Title: Schumaker Shape-Preserving Spline
Description: This is a shape preserving spline <doi:10.1137/0720057>
which is guaranteed to be monotonic and concave or convex if the
data is monotonic and concave or convex. It does not use any
optimisation and is therefore quick and smoothly converges to a
fixed point in economic dynamics problems including value function
iteration. It also automatically gives the first two derivatives
of the spline and options for determining behaviour when evaluated
outside the interpolation domain.
Author: Stuart Baumann [aut, cre], Margaryta Klymak[aut]
Maintainer: Stuart Baumann <Stuart@StuartBaumann.com>
Diff between schumaker versions 1.2 dated 2019-11-13 and 1.2.1 dated 2021-09-09
DESCRIPTION | 11 MD5 | 16 build/vignette.rds |binary inst/doc/schumaker.R | 20 - inst/doc/schumaker.Rmd | 6 inst/doc/schumaker.html | 453 +++++++++++++++------------- man/Schumaker.Rd | 9 man/make_approx_functions_from_dataframe.Rd | 9 vignettes/schumaker.Rmd | 6 9 files changed, 302 insertions(+), 228 deletions(-)
Title: HTTP and WebSocket Server Library
Description: Provides low-level socket and protocol support for handling
HTTP and WebSocket requests directly from within R. It is primarily
intended as a building block for other packages, rather than making it
particularly easy to create complete web applications using httpuv alone.
httpuv is built on top of the libuv and http-parser C libraries, both of
which were developed by Joyent, Inc. (See LICENSE file for libuv and
http-parser license information.)
Author: Joe Cheng [aut],
Winston Chang [aut, cre],
RStudio, PBC [cph],
Hector Corrada Bravo [ctb],
Jeroen Ooms [ctb],
Andrzej Krzemienski [cph] (optional.hpp)
Maintainer: Winston Chang <winston@rstudio.com>
Diff between httpuv versions 1.6.2 dated 2021-08-18 and 1.6.3 dated 2021-09-09
DESCRIPTION | 8 ++++---- MD5 | 4 ++-- NEWS.md | 5 +++++ 3 files changed, 11 insertions(+), 6 deletions(-)
Title: A Tidy Implementation of 'ESTIMATE'
Description: The 'ESTIMATE' package infers tumor purity from expression data as a
function of immune and stromal infiltrate, but requires writing of intermediate
files, is un-pipeable, and performs poorly when presented with modern datasets
with current gene symbols. 'tidyestimate' a fast, tidy, modern reimagination of
'ESTIMATE' (2013) <doi:10.1038/ncomms3612>.
Author: Kai Aragaki [aut, cre] (<https://orcid.org/0000-0002-9458-0426>),
Paul Roebuck [cph] (Copyright holder of ESTIMATE package),
Kosuke Yoshihara [aut] (Author of original ESTIMATE algorithm),
Rahulsimham Vegesna [aut] (Author of original ESTIMATE algorithm),
Hoon Kim [aut] (Author of original ESTIMATE algorithm),
Roel Verhaak [aut] (Author of original ESTIMATE algorithm)
Maintainer: Kai Aragaki <aaragak1@jhmi.edu>
Diff between tidyestimate versions 1.0.4 dated 2021-06-21 and 1.1.0 dated 2021-09-09
DESCRIPTION | 6 MD5 | 44 +-- NAMESPACE | 14 - NEWS.md | 24 + R/data.R | 180 +++++++------- R/estimate_score.R | 280 +++++++++++------------ R/filter_common_genes.R | 286 ++++++++++++----------- R/plot_purity.R | 86 +++---- R/tidyestimate.R | 42 +-- README.md | 244 ++++++++++---------- build/vignette.rds |binary inst/COPYRIGHTS | 26 +- inst/doc/using-tidyestimate.R | 60 ++-- inst/doc/using-tidyestimate.Rmd | 180 +++++++------- inst/doc/using-tidyestimate.html | 469 +++++++++++++++++++-------------------- man/common_genes.Rd | 106 ++++---- man/estimate_score.Rd | 130 +++++----- man/filter_common_genes.Rd | 130 +++++----- man/gene_sets.Rd | 48 +-- man/ov.Rd | 46 +-- man/plot_purity.Rd | 52 ++-- man/purity_data_affy.Rd | 62 ++--- vignettes/using-tidyestimate.Rmd | 180 +++++++------- 23 files changed, 1358 insertions(+), 1337 deletions(-)
Title: Bayesian Regularization for Feed-Forward Neural Networks
Description: Bayesian regularization for feed-forward neural networks.
Author: Paulino Perez Rodriguez, Daniel Gianola
Maintainer: Paulino Perez Rodriguez <perpdgo@colpos.mx>
Diff between brnn versions 0.8 dated 2020-01-08 and 0.9 dated 2021-09-09
DESCRIPTION | 8 ++++---- MD5 | 10 +++++----- R/brnn.R | 6 +++--- inst/history.txt | 3 +++ src/init.c | 2 +- src/unix/util_unix.c | 12 ++++++------ 6 files changed, 22 insertions(+), 19 deletions(-)
Title: Easily Create Production-Ready Rich Text Format (RTF) Table and
Figure
Description: Create production-ready Rich Text Format (RTF) table and figure with flexible format.
Author: Yilong Zhang [aut, cre],
Siruo Wang [aut],
Simiao Ye [aut],
Fansen Kong [aut],
Nan Xiao [ctb],
Madhusudhan Ginnaram [ctb],
Ruchitbhai Patel [ctb],
Huei-Ling Chen [ctb],
Peikun Wu [ctb],
Uday Preetham Palukuru [ctb],
Daniel Woodie [ctb],
Sarad Nepal [ctb],
Jane Liao [ctb],
Benjamin Wang [ctb],
Jeff Cheng [ctb],
Yirong Cao [ctb],
Amin Shirazi [ctb],
Merck Sharp & Dohme Corp [cph]
Maintainer: Yilong Zhang <yilong.zhang@merck.com>
Diff between r2rtf versions 0.3.0 dated 2021-06-01 and 0.3.1 dated 2021-09-09
r2rtf-0.3.0/r2rtf/data/unicode_latex.rda |only r2rtf-0.3.1/r2rtf/DESCRIPTION | 8 r2rtf-0.3.1/r2rtf/MD5 | 213 +-- r2rtf-0.3.1/r2rtf/NEWS.md | 13 r2rtf-0.3.1/r2rtf/R/as_rtf_pageby.R | 40 r2rtf-0.3.1/r2rtf/R/as_rtf_paragraph.R | 33 r2rtf-0.3.1/r2rtf/R/as_rtf_table.R | 23 r2rtf-0.3.1/r2rtf/R/content_create.R | 7 r2rtf-0.3.1/r2rtf/R/conversion.R | 14 r2rtf-0.3.1/r2rtf/R/dictionary.R | 54 r2rtf-0.3.1/r2rtf/R/footnote_source_space.R | 4 r2rtf-0.3.1/r2rtf/R/match_arg.R | 5 r2rtf-0.3.1/r2rtf/R/obj_rtf_border.R | 25 r2rtf-0.3.1/r2rtf/R/obj_rtf_text.R | 22 r2rtf-0.3.1/r2rtf/R/rtf_body.R | 79 - r2rtf-0.3.1/r2rtf/R/rtf_by_subline.R | 8 r2rtf-0.3.1/r2rtf/R/rtf_colheader.R | 38 r2rtf-0.3.1/r2rtf/R/rtf_convert_format.R | 58 - r2rtf-0.3.1/r2rtf/R/rtf_encode.R | 29 r2rtf-0.3.1/r2rtf/R/rtf_encode_figure.R | 38 r2rtf-0.3.1/r2rtf/R/rtf_encode_list.R | 101 + r2rtf-0.3.1/r2rtf/R/rtf_encode_table.R | 77 - r2rtf-0.3.1/r2rtf/R/rtf_footnote.R | 49 r2rtf-0.3.1/r2rtf/R/rtf_nrow.R | 95 - r2rtf-0.3.1/r2rtf/R/rtf_page.R | 43 r2rtf-0.3.1/r2rtf/R/rtf_pageby.R | 39 r2rtf-0.3.1/r2rtf/R/rtf_paragraph.R | 20 r2rtf-0.3.1/r2rtf/R/rtf_source.R | 35 r2rtf-0.3.1/r2rtf/R/rtf_strwidth.R | 80 - r2rtf-0.3.1/r2rtf/R/rtf_subset.R | 15 r2rtf-0.3.1/r2rtf/R/rtf_table_content.R | 110 + r2rtf-0.3.1/r2rtf/R/rtf_text.R | 11 r2rtf-0.3.1/r2rtf/R/rtf_title.R | 27 r2rtf-0.3.1/r2rtf/R/set_margin.R | 3 r2rtf-0.3.1/r2rtf/R/sysdata.rda |only r2rtf-0.3.1/r2rtf/R/update_border.R | 99 - r2rtf-0.3.1/r2rtf/R/write_rtf.R | 2 r2rtf-0.3.1/r2rtf/README.md | 14 r2rtf-0.3.1/r2rtf/build/vignette.rds |binary r2rtf-0.3.1/r2rtf/inst/doc/r2rtf-cran.R | 11 r2rtf-0.3.1/r2rtf/inst/doc/r2rtf-cran.Rmd | 11 r2rtf-0.3.1/r2rtf/inst/doc/r2rtf-cran.html | 243 ---- r2rtf-0.3.1/r2rtf/man/nrow_paragraph.Rd | 4 r2rtf-0.3.1/r2rtf/man/nrow_table.Rd | 7 r2rtf-0.3.1/r2rtf/man/obj_rtf_border.Rd | 12 r2rtf-0.3.1/r2rtf/man/obj_rtf_text.Rd | 12 r2rtf-0.3.1/r2rtf/man/rtf_body.Rd | 30 r2rtf-0.3.1/r2rtf/man/rtf_by_subline.Rd | 3 r2rtf-0.3.1/r2rtf/man/rtf_colheader.Rd | 22 r2rtf-0.3.1/r2rtf/man/rtf_convert_format.Rd | 3 r2rtf-0.3.1/r2rtf/man/rtf_encode.Rd | 11 r2rtf-0.3.1/r2rtf/man/rtf_footnote.Rd | 16 r2rtf-0.3.1/r2rtf/man/rtf_nline_vector.Rd | 8 r2rtf-0.3.1/r2rtf/man/rtf_nrow.Rd | 5 r2rtf-0.3.1/r2rtf/man/rtf_page.Rd | 13 r2rtf-0.3.1/r2rtf/man/rtf_page_footer.Rd | 8 r2rtf-0.3.1/r2rtf/man/rtf_page_header.Rd | 8 r2rtf-0.3.1/r2rtf/man/rtf_pageby.Rd | 5 r2rtf-0.3.1/r2rtf/man/rtf_source.Rd | 16 r2rtf-0.3.1/r2rtf/man/rtf_strwidth.Rd | 7 r2rtf-0.3.1/r2rtf/man/rtf_subline.Rd | 8 r2rtf-0.3.1/r2rtf/man/rtf_subset.Rd | 4 r2rtf-0.3.1/r2rtf/man/rtf_table_content.Rd | 2 r2rtf-0.3.1/r2rtf/man/rtf_text.Rd | 2 r2rtf-0.3.1/r2rtf/man/rtf_title.Rd | 8 r2rtf-0.3.1/r2rtf/man/update_border_first.Rd | 7 r2rtf-0.3.1/r2rtf/man/update_border_last.Rd | 7 r2rtf-0.3.1/r2rtf/man/vertical_justification.Rd |only r2rtf-0.3.1/r2rtf/tests/testthat/test-developer-testing-conversion.R | 2 r2rtf-0.3.1/r2rtf/tests/testthat/test-developer-testing-rtf_convert_format.R | 13 r2rtf-0.3.1/r2rtf/tests/testthat/test-independent-testing-as_rtf_colheader.R | 24 