Title: Tools for Graphical Inference
Description: Tools for visual inference. Generate null data sets
and null plots using permutation and simulation. Calculate distance metrics
for a lineup, and examine the distributions of metrics.
Author: Hadley Wickham [aut, ctb] (<https://orcid.org/0000-0003-4757-117X>),
Niladri Roy Chowdhury [aut, ctb],
Di Cook [aut, cre] (<https://orcid.org/0000-0002-3813-7155>),
Heike Hofmann [aut, ctb] (<https://orcid.org/0000-0001-6216-5183>)
Maintainer: Di Cook <dicook@monash.edu>
Diff between nullabor versions 0.3.5 dated 2018-09-23 and 0.3.9 dated 2020-02-25
DESCRIPTION | 27 +- MD5 | 47 ++- NAMESPACE | 2 NEWS.md | 22 + R/method-ts.r | 7 R/opt_diff.r | 2 R/sample_size.r |only README.md | 12 - build/vignette.rds |binary inst/CITATION |only inst/doc/distances.R | 32 +- inst/doc/distances.Rmd | 2 inst/doc/distances.html | 437 ++++++++++++++++++++++++++++-------- inst/doc/nullabor-examples.R | 16 - inst/doc/nullabor-examples.Rmd | 2 inst/doc/nullabor-examples.html | 423 +++++++++++++++++++++++++++-------- inst/doc/nullabor.R | 22 - inst/doc/nullabor.html | 473 ++++++++++++++++++++++++++++++---------- man/calc_mean_dist.Rd | 2 man/distmet.Rd | 12 - man/null_ts.Rd | 5 man/opt_bin_diff.Rd | 13 - man/pvisual.Rd | 12 - man/sample_size.Rd |only vignettes/distances.Rmd | 2 vignettes/nullabor-examples.Rmd | 2 26 files changed, 1163 insertions(+), 411 deletions(-)
Title: Helper Functions to Install and Maintain 'TeX Live', and Compile
'LaTeX' Documents
Description: Helper functions to install and maintain the 'LaTeX' distribution
named 'TinyTeX' (<https://yihui.org/tinytex/>), a lightweight, cross-platform,
portable, and easy-to-maintain version of 'TeX Live'. This package also
contains helper functions to compile 'LaTeX' documents, and install missing
'LaTeX' packages automatically.
Author: Yihui Xie [aut, cre, cph] (<https://orcid.org/0000-0003-0645-5666>),
RStudio, PBC [cph],
Fernando Cagua [ctb],
Ethan Heinzen [ctb]
Maintainer: Yihui Xie <xie@yihui.name>
Diff between tinytex versions 0.19 dated 2020-01-14 and 0.20 dated 2020-02-25
DESCRIPTION | 10 +++++----- LICENSE | 2 +- MD5 | 10 +++++----- R/install.R | 15 +++++++++------ R/tlmgr.R | 42 ++++++++++++++++++++++++++---------------- man/install_tinytex.Rd | 6 +++++- 6 files changed, 51 insertions(+), 34 deletions(-)
Title: Tidy RSS for R
Description: With the objective of including data from RSS feeds into your analysis,
'tidyRSS' parses RSS, Atom and JSON feeds and returns a tidy data frame.
Author: Robert Myles McDonnell
Maintainer: Robert Myles McDonnell <robertmylesmcdonnell@gmail.com>
Diff between tidyRSS versions 1.2.11 dated 2019-05-22 and 2.0.0 dated 2020-02-25
tidyRSS-1.2.11/tidyRSS/R/feeds.R |only tidyRSS-1.2.11/tidyRSS/R/geo_parse.R |only tidyRSS-1.2.11/tidyRSS/build |only tidyRSS-1.2.11/tidyRSS/data |only tidyRSS-1.2.11/tidyRSS/inst |only tidyRSS-1.2.11/tidyRSS/man/feeds.Rd |only tidyRSS-1.2.11/tidyRSS/vignettes |only tidyRSS-2.0.0/tidyRSS/DESCRIPTION | 21 ++-- tidyRSS-2.0.0/tidyRSS/MD5 | 52 +++++++---- tidyRSS-2.0.0/tidyRSS/NAMESPACE | 19 +++- tidyRSS-2.0.0/tidyRSS/NEWS.md | 14 ++- tidyRSS-2.0.0/tidyRSS/R/atom_parse.R | 104 ++++++++++++++++------- tidyRSS-2.0.0/tidyRSS/R/clean_up.R |only tidyRSS-2.0.0/tidyRSS/R/json_parse.R | 87 ++++++++++++------- tidyRSS-2.0.0/tidyRSS/R/rss_parse.R | 151 +++++++++++++--------------------- tidyRSS-2.0.0/tidyRSS/R/safe_get.R |only tidyRSS-2.0.0/tidyRSS/R/safe_run.R |only tidyRSS-2.0.0/tidyRSS/R/tidyfeed.R | 109 +++++++++--------------- tidyRSS-2.0.0/tidyRSS/R/utils.R |only tidyRSS-2.0.0/tidyRSS/R/zzz.R | 36 +++----- tidyRSS-2.0.0/tidyRSS/README.md | 151 ++++++++++++++++------------------ tidyRSS-2.0.0/tidyRSS/man/pipe.Rd | 2 tidyRSS-2.0.0/tidyRSS/man/tidyfeed.Rd | 27 +++--- tidyRSS-2.0.0/tidyRSS/tests |only 24 files changed, 406 insertions(+), 367 deletions(-)
Title: Computation of High-Order Sobol' Sensitivity Indices
Description: It allows to rapidly compute, bootstrap and plot up to third-order Sobol' indices
using the estimators by Saltelli et al. 2010 <doi:10.1016/j.cpc.2009.09.018> and
Jansen 1999 <doi:10.1016/S0010-4655(98)00154-4>. The 'sensobol' package also implements
the algorithm by Khorashadi Zadeh et al. 2017 <doi:10.1016/j.envsoft.2017.02.001> to
calculate the approximation error in the computation of Sobol' first and
total indices, an approach that allows to robustly screen influential from non-influential
model inputs. Finally, it also provides functions to obtain publication-ready figures
of the model output uncertainty and sensitivity-related analysis.
