Title: Striped Smith-Waterman Algorithm for Sequence Alignment using
SIMD
Description: Provides an R interface for 'SSW' (Striped Smith-Waterman)
via its 'Python' binding 'ssw-py'. 'SSW' is a fast 'C' and 'C++'
implementation of the Smith-Waterman algorithm for pairwise sequence
alignment using Single-Instruction-Multiple-Data (SIMD) instructions.
'SSW' enhances the standard algorithm by efficiently returning alignment
information and suboptimal alignment scores.
The core 'SSW' library offers performance improvements for various
bioinformatics tasks, including protein database searches,
short-read alignments, primary and split-read mapping,
structural variant detection, and read-overlap graph generation.
These features make 'SSW' particularly useful for genomic applications.
Zhao et al. (2013) <doi:10.1371/journal.pone.0082138> developed the
original 'C' and 'C++' implementation.
Author: Nan Xiao [aut, cre, cph]
Maintainer: Nan Xiao <me@nanx.me>
Diff between ssw versions 0.2.0 dated 2024-09-05 and 0.2.1 dated 2024-09-17
DESCRIPTION | 14 +++++++------- MD5 | 17 +++++++++-------- NEWS.md | 9 +++++++++ R/package.R | 14 -------------- R/zzz.R |only inst/doc/ssw.R | 45 --------------------------------------------- inst/doc/ssw.Rmd | 50 +++++++++++++++++++++++++------------------------- man/ssw-package.Rd | 2 +- man/ssw_py.Rd | 2 +- vignettes/ssw.Rmd | 50 +++++++++++++++++++++++++------------------------- 10 files changed, 77 insertions(+), 126 deletions(-)
Title: Data Simulation for Life Science and Breeding
Description: Data simulator including genotype, phenotype, pedigree,
selection and reproduction in R. It simulates most of reproduction process
of animals or plants and provides data for GS (Genomic Selection),
GWAS (Genome-Wide Association Study), and Breeding.
For ADI model, please see Kao C and Zeng Z (2002) <doi:10.1093/genetics/160.3.1243>.
For build.cov, please see B. D. Ripley (1987) <ISBN:9780470009604>.
Author: Dong Yin [aut],
Xuanning Zhang [aut],
Lilin Yin [aut],
Haohao Zhang [aut],
Zhenshuang Tang [aut],
Jingya Xu [aut],
Xiaohui Yuan [aut],
Xiang Zhou [aut],
Xinyun Li [aut],
Shuhong Zhao [aut],
Xiaolei Liu [cre, aut, cph]
Maintainer: Xiaolei Liu <xll198708@gmail.com>
Diff between simer versions 0.9.0.4 dated 2023-11-29 and 0.9.0.5 dated 2024-09-17
DESCRIPTION | 12 +-- MD5 | 16 ++-- NAMESPACE | 2 R/exports.R | 5 - R/simer.Data.R | 171 ++++++++++++++++++++++++----------------------------- R/simer.Genotype.r | 24 +++++-- README.md | 2 data/simdata.rda |binary src/pedigree.cpp | 42 ++++--------- 9 files changed, 128 insertions(+), 146 deletions(-)
Title: Easily Install and Load the 'healthyverse'
Description: The 'healthyverse' is a set of packages that work in
harmony because they share common data representations and 'API'
design. This package is designed to make it easy to install and load
multiple 'healthyverse' packages in a single step.
Author: Steven Sanderson [aut, cre, cph]
Maintainer: Steven Sanderson <spsanderson@gmail.com>
Diff between healthyverse versions 1.0.4 dated 2023-04-18 and 1.1.0 dated 2024-09-17
healthyverse-1.0.4/healthyverse/man/figures/test2.png |only healthyverse-1.1.0/healthyverse/DESCRIPTION | 32 +++++----- healthyverse-1.1.0/healthyverse/MD5 | 18 ++--- healthyverse-1.1.0/healthyverse/NEWS.md | 4 - healthyverse-1.1.0/healthyverse/R/attach.R | 3 healthyverse-1.1.0/healthyverse/README.md | 27 +++++--- healthyverse-1.1.0/healthyverse/build/vignette.rds |binary healthyverse-1.1.0/healthyverse/inst/doc/getting-started.R | 2 healthyverse-1.1.0/healthyverse/inst/doc/getting-started.html | 24 ++++--- healthyverse-1.1.0/healthyverse/man/figures/logo.png |only healthyverse-1.1.0/healthyverse/man/healthyverse-package.Rd | 10 +-- 11 files changed, 70 insertions(+), 50 deletions(-)
Title: Data for "Forecasting: Principles and Practice" (3rd Edition)
Description: All data sets required for the examples and exercises in the book
"Forecasting: principles and practice" by Rob J Hyndman and George Athanasopoulos
<https://OTexts.com/fpp3/>. All packages required to run the examples are also
loaded. Additional data sets not used in the book are also included.
Author: Rob Hyndman [aut, cre, cph] ,
George Athanasopoulos [ctb],
Mitchell O'Hara-Wild [ctb],
Nuwani Palihawadana [ctb],
Shanika Wickramasuriya [ctb],
RStudio [cph]
Maintainer: Rob Hyndman <Rob.Hyndman@monash.edu>
Diff between fpp3 versions 1.0.0 dated 2024-06-25 and 1.0.1 dated 2024-09-17
DESCRIPTION | 15 +++++++-------- MD5 | 15 ++++++++------- NEWS.md | 5 +++++ R/attach.R | 3 +-- R/data.R | 3 ++- README.md | 23 +++++++++++++---------- man/figures |only man/fpp3-package.Rd | 8 +++++--- man/nsw_offences.Rd | 3 ++- 9 files changed, 43 insertions(+), 32 deletions(-)
Title: Accurate Floating Point Sums and Products
Description: Most of the time floating point arithmetic does
approximately the right thing. When adding sums or having products
of numbers that greatly differ in magnitude, the floating point
arithmetic may be incorrect. This package implements the Kahan
(1965) sum <doi:10.1145/363707.363723>, Neumaier (1974) sum
<doi:10.1002/zamm.19740540106>, pairwise-sum (adapted from 'NumPy',
See Castaldo (2008) <doi:10.1137/070679946> for a discussion of
accuracy), and arbitrary precision sum (adapted from the fsum in
'Python' ; Shewchuk (1997)
<https://people.eecs.berkeley.edu/~jrs/papers/robustr.pdf>). In addition,
products are changed to long double precision for accuracy, or
changed into a log-sum for accuracy.
Author: Matthew Fidler [aut, cre, cph],
Raymond Hettinger [cph, aut],
Jonathan Shewchuk [cph, aut],
Julian Taylor [cph, aut],
Nathaniel Smith [cph, aut],
NumPy Team [cph],
Python Team [cph]
Maintainer: Matthew Fidler <matthew.fidler@gmail.com>
Diff between PreciseSums versions 0.6 dated 2023-04-21 and 0.7 dated 2024-09-17
DESCRIPTION | 8 +++--- MD5 | 22 ++++++++++--------- NAMESPACE | 1 NEWS.md | 9 +++++++ R/sums.R | 18 +++++++++++++-- man/dot-preciseSumsPtr.Rd |only man/fsum.Rd | 3 -- src/Makevars | 1 src/PreciseSums.h | 7 +++--- src/PreciseSumsPtr.h |only src/init.c | 42 +++++++++++++++++++++++++++++++++--- src/prod.c | 23 ++++++++++++------- src/sum.c | 53 +++++++++++++++++++++++----------------------- 13 files changed, 126 insertions(+), 61 deletions(-)
Title: Make Static HTML Documentation for a Package
Description: Generate an attractive and useful website from a source
package. 'pkgdown' converts your documentation, vignettes, 'README',
and more to 'HTML' making it easy to share information about your
package online.