r2rtf-0.3.1/r2rtf/tests/testthat/test-independent-testing-as_rtf_pageby.R | 118 -- r2rtf-0.3.1/r2rtf/tests/testthat/test-independent-testing-as_rtf_paragraph.R | 13 r2rtf-0.3.1/r2rtf/tests/testthat/test-independent-testing-as_rtf_table.R | 47 r2rtf-0.3.1/r2rtf/tests/testthat/test-independent-testing-check_args.R | 153 +- r2rtf-0.3.1/r2rtf/tests/testthat/test-independent-testing-content_create.R | 111 + r2rtf-0.3.1/r2rtf/tests/testthat/test-independent-testing-conversion.R | 12 r2rtf-0.3.1/r2rtf/tests/testthat/test-independent-testing-dictionary.R | 12 r2rtf-0.3.1/r2rtf/tests/testthat/test-independent-testing-footnote_source_space.R | 24 r2rtf-0.3.1/r2rtf/tests/testthat/test-independent-testing-match_arg.R | 8 r2rtf-0.3.1/r2rtf/tests/testthat/test-independent-testing-obj_rtf_border.R | 246 ++-- r2rtf-0.3.1/r2rtf/tests/testthat/test-independent-testing-obj_rtf_text.R | 232 ++-- r2rtf-0.3.1/r2rtf/tests/testthat/test-independent-testing-rtf_body.R | 563 +++++----- r2rtf-0.3.1/r2rtf/tests/testthat/test-independent-testing-rtf_colheader.R | 64 - r2rtf-0.3.1/r2rtf/tests/testthat/test-independent-testing-rtf_encode.R | 33 r2rtf-0.3.1/r2rtf/tests/testthat/test-independent-testing-rtf_encode_figure.R | 62 - r2rtf-0.3.1/r2rtf/tests/testthat/test-independent-testing-rtf_encode_list.R | 195 +-- r2rtf-0.3.1/r2rtf/tests/testthat/test-independent-testing-rtf_encode_table.R | 245 ++-- r2rtf-0.3.1/r2rtf/tests/testthat/test-independent-testing-rtf_figure.R | 22 r2rtf-0.3.1/r2rtf/tests/testthat/test-independent-testing-rtf_footnote.R | 83 - r2rtf-0.3.1/r2rtf/tests/testthat/test-independent-testing-rtf_group_by_enhance.R | 18 r2rtf-0.3.1/r2rtf/tests/testthat/test-independent-testing-rtf_nrow.R | 196 +-- r2rtf-0.3.1/r2rtf/tests/testthat/test-independent-testing-rtf_page.R | 12 r2rtf-0.3.1/r2rtf/tests/testthat/test-independent-testing-rtf_page_footer.R | 47 r2rtf-0.3.1/r2rtf/tests/testthat/test-independent-testing-rtf_page_header.R | 61 - r2rtf-0.3.1/r2rtf/tests/testthat/test-independent-testing-rtf_pageby.R | 90 - r2rtf-0.3.1/r2rtf/tests/testthat/test-independent-testing-rtf_paragraph.R | 286 ++--- r2rtf-0.3.1/r2rtf/tests/testthat/test-independent-testing-rtf_read_png.R | 6 r2rtf-0.3.1/r2rtf/tests/testthat/test-independent-testing-rtf_source.R | 85 - r2rtf-0.3.1/r2rtf/tests/testthat/test-independent-testing-rtf_strwidth.R | 70 - r2rtf-0.3.1/r2rtf/tests/testthat/test-independent-testing-rtf_subline.R | 43 r2rtf-0.3.1/r2rtf/tests/testthat/test-independent-testing-rtf_subset.R | 103 - r2rtf-0.3.1/r2rtf/tests/testthat/test-independent-testing-rtf_table_content.R | 62 - r2rtf-0.3.1/r2rtf/tests/testthat/test-independent-testing-rtf_text.R | 241 ++-- r2rtf-0.3.1/r2rtf/tests/testthat/test-independent-testing-rtf_title.R | 70 - r2rtf-0.3.1/r2rtf/tests/testthat/test-independent-testing-set_margin.R | 47 r2rtf-0.3.1/r2rtf/tests/testthat/test-independent-testing-update_border.R | 79 - r2rtf-0.3.1/r2rtf/tests/testthat/test-independent-testing-write_rtf.R | 24 r2rtf-0.3.1/r2rtf/vignettes/r2rtf-cran.Rmd | 11 109 files changed, 2976 insertions(+), 2881 deletions(-)
Title: Less Code, More Results
Description: Each function accomplishes the work of several or more standard R functions. For example, two function calls, Read() and CountAll(), read the data and generate summary statistics for all variables in the data frame, plus histograms and bar charts as appropriate. Other functions provide for descriptive statistics, a comprehensive regression analysis, analysis of variance and t-test, plotting including the introduced here Violin/Box/Scatter plot for a numerical variable, bar chart, histogram, box plot, density curves, calibrated power curve, reading multiple data formats with the same function call, variable labels, color themes, Trellis graphics and a built-in help system. Also includes a confirmatory factor analysis of multiple indicator measurement models, pedagogical routines for data simulation such as for the Central Limit Theorem, and generation and rendering of R markdown instructions for interpretative output.
Author: David Gerbing, The School of Business, Portland State University
Maintainer: David W. Gerbing <gerbing@pdx.edu>
Diff between lessR versions 4.0.2 dated 2021-08-05 and 4.0.3 dated 2021-09-09
lessR-4.0.2/lessR/R/plt.zVBS.R |only lessR-4.0.3/lessR/DESCRIPTION | 10 lessR-4.0.3/lessR/MD5 | 153 ++-- lessR-4.0.3/lessR/NAMESPACE | 9 lessR-4.0.3/lessR/NEWS | 99 +++ lessR-4.0.3/lessR/R/ANOVAz2.R | 10 lessR-4.0.3/lessR/R/BarChart.R | 253 +++---- lessR-4.0.3/lessR/R/Histogram.R | 2 lessR-4.0.3/lessR/R/Plot.R | 791 ++++++++++-------------- lessR-4.0.3/lessR/R/Prop_test.R | 149 +++- lessR-4.0.3/lessR/R/Read.R | 10 lessR-4.0.3/lessR/R/Write.R | 2 lessR-4.0.3/lessR/R/bar.zlattice.R | 18 lessR-4.0.3/lessR/R/bc.zmain.R | 10 lessR-4.0.3/lessR/R/bc.zstat.R |only lessR-4.0.3/lessR/R/getColors.R | 56 - lessR-4.0.3/lessR/R/param.zVBS.R |only lessR-4.0.3/lessR/R/pc.zmain.R | 2 lessR-4.0.3/lessR/R/pivot.R | 153 ++-- lessR-4.0.3/lessR/R/plt.zMD.R | 1 lessR-4.0.3/lessR/R/plt.zbubble.R | 13 lessR-4.0.3/lessR/R/plt.zcolors.R |only lessR-4.0.3/lessR/R/plt.zfill.R |only lessR-4.0.3/lessR/R/plt.zfunnel.R |only lessR-4.0.3/lessR/R/plt.zlattice.R | 294 ++++----- lessR-4.0.3/lessR/R/plt.zmain.R | 400 +++++------- lessR-4.0.3/lessR/R/plt.zmat.R | 43 - lessR-4.0.3/lessR/R/plt.zpanel.R | 28 lessR-4.0.3/lessR/R/plt.zshapes.R |only lessR-4.0.3/lessR/R/plt.ztxt.R | 3 lessR-4.0.3/lessR/R/simCImean.R | 2 lessR-4.0.3/lessR/R/ss.zreal.R | 5 lessR-4.0.3/lessR/R/style.R | 63 + lessR-4.0.3/lessR/R/style.zshow.R | 4 lessR-4.0.3/lessR/R/ttest.R | 5 lessR-4.0.3/lessR/R/zzz.R | 105 +-- lessR-4.0.3/lessR/build/vignette.rds |binary lessR-4.0.3/lessR/data/dataFreqTable99.rda |only lessR-4.0.3/lessR/inst/doc/BarChart.R | 3 lessR-4.0.3/lessR/inst/doc/BarChart.Rmd | 31 lessR-4.0.3/lessR/inst/doc/BarChart.html | 137 ++-- lessR-4.0.3/lessR/inst/doc/Customize.R | 87 +- lessR-4.0.3/lessR/inst/doc/Customize.Rmd | 159 +++- lessR-4.0.3/lessR/inst/doc/Customize.html | 172 ++--- lessR-4.0.3/lessR/inst/doc/Extract.Rmd | 17 lessR-4.0.3/lessR/inst/doc/Extract.html | 37 - lessR-4.0.3/lessR/inst/doc/Histogram.R | 3 lessR-4.0.3/lessR/inst/doc/Histogram.Rmd | 23 lessR-4.0.3/lessR/inst/doc/Histogram.html | 77 +- lessR-4.0.3/lessR/inst/doc/Means.R | 5 lessR-4.0.3/lessR/inst/doc/Means.Rmd | 15 lessR-4.0.3/lessR/inst/doc/Means.html | 132 ++-- lessR-4.0.3/lessR/inst/doc/Plot.R | 125 +-- lessR-4.0.3/lessR/inst/doc/Plot.Rmd | 272 ++++---- lessR-4.0.3/lessR/inst/doc/Plot.html | 911 ++++++++++++++++++---------- lessR-4.0.3/lessR/inst/doc/Proportions.R | 16 lessR-4.0.3/lessR/inst/doc/Proportions.Rmd | 120 ++- lessR-4.0.3/lessR/inst/doc/Proportions.html | 256 +++++-- lessR-4.0.3/lessR/inst/doc/Regression.R | 3 lessR-4.0.3/lessR/inst/doc/Regression.Rmd | 35 - lessR-4.0.3/lessR/inst/doc/Regression.html | 123 ++- lessR-4.0.3/lessR/inst/doc/Time.R |only lessR-4.0.3/lessR/inst/doc/Time.Rmd |only lessR-4.0.3/lessR/inst/doc/Time.html |only lessR-4.0.3/lessR/inst/doc/pivot.R | 11 lessR-4.0.3/lessR/inst/doc/pivot.Rmd | 78 +- lessR-4.0.3/lessR/inst/doc/pivot.html | 186 +++-- lessR-4.0.3/lessR/inst/doc/utilities.html | 18 lessR-4.0.3/lessR/man/BarChart.Rd | 8 lessR-4.0.3/lessR/man/Plot.Rd | 76 +- lessR-4.0.3/lessR/man/Prop_test.Rd | 24 lessR-4.0.3/lessR/man/dataFreqTable99.Rd |only lessR-4.0.3/lessR/man/getColors.Rd | 28 lessR-4.0.3/lessR/man/pivot.Rd | 60 - lessR-4.0.3/lessR/vignettes/BarChart.Rmd | 31 lessR-4.0.3/lessR/vignettes/Customize.Rmd | 159 +++- lessR-4.0.3/lessR/vignettes/Extract.Rmd | 17 lessR-4.0.3/lessR/vignettes/Histogram.Rmd | 23 lessR-4.0.3/lessR/vignettes/Means.Rmd | 15 lessR-4.0.3/lessR/vignettes/Plot.Rmd | 272 ++++---- lessR-4.0.3/lessR/vignettes/Proportions.Rmd | 120 ++- lessR-4.0.3/lessR/vignettes/Regression.Rmd | 35 - lessR-4.0.3/lessR/vignettes/Time.Rmd |only lessR-4.0.3/lessR/vignettes/pivot.Rmd | 78 +- 84 files changed, 3836 insertions(+), 2855 deletions(-)
Title: Significance Brackets for 'ggplot2'
Description: Enrich your 'ggplots' with group-wise comparisons.