Author: Arnald Puy [aut, cre] (<https://orcid.org/0000-0001-9469-2156>),
Bertrand Ioos [ctb] (Author of included 'sensitivity' fragments),
Gilles Pujol [ctb] (Author of included 'sensitivity' fragments),
RStudio [cph] (Copyright holder of included 'sensitivity' fragments)
Maintainer: Arnald Puy <arnald.puy@gmail.com>
Diff between sensobol versions 0.2.1 dated 2019-09-20 and 0.2.2 dated 2020-02-25
DESCRIPTION | 8 ++--- MD5 | 22 +++++++------- NEWS.md | 23 +++++++++++++++ R/plot_sobol.R | 2 + R/sobol_boot.R | 3 ++ R/sobol_indices.R | 14 ++++++++- R/sobol_matrices.R | 3 ++ R/test_functions.R | 1 build/partial.rdb |binary inst/doc/sensobol.R | 20 ++++++------- inst/doc/sensobol.html | 72 ++++++++++++++++++++++++++++++++++--------------- man/sobol_indices.Rd | 13 +++++++- 12 files changed, 131 insertions(+), 50 deletions(-)
Title: Compositional Data Analysis
Description: Regression, classification, contour plots, hypothesis testing and fitting of distributions for compositional data are some of the functions included. The standard textbook for such data is John Aitchison's (1986) "The statistical analysis of compositional data". Relevant papers include a) Tsagris M.T., Preston S. and Wood A.T.A. (2011) A data-based power transformation for compositional data. Fourth International International Workshop on Compositional Data Analysis. b) Tsagris M. (2014). The k-NN algorithm for compositional data: a revised approach with and without zero values present. Journal of Data Science, 12(3):519--534. c) Tsagris M. (2015). A novel, divergence based, regression for compositional data. Proceedings of the 28th Panhellenic Statistics Conference, 15-18 April 2015, Athens, Greece, 430--444. d) Tsagris M. (2015). Regression analysis with compositional data containing zero values. Chilean Journal of Statistics, 6(2):47--57. e) Tsagris M., Preston S. and Wood A.T.A. (2016). Improved supervised classification for compositional data using the alpha-transformation. Journal of Classification, 33(2):243--261. <doi:10.1007/s00357-016-9207-5>. f) Tsagris M., Preston S. and Wood A.T.A. (2017). Nonparametric hypothesis testing for equality of means on the simplex. Journal of Statistical Computation and Simulation, 87(2): 406--422. <doi:10.1080/00949655.2016.1216554> g) Tsagris M. and Stewart C. (2018). A Dirichlet regression model for compositional data with zeros. Lobachevskii Journal of Mathematics, 39(3): 398--412. <doi:10.1134/S1995080218030198>. h) Alenazi A. (2019). Regression for compositional data with compositional data as predictor variables with or without zero values. Journal of Data Science, 17(1): 219--238. <doi:10.6339/JDS.201901_17(1).0010>. i) Tsagris M. and Stewart C. (2019). A folded model for compositional data analysis. <arXiv:1802.07330>. j) Tsagris M., Alenazi A. and Stewart C. (2020). The alpha-k-NN regression for compositional data. <arXiv:2002.05137>. We further include functions for percentages (or proportions).
Author: Michail Tsagris [aut, cre],
Giorgos Athineou [aut],
Abdulaziz Alenazi [ctb]
Maintainer: Michail Tsagris <mtsagris@uoc.gr>
Diff between Compositional versions 3.6 dated 2019-11-23 and 3.7 dated 2020-02-25
DESCRIPTION | 10 ++++----- MD5 | 44 ++++++++++++++++++++++++++----------------- R/aknn.reg.R |only R/aknnreg.tune.R |only R/alfa.knn.reg.R |only R/alfaknnreg.tune.R |only R/bic.mixcompnorm.R | 18 +++++++++-------- R/divergence.R |only R/makefolds.R | 3 ++ R/mix.compnorm.R | 8 +++---- R/mixnorm.contour.R | 6 ++--- man/Compositional-package.Rd | 4 +-- man/a.est.Rd | 9 +++----- man/aknn.reg.Rd |only man/aknnreg.tune.Rd |only man/alfa.Rd | 5 +--- man/alfa.knn.reg.Rd |only man/alfaknnreg.tune.Rd |only man/alfarda.tune.Rd | 2 - man/alpha.mle.Rd | 4 +-- man/bic.mixcompnorm.Rd | 20 +++++++++++-------- man/comp.knn.Rd | 11 ++++++++-- man/compknn.tune.Rd | 16 +++++++++------ man/divergence.Rd |only man/kl.compreg.Rd | 7 ++++++ man/mix.compnorm.Rd | 3 ++ man/mixnorm.contour.Rd | 2 + man/rfolded.Rd | 2 - 28 files changed, 107 insertions(+), 67 deletions(-)
Title: Scrapes the 'NHL' API for Statistical Analysis
Description: Add game events to a database file to use for statistical analysis of hockey games. This means we only call the 'NHL' API
once for each game we want to add. We will have very fast retrieval of data once games have been added since the data is stored locally.
We use the API located at <https://statsapi.web.nhl.com/api/v1/teams> with supplemental data from <https://www.nhl.com/scores/>.
Other endpoints can be found at <https://gitlab.com/dword4/nhlapi>.
Author: Adam Azoulay [aut, cre]
Maintainer: Adam Azoulay <adam1azoulay@gmail.com>
Diff between nhlscrape versions 0.1.2 dated 2020-01-12 and 0.1.3 dated 2020-02-25
DESCRIPTION | 6 +++--- MD5 | 8 ++++---- NEWS.md | 5 +++++ R/db_manipulation.R | 17 +++++++++++++++++ R/db_retrieval.R | 23 +++++++++++++++++------ 5 files changed, 46 insertions(+), 13 deletions(-)
Title: Scores Features for Feature Selection
Description: For each feature, a score is computed that can be useful
for feature selection. Several random subsets are sampled from
the input data and for each random subset, various linear
models are fitted using lars method. A score is assigned to
each feature based on the tendency of LASSO in including that
feature in the models.Finally, the average score and the models
are returned as the output. The features with relatively low
scores are recommended to be ignored because they can lead to
overfitting of the model to the training data. Moreover, for
each random subset, the best set of features in terms of global
error is returned. They are useful for applying Bolasso, the
alternative feature selection method that recommends the
intersection of features subsets.
Author: Habil Zare
Maintainer: Habil Zare <zare@u.washington.edu>
Diff between FeaLect versions 1.14 dated 2018-06-01 and 1.20 dated 2020-02-25
FeaLect-1.14/FeaLect/R/FeaLect-internal.R |only FeaLect-1.20/FeaLect/DESCRIPTION | 8 +++---- FeaLect-1.20/FeaLect/MD5 | 11 ++++----- FeaLect-1.20/FeaLect/R/input.check.FeaLect.R | 17 +++++++-------- FeaLect-1.20/FeaLect/build/partial.rdb |binary FeaLect-1.20/FeaLect/build/vignette.rds |binary FeaLect-1.20/FeaLect/inst/doc/FeaLect_feature_scorer.pdf |binary 7 files changed, 18 insertions(+), 18 deletions(-)
Title: Managing Larger Data on a GitHub Repository
Description: Because larger (> 50 MB) data files cannot easily be committed to git,
a different approach is required to manage data associated with an analysis in a
GitHub repository. This package provides a simple work-around by allowing larger
(up to 2 GB) data files to piggyback on a repository as assets attached to individual
GitHub releases. These files are not handled by git in any way, but instead are
uploaded, downloaded, or edited directly by calls through the GitHub API. These
data files can be versioned manually by creating different releases. This approach
works equally well with public or private repositories. Data can be uploaded
and downloaded programmatically from scripts. No authentication is required to
download data from public repositories.