Author: Hadley Wickham [aut, cre] ,
Jay Hesselberth [aut] ,
Maelle Salmon [aut] ,
Olivier Roy [aut],
Salim Brueggemann [aut] ,
Posit Software, PBC [cph, fnd]
Maintainer: Hadley Wickham <hadley@posit.co>
Diff between pkgdown versions 2.1.0 dated 2024-07-06 and 2.1.1 dated 2024-09-17
pkgdown-2.1.0/pkgdown/man/clean_site.Rd |only pkgdown-2.1.1/pkgdown/DESCRIPTION | 10 pkgdown-2.1.1/pkgdown/MD5 | 90 - pkgdown-2.1.1/pkgdown/NAMESPACE | 1 pkgdown-2.1.1/pkgdown/NEWS.md | 524 +++++----- pkgdown-2.1.1/pkgdown/R/build-home-index.R | 15 pkgdown-2.1.1/pkgdown/R/build-news.R | 3 pkgdown-2.1.1/pkgdown/R/build.R | 2 pkgdown-2.1.1/pkgdown/R/check-built.R | 2 pkgdown-2.1.1/pkgdown/R/clean.R | 27 pkgdown-2.1.1/pkgdown/R/rd-example.R | 2 pkgdown-2.1.1/pkgdown/R/rd.R | 10 pkgdown-2.1.1/pkgdown/R/tweak-page.R | 12 pkgdown-2.1.1/pkgdown/R/usage.R | 2 pkgdown-2.1.1/pkgdown/R/utils.R | 3 pkgdown-2.1.1/pkgdown/build/stage23.rdb |binary pkgdown-2.1.1/pkgdown/inst/BS5/assets/pkgdown.js | 8 pkgdown-2.1.1/pkgdown/inst/doc/customise.Rmd | 52 pkgdown-2.1.1/pkgdown/inst/doc/customise.html | 65 - pkgdown-2.1.1/pkgdown/inst/doc/how-to-update-released-site.R | 38 pkgdown-2.1.1/pkgdown/inst/doc/how-to-update-released-site.Rmd | 41 pkgdown-2.1.1/pkgdown/inst/doc/how-to-update-released-site.html | 30 pkgdown-2.1.1/pkgdown/inst/doc/linking.Rmd | 2 pkgdown-2.1.1/pkgdown/inst/doc/linking.html | 2 pkgdown-2.1.1/pkgdown/inst/doc/metadata.Rmd | 46 pkgdown-2.1.1/pkgdown/inst/doc/metadata.html | 18 pkgdown-2.1.1/pkgdown/inst/doc/pkgdown.Rmd | 6 pkgdown-2.1.1/pkgdown/inst/doc/pkgdown.html | 13 pkgdown-2.1.1/pkgdown/inst/doc/quarto.html | 22 pkgdown-2.1.1/pkgdown/inst/doc/quarto.qmd | 12 pkgdown-2.1.1/pkgdown/man/build_site.Rd | 2 pkgdown-2.1.1/pkgdown/man/clean.Rd |only pkgdown-2.1.1/pkgdown/tests/testthat/_snaps/build-home-index.md | 8 pkgdown-2.1.1/pkgdown/tests/testthat/_snaps/build-reference-index.md | 2 pkgdown-2.1.1/pkgdown/tests/testthat/test-build-article.R | 21 pkgdown-2.1.1/pkgdown/tests/testthat/test-build-home-index.R | 9 pkgdown-2.1.1/pkgdown/tests/testthat/test-build-home-license.R | 2 pkgdown-2.1.1/pkgdown/tests/testthat/test-build-news.R | 7 pkgdown-2.1.1/pkgdown/tests/testthat/test-build-reference.R | 1 pkgdown-2.1.1/pkgdown/tests/testthat/test-rd-html.R | 3 pkgdown-2.1.1/pkgdown/tests/testthat/test-usage.R | 4 pkgdown-2.1.1/pkgdown/vignettes/customise.Rmd | 52 pkgdown-2.1.1/pkgdown/vignettes/how-to-update-released-site.Rmd | 41 pkgdown-2.1.1/pkgdown/vignettes/linking.Rmd | 2 pkgdown-2.1.1/pkgdown/vignettes/metadata.Rmd | 46 pkgdown-2.1.1/pkgdown/vignettes/pkgdown.Rmd | 6 pkgdown-2.1.1/pkgdown/vignettes/quarto.qmd | 12 47 files changed, 650 insertions(+), 626 deletions(-)
Title: Port of the 'Scilab' 'n1qn1' Module for Unconstrained BFGS
Optimization
Description: Provides 'Scilab' 'n1qn1'. This takes more memory than traditional L-BFGS. The n1qn1 routine is useful since it allows prespecification of a Hessian.
If the Hessian is near enough the truth in optimization it can speed up the optimization problem. The algorithm is described in the
'Scilab' optimization documentation located at
<https://www.scilab.org/sites/default/files/optimization_in_scilab.pdf>. This version uses manually modified code from 'f2c' to make this a C only binary.
Author: Matthew Fidler [aut, cre],
Wenping Wang [aut],
Claude Lemarechal [aut, ctb],
Joseph Bonnans [ctb],
Jean-Charles Gilbert [ctb],
Claudia Sagastizabal [ctb],
Stephen L. Campbell, [ctb],
Jean-Philippe Chancelier [ctb],
Ramine Nikoukhah [ctb],
Dirk Eddelb [...truncated...]
Maintainer: Matthew Fidler <matthew.fidler@gmail.com>
Diff between n1qn1 versions 6.0.1-11 dated 2022-10-18 and 6.0.1-12 dated 2024-09-17
DESCRIPTION | 10 +++++----- MD5 | 12 +++++++----- NAMESPACE | 1 + NEWS.md | 5 +++++ R/n1qn1.R | 20 ++++++++++++++++++++ inst/include |only man/dot-n1qn1ptr.Rd |only src/init.c | 46 ++++++++++++++++++++++++++++++++++++++++++---- 8 files changed, 80 insertions(+), 14 deletions(-)
Title: Learning Causal or Non-Causal Graphical Models Using Information
Theory
Description: Multivariate Information-based Inductive Causation, better known
by its acronym MIIC, is a causal discovery method, based on information
theory principles, which learns a large class of causal or non-causal
graphical models from purely observational data, while including the effects
of unobserved latent variables. Starting from a complete graph, the method
iteratively removes dispensable edges, by uncovering significant information
contributions from indirect paths, and assesses edge-specific confidences
from randomization of available data. The remaining edges are then oriented
based on the signature of causality in observational data. The recent more
interpretable MIIC extension (iMIIC) further distinguishes genuine causes
from putative and latent causal effects, while scaling to very large
datasets (hundreds of thousands of samples). Since the version 2.0, MIIC
also includes a temporal mode (tMIIC) to learn temporal causal graphs from
stationary time series data. MIIC has been appli [...truncated...]
Author: Franck Simon [aut, cre],
Tiziana Tocci [aut],
Nikita Lagrange [aut],
Orianne Debeaupuis [aut],
Louise Dupuis [aut],
Vincent Cabeli [aut],
Honghao Li [aut],
Marcel Ribeiro Dantas [aut],
Nadir Sella [aut],
Louis Verny [aut],
Severine Affeldt [aut],
Her [...truncated...]