This package provides an easy way to indicate if two groups are
significantly different. Commonly this is shown by a bracket on top
connecting the groups of interest which itself is annotated with the
level of significance (NS, *, **, ***). The package provides a single
layer (geom_signif()) that takes the groups for comparison and the
test (t.test(), wilcox.text() etc.) as arguments and adds the
annotation to the plot.
Author: Constantin Ahlmann-Eltze [aut, cre, ctb]
(<https://orcid.org/0000-0002-3762-068X>, @const_ae),
Indrajeet Patil [aut, ctb] (<https://orcid.org/0000-0003-1995-6531>,
@patilindrajeets)
Maintainer: Constantin Ahlmann-Eltze <artjom31415@googlemail.com>
Diff between ggsignif versions 0.6.2 dated 2021-06-14 and 0.6.3 dated 2021-09-09
ggsignif-0.6.2/ggsignif/README.md |only ggsignif-0.6.3/ggsignif/DESCRIPTION | 12 ggsignif-0.6.3/ggsignif/MD5 | 32 - ggsignif-0.6.3/ggsignif/NEWS.md | 7 ggsignif-0.6.3/ggsignif/R/geom_signif.R | 62 +- ggsignif-0.6.3/ggsignif/build/vignette.rds |binary ggsignif-0.6.3/ggsignif/inst/WORDLIST | 3 ggsignif-0.6.3/ggsignif/inst/doc/intro.html | 280 +--------- ggsignif-0.6.3/ggsignif/man/figures/README-coord_flip-1.png |only ggsignif-0.6.3/ggsignif/man/figures/README-dodge_comparison-1.png |binary ggsignif-0.6.3/ggsignif/man/figures/README-faceted_comparison-1.png |binary ggsignif-0.6.3/ggsignif/man/figures/README-orientation_argument-1.png |only ggsignif-0.6.3/ggsignif/man/figures/README-simpe_comparison-1.png |binary ggsignif-0.6.3/ggsignif/man/stat_signif.Rd | 12 ggsignif-0.6.3/ggsignif/tests/testthat/Rplots.pdf |binary ggsignif-0.6.3/ggsignif/tests/testthat/_snaps/snapshot_data.md | 81 +- ggsignif-0.6.3/ggsignif/tests/testthat/_snaps/vdiffr/flipping-aesthetics-works-vdiffr.svg |only ggsignif-0.6.3/ggsignif/tests/testthat/test-geom_signific_strict.R | 1 ggsignif-0.6.3/ggsignif/tests/testthat/test-vdiffr.R | 21 19 files changed, 206 insertions(+), 305 deletions(-)
Title: Approximate String Matching, Fuzzy Text Search, and String
Distance Functions
Description: Implements an approximate string matching version of R's native
'match' function. Also offers fuzzy text search based on various string
distance measures. Can calculate various string distances based on edits
(Damerau-Levenshtein, Hamming, Levenshtein, optimal sting alignment), qgrams (q-
gram, cosine, jaccard distance) or heuristic metrics (Jaro, Jaro-Winkler). An
implementation of soundex is provided as well. Distances can be computed between
character vectors while taking proper care of encoding or between integer
vectors representing generic sequences. This package is built for speed and
runs in parallel by using 'openMP'. An API for C or C++ is exposed as well.
Reference: MPJ van der Loo (2014) <doi:10.32614/RJ-2014-011>.
Author: Mark van der Loo [aut, cre] (<https://orcid.org/0000-0002-9807-4686>),
Jan van der Laan [ctb],
R Core Team [ctb],
Nick Logan [ctb],
Chris Muir [ctb],
Johannes Gruber [ctb],
Brian Ripley [ctb]
Maintainer: Mark van der Loo <mark.vanderloo@gmail.com>
Diff between stringdist versions 0.9.7 dated 2021-07-28 and 0.9.8 dated 2021-09-09
DESCRIPTION | 12 +++++++----- MD5 | 34 +++++++++++++++++----------------- NEWS | 9 ++++++++- build/vignette.rds |binary inst/doc/RJournal_6_111-122-2014.pdf |binary inst/doc/stringdist_C-Cpp_api.pdf |binary src/Rstringdist.c | 18 ++++++++---------- src/dl.c | 3 --- src/hamming.c | 3 --- src/jaro.c | 3 --- src/lcs.c | 3 --- src/lv.c | 3 --- src/osa.c | 3 --- src/qgram.c | 10 ++++------ src/qtree.h | 4 ---- src/soundex.c | 8 +------- src/utf8ToInt.c | 10 ++-------- src/utils.h | 2 +- 18 files changed, 48 insertions(+), 77 deletions(-)
Title: Rcpp Bindings for Sequential Monte Carlo
Description: R access to the Sequential Monte Carlo Template Classes
by Johansen <doi:10.18637/jss.v030.i06> is provided. At present, four
additional examples have been added, and the first example from the JSS
paper has been extended. Further integration and extensions are planned.
Author: Dirk Eddelbuettel, Adam M. Johansen, Leah F. South and Ilya Zarubin
Maintainer: Dirk Eddelbuettel <edd@debian.org>
Diff between RcppSMC versions 0.2.4 dated 2021-09-02 and 0.2.5 dated 2021-09-09
ChangeLog | 12 ++++++++++++ DESCRIPTION | 8 ++++---- MD5 | 10 +++++----- README.md | 2 +- inst/NEWS.Rd | 7 +++++++ inst/include/conditionalSampler.h | 2 +- 6 files changed, 30 insertions(+), 11 deletions(-)
Title: Enhancing the 'parallel' Package
Description: Utility functions that enhance the 'parallel' package and support the built-in parallel backends of the 'future' package. For example, availableCores() gives the number of CPU cores available to your R process as given by the operating system, 'cgroups' and Linux containers, R options, and environment variables, including those set by job schedulers on high-performance compute clusters. If none is set, it will fall back to parallel::detectCores(). Another example is makeClusterPSOCK(), which is backward compatible with parallel::makePSOCKcluster() while doing a better job in setting up remote cluster workers without the need for configuring the firewall to do port-forwarding to your local computer.
Author: Henrik Bengtsson [aut, cre, cph]
Maintainer: Henrik Bengtsson <henrikb@braju.com>
Diff between parallelly versions 1.27.0 dated 2021-07-19 and 1.28.1 dated 2021-09-09
DESCRIPTION | 8 MD5 | 32 +-- NAMESPACE | 5 NEWS | 27 ++ R/isForkedChild.R |only R/isNodeAlive.R |only R/makeClusterPSOCK.R | 63 ++---- R/options.R | 4 R/parallelly_disable_parallel_setup_if_needed.R | 8 R/utils,pid.R |only R/utils.R | 250 ------------------------ README.md | 8 inst/WORDLIST | 4 man/availableConnections.Rd | 2 man/availableCores.Rd | 4 man/isForkedChild.Rd |only man/isNodeAlive.Rd |only man/parallelly.options.Rd | 2 man/pid_exists.Rd | 2 tests/isForkedChild.R |only 20 files changed, 99 insertions(+), 320 deletions(-)
Title: Multivariate Model Based Inference for Domains
Description: Allows users to produce estimates and MSE for multivariate variables using Linear Mixed Model. The package follows the approach of Datta, Day and Basawa (1999) <doi:10.1016/S0378-3758(98)00147-5>.
Author: Michele D'Alo' [aut],
Stefano Falorsi [aut],
Andrea Fasulo [aut, cre]
Maintainer: Andrea Fasulo <fasulo@istat.it>
Diff between mind versions 0.1.3 dated 2021-09-07 and 0.1.4 dated 2021-09-09
DESCRIPTION | 6 +++--- MD5 | 6 +++--- R/mind.unit.R | 9 +++++++-- man/mind.unit.Rd | 2 +- 4 files changed, 14 insertions(+), 9 deletions(-)
Title: Ecological Inference by Linear Programming under Homogeneity
Description: Provides a bunch of algorithms based on linear programming for estimating
RxC ecological contingency tables (or vote transition matrices) using exclusively aggregate
results from voting units under the homogeneity hypothesis. References:
Romero, Pavia, Martin and Romero (2020) <doi:10.1080/02664763.2020.1804842>.
Pavia and Romero (2021a) <doi:10.31124/advance.14716638.v1>.
Pavia and Romero (2021b) Symmetry estimating R×C vote transfer matrices from aggregate data.
Author: Jose M. Pavía [aut, cre] (<https://orcid.org/0000-0002-0129-726X>),
Rafael Romero [aut]
Maintainer: Jose M. Pavía <jose.m.pavia@uv.es>
Diff between lphom versions 0.1.4 dated 2021-06-09 and 0.3.0-7 dated 2021-09-09
DESCRIPTION | 17 LICENSE | 45 MD5 | 44 NAMESPACE | 8 R/auxiliar.R | 2330 ++++++++++++++++++++++++------------------- R/confidence_intervals_pjk.R | 160 +- R/error_lphom.R | 222 ++-- R/lclphom.R |only R/lphom.R | 733 +++++++------ R/lphom_dual.R |only R/lphom_joint.R |only R/nslphom.R | 572 +++++----- R/nslphom_dual.R |only R/nslphom_joint.R |only R/tslphom.R | 408 +++---- R/tslphom_dual.R |only R/tslphom_joint.R |only build/partial.rdb |binary inst/CITATION | 101 + man/France2017P.Rd | 84 - man/lclphom.Rd |only man/lphom.Rd | 30 man/lphom_dual.Rd |only man/lphom_joint.Rd |only man/nslphom.Rd | 37 man/nslphom_dual.Rd |only man/nslphom_joint.Rd |only man/tslphom.Rd | 41 man/tslphom_dual.Rd |only man/tslphom_joint.Rd |only 30 files changed, 2653 insertions(+), 2179 deletions(-)
Title: Flexible Scan Statistics
Description: An easy way to conduct flexible scan.
Monte-Carlo method is used to test the spatial clusters given the cases, population, and shapefile.
A table with formal style and a map with clusters are included in the result report.
The method can be referenced at: Toshiro Tango and Kunihiko Takahashi (2005) <doi:10.1186/1476-072X-4-11>.
