++++++++++++-------------- DEoptim-2.2-6/DEoptim/man/DEoptim.Rd | 19 - DEoptim-2.2-6/DEoptim/man/DEoptim.control.Rd | 22 - DEoptim-2.2-6/DEoptim/man/SMI.Rd | 8 DEoptim-2.2-6/DEoptim/man/xrrData.Rd | 8 15 files changed, 214 insertions(+), 265 deletions(-)
Title: Brain Cell Type Specific Gene Expression Analysis
Description: Analysis of relative cell type proportions in bulk gene expression data. Provides a well-validated set of brain cell type-specific marker genes derived from multiple types of experiments, as described in McKenzie (2018) <doi:10.1038/s41598-018-27293-5>. For brain tissue data sets, there are marker genes available for astrocytes, endothelial cells, microglia, neurons, oligodendrocytes, and oligodendrocyte precursor cells, derived from each of human, mice, and combination human/mouse data sets. However, if you have access to your own marker genes, the functions can be applied to bulk gene expression data from any tissue. Also implements multiple options for relative cell type proportion estimation using these marker genes, adapting and expanding on approaches from the 'CellCODE' R package described in Chikina (2015) <doi:10.1093/bioinformatics/btv015>. The number of cell type marker genes used in a given analysis can be increased or decreased based on your preferences and the data set. Finally, provides functions to use the estimates to adjust for variability in the relative proportion of cell types across samples prior to downstream analyses.
Author: Andrew McKenzie [aut, cre],
Minghui Wang [aut],
Bin Zhang [aut]
Maintainer: Andrew McKenzie <amckenz@gmail.com>
Diff between BRETIGEA versions 1.0.0 dated 2018-09-30 and 1.0.3 dated 2021-05-05
BRETIGEA-1.0.0/BRETIGEA/data/datalist |only BRETIGEA-1.0.3/BRETIGEA/DESCRIPTION | 8 +-- BRETIGEA-1.0.3/BRETIGEA/MD5 | 43 +++++++++--------- BRETIGEA-1.0.3/BRETIGEA/R/BRETIGEA_package.R | 5 ++ BRETIGEA-1.0.3/BRETIGEA/R/brainCells.R | 29 +++++++----- BRETIGEA-1.0.3/BRETIGEA/R/findCells.R | 2 BRETIGEA-1.0.3/BRETIGEA/README.md | 26 +++++++--- BRETIGEA-1.0.3/BRETIGEA/build/vignette.rds |binary BRETIGEA-1.0.3/BRETIGEA/data/kelley_df_brain.rda |only BRETIGEA-1.0.3/BRETIGEA/inst/doc/BRETIGEA_basic.R | 36 +++++++++++---- BRETIGEA-1.0.3/BRETIGEA/inst/doc/BRETIGEA_basic.Rmd | 31 ++++++++++++ BRETIGEA-1.0.3/BRETIGEA/inst/doc/BRETIGEA_basic.pdf |binary BRETIGEA-1.0.3/BRETIGEA/man/BRETIGEA.Rd | 1 BRETIGEA-1.0.3/BRETIGEA/man/aba_marker_expression.Rd | 4 + BRETIGEA-1.0.3/BRETIGEA/man/aba_pheno_data.Rd | 4 + BRETIGEA-1.0.3/BRETIGEA/man/adjustBrainCells.Rd | 10 +++- BRETIGEA-1.0.3/BRETIGEA/man/adjustCells.Rd | 10 +++- BRETIGEA-1.0.3/BRETIGEA/man/brainCells.Rd | 14 ++++- BRETIGEA-1.0.3/BRETIGEA/man/findCells.Rd | 3 - BRETIGEA-1.0.3/BRETIGEA/man/kelley_df_brain.Rd |only BRETIGEA-1.0.3/BRETIGEA/man/markers_df_brain.Rd | 4 + BRETIGEA-1.0.3/BRETIGEA/man/markers_df_human_brain.Rd | 4 + BRETIGEA-1.0.3/BRETIGEA/man/markers_df_mouse_brain.Rd | 4 + BRETIGEA-1.0.3/BRETIGEA/vignettes/BRETIGEA_basic.Rmd | 31 ++++++++++++ 24 files changed, 201 insertions(+), 68 deletions(-)