Author: Carl Boettiger [aut, cre, cph]
(<https://orcid.org/0000-0002-1642-628X>),
Mark Padgham [ctb] (<https://orcid.org/0000-0003-2172-5265>),
Jeffrey O Hanson [ctb] (<https://orcid.org/0000-0002-4716-6134>),
Kevin Kuo [ctb] (<https://orcid.org/0000-0001-7803-7901>)
Maintainer: Carl Boettiger <cboettig@gmail.com>
Diff between piggyback versions 0.0.10 dated 2019-02-07 and 0.0.11 dated 2020-02-25
DESCRIPTION | 19 ++++++++++------ MD5 | 42 ++++++++++++++++++------------------- NEWS.md | 9 +++++++ R/gh.R | 28 +++++++++++++++++++----- R/pb_download.R | 9 +++++++ R/pb_info.R | 8 +++++-- R/pb_track.R | 2 - README.md | 10 ++++---- build/vignette.rds |binary inst/doc/alternatives.html | 24 ++++++++++++--------- inst/doc/intro.R | 8 +++---- inst/doc/intro.html | 26 +++++++++++++--------- man/pb_delete.Rd | 8 +++++-- man/pb_download.Rd | 15 +++++++++---- man/pb_download_url.Rd | 8 +++++-- man/pb_list.Rd | 12 +++++++--- man/pb_new_release.Rd | 13 ++++++++--- man/pb_track.Rd | 4 +-- man/pb_upload.Rd | 14 +++++++++--- man/piggyback-package.Rd | 8 ++++--- tests/testthat/test-errors.R | 11 +++++++++ tests/testthat/test-without-auth.R | 4 ++- 22 files changed, 190 insertions(+), 92 deletions(-)
Title: Feed-Forward Neural Networks and Multinomial Log-Linear Models
Description: Software for feed-forward neural networks with a single
hidden layer, and for multinomial log-linear models.
Author: Brian Ripley [aut, cre, cph],
William Venables [cph]
Maintainer: Brian Ripley <ripley@stats.ox.ac.uk>
Diff between nnet versions 7.3-12 dated 2016-02-02 and 7.3-13 dated 2020-02-25
DESCRIPTION | 10 +++++----- MD5 | 10 +++++----- inst/po/en@quot/LC_MESSAGES/R-nnet.mo |binary man/multinom.Rd | 5 +++-- po/R-nnet.pot | 4 ++-- src/nnet.c | 2 -- 6 files changed, 15 insertions(+), 16 deletions(-)
Title: Funnel Plots for Indirectly-Standardised Ratios
Description: An implementation of the Spiegelhalter (2005) <doi:10.1002/sim.1970> Funnel plots for reporting standardised ratios, with overdispersion adjustment.
Author: Chris Mainey [aut, cre] (<https://orcid.org/0000-0002-3018-6171>),
Matthew Bass [ctb]
Maintainer: Chris Mainey <chris.mainey@uhb.nhs.uk>
Diff between FunnelPlotR versions 0.2.2 dated 2019-12-12 and 0.2.3 dated 2020-02-25
DESCRIPTION | 6 - MD5 | 22 ++-- NAMESPACE | 2 NEWS.md | 4 R/draw_plot.R | 4 build/vignette.rds |binary inst/doc/funnel_plots.html | 12 +- man/OD_adjust_func.Rd | 64 ++++++------- man/aggregate_func.Rd | 36 +++---- man/build_limits_lookup.Rd | 88 +++++++++--------- man/draw_plot.Rd | 106 +++++++++++----------- man/funnel_plot.Rd | 210 ++++++++++++++++++++++----------------------- 12 files changed, 278 insertions(+), 276 deletions(-)
Title: Downloads and Organizes Financial Data for Multiple Tickers
Description: Makes it easy to download a large number of trade data from Yahoo Finance <https://finance.yahoo.com/>.
Author: Marcelo Perlin [aut, cre]
Maintainer: Marcelo Perlin <marceloperlin@gmail.com>
Diff between BatchGetSymbols versions 2.5.5 dated 2020-02-13 and 2.5.6 dated 2020-02-25
DESCRIPTION | 8 ++++---- MD5 | 12 ++++++------ NEWS.md | 6 +++++- R/Get_Ibov_Stocks.R | 2 +- R/Utils.R | 12 +++++++----- inst/doc/BatchGetSymbols-vignette.html | 18 +++++++++--------- man/GetIbovStocks.Rd | 2 +- 7 files changed, 33 insertions(+), 27 deletions(-)
More information about BatchGetSymbols at CRAN
Permanent link
Title: Export or Graph and Tables to 'Microsoft' Office and Import
Figures and Tables
Description: Provides wrap functions to export and import graphics and
data frames in R to 'microsoft' office. And This package also
provide write out figures with lots of different formats.
Since people may work on the platform without GUI support, the package
also provide function to easily write out figures
to lots of different type of formats. Now this package provide function
to extract colors from all types of figures and pdf files.
Author: Kai Guo
Maintainer: Kai Guo <guokai8@gmail.com>
Diff between eoffice versions 0.1.8 dated 2019-11-25 and 0.1.9 dated 2020-02-25
DESCRIPTION | 13 ++++++------- MD5 | 35 +++++++++++++++++++---------------- NAMESPACE | 7 +++++-- R/inFigure.R | 1 - R/misc.R | 11 ++++++++++- R/toTable.R | 4 ++-- R/toffice.R | 39 ++++++++++++++++++++++++++++++++++++++- R/zzz.R |only README.md | 8 ++++++-- build/vignette.rds |binary inst/doc/eoffice.R | 11 +++++------ inst/doc/eoffice.Rmd | 3 +-- inst/doc/eoffice.html | 24 ++++++------------------ man/col2hex.Rd |only man/infigure.Rd | 14 +++++++++++--- man/todocx.Rd | 12 ++++++++++-- man/toffice.Rd | 14 +++++++++++--- man/topptx.Rd | 12 ++++++++++-- man/toxlsx.Rd |only vignettes/eoffice.Rmd | 3 +-- 20 files changed, 141 insertions(+), 70 deletions(-)
Title: Mendelian Randomization Package
Description: Encodes several methods for performing Mendelian randomization
analyses with summarized data. Summarized data on genetic associations with the
exposure and with the outcome can be obtained from large consortia. These data
can be used for obtaining causal estimates using instrumental variable methods.