Author: Zhicheng Du, Yuantao Hao
Maintainer: Zhicheng Du <dgdzc@hotmail.com>
Diff between FlexScan versions 0.2.0 dated 2020-04-07 and 0.2.1 dated 2021-09-09
DESCRIPTION | 6 +++--- MD5 | 4 ++-- man/flexscan.Rd | 2 +- 3 files changed, 6 insertions(+), 6 deletions(-)
Title: Composite Indicator Construction and Analysis
Description: A comprehensive high-level package for composite indicator construction and analysis. It is a "development environment"
for composite indicators and scoreboards, which includes utilities for construction (indicator selection, denomination, imputation,
data treatment, normalisation, weighting and aggregation) and analysis (multivariate analysis, correlation plotting, short cuts for
principle component analysis, global sensitivity analysis, and more). A composite indicator is completely encapsulated inside a single
hierarchical list called a "COIN". This allows a fast and efficient work flow, as well as making quick copies, testing methodological variations and making comparisons.
It also includes many plotting options, both statistical (scatter plots, distribution plots) as well as for presenting results (maps,
bar charts, radar charts, and more).
Finally, three Shiny apps are available which enable fast data exploration, results presentation, and checking the effects of
altering weights.
Full documentation is found in the online book at <https://bluefoxr.github.io/COINrDoc/>, as well as the vignette.
Author: William Becker [aut, cre, cph]
(<https://orcid.org/0000-0002-6467-4472>)
Maintainer: William Becker <william.becker@bluefoxdata.eu>
Diff between COINr versions 0.5.3 dated 2021-09-06 and 0.5.4 dated 2021-09-09
DESCRIPTION | 11 +- MD5 | 39 ++++----- NAMESPACE | 3 NEWS.md | 11 ++ R/coin_assemble.R | 209 ++++++++++++++++++++++++++++++++++++++++++++++++- R/coin_multivariate.R | 2 R/coin_normalise.R | 25 +++++ R/coin_regen.R | 8 + R/coin_resultstable.R | 150 +++++++++++++++++++++-------------- R/data.R | 5 - build/partial.rdb |binary data/WorldDenoms.rda |binary inst/doc/Overview.R | 30 +++---- inst/doc/Overview.Rmd | 30 +++---- inst/doc/Overview.html | 42 ++++----- man/WorldDenoms.Rd | 5 - man/assemble.Rd | 12 ++ man/extractYear.Rd |only man/getUnitReport.Rd | 3 man/normalise.Rd | 2 vignettes/Overview.Rmd | 30 +++---- 21 files changed, 450 insertions(+), 167 deletions(-)
Title: Evaluation of Inequality Constrained Hypotheses Using GORICA
Description: Implements the generalized order-restricted information criterion
approximation (GORICA) by Kuiper, Hoijtink, & Silvapulle (2012)
<doi:10.1016/j.jspi.2012.03.007>. The GORICA is an AIC-like information
criterion that
can be utilized to evaluate informative hypotheses specifying
directional relationships between model parameters in terms of (in)equality
constraints. The GORICA is applicable not only to
normal linear models, but also to generalized linear models (GLMs),
generalized linear mixed models (GLMMs), and structural equation models
(SEMs). In addition, the GORICA can be utilized in the context of
contingency tables for which (in)equality constrained hypotheses do not
necessarily contain linear restrictions on cell probabilities, but instead
often contain non-linear restrictions on cell probabilities.
Author: Rebecca M. Kuiper [aut],
Altinisik Yasin [aut],
Vanbrabant Leonard [ctb],
Caspar J. van Lissa [aut, cre]
Maintainer: Caspar J. van Lissa <c.j.vanlissa@uu.nl>
Diff between gorica versions 0.1.0 dated 2019-12-13 and 0.1.1 dated 2021-09-09
gorica-0.1.0/gorica/R/gorica.print.R |only gorica-0.1.1/gorica/DESCRIPTION | 16 gorica-0.1.1/gorica/MD5 | 74 + gorica-0.1.1/gorica/NAMESPACE | 5 gorica-0.1.1/gorica/NEWS.md | 8 gorica-0.1.1/gorica/R/complement.R | 8 gorica-0.1.1/gorica/R/get_estimates_unique_to_gorica.R | 114 ++ gorica-0.1.1/gorica/R/gorica_housekeeping.R |only gorica-0.1.1/gorica/R/gorica_methods.R | 344 ++++++-- gorica-0.1.1/gorica/R/hox_2010.R |only gorica-0.1.1/gorica/R/names_attribute.R |only gorica-0.1.1/gorica/R/nederhof_2014.R |only gorica-0.1.1/gorica/R/ormle.R | 19 gorica-0.1.1/gorica/R/print_functions.R |only gorica-0.1.1/gorica/R/stevens_1999.R |only gorica-0.1.1/gorica/R/utilities.R |only gorica-0.1.1/gorica/README.md | 15 gorica-0.1.1/gorica/build |only gorica-0.1.1/gorica/data/hox_2010.csv |only gorica-0.1.1/gorica/data/nederhof_2014.csv |only gorica-0.1.1/gorica/data/stevens_1999.csv |only gorica-0.1.1/gorica/inst |only gorica-0.1.1/gorica/man/academic_awards.Rd | 54 - gorica-0.1.1/gorica/man/gorica.Rd | 457 +++++------ gorica-0.1.1/gorica/man/hox_2010.Rd |only gorica-0.1.1/gorica/man/nederhof_2014.Rd |only gorica-0.1.1/gorica/man/reading_ach.Rd | 60 - gorica-0.1.1/gorica/man/stevens_1999.Rd |only gorica-0.1.1/gorica/man/wechsler.Rd | 76 - gorica-0.1.1/gorica/tests/testthat/test-computational_bug.R |only gorica-0.1.1/gorica/tests/testthat/test-gorica_and_sem.R |only gorica-0.1.1/gorica/tests/testthat/test-gorica_table.R |only gorica-0.1.1/gorica/tests/testthat/test-lavaan_loglik.R |only gorica-0.1.1/gorica/tests/testthat/test-multilevel_example.R | 10 gorica-0.1.1/gorica/tests/testthat/test-sem_example.R | 10 35 files changed, 855 insertions(+), 415 deletions(-)
Title: Thurstonian IRT Models
Description: Fit Thurstonian Item Response Theory (IRT) models in R. This
package supports fitting Thurstonian IRT models and its extensions using
'Stan', 'lavaan', or 'Mplus' for the model estimation. Functionality for
extracting results, making predictions, and simulating data is provided as
well. References:
Brown & Maydeu-Olivares (2011) <doi:10.1177/0013164410375112>;
Bürkner et al. (2019) <doi:10.1177/0013164419832063>.
Author: Paul-Christian Bürkner [aut, cre],
Angus Hughes [ctb],
Trustees of Columbia University [cph]
Maintainer: Paul-Christian Bürkner <paul.buerkner@gmail.com>
Diff between thurstonianIRT versions 0.11.1 dated 2020-08-07 and 0.12.0 dated 2021-09-09
thurstonianIRT-0.11.1/thurstonianIRT/R/zzz.R |only thurstonianIRT-0.11.1/thurstonianIRT/inst/include/meta_header.hpp |only thurstonianIRT-0.11.1/thurstonianIRT/src/init.cpp |only thurstonianIRT-0.11.1/thurstonianIRT/src/stan_files |only thurstonianIRT-0.11.1/thurstonianIRT/tools |only thurstonianIRT-0.12.0/thurstonianIRT/DESCRIPTION | 25 thurstonianIRT-0.12.0/thurstonianIRT/MD5 | 73 thurstonianIRT-0.12.0/thurstonianIRT/NAMESPACE | 2 thurstonianIRT-0.12.0/thurstonianIRT/NEWS.md | 7 thurstonianIRT-0.12.0/thurstonianIRT/R/TIRTfit-methods.R | 81 thurstonianIRT-0.12.0/thurstonianIRT/R/data-helpers.R | 894 +++++----- thurstonianIRT-0.12.0/thurstonianIRT/R/lavaan.R | 534 ++--- thurstonianIRT-0.12.0/thurstonianIRT/R/misc.R | 286 +-- thurstonianIRT-0.12.0/thurstonianIRT/R/mplus.R | 732 ++++---- thurstonianIRT-0.12.0/thurstonianIRT/R/simulations.R | 641 +++---- thurstonianIRT-0.12.0/thurstonianIRT/R/stan.R | 450 ++--- thurstonianIRT-0.12.0/thurstonianIRT/R/stanmodels.R | 64 thurstonianIRT-0.12.0/thurstonianIRT/README.md | 454 ++--- thurstonianIRT-0.12.0/thurstonianIRT/build/vignette.rds |binary thurstonianIRT-0.12.0/thurstonianIRT/configure |only thurstonianIRT-0.12.0/thurstonianIRT/configure.win |only thurstonianIRT-0.12.0/thurstonianIRT/inst/doc/TIRT_sim_tests.R | 206 +- thurstonianIRT-0.12.0/thurstonianIRT/inst/doc/TIRT_sim_tests.Rmd | 396 ++-- thurstonianIRT-0.12.0/thurstonianIRT/inst/doc/TIRT_sim_tests.html | 433 +--- thurstonianIRT-0.12.0/thurstonianIRT/inst/include/stan_meta_header.hpp |only thurstonianIRT-0.12.0/thurstonianIRT/inst/stan |only thurstonianIRT-0.12.0/thurstonianIRT/man/gof.TIRTfit.Rd |only thurstonianIRT-0.12.0/thurstonianIRT/man/predict.TIRTfit.Rd | 62 thurstonianIRT-0.12.0/thurstonianIRT/man/set_blocks_from_df.Rd | 136 - thurstonianIRT-0.12.0/thurstonianIRT/man/triplets.Rd | 152 - thurstonianIRT-0.12.0/thurstonianIRT/src/Makevars | 22 thurstonianIRT-0.12.0/thurstonianIRT/src/Makevars.win | 23 thurstonianIRT-0.12.0/thurstonianIRT/src/RcppExports.cpp |only thurstonianIRT-0.12.0/thurstonianIRT/src/stanExports_thurstonian_irt_model.cc |only thurstonianIRT-0.12.0/thurstonianIRT/src/stanExports_thurstonian_irt_model.h |only thurstonianIRT-0.12.0/thurstonianIRT/src/stanExports_thurstonian_irt_model_newdata.cc |only thurstonianIRT-0.12.0/thurstonianIRT/src/stanExports_thurstonian_irt_model_newdata.h |only thurstonianIRT-0.12.0/thurstonianIRT/tests/testthat/tests.lavaan.R | 1 thurstonianIRT-0.12.0/thurstonianIRT/tests/testthat/tests.stan.R | 172 - thurstonianIRT-0.12.0/thurstonianIRT/vignettes/TIRT_sim_tests.Rmd | 396 ++-- 40 files changed, 3058 insertions(+), 3184 deletions(-)
More information about thurstonianIRT at CRAN
Permanent link
Title: Tools for Working with Posterior Distributions
Description: Provides useful tools for both users and developers of packages
for fitting Bayesian models or working with output from Bayesian models.
The primary goals of the package are to:
(a) Efficiently convert between many different useful formats of
draws (samples) from posterior or prior distributions.