Maintainer: Franck Simon <franck.simon@curie.fr>
Diff between miic versions 1.5.3 dated 2020-10-13 and 2.0.3 dated 2024-09-17
miic-1.5.3/miic/R/miic.export.R |only miic-1.5.3/miic/data/ohno.rda |only miic-1.5.3/miic/data/ohno_stateOrder.rda |only miic-1.5.3/miic/man/getIgraph.Rd |only miic-1.5.3/miic/man/miic.export.Rd |only miic-1.5.3/miic/man/miic.write.network.cytoscape.Rd |only miic-1.5.3/miic/man/miic.write.style.cytoscape.Rd |only miic-1.5.3/miic/man/ohno.Rd |only miic-1.5.3/miic/man/ohno_stateOrder.Rd |only miic-2.0.3/miic/DESCRIPTION | 97 - miic-2.0.3/miic/MD5 | 129 - miic-2.0.3/miic/NAMESPACE | 30 miic-2.0.3/miic/R/RcppExports.R | 34 miic-2.0.3/miic/R/computeInformation.R |only miic-2.0.3/miic/R/data.R | 182 +- miic-2.0.3/miic/R/discretizeMDL.R | 94 - miic-2.0.3/miic/R/discretizeMutual.R | 1300 ++++++++-------- miic-2.0.3/miic/R/miic.R | 1488 ++++++++++++------- miic-2.0.3/miic/R/miic.plot.R |only miic-2.0.3/miic/R/miic.reconstruct.R | 365 ++-- miic-2.0.3/miic/R/miic.utils.R | 1329 +++++++++++++++-- miic-2.0.3/miic/R/parseResults.R | 1021 ++++++------- miic-2.0.3/miic/R/tmiic.plot.R |only miic-2.0.3/miic/R/tmiic.utils.R |only miic-2.0.3/miic/R/tmiic.wrapper.R |only miic-2.0.3/miic/R/write.cytoscape.R | 1539 ++++++++++---------- miic-2.0.3/miic/R/write.style.R | 329 ++-- miic-2.0.3/miic/data/covidCases.rda |only miic-2.0.3/miic/data/datalist | 6 miic-2.0.3/miic/man/computeMutualInfo.Rd |only miic-2.0.3/miic/man/computeThreePointInfo.Rd |only miic-2.0.3/miic/man/cosmicCancer.Rd | 46 miic-2.0.3/miic/man/cosmicCancer_stateOrder.Rd | 46 miic-2.0.3/miic/man/covidCases.Rd |only miic-2.0.3/miic/man/discretizeMDL.Rd | 92 - miic-2.0.3/miic/man/discretizeMutual.Rd | 260 +-- miic-2.0.3/miic/man/estimateTemporalDynamic.Rd |only miic-2.0.3/miic/man/export.Rd |only miic-2.0.3/miic/man/hematoData.Rd | 46 miic-2.0.3/miic/man/miic.Rd | 1060 +++++++++---- miic-2.0.3/miic/man/plot.miic.Rd | 73 miic-2.0.3/miic/man/plot.tmiic.Rd |only miic-2.0.3/miic/man/writeCytoscapeNetwork.Rd |only miic-2.0.3/miic/man/writeCytoscapeStyle.Rd |only miic-2.0.3/miic/src/Makevars | 2 miic-2.0.3/miic/src/Makevars.win | 2 miic-2.0.3/miic/src/RcppExports.cpp | 18 miic-2.0.3/miic/src/biconnected_component.cpp | 8 miic-2.0.3/miic/src/biconnected_component.h | 4 miic-2.0.3/miic/src/computation_cache.h | 60 miic-2.0.3/miic/src/computation_continuous.cpp | 961 ++++++++---- miic-2.0.3/miic/src/computation_continuous.h | 4 miic-2.0.3/miic/src/computation_discrete.cpp | 165 +- miic-2.0.3/miic/src/computation_discrete.h | 4 miic-2.0.3/miic/src/confidence_cut.cpp | 2 miic-2.0.3/miic/src/cycle_tracker.cpp | 8 miic-2.0.3/miic/src/cycle_tracker.h | 8 miic-2.0.3/miic/src/environment.cpp | 24 miic-2.0.3/miic/src/environment.h | 51 miic-2.0.3/miic/src/get_information.cpp | 220 ++ miic-2.0.3/miic/src/get_information.h | 7 miic-2.0.3/miic/src/linear_allocator.cpp | 2 miic-2.0.3/miic/src/linear_allocator.h | 9 miic-2.0.3/miic/src/mdl_pair_discretize.cpp | 127 - miic-2.0.3/miic/src/mutual_information.cpp | 8 miic-2.0.3/miic/src/mutual_information.h | 20 miic-2.0.3/miic/src/orientation.cpp | 249 ++- miic-2.0.3/miic/src/orientation.h | 1 miic-2.0.3/miic/src/proba_orientation.cpp | 512 +++--- miic-2.0.3/miic/src/proba_orientation.h | 15 miic-2.0.3/miic/src/r_cpp_interface.cpp | 138 + miic-2.0.3/miic/src/reconstruct.cpp | 80 - miic-2.0.3/miic/src/skeleton.cpp | 19 miic-2.0.3/miic/src/structure.h | 51 miic-2.0.3/miic/src/tmiic.cpp |only miic-2.0.3/miic/src/tmiic.h |only miic-2.0.3/miic/src/utilities.cpp | 161 +- miic-2.0.3/miic/src/utilities.h | 2 78 files changed, 7730 insertions(+), 4778 deletions(-)
Title: Limited Memory BFGS Minimizer with Bounds on Parameters with
optim() 'C' Interface
Description: Interfacing to Nocedal et al. L-BFGS-B.3.0
(See <http://users.iems.northwestern.edu/~nocedal/lbfgsb.html>)
limited memory BFGS minimizer with bounds on parameters.
This is a fork of 'lbfgsb3'.
This registers a 'R' compatible 'C' interface to L-BFGS-B.3.0 that uses the same
function types and optimization as the optim() function (see writing 'R' extensions
and source for details). This package also adds more stopping criteria as well
as allowing the adjustment of more tolerances.
Author: Matthew L Fidler [aut, cre] ,
John C Nash [aut],
Ciyou Zhu [aut],
Richard Byrd [aut],
Jorge Nocedal [aut],
Jose Luis Morales [aut]
Maintainer: Matthew L Fidler <matthew.fidler@gmail.com>
Diff between lbfgsb3c versions 2024-3.4 dated 2024-04-04 and 2024-3.5 dated 2024-09-17
DESCRIPTION | 8 ++++---- MD5 | 20 +++++++++++--------- NAMESPACE | 1 + NEWS.md | 8 ++++++++ R/lbfgsb3.R | 12 ++++++++++++ build/vignette.rds |binary inst/doc/lbfgsb3c.R | 4 ++-- inst/doc/lbfgsb3c.html | 2 +- inst/include/lbfgsb3ptr.h |only man/dot-lbfgsb3cPtr.Rd |only src/init.c | 28 ++++++++++++++++++++++++++++ vignettes/lbfgsb3c.bib | 20 ++++++-------------- 12 files changed, 73 insertions(+), 30 deletions(-)
Title: Parsing and Evaluation Tools that Provide More Details than the
Default
Description: Parsing and evaluation tools that make it easy to recreate
the command line behaviour of R.
Author: Hadley Wickham [aut, cre],
Yihui Xie [aut] ,
Michael Lawrence [ctb],
Thomas Kluyver [ctb],
Jeroen Ooms [ctb],
Barret Schloerke [ctb],
Adam Ryczkowski [ctb],
Hiroaki Yutani [ctb],
Michel Lang [ctb],
Karolis Koncevicius [ctb],
Posit Software, PBC [cph, [...truncated...]