Author: Olena Yavorska <olena.yavorska@ludwig.ox.ac.uk>
James Staley <james.staley@bristol.ac.uk>
Maintainer: Stephen Burgess <sb452@medschl.cam.ac.uk>
Diff between MendelianRandomization versions 0.4.1 dated 2019-04-09 and 0.4.2 dated 2020-02-25
DESCRIPTION | 10 MD5 | 120 +++---- NEWS | 4 R/AllClasses.R | 2 R/AllGenerics.R | 8 R/mr_conmix-methods.R | 8 R/show-methods.R | 6 build/vignette.rds |binary inst/doc/Vignette_MR.R | 42 +- man/Egger-class.Rd | 122 +++---- man/IVW-class.Rd | 86 ++--- man/MRAll-class.Rd | 38 +- man/MRConMix-class.Rd | 84 ++--- man/MRHetPen-class.Rd | 74 ++-- man/MRInput-class.Rd | 84 ++--- man/MRMBE-class.Rd | 74 ++-- man/MRMVInput-class.Rd | 76 ++-- man/MVEgger-class.Rd | 102 +++--- man/MVIVW-class.Rd | 78 ++-- man/MaxLik-class.Rd | 82 ++--- man/WeightedMedian-class.Rd | 66 ++-- man/calcium.Rd | 68 ++-- man/ci_normal.Rd | 62 +-- man/ci_t.Rd | 66 ++-- man/coursedata.Rd | 26 - man/decimals.Rd | 54 +-- man/egger.bounds.Rd | 78 ++-- man/extract.pheno.csv.Rd | 167 +++++----- man/getter.Rd | 104 +++--- man/het.weight.Rd | 62 +-- man/ldlc.Rd | 102 +++--- man/loglikelihood.Rd | 58 +-- man/loglikelihoodcorrel.Rd | 58 +-- man/loglikelihoodrhocorrel.Rd | 54 +-- man/mbe_boot.Rd | 64 +-- man/mbe_est.Rd | 58 +-- man/model.prior.Rd | 58 +-- man/mr_allmethods.Rd | 86 ++--- man/mr_conmix.Rd | 125 +++---- man/mr_egger.Rd | 190 ++++++----- man/mr_hetpen.Rd | 138 ++++---- man/mr_input.Rd | 128 ++++--- man/mr_ivw.Rd | 208 ++++++------ man/mr_maxlik.Rd | 159 +++++---- man/mr_mbe.Rd | 154 +++++---- man/mr_median.Rd | 187 ++++++----- man/mr_mvegger.Rd | 144 ++++---- man/mr_mvinput.Rd | 122 ++++--- man/mr_mvivw.Rd | 144 ++++---- man/mr_plot.Rd | 116 +++---- man/penalised.weights.Rd | 66 ++-- man/penalised.weights.delta.Rd | 70 ++-- man/pheno_input.Rd | 118 +++---- man/phenoscanner.Rd | 111 +++--- man/r.weights.Rd | 58 +-- man/r.weights.delta.Rd | 76 ++-- man/simpleCap.Rd | 48 +- man/values.Rd | 46 +- man/weighted.median.Rd | 54 +-- man/weighted.median.boot.se.Rd | 76 ++-- vignettes/Vignette_MR.html | 668 +++++++++++++++++++++++++++-------------- 61 files changed, 2995 insertions(+), 2602 deletions(-)
More information about MendelianRandomization at CRAN
Permanent link
Title: The Induced Smoothed Lasso
Description: An implementation of the induced smoothing (IS) idea to lasso regularization models to allow estimation and inference on the model coefficients (currently hypothesis testing only). Linear, logistic, Poisson and gamma regressions with several link functions are implemented. The algorithm is described in the original paper: Cilluffo, G., Sottile, G., La Grutta, S. and Muggeo, V. (2019) The Induced Smoothed lasso: A practical framework for hypothesis testing in high dimensional regression. <doi:10.1177/0962280219842890>, and discussed in a tutorial: Sottile, G., Cilluffo, G., and Muggeo, V. (2019) The R package islasso: estimation and hypothesis testing in lasso regression. <doi:10.13140/RG.2.2.16360.11521>.
Author: Gianluca Sottile [aut, cre],
Giovanna Cilluffo [aut, ctb],
Vito MR Muggeo [aut, cre]
Maintainer: Gianluca Sottile <gianluca.sottile@unipa.it>
Diff between islasso versions 1.1.0 dated 2019-06-25 and 1.1.1 dated 2020-02-25
DESCRIPTION | 8 +- MD5 | 18 ++-- NEWS | 5 + R/islasso.R | 184 ++++++++++++++++++++++++------------------------- man/is.control.Rd | 1 man/islasso-package.Rd | 4 - man/summary.islasso.Rd | 3 src/Makevars | 3 src/auxiliary.f90 | 19 ----- src/islasso2.f90 | 2 10 files changed, 117 insertions(+), 130 deletions(-)
Title: Analysis of fMRI Experiments
Description: Contains R-functions to perform an fMRI analysis as described in
Polzehl and Tabelow (2019) <DOI:10.1007/978-3-030-29184-6>,
Tabelow et al. (2006) <DOI:10.1016/j.neuroimage.2006.06.029>,
Polzehl et al. (2010) <DOI:10.1016/j.neuroimage.2010.04.241>,
Tabelow and Polzehl (2011) <DOI:10.18637/jss.v044.i11>.
Author: Karsten Tabelow [aut, cre],
Joerg Polzehl [aut],
Brandon Whitcher [ctb],
Dames Sibylle [ctb]
Maintainer: Karsten Tabelow <tabelow@wias-berlin.de>
Diff between fmri versions 1.9.2.1 dated 2019-11-15 and 1.9.3 dated 2020-02-25
fmri-1.9.2.1/fmri/src/vaws3D.f |only fmri-1.9.3/fmri/DESCRIPTION | 16 - fmri-1.9.3/fmri/MD5 | 35 +- fmri-1.9.3/fmri/NAMESPACE | 23 - fmri-1.9.3/fmri/R/aws.r | 583 +------------------------------------ fmri-1.9.3/fmri/R/cluster.R | 1 fmri-1.9.3/fmri/R/fmri.R | 60 ++- fmri-1.9.3/fmri/R/io.R | 205 +++++++++---- fmri-1.9.3/fmri/R/lmGroup.R | 88 ++--- fmri-1.9.3/fmri/R/lmslicetime.R | 98 ++---- fmri-1.9.3/fmri/R/misc.r | 146 --------- fmri-1.9.3/fmri/R/oro2fmri.R | 2 fmri-1.9.3/fmri/R/searchlight.r | 3 fmri-1.9.3/fmri/R/segm.r | 84 +---- fmri-1.9.3/fmri/demo/fmri.r | 2 fmri-1.9.3/fmri/man/extractData.Rd | 18 - fmri-1.9.3/fmri/src/init.c | 63 --- fmri-1.9.3/fmri/src/misc.f | 315 ------------------- fmri-1.9.3/fmri/src/segm3D.f | 173 +++++++--- 19 files changed, 496 insertions(+), 1419 deletions(-)
Title: Exploratory and Descriptive Event-Based Data Analysis
Description: Exploratory and descriptive analysis of event based data. Provides methods for describing and selecting process data, and for preparing event log data for process mining. Builds on the S3-class for event logs implemented in the package 'bupaR'.
Author: Gert Janssenswillen [aut, cre],
Marijke Swennen [ctb]
Maintainer: Gert Janssenswillen <gert.janssenswillen@uhasselt.be>
Diff between edeaR versions 0.8.3 dated 2019-08-19 and 0.8.4 dated 2020-02-25
DESCRIPTION | 8 +- MD5 | 38 ++++++---- NAMESPACE | 13 +++ R/edeaR.R | 1 R/filter_activity.R | 13 +++ R/filter_activity_presence.R | 36 ++++++++++ R/filter_case.R | 9 ++ R/filter_case_condition.R |only R/filter_endpoints_conditions.R |only R/filter_precedence.R | 4 - R/filter_precedence_conditions.R |only R/filter_trace_frequency_percentile.R | 11 ++- R/plot.throughput_time.R | 2 R/throughput_time.R | 2 R/utils.R | 7 +- inst/doc/filters.R | 12 +-- inst/doc/filters.html | 118 +++++++++++++++------------------- inst/doc/metrics.R | 28 ++++---- inst/doc/metrics.html | 66 ++++++++++--------- man/filter_activity.Rd | 6 + man/filter_case_condition.Rd |only man/filter_endpoints_conditions.Rd |only man/filter_precedence_condition.Rd |only 23 files changed, 232 insertions(+), 142 deletions(-)
Title: Required 'libphonenumber' jars for the 'dialr' Package
Description: Collects 'libphonenumber' jars required for the
'dialr' package.