(b) Provide consistent methods for operations commonly performed on draws,
for example, subsetting, binding, or mutating draws.
(c) Provide various summaries of draws in convenient formats.
(d) Provide lightweight implementations of state of the art posterior
inference diagnostics. References: Vehtari et al. (2021)
<doi:10.1214/20-BA1221>.
Author: Paul-Christian Bürkner [aut, cre],
Jonah Gabry [aut],
Matthew Kay [aut],
Aki Vehtari [aut],
Måns Magnusson [ctb],
Rok Češnovar [ctb],
Ben Lambert [ctb],
Ozan Adıgüzel [ctb],
Jacob Socolar [ctb]
Maintainer: Paul-Christian Bürkner <paul.buerkner@gmail.com>
Diff between posterior versions 1.0.1 dated 2021-07-14 and 1.1.0 dated 2021-09-09
DESCRIPTION | 12 LICENSE | 6 MD5 | 80 - NAMESPACE | 6 NEWS.md | 22 R/as_draws_array.R | 470 +++--- R/as_draws_df.R | 451 +++--- R/as_draws_matrix.R | 412 ++--- R/as_draws_rvars.R | 6 R/convergence.R | 1546 ++++++++++------------ R/draws-index.R | 35 R/misc.R | 481 +++--- R/posterior-package.R | 118 - R/print.R | 12 R/rstar.R | 17 R/rvar-.R | 60 R/rvar-dist.R | 10 R/rvar-rfun.R | 20 R/rvar-summaries-over-draws.R | 74 - R/rvar-summaries-within-draws.R | 75 - R/subset_draws.R | 15 R/summarise_draws.R | 656 ++++----- README.md | 88 - inst/CITATION | 54 inst/doc/posterior.html | 120 - inst/doc/rvar.html | 28 man/rvar-summaries-over-draws.Rd | 20 man/rvar-summaries-within-draws.Rd | 10 man/sub-.draws_array.Rd | 50 man/sub-.draws_matrix.Rd | 50 tests/testthat.R | 1 tests/testthat/test-as_draws.R | 13 tests/testthat/test-convergence.R | 9 tests/testthat/test-print.R | 4 tests/testthat/test-rstar.R | 1 tests/testthat/test-rvar-dist.R | 2 tests/testthat/test-rvar-rfun.R | 27 tests/testthat/test-rvar-summaries-over-draws.R | 93 - tests/testthat/test-rvar-summaries-within-draws.R | 19 tests/testthat/test-subset_draws.R | 25 tests/testthat/test-summarise_draws.R | 4 41 files changed, 2753 insertions(+), 2449 deletions(-)
Title: VITA, IG and PLSIM Simulation for Given Covariance and Marginals
Description: User specifies population covariance matrix. Marginal information may be fully
specified, for which the package implements the VITA (VIne-To-Anything) algorithm.
Groenneberg and Foldnes (2017) <doi:10.1007/s11336-017-9569-6>.
Alternatively, marginal skewness and kurtosis may be specified, for which the package
implements the IG (independent generator) and PLSIM (piecewise linear) algorithms. Foldnes and Olsson (2016) <doi:10.1080/00273171.2015.1133274>.
Foldnes and Groenneberg (2021).
Author: Njaal Foldnes [aut, cre],
Steffen Groenneberg [aut]
Maintainer: Njaal Foldnes <njal.foldnes@gmail.com>
Diff between covsim versions 0.2.0 dated 2021-06-09 and 0.2.1 dated 2021-09-09
DESCRIPTION | 9 +++++---- MD5 | 6 +++++- build |only inst/doc |only vignettes |only 5 files changed, 10 insertions(+), 5 deletions(-)
More information about CPNCoverageAnalysis at CRAN
Permanent link
More information about colorblindcheck at CRAN
Permanent link
Title: Monte Carlo Standard Errors for MCMC
Description: Provides tools for computing Monte Carlo standard
errors (MCSE) in Markov chain Monte Carlo (MCMC) settings. MCSE
computation for expectation and quantile estimators is
supported as well as multivariate estimations. The package also provides
functions for computing effective sample size and for plotting
Monte Carlo estimates versus sample size.
Author: James M. Flegal <jflegal@ucr.edu>,
John Hughes,
Dootika Vats <dootika@iitk.ac.in>,
Ning Dai,
Kushagra Gupta, and
Uttiya Maji
Maintainer: Dootika Vats <dootika@iitk.ac.in>
Diff between mcmcse versions 1.4-1 dated 2020-01-29 and 1.5-0 dated 2021-09-09
mcmcse-1.4-1/mcmcse/R/mcse.R |only mcmcse-1.4-1/mcmcse/R/qq_test.R |only mcmcse-1.4-1/mcmcse/R/zzz.R |only mcmcse-1.4-1/mcmcse/man/qqTest.Rd |only mcmcse-1.5-0/mcmcse/DESCRIPTION | 25 mcmcse-1.5-0/mcmcse/MD5 | 90 +- mcmcse-1.5-0/mcmcse/NAMESPACE | 56 - mcmcse-1.5-0/mcmcse/R/MVG.R |only mcmcse-1.5-0/mcmcse/R/RcppExports.R | 22 mcmcse-1.5-0/mcmcse/R/batchSize.R |only mcmcse-1.5-0/mcmcse/R/confRegion.R | 84 +- mcmcse-1.5-0/mcmcse/R/ignore.R |only mcmcse-1.5-0/mcmcse/R/mcmcse.R | 904 +++++++++------------- mcmcse-1.5-0/mcmcse/R/mcse_initseq.R | 77 + mcmcse-1.5-0/mcmcse/R/mcse_multi.R | 604 +++++++------- mcmcse-1.5-0/mcmcse/R/minESS.R | 87 +- mcmcse-1.5-0/mcmcse/R/multiESS.R | 132 ++- mcmcse-1.5-0/mcmcse/build/vignette.rds |binary mcmcse-1.5-0/mcmcse/inst/CITATION | 10 mcmcse-1.5-0/mcmcse/inst/doc/mcmcse_vignette.R | 73 - mcmcse-1.5-0/mcmcse/inst/doc/mcmcse_vignette.Rnw | 760 +++++++++--------- mcmcse-1.5-0/mcmcse/inst/doc/mcmcse_vignette.pdf |binary mcmcse-1.5-0/mcmcse/man/BVN_Gibbs.Rd |only mcmcse-1.5-0/mcmcse/man/batchSize.Rd | 65 - mcmcse-1.5-0/mcmcse/man/confRegion.Rd | 47 - mcmcse-1.5-0/mcmcse/man/ess.Rd | 53 - mcmcse-1.5-0/mcmcse/man/estvssamp.Rd | 39 mcmcse-1.5-0/mcmcse/man/is.mcmcse.Rd |only mcmcse-1.5-0/mcmcse/man/mcmcse-package.Rd | 49 - mcmcse-1.5-0/mcmcse/man/mcse.Rd | 119 +- mcmcse-1.5-0/mcmcse/man/mcse.initseq.Rd | 93 +- mcmcse-1.5-0/mcmcse/man/mcse.mat.Rd | 61 - mcmcse-1.5-0/mcmcse/man/mcse.multi.Rd | 110 +- mcmcse-1.5-0/mcmcse/man/mcse.q.Rd | 113 +- mcmcse-1.5-0/mcmcse/man/mcse.q.mat.Rd | 58 - mcmcse-1.5-0/mcmcse/man/minESS.Rd | 60 - mcmcse-1.5-0/mcmcse/man/multiESS.Rd | 76 - mcmcse-1.5-0/mcmcse/src/Makevars | 2 mcmcse-1.5-0/mcmcse/src/Makevars.win | 3 mcmcse-1.5-0/mcmcse/src/RcppExports.cpp | 86 +- mcmcse-1.5-0/mcmcse/src/batchsize.cpp |only mcmcse-1.5-0/mcmcse/src/init.c | 10 mcmcse-1.5-0/mcmcse/src/inseq.cpp | 10 mcmcse-1.5-0/mcmcse/src/lag.cpp |only mcmcse-1.5-0/mcmcse/src/mbmc.cpp | 17 mcmcse-1.5-0/mcmcse/src/mcseqbm.cpp |only mcmcse-1.5-0/mcmcse/src/mcseqobm.cpp |only mcmcse-1.5-0/mcmcse/src/mcseqsub.cpp |only mcmcse-1.5-0/mcmcse/src/mobmc.cpp | 14 mcmcse-1.5-0/mcmcse/src/msvec.cpp | 12 mcmcse-1.5-0/mcmcse/tests |only mcmcse-1.5-0/mcmcse/vignettes/mcmcse_vignette.Rnw | 760 +++++++++--------- mcmcse-1.5-0/mcmcse/vignettes/mcse.bib | 7 53 files changed, 2488 insertions(+), 2300 deletions(-)
Title: Tools for Descriptive Statistics
Description: A collection of miscellaneous basic statistic functions and convenience wrappers for efficiently describing data. The author's intention was to create a toolbox, which facilitates the (notoriously time consuming) first descriptive tasks in data analysis, consisting of calculating descriptive statistics, drawing graphical summaries and reporting the results. The package contains furthermore functions to produce documents using MS Word (or PowerPoint) and functions to import data from Excel. Many of the included functions can be found scattered in other packages and other sources written partly by Titans of R. The reason for collecting them here, was primarily to have them consolidated in ONE instead of dozens of packages (which themselves might depend on other packages which are not needed at all), and to provide a common and consistent interface as far as function and arguments naming, NA handling, recycling rules etc. are concerned. Google style guides were used as naming rules (in absence of convincing alternatives). The 'BigCamelCase' style was consequently applied to functions borrowed from contributed R packages as well.