Maintainer: Hadley Wickham <hadley@posit.co>
Diff between evaluate versions 0.24.0 dated 2024-06-10 and 1.0.0 dated 2024-09-17
evaluate-0.24.0/evaluate/R/eval.R |only evaluate-0.24.0/evaluate/R/parse.R |only evaluate-0.24.0/evaluate/R/watcher.R |only evaluate-0.24.0/evaluate/man/remove_hooks.Rd |only evaluate-0.24.0/evaluate/man/watchout.Rd |only evaluate-0.24.0/evaluate/tests/testthat/_snaps/eval.md |only evaluate-0.24.0/evaluate/tests/testthat/comment.R |only evaluate-0.24.0/evaluate/tests/testthat/data.R |only evaluate-0.24.0/evaluate/tests/testthat/error-complex.R |only evaluate-0.24.0/evaluate/tests/testthat/error.R |only evaluate-0.24.0/evaluate/tests/testthat/example-1.R |only evaluate-0.24.0/evaluate/tests/testthat/ggplot-empty-1.R |only evaluate-0.24.0/evaluate/tests/testthat/ggplot-empty-2.R |only evaluate-0.24.0/evaluate/tests/testthat/ggplot-loop.R |only evaluate-0.24.0/evaluate/tests/testthat/ggplot.R |only evaluate-0.24.0/evaluate/tests/testthat/interleave-1.R |only evaluate-0.24.0/evaluate/tests/testthat/interleave-2.R |only evaluate-0.24.0/evaluate/tests/testthat/order.R |only evaluate-0.24.0/evaluate/tests/testthat/parse.R |only evaluate-0.24.0/evaluate/tests/testthat/plot-additions.R |only evaluate-0.24.0/evaluate/tests/testthat/plot-clip.R |only evaluate-0.24.0/evaluate/tests/testthat/plot-last-comment.R |only evaluate-0.24.0/evaluate/tests/testthat/plot-loop.R |only evaluate-0.24.0/evaluate/tests/testthat/plot-multi-layout.R |only evaluate-0.24.0/evaluate/tests/testthat/plot-multi-layout2.R |only evaluate-0.24.0/evaluate/tests/testthat/plot-multi-missing.R |only evaluate-0.24.0/evaluate/tests/testthat/plot-multi.R |only evaluate-0.24.0/evaluate/tests/testthat/plot-new.R |only evaluate-0.24.0/evaluate/tests/testthat/plot-par.R |only evaluate-0.24.0/evaluate/tests/testthat/plot-par2.R |only evaluate-0.24.0/evaluate/tests/testthat/plot-persp.R |only evaluate-0.24.0/evaluate/tests/testthat/plot-strwidth.R |only evaluate-0.24.0/evaluate/tests/testthat/plot.R |only evaluate-0.24.0/evaluate/tests/testthat/raw-output.R |only evaluate-0.24.0/evaluate/tests/testthat/test-errors.R |only evaluate-0.24.0/evaluate/tests/testthat/test-eval.R |only evaluate-0.24.0/evaluate/tests/testthat/test-parse.R |only evaluate-0.24.0/evaluate/tests/testthat/try.R |only evaluate-1.0.0/evaluate/DESCRIPTION | 16 evaluate-1.0.0/evaluate/MD5 | 115 +-- evaluate-1.0.0/evaluate/NAMESPACE | 11 evaluate-1.0.0/evaluate/NEWS.md | 53 + evaluate-1.0.0/evaluate/R/conditions.R |only evaluate-1.0.0/evaluate/R/evaluate-package.R |only evaluate-1.0.0/evaluate/R/evaluate.R |only evaluate-1.0.0/evaluate/R/evaluation.R |only evaluate-1.0.0/evaluate/R/flush-console.R |only evaluate-1.0.0/evaluate/R/graphics.R | 163 +++-- evaluate-1.0.0/evaluate/R/hooks.R | 32 - evaluate-1.0.0/evaluate/R/inject-funs.R |only evaluate-1.0.0/evaluate/R/output-handler.R |only evaluate-1.0.0/evaluate/R/output.R | 141 ---- evaluate-1.0.0/evaluate/R/parse_all.R |only evaluate-1.0.0/evaluate/R/replay.R | 103 +-- evaluate-1.0.0/evaluate/R/reproducible-output.R |only evaluate-1.0.0/evaluate/R/traceback.R | 8 evaluate-1.0.0/evaluate/R/utils.R |only evaluate-1.0.0/evaluate/R/watchout.R |only evaluate-1.0.0/evaluate/R/zzz.R |only evaluate-1.0.0/evaluate/man/create_traceback.Rd | 4 evaluate-1.0.0/evaluate/man/evaluate-package.Rd |only evaluate-1.0.0/evaluate/man/evaluate.Rd | 68 +- evaluate-1.0.0/evaluate/man/flush_console.Rd | 7 evaluate-1.0.0/evaluate/man/inject_funs.Rd | 12 evaluate-1.0.0/evaluate/man/is.message.Rd | 5 evaluate-1.0.0/evaluate/man/local_reproducible_output.Rd |only evaluate-1.0.0/evaluate/man/new_output_handler.Rd | 23 evaluate-1.0.0/evaluate/man/parse_all.Rd | 61 + evaluate-1.0.0/evaluate/man/replay.Rd | 22 evaluate-1.0.0/evaluate/man/set_hooks.Rd | 17 evaluate-1.0.0/evaluate/man/trim_intermediate_plots.Rd |only evaluate-1.0.0/evaluate/man/try_capture_stack.Rd | 2 evaluate-1.0.0/evaluate/tests/testthat/_snaps/conditions.md |only evaluate-1.0.0/evaluate/tests/testthat/_snaps/evaluate.md |only evaluate-1.0.0/evaluate/tests/testthat/_snaps/evaluation.md |only evaluate-1.0.0/evaluate/tests/testthat/_snaps/graphics.md |only evaluate-1.0.0/evaluate/tests/testthat/_snaps/output-handler.md |only evaluate-1.0.0/evaluate/tests/testthat/_snaps/replay.md | 66 ++ evaluate-1.0.0/evaluate/tests/testthat/_snaps/watchout.md |only evaluate-1.0.0/evaluate/tests/testthat/helper.R |only evaluate-1.0.0/evaluate/tests/testthat/test-conditions.R |only evaluate-1.0.0/evaluate/tests/testthat/test-evaluate.R | 190 ++---- evaluate-1.0.0/evaluate/tests/testthat/test-evaluation.R |only evaluate-1.0.0/evaluate/tests/testthat/test-flush-console.R |only evaluate-1.0.0/evaluate/tests/testthat/test-graphics.R | 313 ++++++---- evaluate-1.0.0/evaluate/tests/testthat/test-inject-funs.R |only evaluate-1.0.0/evaluate/tests/testthat/test-output-handler.R | 86 ++ evaluate-1.0.0/evaluate/tests/testthat/test-output.R | 14 evaluate-1.0.0/evaluate/tests/testthat/test-parse_all.R |only evaluate-1.0.0/evaluate/tests/testthat/test-replay.R | 58 + evaluate-1.0.0/evaluate/tests/testthat/test-reproducible-output.R |only evaluate-1.0.0/evaluate/tests/testthat/test-watchout.R |only 92 files changed, 974 insertions(+), 616 deletions(-)
Title: Fetching Data from the 'Displacement Tracking Matrix'
Description: Allows humanitarian community, academia, media, government, and non-governmental organizations to utilize the data collected by the 'Displacement Tracking Matrix' (<https://dtm.iom.int>), a unit in the International Organization for Migration. This also provides non-sensitive Internally Displaced Person figures, aggregated at the country, Admin 1 (states, provinces, or equivalent), and Admin 2 (smaller administrative areas) levels.