Author: Danny Smith [aut, cre],
Google Inc. [ctb, cph] (libphonenumber),
Vonage Holdings Corp. [ctb, cph] (libphonenumber),
Ian Galpin [ctb, cph] (libphonenumber),
Ben Gertzfield [ctb, cph] (libphonenumber)
Maintainer: Danny Smith <danny@gorcha.org>
Diff between dialrjars versions 8.11.3 dated 2020-02-07 and 8.11.4 dated 2020-02-25
dialrjars-8.11.3/dialrjars/inst/java/carrier-1.123.jar |only dialrjars-8.11.3/dialrjars/inst/java/geocoder-2.133.jar |only dialrjars-8.11.3/dialrjars/inst/java/libphonenumber-8.11.3.jar |only dialrjars-8.11.3/dialrjars/inst/java/prefixmapper-2.133.jar |only dialrjars-8.11.4/dialrjars/DESCRIPTION | 8 +++--- dialrjars-8.11.4/dialrjars/MD5 | 12 +++++----- dialrjars-8.11.4/dialrjars/NEWS.md | 10 ++++++++ dialrjars-8.11.4/dialrjars/inst/java/carrier-1.124.jar |only dialrjars-8.11.4/dialrjars/inst/java/geocoder-2.134.jar |only dialrjars-8.11.4/dialrjars/inst/java/libphonenumber-8.11.4.jar |only dialrjars-8.11.4/dialrjars/inst/java/prefixmapper-2.134.jar |only 11 files changed, 20 insertions(+), 10 deletions(-)
Title: Model-Based Detection of Disease Clusters
Description: Model-based methods for the detection of disease clusters
using GLMs, GLMMs and zero-inflated models. These methods are described
in 'V. Gómez-Rubio et al.' (2019) <doi:10.18637/jss.v090.i14> and
'V. Gómez-Rubio et al.' (2018) <doi:10.1007/978-3-030-01584-8_1>.
Author: Virgilio Gomez-Rubio, Paula Esther Moraga Serrano, Barry
Rowlingson
Maintainer: Virgilio Gomez-Rubio <virgilio.gomez@uclm.es>
Diff between DClusterm versions 1.0-0 dated 2019-08-21 and 1.0-1 dated 2020-02-25
DESCRIPTION | 15 +++++++-------- MD5 | 32 ++++++++++++++++---------------- NAMESPACE | 1 - R/Functions1.R | 6 +++--- R/Functions2.R | 4 ++-- R/glm.iscluster.R | 10 +++++++--- build/vignette.rds |binary data/NY8.RData |binary data/NY8_clusters.RData |binary data/Navarre.RData |binary data/brainNM.RData |binary data/brainNM_clusters.RData |binary inst/doc/DClusterm.pdf |binary man/CalcStatClusterGivenCenter.Rd | 14 +++++++++++--- man/CalcStatsAllClusters.Rd | 19 +++++++++++++++---- man/DetectClustersModel.Rd | 22 ++++++++++++++++------ man/glmAndZIP.iscluster.Rd | 15 +++++++++++---- 17 files changed, 88 insertions(+), 50 deletions(-)
Title: Centrality-Based Pathway Enrichment
Description: Use pathway topology information to assign weight to pathway nodes.
Author: Zuguang Gu
Maintainer: Zuguang Gu <z.gu@dkfz.de>
Diff between CePa versions 0.6 dated 2018-06-04 and 0.7.0 dated 2020-02-25
DESCRIPTION | 17 +++++----- MD5 | 38 +++++++++++------------ NAMESPACE | 54 +++++++++++++++++----------------- R/plot_print.R | 1 build/vignette.rds |binary data/PID.db.rda |binary data/gene.list.rda |binary inst/doc/CePa.pdf |binary inst/doc/analysis-p53.pdf |binary inst/doc/parsing-PID-pathway-data.pdf |binary man/cepa.ora.rd | 2 - man/cepa.rd | 2 - man/cepa.univariate.rd | 2 - man/generate.pathway.rd | 4 +- man/pathway.nodes.rd | 2 - man/plot.cepa.rd | 2 - man/plotGraph.rd | 9 ++--- man/radiality.rd | 2 - man/reach.rd | 2 - man/spread.rd | 2 - 20 files changed, 68 insertions(+), 71 deletions(-)
Title: 'BEAUti' from R
Description: 'BEAST2' (<https://www.beast2.org>) is a widely used
Bayesian phylogenetic tool, that uses DNA/RNA/protein data
and many model priors to create a posterior of jointly estimated
phylogenies and parameters.
'BEAUti 2' (which is part of 'BEAST2') is a GUI tool
that allows users to specify the many possible setups
and generates the XML file 'BEAST2' needs to run.
This package provides a way to create 'BEAST2' input
files without active user input, but using
R function calls instead.
Author: Richèl J.C. Bilderbeek [aut, cre]
(<https://orcid.org/0000-0003-1107-7049>),
Joëlle Barido-Sottani [rev] (Joëlle reviewed the package for rOpenSci,
see https://github.com/ropensci/onboarding/issues/209),
David Winter [rev] (David reviewed the package for rOpenSci, see
https://github.com/ropensci/onboarding/issues/209),
Paul Van Els [ctb],
Raphael Scherrer [ctb],
Yacine B. Chehida [ctb],
Jana Riederer [ctb]
Maintainer: Richèl J.C. Bilderbeek <richel@richelbilderbeek.nl>
Diff between beautier versions 2.3.2 dated 2019-12-01 and 2.3.5 dated 2020-02-25
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Title: Restricted Statistical Estimation and Inference for Linear
Models
Description: Allow for easy-to-use testing or evaluating of linear equality and inequality
restrictions about parameters and effects in (generalized) linear statistical models.
Author: Leonard Vanbrabant [aut, cre],
Yves Rosseel [ctb]
Maintainer: Leonard Vanbrabant <info@restriktor.org>
Diff between restriktor versions 0.2-600 dated 2020-01-27 and 0.2-800 dated 2020-02-25
DESCRIPTION | 6 MD5 | 44 ++--- NAMESPACE | 14 + R/conGLM.R | 138 ++++++++++------ R/conLM.R | 177 +++++++++++---------- R/conMLM.R | 139 ++++++++++------ R/conRLM.R | 135 ++++++++++------ R/conTest_conRLM.R | 4 R/con_augmented_information.R | 6 R/con_constraints.R | 90 +++++----- R/con_goric.R | 347 +++++++++++++++++++++++++++++++----------- R/con_goric_penalty.R | 34 ++-- R/con_gorica_est.R | 182 +++++++++++++--------- R/con_gorica_est_summary.R | 2 R/con_pvalue.R | 79 +++++---- R/con_weights.R | 45 ++--- R/restriktor_print.R | 3 R/restriktor_print_summary.R | 4 R/restriktor_summary.R | 3 R/utilities.R | 34 ++++ man/goric.Rd | 5 man/mixingWeights.Rd | 8 man/restriktor-package.rd | 4 23 files changed, 962 insertions(+), 541 deletions(-)
Title: Graphic Devices Based on AGG
Description: Anti-Grain Geometry (AGG) is a high-quality and high-performance
2D drawing library. The 'ragg' package provides a set of graphic devices
based on AGG to use as alternative to the raster devices provided through
the 'grDevices' package.