Author: Andri Signorell [aut, cre],
Ken Aho [ctb],
Andreas Alfons [ctb],
Nanina Anderegg [ctb],
Tomas Aragon [ctb],
Chandima Arachchige [ctb],
Antti Arppe [ctb],
Adrian Baddeley [ctb],
Kamil Barton [ctb],
Ben Bolker [ctb],
Hans W. Borchers [ctb],
Frederico Caeiro [ctb],
Stephane Champely [ctb],
Daniel Chessel [ctb],
Leanne Chhay [ctb],
Nicholas Cooper [ctb],
Clint Cummins [ctb],
Michael Dewey [ctb],
Harold C. Doran [ctb],
Stephane Dray [ctb],
Charles Dupont [ctb],
Dirk Eddelbuettel [ctb],
Claus Ekstrom [ctb],
Martin Elff [ctb],
Jeff Enos [ctb],
Richard W. Farebrother [ctb],
John Fox [ctb],
Romain Francois [ctb],
Michael Friendly [ctb],
Tal Galili [ctb],
Matthias Gamer [ctb],
Joseph L. Gastwirth [ctb],
Vilmantas Gegzna [ctb],
Yulia R. Gel [ctb],
Sereina Graber [ctb],
Juergen Gross [ctb],
Gabor Grothendieck [ctb],
Frank E. Harrell Jr [ctb],
Richard Heiberger [ctb],
Michael Hoehle [ctb],
Christian W. Hoffmann [ctb],
Soeren Hojsgaard [ctb],
Torsten Hothorn [ctb],
Markus Huerzeler [ctb],
Wallace W. Hui [ctb],
Pete Hurd [ctb],
Rob J. Hyndman [ctb],
Christopher Jackson [ctb],
Matthias Kohl [ctb],
Mikko Korpela [ctb],
Max Kuhn [ctb],
Detlew Labes [ctb],
Friederich Leisch [ctb],
Jim Lemon [ctb],
Dong Li [ctb],
Martin Maechler [ctb],
Arni Magnusson [ctb],
Ben Mainwaring [ctb],
Daniel Malter [ctb],
George Marsaglia [ctb],
John Marsaglia [ctb],
Alina Matei [ctb],
David Meyer [ctb],
Weiwen Miao [ctb],
Giovanni Millo [ctb],
Yongyi Min [ctb],
David Mitchell [ctb],
Franziska Mueller [ctb],
Markus Naepflin [ctb],
Daniel Navarro [ctb],
Henric Nilsson [ctb],
Klaus Nordhausen [ctb],
Derek Ogle [ctb],
Hong Ooi [ctb],
Nick Parsons [ctb],
Sandrine Pavoine [ctb],
Tony Plate [ctb],
Luke Prendergast [ctb],
Roland Rapold [ctb],
William Revelle [ctb],
Tyler Rinker [ctb],
Brian D. Ripley [ctb],
Caroline Rodriguez [ctb],
Nathan Russell [ctb],
Nick Sabbe [ctb],
Ralph Scherer [ctb],
Venkatraman E. Seshan [ctb],
Michael Smithson [ctb],
Greg Snow [ctb],
Karline Soetaert [ctb],
Werner A. Stahel [ctb],
Alec Stephenson [ctb],
Mark Stevenson [ctb],
Ralf Stubner [ctb],
Matthias Templ [ctb],
Duncan Temple Lang [ctb],
Terry Therneau [ctb],
Yves Tille [ctb],
Luis Torgo [ctb],
Adrian Trapletti [ctb],
Joshua Ulrich [ctb],
Kevin Ushey [ctb],
Jeremy VanDerWal [ctb],
Bill Venables [ctb],
John Verzani [ctb],
Pablo J. Villacorta Iglesias [ctb],
Gregory R. Warnes [ctb],
Stefan Wellek [ctb],
Hadley Wickham [ctb],
Rand R. Wilcox [ctb],
Peter Wolf [ctb],
Daniel Wollschlaeger [ctb],
Joseph Wood [ctb],
Ying Wu [ctb],
Thomas Yee [ctb],
Achim Zeileis [ctb]
Maintainer: Andri Signorell <andri@signorell.net>
Diff between DescTools versions 0.99.42 dated 2021-06-17 and 0.99.43 dated 2021-09-09
DESCRIPTION | 8 +++--- MD5 | 55 ++++++++++++++++++++++----------------------- NAMESPACE | 2 - NEWS | 15 ++++++++++++ R/DescTools.r | 9 ++++++- R/Tests.r | 9 ++++--- build/vignette.rds |binary man/BarText.Rd | 7 ++++- man/BarnardTest.Rd | 13 +++++++++- man/BhapkarTest.Rd | 17 ++++++++----- man/DescTools-package.Rd | 7 +++-- man/DoCall.Rd | 3 -- man/Freq.Rd | 15 ++++++------ man/Freq2D.Rd | 7 +++-- man/GeomTrans.Rd | 2 - man/GetCurrWrd.Rd | 23 +++++++++++++----- man/Gmean.Rd | 1 man/GoodmanKruskalGamma.Rd | 6 ++-- man/Keywords.Rd | 4 +-- man/MeanCI.Rd | 8 +----- man/PlotArea.Rd | 6 ---- man/PostHocTest.Rd | 50 ++++++++++++++++++++-------------------- man/RunsTest.Rd | 6 ++-- man/StrAlign.Rd | 12 ++++++++- man/StripAttr.Rd | 19 ++++++++++----- man/StuartMaxwellTest.Rd | 29 ++++++++++++++++++----- man/figures/bartext.png |only src/RcppExports.cpp | 5 ++++ src/aux_fct.cpp | 1 29 files changed, 210 insertions(+), 129 deletions(-)
Title: The Bayes Factor Playground
Description: A lightweight modelling syntax for defining likelihoods and priors
and for computing Bayes factors for simple one parameter models. It includes
functionality for computing and plotting priors, likelihoods, and model
predictions. Additional functionality is included for computing and plotting
posteriors.
Author: Lincoln J Colling [aut, cre] (<https://orcid.org/0000-0002-3572-7758>)
Maintainer: Lincoln J Colling <lincoln@colling.net.nz>
Diff between bayesplay versions 0.9.1 dated 2021-07-15 and 0.9.2 dated 2021-09-09
DESCRIPTION | 6 ++-- MD5 | 33 ++++++++++++++++++----- R/helper_functions.R | 8 ++--- R/likelihoods.R | 2 - build/vignette.rds |binary tests/figs/plots/cauchy-normal-d2-prediction.svg |only tests/testthat/_snaps |only tests/testthat/test-helper_functions.R | 18 +++++++++--- tests/testthat/test-plots.R | 31 ++++++++++++++++++++- 9 files changed, 77 insertions(+), 21 deletions(-)
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2020-10-26 0.3.2
2019-08-29 0.3.1
2019-04-12 0.3.0
2018-09-12 0.2.5
2018-06-16 0.2.4
2018-05-17 0.2.3
2017-12-16 0.2.2
2017-12-15 0.2.1
2017-11-16 0.2.0
2017-10-26 0.1.10
2017-08-18 0.1.9
2017-07-08 0.1.8
2017-06-26 0.1.7
2017-06-13 0.1.6
2017-04-07 0.1.5
2017-02-03 0.1.4
2017-02-01 0.1.3
2017-01-18 0.1.2
2017-01-05 0.1.1
Title: Joint Feature Screening via Sparse MLE
Description: Feature screening is a powerful tool in processing ultrahigh dimensional data. It attempts to screen out most irrelevant features in preparation for a more elaborate analysis. Xu and Chen (2014)<doi:10.1080/01621459.2013.879531> proposed an effective screening method SMLE, which naturally incorporates the joint effects among features in the screening process. This package provides an efficient implementation of SMLE-screening for high-dimensional linear, logistic, and Poisson models. The package also provides a function for conducting accurate post-screening feature selection based on an iterative hard-thresholding procedure and a user-specified selection criterion.
Author: Qianxiang Zang [aut, cre],
Chen Xu [aut],
Kelly Burkett [aut],
Maintainer: Qianxiang Zang <qzang023@uottawa.ca>
Diff between SMLE versions 1.2.3 dated 2021-09-03 and 1.2.4 dated 2021-09-09
SMLE-1.2.3/SMLE/man/vote.Rd |only SMLE-1.2.4/SMLE/DESCRIPTION | 8 +-- SMLE-1.2.4/SMLE/MD5 | 54 +++++++++++----------- SMLE-1.2.4/SMLE/NAMESPACE | 4 - SMLE-1.2.4/SMLE/R/Gen_Data.R | 34 +++++++------- SMLE-1.2.4/SMLE/R/SMLE.R | 70 ++++++++++++++--------------- SMLE-1.2.4/SMLE/R/coef.R | 6 +- SMLE-1.2.4/SMLE/R/logLik.R | 11 ++-- SMLE-1.2.4/SMLE/R/plot.selection.R | 13 ++--- SMLE-1.2.4/SMLE/R/plot.smle.R | 15 +++--- SMLE-1.2.4/SMLE/R/predict.R | 47 ++++++++----------- SMLE-1.2.4/SMLE/R/print.R | 12 ++--- SMLE-1.2.4/SMLE/R/smle_select.R | 81 +++++++++++++++++++--------------- SMLE-1.2.4/SMLE/R/summary.R | 13 ++--- SMLE-1.2.4/SMLE/R/synSNP.R | 8 ++- SMLE-1.2.4/SMLE/R/vote.R | 33 +++++++------ SMLE-1.2.4/SMLE/man/Gen_Data.Rd | 29 ++++++------ SMLE-1.2.4/SMLE/man/SMLE-package.Rd | 13 +++-- SMLE-1.2.4/SMLE/man/SMLE.Rd | 67 ++++++++++++++-------------- SMLE-1.2.4/SMLE/man/coef.Rd | 8 +-- SMLE-1.2.4/SMLE/man/logLik.Rd | 11 ++-- SMLE-1.2.4/SMLE/man/plot.selection.Rd | 13 ++--- SMLE-1.2.4/SMLE/man/plot.smle.Rd | 15 +++--- SMLE-1.2.4/SMLE/man/predict.Rd | 30 +++++++----- SMLE-1.2.4/SMLE/man/print.Rd | 8 ++- SMLE-1.2.4/SMLE/man/smle_select.Rd | 62 +++++++++++++------------- SMLE-1.2.4/SMLE/man/summary.Rd | 13 ++--- SMLE-1.2.4/SMLE/man/synSNP.Rd | 8 ++- SMLE-1.2.4/SMLE/man/vote_update.Rd |only 29 files changed, 362 insertions(+), 324 deletions(-)
Title: Calculations and Visualisations Related to Geometric
Morphometrics
Description: A toolset for Geometric Morphometrics and mesh processing. This
includes (among other stuff) mesh deformations based on reference points,
permutation tests, detection of outliers, processing of sliding
semi-landmarks and semi-automated surface landmark placement.