Author: Luong Bang Tran [aut, cre]
Maintainer: Luong Bang Tran <lutran@iom.int>
Diff between dtmapi versions 0.0.1 dated 2024-09-16 and 0.0.2 dated 2024-09-17
DESCRIPTION | 10 +++++----- MD5 | 26 +++++++++++++------------- NAMESPACE | 10 ++++++---- R/get_all_countries.R | 20 +++++++++++--------- R/get_all_operations.R | 17 +++++++++-------- R/get_idp_admin0_data.R | 22 ++++++++++++---------- R/get_idp_admin1_data.R | 22 ++++++++++++---------- R/get_idp_admin2_data.R | 24 +++++++++++++----------- README.md | 6 +++--- inst/doc/introduction.R | 4 ++-- inst/doc/introduction.Rmd | 6 +++--- inst/doc/introduction.html | 7 +++---- man/get_idp_admin2_data.Rd | 2 +- vignettes/introduction.Rmd | 6 +++--- 14 files changed, 96 insertions(+), 86 deletions(-)
Title: Port of 'Dparser' Package
Description: A Scannerless GLR parser/parser generator. Note that GLR standing for "generalized LR", where L stands for "left-to-right" and
R stands for "rightmost (derivation)". For more information see <https://en.wikipedia.org/wiki/GLR_parser>. This parser is based on the Tomita
(1987) algorithm. (Paper can be found at <https://aclanthology.org/P84-1073.pdf>).
The original 'dparser' package documentation can be found at <https://dparser.sourceforge.net/>. This allows you to add mini-languages to R (like
rxode2's ODE mini-language Wang, Hallow, and James 2015 <DOI:10.1002/psp4.12052>) or to parse other languages like 'NONMEM' to automatically translate
them to R code. To use this in your code, add a LinkingTo dparser in your DESCRIPTION file and instead of using #include <dparse.h> use
#include <dparser.h>. This also provides a R-based port of the make_dparser <https://dparser.sourceforge.net/d/make_dparser.cat> command called
mkdparser(). Addition [...truncated...]
Author: Matthew Fidler [aut, cre],
John Plevyak [aut, cph]
Maintainer: Matthew Fidler <matthew.fidler@gmail.com>
Diff between dparser versions 1.3.1-11 dated 2023-12-07 and 1.3.1-12 dated 2024-09-17
DESCRIPTION | 8 - MD5 | 56 ++++---- NAMESPACE | 1 NEWS.md | 15 ++ R/dparser.R | 12 + man/dot-dparsePtr.Rd |only src/Makevars | 2 src/d.h | 2 src/dparse.h | 3 src/dparse_tables.h | 2 src/dparser.c | 357 ++++++++++++++++++++++++++++++++++++++++++++++++++- src/dparser.h | 5 src/dparser2.h | 1 src/dparserPtr.h |only src/dsymtab.h | 2 src/gram.h | 5 src/gramgram.h | 1 src/lex.h | 3 src/lr.h | 3 src/mkdparse.h | 6 src/mkdparser.c | 5 src/parse.c | 2 src/parse.h | 3 src/rdparse.c | 57 ++++---- src/read_binary.h | 3 src/scan.h | 3 src/util.c | 4 src/util.h | 8 + src/write_tables.c | 22 +-- src/write_tables.h | 4 30 files changed, 500 insertions(+), 95 deletions(-)
Title: Bayesian Variable Selection and Model Averaging using Bayesian
Adaptive Sampling
Description: Package for Bayesian Variable Selection and Model Averaging
in linear models and generalized linear models using stochastic or
deterministic sampling without replacement from posterior
distributions. Prior distributions on coefficients are
from Zellner's g-prior or mixtures of g-priors
corresponding to the Zellner-Siow Cauchy Priors or the
mixture of g-priors from Liang et al (2008)
<DOI:10.1198/016214507000001337>
for linear models or mixtures of g-priors from Li and Clyde
(2019) <DOI:10.1080/01621459.2018.1469992> in generalized linear models.
Other model selection criteria include AIC, BIC and Empirical Bayes
estimates of g. Sampling probabilities may be updated based on the sampled
models using sampling w/out replacement or an efficient MCMC algorithm which
samples models using a tree structure of the model space
as an efficient hash table. See Clyde, Ghosh and Littman (2010)
<DOI:10.1198/jcgs.2010.09049> for details on the sampling algorithms.
Uniform prior [...truncated...]
Author: Merlise Clyde [aut, cre, cph] ,
Michael Littman [ctb],
Joyee Ghosh [ctb],
Yingbo Li [ctb],
Betsy Bersson [ctb],
Don van de Bergh [ctb],
Quanli Wang [ctb]
Maintainer: Merlise Clyde <clyde@duke.edu>
Diff between BAS versions 1.7.2 dated 2024-09-16 and 1.7.3 dated 2024-09-17
DESCRIPTION | 8 +-- MD5 | 24 +++++----- NEWS.md | 4 + README.md | 2 inst/doc/BAS-vignette.html | 108 ++++++++++++++++++++++----------------------- src/glm_mcmc.c | 64 ++++++-------------------- src/glm_mcmcbas.c | 64 ++++++-------------------- src/glm_sampleworep.c | 57 +++++------------------ src/lm_amcmc.c | 58 ++++++------------------ src/lm_mcmc.c | 59 ++++++------------------ src/lm_mcmcbas.c | 61 +++++-------------------- src/lm_sampleworep.c | 51 +++++---------------- tests/testthat/Rplots.pdf |binary 13 files changed, 175 insertions(+), 385 deletions(-)
Title: Aster Models
Description: Aster models are exponential family regression models for life
history analysis. They are like generalized linear models except that
elements of the response vector can have different families (e. g.,
some Bernoulli, some Poisson, some zero-truncated Poisson, some normal)
and can be dependent, the dependence indicated by a graphical structure.
Discrete time survival analysis, zero-inflated Poisson regression, and
generalized linear models that are exponential family (e. g., logistic
regression and Poisson regression with log link) are special cases.
Main use is for data in which there is survival over discrete time periods
and there is additional data about what happens conditional on survival
(e. g., number of offspring). Uses the exponential family canonical
parameterization (aster transform of usual parameterization).
Unlike the aster package, this package does dependence groups (nodes of
the graph need not be conditionally independent given their predecessor
node), including mult [...truncated...]
Author: Charles J. Geyer [aut, cre]
Maintainer: Charles J. Geyer <geyer@umn.edu>
Diff between aster2 versions 0.3 dated 2017-03-26 and 0.3-2 dated 2024-09-17
DESCRIPTION | 18 ++++++++++-------- MD5 | 16 ++++++++-------- NEWS | 3 +++ man/echinacea.Rd | 2 +- man/hornworm.Rd | 2 +- man/transform.Rd | 4 ++-- src/Makevars | 3 ++- tests/echinacea-cond.Rout.save | 13 ++++++++----- tests/echinacea.Rout.save | 13 ++++++++----- 9 files changed, 43 insertions(+), 31 deletions(-)
Title: Functional Data Analysis
Description: These functions were developed to support functional data
analysis as described in Ramsay, J. O. and Silverman, B. W.
(2005) Functional Data Analysis. New York: Springer and in
Ramsay, J. O., Hooker, Giles, and Graves, Spencer (2009).
Functional Data Analysis with R and Matlab (Springer).
The package includes data sets and script files working many examples
including all but one of the 76 figures in this latter book. Matlab versions
are available by ftp from
<https://www.psych.mcgill.ca/misc/fda/downloads/FDAfuns/>.
Author: James Ramsay [aut, cre],
Giles Hooker [ctb],
Spencer Graves [ctb]
Maintainer: James Ramsay <ramsay@psych.mcgill.ca>
Diff between fda versions 6.1.8 dated 2024-03-08 and 6.2.0 dated 2024-09-17
DESCRIPTION | 8 MD5 | 24 +- NAMESPACE | 5 R/Data2fd.R | 158 +++++++++------ R/create.bspline.basis.R | 8 R/density.fd.R | 2 R/deriv.fd.R | 6 R/fd.R | 8 R/lnsrch.R | 191 ++++++++++-------- R/smooth.basis.R | 475 ++++++++++++---------------------------------- R/smooth.basis2.R |only R/smooth.basis3.R |only inst/doc/BasisBasics.html | 4 man/Data2fd.Rd | 2 14 files changed, 367 insertions(+), 524 deletions(-)
Title: Interactively Gate Points
Description: Interactively gate points on a scatter plot. Interactively drawn gates are
recorded and can be applied programmatically to reproduce results exactly. Programmatic gating is
based on the package gatepoints by Wajid Jawaid (who is also an author of this package).