Author: Thomas Lin Pedersen [cre, aut]
(<https://orcid.org/0000-0002-5147-4711>),
Maxim Shemanarev [aut, cph] (Author of AGG),
Tony Juricic [ctb, cph] (Contributor to AGG),
Milan Marusinec [ctb, cph] (Contributor to AGG),
Spencer Garrett [ctb] (Contributor to AGG),
RStudio [cph]
Maintainer: Thomas Lin Pedersen <thomas.pedersen@rstudio.com>
Diff between ragg versions 0.1.3 dated 2019-08-28 and 0.1.4 dated 2020-02-25
DESCRIPTION | 8 ++++---- MD5 | 22 +++++++++++----------- NEWS.md | 7 +++++-- configure | 8 ++++++-- man/agg_capture.Rd | 10 ++++++++-- man/agg_png.Rd | 13 ++++++++++--- man/agg_ppm.Rd | 11 +++++++++-- man/agg_supertransparent.Rd | 13 ++++++++++--- man/agg_tiff.Rd | 14 +++++++++++--- man/ragg-package.Rd | 4 ++-- src/agg/include/agg_font_freetype.h | 5 +++-- src/agg/src/agg_font_freetype.cpp | 20 +++++++++++++++----- 12 files changed, 94 insertions(+), 41 deletions(-)
Title: Genetic Analysis of Populations with Mixed Reproduction
Description: Population genetic analyses for hierarchical analysis of partially
clonal populations built upon the architecture of the 'adegenet' package.
Originally described in Kamvar, Tabima, and Grünwald (2014)
<doi:10.7717/peerj.281> with version 2.0 described in Kamvar, Brooks, and
Grünwald (2015) <doi:10.3389/fgene.2015.00208>.
Author: Zhian N. Kamvar [cre, aut] (<https://orcid.org/0000-0003-1458-7108>),
Javier F. Tabima [aut] (<https://orcid.org/0000-0002-3603-2691>),
Sydney E. Everhart [ctb, dtc] (<https://orcid.org/0000-0002-5773-1280>),
Jonah C. Brooks [aut],
Stacy A. Krueger-Hadfield [ctb]
(<https://orcid.org/0000-0002-7324-7448>),
Erik Sotka [ctb],
Brian J. Knaus [ctb] (<https://orcid.org/0000-0003-1665-4343>),
Patrick G. Meirmans [ctb] (<https://orcid.org/0000-0002-6395-8107>),
Frédéric D. Chevalier [ctb] (<https://orcid.org/0000-0003-2611-8106>),
Niklaus J. Grünwald [ths] (<https://orcid.org/0000-0003-1656-7602>)
Maintainer: Zhian N. Kamvar <zkamvar@gmail.com>
Diff between poppr versions 2.8.4 dated 2020-02-12 and 2.8.5 dated 2020-02-25
DESCRIPTION | 6 MD5 | 30 +-- NEWS.md | 11 + R/Index_calculations.r | 5 data/Aeut.rda |binary data/Pinf.rda |binary data/Pram.rda |binary data/monpop.rda |binary data/old_Pinf.rda |binary data/old_partial_clone.rda |binary data/partial_clone.rda |binary inst/doc/algo.pdf |binary inst/doc/mlg.html | 364 ++++++++++++++++++------------------- inst/doc/poppr_manual.html | 422 +++++++++++++++++++++----------------------- man/unique-methods.Rd | 6 tests/testthat/test-poppr.R | 13 - 16 files changed, 431 insertions(+), 426 deletions(-)
Title: Copula-Based Estimation and Statistical Process Control for
Serially Correlated Time Series
Description: Estimation and statistical process control are performed under
copula-based time-series models.
Available are statistical methods in Long and Emura (2014 JCSA),
Emura et al. (2017 Commun Stat-Simul) <DOI:10.1080/03610918.2015.1073303>,
Huang and Emura (2019 Commun Stat-Simul) <DOI:10.1080/03610918.2019.1602647>,
Lin et al. (2019 Comm Stat-Simul) <DOI:10.1080/03610918.2019.1652318>,
Sun et al. (2020 to appear in JSS Series in Statistics, Springer), and Huang, Chen and Emura (2019-, in revision).
Author: Takeshi Emura, Xinwei Huang, Weiru Chen, Ting-Hsuan Long, Li-Hsien Sun
Maintainer: Takeshi Emura <takeshiemura@gmail.com>
Diff between Copula.Markov versions 2.7 dated 2020-01-17 and 2.8 dated 2020-02-25
DESCRIPTION | 14 ++++++++------ MD5 | 8 ++++++-- R/Clayton.MixNormal.Markov.MLE.R |only data |only man/Clayton.MixNormal.Markov.MLE.Rd |only man/Copula.Markov-package.Rd | 9 ++++++--- man/DowJones.Rd |only 7 files changed, 20 insertions(+), 11 deletions(-)
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2020-02-13 1.6.2
2020-01-18 1.6.1
2013-12-23 1.6
2013-09-05 1.5
2013-04-04 1.4
2012-11-21 1.3
2012-05-11 1.2
2012-05-03 1.1
2012-01-31 1.0
2011-12-30 0.3
2011-12-06 0.2
2011-11-02 0.1
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2020-01-22 0.1.0
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2018-03-09 1.2.3
Title: Hierarchical Partitioning
Description: Partitioning of the independent and joint contributions of each
variable in a multivariate data set, to a linear regression by hierarchical
decomposition of goodness-of-fit measures of regressions using all subsets
of predictors in the data set. (i.e., model (1), (2), ..., (N), (1,2), ...,
(1,N), ..., (1,2,3,...,N)). A Z-score based estimate of the 'importance' of
each predictor is provided by using a randomisation test.
Author: Chris Walsh [aut, cre],
Ralph Mac Nally [aut]
Maintainer: Chris Walsh <cwalsh@unimelb.edu.au>
Diff between hier.part versions 1.0-4 dated 2013-01-08 and 1.0-5 dated 2020-02-25
hier.part-1.0-4/hier.part/data/amphipod.txt.gz |only hier.part-1.0-4/hier.part/data/chevan.txt.gz |only hier.part-1.0-4/hier.part/data/urbanwq.txt.gz |only hier.part-1.0-5/hier.part/DESCRIPTION | 33 - hier.part-1.0-5/hier.part/MD5 | 42 - hier.part-1.0-5/hier.part/NAMESPACE | 11 hier.part-1.0-5/hier.part/NEWS.md |only hier.part-1.0-5/hier.part/R/hier.part.R | 523 ++++++++++---------- hier.part-1.0-5/hier.part/README.md |only hier.part-1.0-5/hier.part/data/amphipod.txt |only hier.part-1.0-5/hier.part/data/chevan.txt |only hier.part-1.0-5/hier.part/data/urbanwq.txt |only hier.part-1.0-5/hier.part/inst |only hier.part-1.0-5/hier.part/man/all.regs.Rd | 57 +- hier.part-1.0-5/hier.part/man/combos.Rd | 5 hier.part-1.0-5/hier.part/man/hier.part.Rd | 113 ++-- hier.part-1.0-5/hier.part/man/hier.part.data.Rd | 17 hier.part-1.0-5/hier.part/man/hier.part.internal.Rd | 4 hier.part-1.0-5/hier.part/man/partition.Rd | 17 hier.part-1.0-5/hier.part/man/rand.hp.Rd | 61 +- hier.part-1.0-5/hier.part/src/combos.f | 2 hier.part-1.0-5/hier.part/src/funchierpart.h | 2 hier.part-1.0-5/hier.part/src/gener.c | 60 +- hier.part-1.0-5/hier.part/src/hierpart-init.c |only hier.part-1.0-5/hier.part/src/hierpart.c | 14 hier.part-1.0-5/hier.part/src/hierpart.h | 2 hier.part-1.0-5/hier.part/src/xauxil.c | 20 27 files changed, 575 insertions(+), 408 deletions(-)
Title: Comprehensive and Easy to Use Quality Control of GWAS Results
Description: When evaluating the results of a genome-wide association study (GWAS), it is important to perform a quality control to ensure that the results are valid, complete, correctly formatted, and, in case of meta-analysis, consistent with other studies that have applied the same analysis. This package was developed to facilitate and streamline this process and provide the user with a comprehensive report.