Author: Stefan Schlager [aut, cre, cph],
Gregory Jefferis [ctb],
Dryden Ian [cph]
Maintainer: Stefan Schlager <zarquon42@gmail.com>
Diff between Morpho versions 2.8 dated 2020-03-09 and 2.9 dated 2021-09-09
Morpho-2.8/Morpho/R/showPC.r |only Morpho-2.8/Morpho/man/showPC.Rd |only Morpho-2.9/Morpho/DESCRIPTION | 13 - Morpho-2.9/Morpho/MD5 | 218 +++++++++++++------------- Morpho-2.9/Morpho/NAMESPACE | 14 + Morpho-2.9/Morpho/R/CAC.r | 4 Morpho-2.9/Morpho/R/CVA.crova.r | 8 Morpho-2.9/Morpho/R/CVA.r | 10 - Morpho-2.9/Morpho/R/Morpho-package.R | 20 ++ Morpho-2.9/Morpho/R/ProcGPA.r | 2 Morpho-2.9/Morpho/R/bindArr.r | 14 + Morpho-2.9/Morpho/R/check.lm.r | 5 Morpho-2.9/Morpho/R/checkNA.r |only Morpho-2.9/Morpho/R/classify.r | 5 Morpho-2.9/Morpho/R/deformGrid2d.r | 5 Morpho-2.9/Morpho/R/deformGrid3d.r | 2 Morpho-2.9/Morpho/R/fiducials.r | 172 +++++++++++++++++++- Morpho-2.9/Morpho/R/find.outliers.r | 2 Morpho-2.9/Morpho/R/getSides.r |only Morpho-2.9/Morpho/R/groupPCA.r | 18 +- Morpho-2.9/Morpho/R/list2array.r | 21 ++ Morpho-2.9/Morpho/R/mergeMeshes.r | 18 +- Morpho-2.9/Morpho/R/meshDist.r | 22 +- Morpho-2.9/Morpho/R/meshDistMatrix.r | 12 - Morpho-2.9/Morpho/R/meshDistZExport.r | 4 Morpho-2.9/Morpho/R/mirror.r | 38 +++- Morpho-2.9/Morpho/R/permudist.r | 6 Morpho-2.9/Morpho/R/pls2B.r | 2 Morpho-2.9/Morpho/R/pointsOnOutline.r |only Morpho-2.9/Morpho/R/procSym.r | 30 ++- Morpho-2.9/Morpho/R/relwarps.r | 4 Morpho-2.9/Morpho/R/restoreShapes.r |only Morpho-2.9/Morpho/R/rot.proc.r | 94 +++++------ Morpho-2.9/Morpho/R/rotonto.r | 29 +-- Morpho-2.9/Morpho/R/slider3d.r | 7 Morpho-2.9/Morpho/R/updateIndices.r |only Morpho-2.9/Morpho/R/vertex.r | 40 +++- Morpho-2.9/Morpho/R/warpmovie.matrix.r | 2 Morpho-2.9/Morpho/inst/NEWS.Rd | 25 ++ Morpho-2.9/Morpho/man/CAC.Rd | 4 Morpho-2.9/Morpho/man/CVA.Rd | 20 +- Morpho-2.9/Morpho/man/CreateL.Rd | 8 Morpho-2.9/Morpho/man/LPS2RAS.Rd |only Morpho-2.9/Morpho/man/Morpho-deprecated.Rd | 24 ++ Morpho-2.9/Morpho/man/Morpho-package.Rd | 4 Morpho-2.9/Morpho/man/NNshapeReg.Rd | 9 - Morpho-2.9/Morpho/man/ProcGPA.Rd | 14 + Morpho-2.9/Morpho/man/anonymize.Rd | 15 + Morpho-2.9/Morpho/man/applyTransform.Rd | 9 - Morpho-2.9/Morpho/man/array2list.Rd |only Morpho-2.9/Morpho/man/boneData.Rd | 6 Morpho-2.9/Morpho/man/checkLM.Rd | 28 ++- Morpho-2.9/Morpho/man/checkNA.Rd |only Morpho-2.9/Morpho/man/closemeshKD.Rd | 12 + Morpho-2.9/Morpho/man/computeTransform.Rd | 13 + Morpho-2.9/Morpho/man/covDist.Rd | 10 - Morpho-2.9/Morpho/man/createAtlas.Rd | 10 - Morpho-2.9/Morpho/man/cutMeshPlane.Rd | 3 Morpho-2.9/Morpho/man/cutSpace.Rd | 3 Morpho-2.9/Morpho/man/data2platonic.Rd | 9 - Morpho-2.9/Morpho/man/deformGrid2d.Rd | 26 ++- Morpho-2.9/Morpho/man/deformGrid3d.Rd | 34 +++- Morpho-2.9/Morpho/man/equidistantCurve.Rd | 12 + Morpho-2.9/Morpho/man/find.outliers.Rd | 14 + Morpho-2.9/Morpho/man/getOuterViewpoints.Rd | 10 - Morpho-2.9/Morpho/man/getPCscores.Rd | 4 Morpho-2.9/Morpho/man/getPLSCommonShape.Rd | 4 Morpho-2.9/Morpho/man/getPointAlongOutline.Rd |only Morpho-2.9/Morpho/man/getSides.Rd |only Morpho-2.9/Morpho/man/groupPCA.Rd | 20 +- Morpho-2.9/Morpho/man/histGroup.Rd | 19 +- Morpho-2.9/Morpho/man/icpmat.Rd | 14 + Morpho-2.9/Morpho/man/lineplot.Rd | 3 Morpho-2.9/Morpho/man/meshDist.Rd | 77 ++++++--- Morpho-2.9/Morpho/man/mirror.Rd | 67 ++++++- Morpho-2.9/Morpho/man/mirror2plane.Rd | 6 Morpho-2.9/Morpho/man/nose.Rd | 6 Morpho-2.9/Morpho/man/pcAlign.Rd | 9 - Morpho-2.9/Morpho/man/pcaplot3d.Rd | 27 ++- Morpho-2.9/Morpho/man/permudist.Rd | 12 + Morpho-2.9/Morpho/man/permuvec.Rd | 17 +- Morpho-2.9/Morpho/man/placePatch.Rd | 18 +- Morpho-2.9/Morpho/man/plot.slider3d.Rd | 11 + Morpho-2.9/Morpho/man/plotAtlas.Rd | 14 + Morpho-2.9/Morpho/man/pls2B.Rd | 14 + Morpho-2.9/Morpho/man/ply2mesh.Rd | 9 - Morpho-2.9/Morpho/man/prcompfast.Rd | 3 Morpho-2.9/Morpho/man/proc.weight.Rd | 12 + Morpho-2.9/Morpho/man/procSym.Rd | 34 +++- Morpho-2.9/Morpho/man/projRead.Rd | 3 Morpho-2.9/Morpho/man/ray2mesh.Rd | 3 Morpho-2.9/Morpho/man/read.csv.folder.Rd | 15 + Morpho-2.9/Morpho/man/read.fcsv.Rd | 4 Morpho-2.9/Morpho/man/read.slicerjson.Rd |only Morpho-2.9/Morpho/man/readLandmarks.csv.Rd | 11 + Morpho-2.9/Morpho/man/regdist.Rd | 3 Morpho-2.9/Morpho/man/relWarps.Rd | 17 +- Morpho-2.9/Morpho/man/relaxLM.Rd | 45 ++++- Morpho-2.9/Morpho/man/render.Rd | 61 +++++-- Morpho-2.9/Morpho/man/resampleCurve.Rd |only Morpho-2.9/Morpho/man/restoreFromPCA.Rd |only Morpho-2.9/Morpho/man/restoreShapes.Rd |only Morpho-2.9/Morpho/man/retroDeformMesh.Rd | 12 + Morpho-2.9/Morpho/man/rotmesh.onto.Rd | 11 + Morpho-2.9/Morpho/man/rotonmat.Rd | 12 + Morpho-2.9/Morpho/man/rotonto.Rd | 14 + Morpho-2.9/Morpho/man/slider2d.Rd | 17 +- Morpho-2.9/Morpho/man/slider3d.Rd | 35 +++- Morpho-2.9/Morpho/man/typprob.Rd | 28 ++- Morpho-2.9/Morpho/man/updateIndices.Rd |only Morpho-2.9/Morpho/man/vertex.Rd | 2 Morpho-2.9/Morpho/man/warpmovie3d.Rd | 81 +++++++-- Morpho-2.9/Morpho/man/write.fcsv.Rd | 4 Morpho-2.9/Morpho/man/write.slicerjson.Rd |only Morpho-2.9/Morpho/src/Makevars | 1 Morpho-2.9/Morpho/src/face_zero.cpp | 13 - Morpho-2.9/Morpho/src/init.c | 4 Morpho-2.9/Morpho/src/permudistArma.cpp | 16 + Morpho-2.9/Morpho/src/permudistArma.h | 2 119 files changed, 1441 insertions(+), 536 deletions(-)
Title: Geyser Data from GeyserTimes.org
Description: Download geyser eruption and observation data from the GeyserTimes
site (<https://geysertimes.org>) and optionally store it locally. The vignette
shows a simple analysis of downloading, accessing, and summarizing the data.
Author: Stephen Kaluzny [aut, cre]
Maintainer: Stephen Kaluzny <spkaluzny@gmail.com>
Diff between geysertimes versions 0.1.8 dated 2021-05-19 and 0.1.9 dated 2021-09-09
DESCRIPTION | 6 +++--- MD5 | 8 ++++---- R/gt_cleanup_data.R | 3 +++ R/gt_get_data.R | 2 +- build/vignette.rds |binary 5 files changed, 11 insertions(+), 8 deletions(-)
Title: BreedWheat Genomic Selection Pipeline
Description: Package for Breed Wheat Genomic Selection Pipeline.
The R package 'BWGS' is developed by Gilles Charmet <gilles.charmet@inra.fr>.
This repository is forked from original repository <https://forgemia.inra.fr/umr-gdec/bwgs>
and modified as a R package.
Author: Gilles Charmet [aut],
Louis Gautier Tran [aut],
Bangyou Zheng [cre]
Maintainer: Bangyou Zheng <bangyou.zheng@csiro.au>
Diff between BWGS versions 0.1.0 dated 2020-07-30 and 0.2.0 dated 2021-09-09
DESCRIPTION | 10 +++++----- MD5 | 13 +++++++------ R/bwgs_gilles.R | 47 ++++++++++++++++++++++++++++++----------------- R/cross_validation.R | 27 ++++++++++++++++++++++++++- R/predict.R | 13 ++++++++++--- README.md | 17 +++++++++++++---- man/bwgs.predict.Rd | 2 +- man/removeSaveAt.Rd |only 8 files changed, 92 insertions(+), 37 deletions(-)
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2020-01-14 1.0.2
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2021-08-20 0.0.1
Title: APSIM Next Generation
Description: The Agricultural Production Systems sIMulator ('APSIM') is a widely
used to simulate the agricultural systems for multiple crops. This package
is designed to create, modify and run 'apsimx' files in the 'APSIM' Next
Generation <https://www.apsim.info/>.
Author: Bangyou Zheng [aut, cre]
Maintainer: Bangyou Zheng <bangyou.zheng@csiro.au>
Diff between rapsimng versions 0.2.0 dated 2021-03-30 and 0.3.0 dated 2021-09-09
DESCRIPTION | 6 MD5 | 18 - R/cultivar.R | 31 +-- R/modify.R | 21 +- R/simulations.R | 7 README.md | 4 build/vignette.rds |binary inst/doc/modify.html | 403 ++++++++++--------------------------------- inst/doc/sensitivity.html | 279 +++-------------------------- tests/testthat/test-modify.R | 35 +++ 10 files changed, 223 insertions(+), 581 deletions(-)
Title: A General-Purpose Package for Dynamic Report Generation in R
Description: Provides a general-purpose tool for dynamic report generation in R
using Literate Programming techniques.