Author: Stefano Mangiola [aut, cre],
Wajid Jawaid [ctb],
William Hutchison [aut]
Maintainer: Stefano Mangiola <mangiolastefano@gmail.com>
Diff between tidygate versions 1.0.13 dated 2024-07-12 and 1.0.14 dated 2024-09-17
DESCRIPTION | 6 +++--- MD5 | 10 +++++----- R/methods.R | 3 ++- build/stage23.rdb |binary build/vignette.rds |binary inst/doc/introdution.html | 24 ++++++++++++------------ 6 files changed, 22 insertions(+), 21 deletions(-)
Title: Efficient Computation of Ordinary and Generalized Poisson
Binomial Distributions
Description: Efficient implementations of multiple exact and approximate methods as described in Hong (2013) <doi:10.1016/j.csda.2012.10.006>, Biscarri, Zhao & Brunner (2018) <doi:10.1016/j.csda.2018.01.007> and Zhang, Hong & Balakrishnan (2018) <doi:10.1080/00949655.2018.1440294> for computing the probability mass, cumulative distribution and quantile functions, as well as generating random numbers for both the ordinary and generalized Poisson binomial distribution.
Author: Florian Junge [aut, cre]
Maintainer: Florian Junge <florian.junge@mailbox.org>
Diff between PoissonBinomial versions 1.2.6 dated 2023-11-29 and 1.2.7 dated 2024-09-17
DESCRIPTION | 10 - MD5 | 28 ++-- NEWS.md | 237 +++++++++++++++++++++-------------------- R/PoissonBinomial.R | 95 ++++++++-------- R/RcppExports.R | 236 ++++++++++++++++++++-------------------- R/gpbinom.R | 6 - R/utility.R | 208 +++++++++++++++++------------------ build/partial.rdb |binary build/vignette.rds |binary inst/doc/intro.html | 2 inst/doc/proc_approx.html | 36 +++--- inst/doc/proc_exact.html | 20 +-- man/PoissonBinomial-package.Rd | 13 ++ src/Makevars | 6 - src/PoissonBinomial.cpp | 19 +-- 15 files changed, 469 insertions(+), 447 deletions(-)
More information about PoissonBinomial at CRAN
Permanent link
Title: Regression Modelling with 'GLM.jl' and 'MixedModels.jl' in
'Julia'
Description: Bindings to 'Julia' packages 'GLM.jl'
<doi:10.5281/zenodo.3376013> and 'MixedModels.jl'
<doi:10.5281/zenodo.12575371>, powered by 'JuliaConnectoR'. Fits
(generalized) linear (mixed-effects) regression models in 'Julia'
using familiar model fitting syntax from R. Offers 'broom'-style data
frame summary functionalities for 'Julia' regression models.
Author: June Choe [aut, cre]
Maintainer: June Choe <jchoe001@gmail.com>
Diff between jlme versions 0.2.0 dated 2024-08-31 and 0.3.0 dated 2024-09-17
DESCRIPTION | 6 MD5 | 31 - NAMESPACE | 4 NEWS.md | 14 R/aaa.R | 56 ++- R/constructors.R | 5 R/jl_.R | 99 +++++ R/model-helpers.R | 2 R/model.R | 4 R/parametricbootstrap.R | 27 - R/tidy.R | 2 R/utils-julia.R | 34 - R/utils.R | 14 README.md | 806 +++++++++++++++++++++++---------------------- man/figures |only man/jl-helpers.Rd | 178 ++++++--- man/parametricbootstrap.Rd | 11 17 files changed, 740 insertions(+), 553 deletions(-)
Title: Inference for Released Plug-in Sampling Single Synthetic Dataset
Description: Considering the singly imputed synthetic data generated via plug-in sampling under the multivariate normal model, draws inference procedures including the generalized variance, the sphericity test, the test for independence between two subsets of variables, and the test for the regression of one set of variables on the other. For more details see Klein et al. (2021) <doi:10.1007/s13571-019-00215-9>.
Author: Ricardo Moura [aut, cre, cph] ,
Mina Norouzirad [aut] ,
Augusto Vitor [aut] ,
Fonseca Miguel [ctb] ,
FCT, I.P. [fnd] )
Maintainer: Ricardo Moura <rp.moura@fct.unl.pt>
Diff between PSinference versions 0.1.0 dated 2023-07-19 and 0.2.0 dated 2024-09-17
DESCRIPTION | 19 +++++++++++-------- MD5 | 26 +++++++++++++++----------- NEWS.md | 2 ++ R/Canodist.R | 2 +- R/Inddist.R | 2 +- R/Sphdist.R | 2 +- R/partition.R | 10 +++++----- R/simSynthData.R | 2 +- README.md |only man/Inddist.Rd | 2 +- man/Sphdist.Rd | 2 +- man/canodist.Rd | 2 +- man/figures |only man/partition.Rd | 8 ++++---- 14 files changed, 44 insertions(+), 35 deletions(-)
Title: Tools for Create Emissions for Air Quality Models
Description: Processing tools to create emissions for use in numerical air
quality models. Emissions can be calculated both using emission factors
and activity data (Schuch et al 2018) <doi:10.21105/joss.00662> or using
pollutant inventories (Schuch et al., 2018) <doi:10.30564/jasr.v1i1.347>.
Functions to process individual point emissions, line emissions and
area emissions of pollutants are available as well as methods to
incorporate alternative data for Spatial distribution of emissions
such as satellite images (Gavidia-Calderon et. al, 2018)
<doi:10.1016/j.atmosenv.2018.09.026> or openstreetmap data
(Andrade et al, 2015) <doi:10.3389/fenvs.2015.00009>.
Author: Daniel Schuch [aut, cre] ,
Sergio Ibarra-Espinosa [aut]
Maintainer: Daniel Schuch <underschuch@gmail.com>
Diff between EmissV versions 0.665.6.6 dated 2023-03-31 and 0.665.8.0 dated 2024-09-17
DESCRIPTION | 12 ++++----- MD5 | 37 ++++++++++++++++------------- NEWS.md | 4 +++ R/EmissV-package.R |only R/areaSouce.R | 32 +++---------------------- R/emission.R | 27 +++------------------ R/gridinfo.R | 47 ++++++++++++++++++++++++++----------- R/lineSource.R | 36 ---------------------------- R/pointSource.R | 14 +++-------- R/rasterSource.R | 38 +++++------------------------ R/read.R | 47 +++++++++++++++++++++++++++++++++++-- build |only man/EmissV-package.Rd |only man/areaSource.Rd | 2 - man/figures |only man/gridInfo.Rd | 9 ++++++- man/rasterSource.Rd | 2 - man/read.Rd | 3 ++ tests/testthat/Rplots.pdf |only tests/testthat/test-emission.R | 5 --- tests/testthat/test-lineSource.R | 7 +++-- tests/testthat/test-rasterSource.R | 1 22 files changed, 151 insertions(+), 172 deletions(-)
Title: Construct Reproducible Analytic Data Sets as R Packages
Description: A framework to help construct R data packages in a
reproducible manner. Potentially time consuming processing of raw data
sets into analysis ready data sets is done in a reproducible manner
and decoupled from the usual 'R CMD build' process so that data sets
can be processed into R objects in the data package and the data
package can then be shared, built, and installed by others without the
need to repeat computationally costly data processing. The package
maintains data provenance by turning the data processing scripts into
package vignettes, as well as enforcing documentation and version
checking of included data objects. Data packages can be version
controlled on 'GitHub', and used to share data for manuscripts,
collaboration and reproducible research.