Author: Alireza Ani [aut, cre],
Peter J. van der Most [aut],
Ahmad Vaez [aut],
Ilja M. Nolte [aut]
Maintainer: Alireza Ani <a.ani@umcg.nl>
Diff between GWASinspector versions 1.4.3 dated 2020-02-18 and 1.4.4 dated 2020-02-25
ChangeLog | 16 ++--- DESCRIPTION | 8 +- MD5 | 22 +++---- NEWS | 14 ++-- R/aaa.R | 2 R/drawPlots.R | 13 +++- R/excelReportFunctions.R | 2 R/pValueCorPlot.R | 118 +++++++++++++++++++++++++++++++++++++++++- R/processColumns.R | 2 R/variantMatchingFunctions.R | 5 - inst/doc/GWASinspector.html | 4 - inst/rmd/mainReport_extra.rmd | 17 ++++-- 12 files changed, 178 insertions(+), 45 deletions(-)
Title: Taxonomic Classes
Description: Provides taxonomic classes for
groupings of taxonomic names without data, and those
with data. Methods provided are "taxonomically aware", in
that they know about ordering of ranks, and methods that
filter based on taxonomy also filter associated data.
This package is described in the publication: "Taxa: An R
package implementing data standards and methods for
taxonomic data", Zachary S.L. Foster, Scott Chamberlain,
Niklaus J. Grünwald (2018) <doi:10.12688/f1000research.14013.2>.
Author: Scott Chamberlain [aut] (<https://orcid.org/0000-0003-1444-9135>),
Zachary Foster [aut, cre] (<https://orcid.org/0000-0002-5075-0948>)
Maintainer: Zachary Foster <zacharyfoster1989@gmail.com>
Diff between taxa versions 0.3.2 dated 2019-01-02 and 0.3.3 dated 2020-02-25
DESCRIPTION | 16 MD5 | 200 ++-- NEWS.md | 10 R/package.R | 2 R/taxmap--class.R | 24 R/taxmap--parsers.R | 7 R/taxonomy--class.R | 49 + README.md | 922 ++------------------- build/vignette.rds |binary inst/doc/taxa-introduction.R | 584 ++++++------- inst/doc/taxa-introduction.Rmd | 2 inst/doc/taxa-introduction.html | 1481 ++++++++++------------------------ man/all_names.Rd | 6 man/arrange_obs.Rd | 17 man/arrange_taxa.Rd | 17 man/branches.Rd | 11 man/classifications.Rd | 29 man/convert_base.Rd | 8 man/data_used.Rd | 6 man/desc_font.Rd | 8 man/error_font.Rd | 8 man/ex_hierarchies.Rd | 9 man/ex_hierarchy1.Rd | 9 man/ex_hierarchy2.Rd | 9 man/ex_hierarchy3.Rd | 9 man/ex_taxmap.Rd | 9 man/ex_taxonomy.Rd | 9 man/extract_tax_data.Rd | 24 man/filter_obs.Rd | 17 man/filter_taxa.Rd | 17 man/get_data.Rd | 6 man/hierarchies.Rd | 15 man/hierarchy.Rd | 15 man/id_classifications.Rd | 29 man/internodes.Rd | 11 man/is_branch.Rd | 29 man/is_internode.Rd | 29 man/is_leaf.Rd | 29 man/is_root.Rd | 29 man/is_stem.Rd | 29 man/leaves.Rd | 11 man/limited_print.Rd | 12 man/lookup_tax_data.Rd | 21 man/map_data.Rd | 29 man/map_data_.Rd | 29 man/mutate_obs.Rd | 17 man/n_leaves.Rd | 29 man/n_leaves_1.Rd | 29 man/n_obs.Rd | 3 man/n_obs_1.Rd | 3 man/n_subtaxa.Rd | 29 man/n_subtaxa_1.Rd | 29 man/n_supertaxa.Rd | 29 man/n_supertaxa_1.Rd | 29 man/name_font.Rd | 8 man/names_used.Rd | 6 man/parse_dataset.Rd | 3 man/parse_edge_list.Rd | 10 man/parse_tax_data.Rd | 27 man/print__character.Rd | 21 man/print__data.frame.Rd | 21 man/print__default_.Rd | 21 man/print__factor.Rd | 21 man/print__integer.Rd | 21 man/print__list.Rd | 22 man/print__logical.Rd | 21 man/print__matrix.Rd | 21 man/print__numeric.Rd | 21 man/print__ordered.Rd | 21 man/print__tbl_df.Rd | 21 man/print__vector.Rd | 32 man/print_item.Rd | 11 man/punc_font.Rd | 8 man/roots.Rd | 11 man/sample_frac_obs.Rd | 17 man/sample_frac_taxa.Rd | 17 man/sample_n_obs.Rd | 18 man/sample_n_taxa.Rd | 18 man/select_obs.Rd | 18 man/stems.Rd | 11 man/subtaxa.Rd | 11 man/supertaxa.Rd | 11 man/taxa-package.Rd | 2 man/taxa.Rd | 15 man/taxmap.Rd | 18 man/taxon.Rd | 15 man/taxon_database.Rd | 18 man/taxon_id.Rd | 15 man/taxon_ids.Rd | 29 man/taxon_indexes.Rd | 29 man/taxon_name.Rd | 15 man/taxon_names.Rd | 29 man/taxon_rank.Rd | 15 man/taxon_ranks.Rd | 29 man/taxonomy.Rd | 15 man/tid_font.Rd | 8 man/to_percent.Rd | 4 man/transmute_obs.Rd | 18 tests/testthat/test--taxmap.R | 4 tests/testthat/test--taxmap_parsers.R | 6 vignettes/taxa-introduction.Rmd | 2 101 files changed, 2006 insertions(+), 2788 deletions(-)
Title: Analyzing Real-Time Quantitative PCR Data
Description: Calculates the amplification efficiency and curves from real-time
quantitative PCR (Polymerase Chain Reaction) data. Estimates the relative
expression from PCR data using the double delta CT and the standard curve
methods Livak & Schmittgen (2001) <doi:10.1006/meth.2001.1262>. Tests for
statistical significance using two-group tests and linear regression
Yuan et al. (2006) <doi: 10.1186/1471-2105-7-85>.