Author: Yihui Xie [aut, cre] (<https://orcid.org/0000-0003-0645-5666>),
Abhraneel Sarma [ctb],
Adam Vogt [ctb],
Alastair Andrew [ctb],
Alex Zvoleff [ctb],
Andre Simon [ctb] (the CSS files under inst/themes/ were derived from
the Highlight package http://www.andre-simon.de),
Aron Atkins [ctb],
Aaron Wolen [ctb],
Ashley Manton [ctb],
Atsushi Yasumoto [ctb] (<https://orcid.org/0000-0002-8335-495X>),
Ben Baumer [ctb],
Brian Diggs [ctb],
Brian Zhang [ctb],
Bulat Yapparov [ctb],
Cassio Pereira [ctb],
Christophe Dervieux [ctb],
David Hall [ctb],
David Hugh-Jones [ctb],
David Robinson [ctb],
Doug Hemken [ctb],
Duncan Murdoch [ctb],
Elio Campitelli [ctb],
Ellis Hughes [ctb],
Emily Riederer [ctb],
Fabian Hirschmann [ctb],
Fitch Simeon [ctb],
Forest Fang [ctb],
Frank E Harrell Jr [ctb] (the Sweavel package at inst/misc/Sweavel.sty),
Garrick Aden-Buie [ctb],
Gregoire Detrez [ctb],
Hadley Wickham [ctb],
Hao Zhu [ctb],
Heewon Jeon [ctb],
Henrik Bengtsson [ctb],
Hiroaki Yutani [ctb],
Ian Lyttle [ctb],
Hodges Daniel [ctb],
Jake Burkhead [ctb],
James Manton [ctb],
Jared Lander [ctb],
Jason Punyon [ctb],
Javier Luraschi [ctb],
Jeff Arnold [ctb],
Jenny Bryan [ctb],
Jeremy Ashkenas [ctb, cph] (the CSS file at
inst/misc/docco-classic.css),
Jeremy Stephens [ctb],
Jim Hester [ctb],
Joe Cheng [ctb],
Johannes Ranke [ctb],
John Honaker [ctb],
John Muschelli [ctb],
Jonathan Keane [ctb],
JJ Allaire [ctb],
Johan Toloe [ctb],
Jonathan Sidi [ctb],
Joseph Larmarange [ctb],
Julien Barnier [ctb],
Kaiyin Zhong [ctb],
Kamil Slowikowski [ctb],
Karl Forner [ctb],
Kevin K. Smith [ctb],
Kirill Mueller [ctb],
Kohske Takahashi [ctb],
Lorenz Walthert [ctb],
Lucas Gallindo [ctb],
Marius Hofert [ctb],
Martin Modrák [ctb],
Michael Chirico [ctb],
Michael Friendly [ctb],
Michal Bojanowski [ctb],
Michel Kuhlmann [ctb],
Miller Patrick [ctb],
Nacho Caballero [ctb],
Nick Salkowski [ctb],
Niels Richard Hansen [ctb],
Noam Ross [ctb],
Obada Mahdi [ctb],
Pavel N. Krivitsky [ctb] (<https://orcid.org/0000-0002-9101-3362>),
Qiang Li [ctb],
Ramnath Vaidyanathan [ctb],
Richard Cotton [ctb],
Robert Krzyzanowski [ctb],
Romain Francois [ctb],
Ruaridh Williamson [ctb],
Scott Kostyshak [ctb],
Sebastian Meyer [ctb],
Sietse Brouwer [ctb],
Simon de Bernard [ctb],
Sylvain Rousseau [ctb],
Taiyun Wei [ctb],
Thibaut Assus [ctb],
Thibaut Lamadon [ctb],
Thomas Leeper [ctb],
Tim Mastny [ctb],
Tom Torsney-Weir [ctb],
Trevor Davis [ctb],
Viktoras Veitas [ctb],
Weicheng Zhu [ctb],
Wush Wu [ctb],
Zachary Foster [ctb]
Maintainer: Yihui Xie <xie@yihui.name>
Diff between knitr versions 1.33 dated 2021-04-24 and 1.34 dated 2021-09-09
DESCRIPTION | 21 ++++++------ MD5 | 71 +++++++++++++++++++++---------------------- NAMESPACE | 1 R/block.R | 18 ++++++++-- R/citation.R | 4 ++ R/defaults.R | 21 +----------- R/engine.R | 19 +++++++++-- R/highlight.R | 6 +++ R/output.R | 15 +++++---- R/plot.R | 4 +- R/utils-conversion.R | 15 ++++----- R/utils-vignettes.R | 29 ++++++++++++----- R/utils.R | 42 ++++++------------------- build/vignette.rds |binary inst/doc/knit_expand.html | 4 +- inst/doc/knit_print.Rmd | 2 - inst/doc/knit_print.html | 21 ++++++------ inst/doc/knitr-intro.html | 10 +++--- inst/doc/knitr-markdown.html | 2 - inst/doc/knitr-refcard.pdf |binary inst/misc/tikz2pdf.tex | 4 +- man/engine_output.Rd | 8 ++-- man/hook_plot.Rd | 2 - man/imgur_upload.Rd | 2 - man/knit.Rd | 4 +- man/knit2html.Rd | 11 +++--- man/knit_child.Rd | 7 ++-- man/knit_print.Rd | 4 +- man/opts_chunk.Rd | 2 - man/plot_crop.Rd | 2 - man/raw_output.Rd | 8 ++-- man/read_chunk.Rd | 2 - man/rocco.Rd | 4 +- man/wrap_rmd.Rd | 2 - tests/testit/test-block.R |only tests/testit/test-plot.R | 8 ++++ vignettes/knit_print.Rmd | 2 - 37 files changed, 200 insertions(+), 177 deletions(-)
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2021-06-21 0.0.2
2021-06-18 0.0.1
Title: Multiple Change Point Detection in Structural VAR Models
Description: Implementations of Thresholded Block Segmentation Scheme (TBSS) and Low-rank plus Sparse Two Step Procedure (LSTSP) algorithms for detecting multiple changes in structural VAR models. The package aims to address the problem of change point detection in piece-wise stationary VAR models, under different settings regarding the structure of their transition matrices (autoregressive dynamics); specifically, the following cases are included: (i) (weakly) sparse, (ii) structured sparse, and (iii) low rank plus sparse. It includes multiple algorithms and related extensions from Safikhani and Shojaie (2020) <doi:10.1080/01621459.2020.1770097> and Bai, Safikhani and Michailidis (2020) <doi:10.1109/TSP.2020.2993145>.
Author: Yue Bai [aut, cre],
Peiliang Bai [aut],
Abolfazl Safikhani [aut],
George Michailidis [aut]
Maintainer: Yue Bai <baiyue@ufl.edu>
Diff between VARDetect versions 0.1.3 dated 2021-05-27 and 0.1.4 dated 2021-09-09
VARDetect-0.1.3/VARDetect/build |only VARDetect-0.1.3/VARDetect/inst |only VARDetect-0.1.3/VARDetect/vignettes |only VARDetect-0.1.4/VARDetect/DESCRIPTION | 7 VARDetect-0.1.4/VARDetect/MD5 | 89 VARDetect-0.1.4/VARDetect/R/Functions_BSS_SGL.R | 6827 +++++----- VARDetect-0.1.4/VARDetect/R/Functions_LpS.R | 1832 +- VARDetect-0.1.4/VARDetect/man/BIC.Rd | 1 VARDetect-0.1.4/VARDetect/man/Q.func.Rd | 1 VARDetect-0.1.4/VARDetect/man/backward.selection.Rd | 1 VARDetect-0.1.4/VARDetect/man/block.finder.Rd | 1 VARDetect-0.1.4/VARDetect/man/break.var.local.new.Rd | 1 VARDetect-0.1.4/VARDetect/man/break.var.lps.Rd | 1 VARDetect-0.1.4/VARDetect/man/cv.detect.LpS.Rd | 1 VARDetect-0.1.4/VARDetect/man/cv.separate.Rd | 1 VARDetect-0.1.4/VARDetect/man/cv.tuning.selection.Rd | 1 VARDetect-0.1.4/VARDetect/man/detect.LpS.Rd | 1 VARDetect-0.1.4/VARDetect/man/f.func.Rd | 1 VARDetect-0.1.4/VARDetect/man/first.step.blocks.Rd | 1 VARDetect-0.1.4/VARDetect/man/first.step.blocks.group.Rd | 1 VARDetect-0.1.4/VARDetect/man/first.step.detect.Rd | 1 VARDetect-0.1.4/VARDetect/man/fista.LpS.Rd | 1 VARDetect-0.1.4/VARDetect/man/fista.nuclear.Rd | 1 VARDetect-0.1.4/VARDetect/man/gradf.func.Rd | 1 VARDetect-0.1.4/VARDetect/man/nuclear.pen.Rd | 1 VARDetect-0.1.4/VARDetect/man/obj.func.Rd | 1 VARDetect-0.1.4/VARDetect/man/plot.VARDetect.result.Rd | 6 VARDetect-0.1.4/VARDetect/man/pred.Rd | 1 VARDetect-0.1.4/VARDetect/man/pred.block.Rd | 1 VARDetect-0.1.4/VARDetect/man/print.VARDetect.result.Rd | 2 VARDetect-0.1.4/VARDetect/man/prox.nuclear.func.Rd | 1 VARDetect-0.1.4/VARDetect/man/prox.nuclear.func.fLS.Rd | 1 VARDetect-0.1.4/VARDetect/man/prox.sparse.func.Rd | 1 VARDetect-0.1.4/VARDetect/man/remove.extra.pts.Rd | 1 VARDetect-0.1.4/VARDetect/man/second.step.detect.Rd | 1 VARDetect-0.1.4/VARDetect/man/second.step.local.Rd | 1 VARDetect-0.1.4/VARDetect/man/shrinkage.Rd | 1 VARDetect-0.1.4/VARDetect/man/shrinkage.lr.Rd | 1 VARDetect-0.1.4/VARDetect/man/simu_lstsp.Rd | 4 VARDetect-0.1.4/VARDetect/man/simu_tbss.Rd | 10 VARDetect-0.1.4/VARDetect/man/simu_var.Rd | 8 VARDetect-0.1.4/VARDetect/man/sparse.pen.Rd | 1 VARDetect-0.1.4/VARDetect/man/summary.VARDetect.result.Rd | 6 VARDetect-0.1.4/VARDetect/man/summary.VARDetect.simu.result.Rd | 2 VARDetect-0.1.4/VARDetect/man/tbss.Rd | 9 VARDetect-0.1.4/VARDetect/man/third.step.exhaustive.search.Rd | 1 46 files changed, 4466 insertions(+), 4367 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 0.1.0 dated 2021-08-06 and 0.1.1 dated 2021-09-09
DESCRIPTION | 11 +++++------ MD5 | 42 +++++++++++++++++++++--------------------- NAMESPACE | 1 + NEWS.md | 6 ++++++ R/gh.R | 20 ++------------------ R/pb_download.R | 20 +++++--------------- R/pb_download_url.R | 2 +- R/pb_info.R | 7 +++++-- R/pb_new_release.R | 6 +++++- R/pb_upload.R | 16 ++++++---------- README.md | 41 ++++++++++------------------------------- inst/doc/alternatives.html | 4 ++-- inst/doc/intro.html | 4 ++-- inst/examples/push-pull.R | 1 - man/pb_delete.Rd | 5 +---- man/pb_download.Rd | 19 +++++++------------ man/pb_download_url.Rd | 13 +++++-------- man/pb_list.Rd | 9 +++------ man/pb_new_release.Rd | 5 +---- man/pb_upload.Rd | 12 ++++-------- tests/testthat/test-errors.R | 2 +- tests/testthat/test-gh.R | 2 -- 22 files changed, 93 insertions(+), 155 deletions(-)
Title: Hotelling's T^2 Test and Variants
Description: A set of R functions which implements Hotelling's T^2 test and some variants of it. Functions are also included for Aitchison's additive log ratio and centred log ratio transformations.
Author: James Curran [aut, cre],
Taylor Hersh [aut]
Maintainer: James Curran <j.curran@auckland.ac.nz>
Diff between Hotelling versions 1.0-7 dated 2021-08-04 and 1.0-8 dated 2021-09-09
DESCRIPTION | 12 ++++++------ MD5 | 4 ++-- R/hotelling.test.r | 4 ++-- 3 files changed, 10 insertions(+), 10 deletions(-)