Author: Greg Finak [aut, cph] ,
Paul Obrecht [ctb],
Ellis Hughes [ctb] ,
Jimmy Fulp [ctb],
Marie Vendettuoli [ctb] ,
Dave Slager [ctb, cre] ,
Jason Taylor [ctb],
Kara Woo [rev] ,
William Landau [rev]
Maintainer: Dave Slager <dslager@fredhutch.org>
Diff between DataPackageR versions 0.16.0 dated 2024-06-03 and 0.16.1 dated 2024-09-17
DESCRIPTION | 10 LICENSE | 4 MD5 | 178 - NAMESPACE | 122 - NEWS.md | 317 +-- R/DataPackageR-defunct.R | 58 R/DataPackageR-package.R | 246 +- R/autodoc.R | 168 - R/build.R | 302 +-- R/dataversion.R | 322 +-- R/digests.R | 178 - R/environments.R | 142 - R/ignore.R | 38 R/load_save.R | 48 R/logger.R | 114 - R/mergeDocumentation.R | 36 R/parseDocumentation.R | 48 R/processData.R | 1617 ++++++++-------- R/prompt.R | 212 +- R/qualify_changes.R | 30 R/rmarkdown_functions.R | 8 R/skeleton.R | 400 ++-- R/use.R | 766 +++---- R/yamlR.R | 574 ++--- R/zzz.R | 26 README.md | 810 ++++---- build/vignette.rds |binary inst/WORDLIST | 125 - inst/doc/Using_DataPackageR.R | 242 +- inst/doc/Using_DataPackageR.Rmd | 842 ++++---- inst/doc/Using_DataPackageR.html | 1955 +++++++++----------- inst/doc/YAML_Configuration_Details.R | 150 - inst/doc/YAML_Configuration_Details.Rmd | 436 ++-- inst/doc/YAML_Configuration_Details.html | 1262 ++++++------ inst/extdata/tests/extra.Rmd | 72 inst/extdata/tests/raw_data/testdata.csv | 6 inst/extdata/tests/rfileTest.R | 14 inst/extdata/tests/rfileTest_noheader.R | 2 inst/extdata/tests/subsetCars.Rmd | 118 - inst/extdata/tests/subsetCars.html | 768 +++---- man/DataPackageR-defunct.Rd | 54 man/DataPackageR-package.Rd | 240 +- man/DataPackageR_options.Rd | 76 man/assert_data_version.Rd | 106 - man/construct_yml_config.Rd | 58 man/data_version.Rd | 84 man/datapackage_skeleton.Rd | 110 - man/datapackager_object_read.Rd | 80 man/document.Rd | 98 - man/package_build.Rd | 120 - man/project_data_path.Rd | 54 man/project_extdata_path.Rd | 54 man/project_path.Rd | 54 man/use_data_object.Rd | 64 man/use_ignore.Rd | 46 man/use_processing_script.Rd | 92 man/use_raw_dataset.Rd | 72 man/yaml.Rd | 154 - tests/spelling.R | 8 tests/testthat.R | 12 tests/testthat/setup.R | 22 tests/testthat/test-DataPackageR.R | 18 tests/testthat/test-build-locations.R | 146 - tests/testthat/test-conditional-build.R | 76 tests/testthat/test-data-name-change.R | 122 - tests/testthat/test-data-version.R | 234 +- tests/testthat/test-datapackager-object-read.R | 168 - tests/testthat/test-document.R | 132 - tests/testthat/test-edge-cases.R | 880 ++++----- tests/testthat/test-ignore.R | 62 tests/testthat/test-logger.R | 62 tests/testthat/test-manual-version-bump.R | 56 tests/testthat/test-news-update.R | 42 tests/testthat/test-phantom_loading.R | 78 tests/testthat/test-pkg_description.R | 56 tests/testthat/test-project-path.R | 61 tests/testthat/test-r-processing.R | 150 - tests/testthat/test-skeleton-data-dependencies.R | 138 - tests/testthat/test-skeleton-edgecases.R | 68 tests/testthat/test-skeleton.R | 44 tests/testthat/test-source_r_folder_functions.R | 126 - tests/testthat/test-updating-datapackager-version.R | 70 tests/testthat/test-use_raw_data.R | 682 +++--- tests/testthat/test-version-bump.R | 54 tests/testthat/test-version-management-edge-cases.R | 72 tests/testthat/test-yaml-config.R | 168 - tests/testthat/test-yaml-manipulation.R | 80 tests/testthat/test-yaml.R | 274 +- vignettes/Using_DataPackageR.Rmd | 842 ++++---- vignettes/YAML_Configuration_Details.Rmd | 436 ++-- 90 files changed, 9921 insertions(+), 9900 deletions(-)
Title: Phylogenetic Reconstruction and Analysis
Description: Allows for estimation of phylogenetic trees and networks
using Maximum Likelihood, Maximum Parsimony, distance methods and
Hadamard conjugation (Schliep 2011). Offers methods for tree comparison,
model selection and visualization of phylogenetic networks as described in
Schliep et al. (2017).
Author: Klaus Schliep [aut, cre] ,
Emmanuel Paradis [aut] ,
Leonardo de Oliveira Martins [aut]
,
Alastair Potts [aut],
Iris Bardel-Kahr [aut] ,
Tim W. White [ctb],
Cyrill Stachniss [ctb],
Michelle Kendall [ctb],
Keren Halabi [ctb],
Richel Bilderbeek [ctb],
K [...truncated...]