Author: Mahmoud Ahmed [aut, cre] (<https://orcid.org/0000-0002-4377-6541>)
Maintainer: Mahmoud Ahmed <mahmoud.s.fahmy@students.kasralainy.edu.eg>
Diff between pcr versions 1.2.0 dated 2019-10-03 and 1.2.1 dated 2020-02-25
DESCRIPTION | 6 MD5 | 12 NEWS.md | 4 R/helper_fun.R | 3 build/vignette.rds |binary inst/doc/qpcr_analysis.R | 58 - inst/doc/qpcr_analysis.html | 1611 ++++++++++++++++++++++++++++++++++++++++++-- 7 files changed, 1614 insertions(+), 80 deletions(-)
Title: Parallel Version of the L-BFGS-B Optimization Method
Description: Provides a parallel version of the L-BFGS-B method of optim(). The main function of the package is optimParallel(), which has the same usage and output as optim(). Using optimParallel() can significantly reduce the optimization time.
Author: Florian Gerber
Maintainer: Florian Gerber <florian.gerber@math.uzh.ch>
Diff between optimParallel versions 0.8-1 dated 2019-05-07 and 1.0 dated 2020-02-25
DESCRIPTION | 10 +++++----- MD5 | 18 +++++++++--------- NEWS | 9 +++++---- R/optimParallel.R | 8 +++++--- README.md | 4 ++-- build/vignette.rds |binary inst/CITATION | 21 +++++++++++---------- inst/doc/optimParallel.pdf |binary man/optimParallel.Rd | 21 +++++++++++++++------ tests/testthat/test-issues.R | 16 ++++++++++++++++ 10 files changed, 68 insertions(+), 39 deletions(-)
Title: Redraw Base Graphics Using 'grid' Graphics
Description: Functions to convert a page of plots drawn with the
'graphics' package into identical output drawn with the 'grid' package.
The result looks like the original 'graphics'-based plot, but consists
of 'grid' grobs and viewports that can then be manipulated with
'grid' functions (e.g., edit grobs and revisit viewports).
Author: Paul Murrell [cre, aut],
Zhijian Wen [aut]
Maintainer: Paul Murrell <paul@stat.auckland.ac.nz>
Diff between gridGraphics versions 0.4-1 dated 2019-05-20 and 0.5-0 dated 2020-02-25
DESCRIPTION | 6 +-- MD5 | 12 ++++-- R/dend.R |only R/graphics.R | 12 +++++- R/text.R | 73 ++++++++++++++++++++++-------------------- inst/NEWS.Rd | 29 ++++++++++++++++ inst/test-scripts/test-dend.R |only tests/demo-graphics.R | 5 ++ 8 files changed, 93 insertions(+), 44 deletions(-)
Title: Indices of Effect Size and Standardized Parameters
Description: Provide utilities to work with indices of effect size and standardized parameters for a wide variety of models (see support list of insight; Lüdecke, Waggoner & Makowski (2019) <doi:10.21105/joss.01412>), allowing computation and conversion of indices such as Cohen's d, r, odds, etc.
Author: Dominique Makowski [aut, cre] (<https://orcid.org/0000-0001-5375-9967>),
Daniel Lüdecke [aut] (<https://orcid.org/0000-0002-8895-3206>),
Mattan S. Ben-Shachar [aut] (<https://orcid.org/0000-0002-4287-4801>),
Ken Kelley [ctb],
David Stanley [ctb]
Maintainer: Dominique Makowski <dom.makowski@gmail.com>
Diff between effectsize versions 0.1.1 dated 2020-01-27 and 0.2.0 dated 2020-02-25
DESCRIPTION | 10 +++++----- MD5 | 18 +++++++++--------- R/adjust.R | 2 +- R/standardize.models.R | 2 +- README.md | 16 ++++++++-------- build/partial.rdb |binary build/vignette.rds |binary inst/doc/standardize_parameters.Rmd | 2 +- inst/doc/standardize_parameters.html | 2 +- vignettes/standardize_parameters.Rmd | 2 +- 10 files changed, 27 insertions(+), 27 deletions(-)
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2019-10-09 0.0.1
Title: Automatic Short Form Creation
Description: Performs automatic creation of short forms of scales with an
ant colony optimization algorithm and a Tabu search. As implemented in the
package, the ant colony algorithm randomly selects items to build a model of
a specified length, then updates the probability of item selection according
to the fit of the best model within each set of searches. The algorithm
continues until the same items are selected by multiple ants a given number
of times in a row. On the other hand, the Tabu search changes one parameter at
a time to be either free, constrained, or fixed while keeping track of the
changes made and putting changes that result in worse fit in a "tabu" list
so that the algorithm does not revisit them for some number of searches.
See Leite, Huang, & Marcoulides (2008) <doi:10.1080/00273170802285743> for
an applied example of the ant colony algorithm, and Marcoulides & Falk (2018)
<doi:10.1080/10705511.2017.1409074> for an applied example of the Tabu search.
Author: Anthony Raborn [aut, cre],
Walter Leite [aut]
Maintainer: Anthony Raborn <anthony.w.raborn@gmail.com>
Diff between ShortForm versions 0.4.4 dated 2019-10-10 and 0.4.5 dated 2020-02-25
DESCRIPTION | 10 +-- MD5 | 28 +++++----- NEWS.md | 4 + R/ACO_lavaan.R | 4 + R/Tabu_shortform.R | 1 R/simulated_annealing.R | 4 - R/simulated_annealing_internals.R | 101 ++++++++++++++++++++++++++++++++++++++ man/ShortForm.Rd | 1 man/add.param.Rd | 15 ++++- man/antcolony.lavaan.Rd | 38 +++++++++----- man/antcolony.mplus.Rd | 34 +++++++++--- man/refit.model.Rd | 5 + man/search.prep.Rd | 8 +-- man/simulatedAnnealing.Rd | 32 ++++++++---- man/tabuShortForm.Rd | 22 +++++--- 15 files changed, 236 insertions(+), 71 deletions(-)
Title: Functional Programming
Description: High-order functions for data manipulation : sort or group data, given one
or more auxiliary functions. Functions are inspired by other pure
functional programming languages ('Haskell' mainly). The package also
provides built-in function operators for creating compact anonymous
functions, as well as the possibility to use the 'purrr' package syntax.
Author: Pierre-Yves Berrard [aut, cre]
Maintainer: Pierre-Yves Berrard <pyb@gmx.com>
Diff between funprog versions 0.1.0 dated 2019-11-04 and 0.2.0 dated 2020-02-25
DESCRIPTION | 8 - MD5 | 28 +++--- NAMESPACE | 2 NEWS.md | 17 +++ R/descending.R | 2 R/group_if.R | 56 +------------ R/partition.R |only R/unique_by.R |only README.md | 75 +++++++++++------ man/descending.Rd | 2 man/partition.Rd |only man/unique_by.Rd |only tests/testthat/test_descending.R | 16 +++ tests/testthat/test_group_if.R | 166 ++++++++++----------------------------- tests/testthat/test_on.R | 20 ++++ tests/testthat/test_partition.R |only tests/testthat/test_sort_by.R | 49 +++++++++++ tests/testthat/test_unique_by.R |only 18 files changed, 227 insertions(+), 214 deletions(-)