Maintainer: Klaus Schliep <klaus.schliep@gmail.com>
Diff between phangorn versions 2.11.1 dated 2023-01-23 and 2.12.1 dated 2024-09-17
phangorn-2.11.1/phangorn/R/ancestral_pml.R |only phangorn-2.11.1/phangorn/TODO |only phangorn-2.11.1/phangorn/man/read.aa.Rd |only phangorn-2.11.1/phangorn/vignettes/seqLogo.png |only phangorn-2.12.1/phangorn/DESCRIPTION | 91 - phangorn-2.12.1/phangorn/MD5 | 312 ++--- phangorn-2.12.1/phangorn/NAMESPACE | 40 phangorn-2.12.1/phangorn/NEWS | 83 + phangorn-2.12.1/phangorn/R/Coalescent.R | 12 phangorn-2.12.1/phangorn/R/Densi.R | 109 + phangorn-2.12.1/phangorn/R/RcppExports.R | 4 phangorn-2.12.1/phangorn/R/SH.R | 16 phangorn-2.12.1/phangorn/R/addConfidences.R | 4 phangorn-2.12.1/phangorn/R/ancestral.R |only phangorn-2.12.1/phangorn/R/bab.R | 121 - phangorn-2.12.1/phangorn/R/baseFreq.R | 40 phangorn-2.12.1/phangorn/R/bootstrap.R | 136 -- phangorn-2.12.1/phangorn/R/candidate_tree.R | 30 phangorn-2.12.1/phangorn/R/cladePar.R | 2 phangorn-2.12.1/phangorn/R/codon.R | 24 phangorn-2.12.1/phangorn/R/codonTest.R | 4 phangorn-2.12.1/phangorn/R/consensusNet.R |only phangorn-2.12.1/phangorn/R/discrete.gamma.R | 2 phangorn-2.12.1/phangorn/R/distSeq.R | 6 phangorn-2.12.1/phangorn/R/distTree.R | 186 +-- phangorn-2.12.1/phangorn/R/draw_CI.R | 44 phangorn-2.12.1/phangorn/R/fitch64.R | 33 phangorn-2.12.1/phangorn/R/gap_as_state.R |only phangorn-2.12.1/phangorn/R/hadamard.R | 18 phangorn-2.12.1/phangorn/R/hash_phylo.R | 25 phangorn-2.12.1/phangorn/R/image_phyDat.R | 13 phangorn-2.12.1/phangorn/R/joint_ASR.R |only phangorn-2.12.1/phangorn/R/linkfun.R |only phangorn-2.12.1/phangorn/R/ltg2amb.R |only phangorn-2.12.1/phangorn/R/maxCladeCred.R | 27 phangorn-2.12.1/phangorn/R/modelTest.R | 86 - phangorn-2.12.1/phangorn/R/networx.R | 610 ---------- phangorn-2.12.1/phangorn/R/parsimony.R | 296 +--- phangorn-2.12.1/phangorn/R/phyDat.R | 63 - phangorn-2.12.1/phangorn/R/phyDat2.R | 41 phangorn-2.12.1/phangorn/R/phyDat_conversion.R | 52 phangorn-2.12.1/phangorn/R/phylo.R | 484 +++++-- phangorn-2.12.1/phangorn/R/plotAnc.R |only phangorn-2.12.1/phangorn/R/plotBS.R |only phangorn-2.12.1/phangorn/R/plot_networx.R |only phangorn-2.12.1/phangorn/R/plot_pml.R |only phangorn-2.12.1/phangorn/R/pmlMix.R | 10 phangorn-2.12.1/phangorn/R/pmlPart.R | 43 phangorn-2.12.1/phangorn/R/pml_bb.R | 38 phangorn-2.12.1/phangorn/R/pml_control.R | 47 phangorn-2.12.1/phangorn/R/pml_generics.R | 60 phangorn-2.12.1/phangorn/R/read.nexus.partitions.R |only phangorn-2.12.1/phangorn/R/read.nexus.splits.R | 6 phangorn-2.12.1/phangorn/R/read.phyDat.R | 5 phangorn-2.12.1/phangorn/R/sankoff.R | 162 ++ phangorn-2.12.1/phangorn/R/simSeq.R | 4 phangorn-2.12.1/phangorn/R/splits.R | 13 phangorn-2.12.1/phangorn/R/splitsNetwork.R | 2 phangorn-2.12.1/phangorn/R/superTree.R | 21 phangorn-2.12.1/phangorn/R/transferBootstrap.R | 39 phangorn-2.12.1/phangorn/R/treeManipulation.R | 75 - phangorn-2.12.1/phangorn/R/treeRearrangement.R | 155 -- phangorn-2.12.1/phangorn/R/treedist.R | 200 --- phangorn-2.12.1/phangorn/R/upgma.R |only phangorn-2.12.1/phangorn/R/zzz.R | 2 phangorn-2.12.1/phangorn/README.md | 52 phangorn-2.12.1/phangorn/build/vignette.rds |binary phangorn-2.12.1/phangorn/inst/CITATION | 5 phangorn-2.12.1/phangorn/inst/doc/AdvancedFeatures.R | 2 phangorn-2.12.1/phangorn/inst/doc/AdvancedFeatures.Rmd | 2 phangorn-2.12.1/phangorn/inst/doc/AdvancedFeatures.html | 264 ++-- phangorn-2.12.1/phangorn/inst/doc/Ancestral.R | 72 - phangorn-2.12.1/phangorn/inst/doc/Ancestral.Rmd | 115 + phangorn-2.12.1/phangorn/inst/doc/Ancestral.html | 402 ++++-- phangorn-2.12.1/phangorn/inst/doc/IntertwiningTreesAndNetworks.R | 14 phangorn-2.12.1/phangorn/inst/doc/IntertwiningTreesAndNetworks.Rmd | 2 phangorn-2.12.1/phangorn/inst/doc/IntertwiningTreesAndNetworks.html | 459 +++---- phangorn-2.12.1/phangorn/inst/doc/MLbyHand.R | 4 phangorn-2.12.1/phangorn/inst/doc/MLbyHand.Rmd | 3 phangorn-2.12.1/phangorn/inst/doc/MLbyHand.html | 334 ++--- phangorn-2.12.1/phangorn/inst/doc/Morphological.R | 11 phangorn-2.12.1/phangorn/inst/doc/Morphological.Rmd | 16 phangorn-2.12.1/phangorn/inst/doc/Morphological.html | 295 ++-- phangorn-2.12.1/phangorn/inst/doc/Networx.R | 22 phangorn-2.12.1/phangorn/inst/doc/Networx.Rmd | 3 phangorn-2.12.1/phangorn/inst/doc/Networx.html | 254 ++-- phangorn-2.12.1/phangorn/inst/doc/Trees.R | 12 phangorn-2.12.1/phangorn/inst/doc/Trees.Rmd | 18 phangorn-2.12.1/phangorn/inst/doc/Trees.html | 422 +++--- phangorn-2.12.1/phangorn/inst/tinytest/test_add_edge_length.R |only phangorn-2.12.1/phangorn/inst/tinytest/test_ancestral.R | 35 phangorn-2.12.1/phangorn/inst/tinytest/test_bootstrap.R | 10 phangorn-2.12.1/phangorn/inst/tinytest/test_dist_tree.R | 36 phangorn-2.12.1/phangorn/inst/tinytest/test_hash.R | 2 phangorn-2.12.1/phangorn/inst/tinytest/test_modelTest.R | 5 phangorn-2.12.1/phangorn/inst/tinytest/test_parsimony.R | 32 phangorn-2.12.1/phangorn/inst/tinytest/test_phyDat.R | 49 phangorn-2.12.1/phangorn/inst/tinytest/test_pmlMix.R | 2 phangorn-2.12.1/phangorn/inst/tinytest/test_pmlPart.R | 2 phangorn-2.12.1/phangorn/inst/tinytest/test_readnexus_multi.R |only phangorn-2.12.1/phangorn/man/Ancestors.Rd | 3 phangorn-2.12.1/phangorn/man/CI.Rd | 26 phangorn-2.12.1/phangorn/man/add.tips.Rd | 2 phangorn-2.12.1/phangorn/man/addConfidences.Rd | 2 phangorn-2.12.1/phangorn/man/add_ci.Rd | 7 phangorn-2.12.1/phangorn/man/add_edge_length.Rd | 15 phangorn-2.12.1/phangorn/man/allTrees.Rd | 7 phangorn-2.12.1/phangorn/man/ancestral.pml.Rd | 86 - phangorn-2.12.1/phangorn/man/as.networx.Rd | 3 phangorn-2.12.1/phangorn/man/as.phyDat.Rd | 19 phangorn-2.12.1/phangorn/man/as.splits.Rd | 2 phangorn-2.12.1/phangorn/man/bab.Rd | 14 phangorn-2.12.1/phangorn/man/baseFreq.Rd | 8 phangorn-2.12.1/phangorn/man/bootstrap.pml.Rd | 4 phangorn-2.12.1/phangorn/man/cladePar.Rd | 2 phangorn-2.12.1/phangorn/man/coalSpeciesTree.Rd | 9 phangorn-2.12.1/phangorn/man/consensusNet.Rd | 4 phangorn-2.12.1/phangorn/man/cophenetic.networx.Rd | 4 phangorn-2.12.1/phangorn/man/densiTree.Rd | 26 phangorn-2.12.1/phangorn/man/designTree.Rd | 14 phangorn-2.12.1/phangorn/man/discrete.gamma.Rd | 2 phangorn-2.12.1/phangorn/man/dna2codon.Rd | 10 phangorn-2.12.1/phangorn/man/gap_as_state.Rd |only phangorn-2.12.1/phangorn/man/identify.networx.Rd | 2 phangorn-2.12.1/phangorn/man/image.phyDat.Rd | 12 phangorn-2.12.1/phangorn/man/latag2n.phyDat.Rd |only phangorn-2.12.1/phangorn/man/maxCladeCred.Rd | 26 phangorn-2.12.1/phangorn/man/midpoint.Rd | 16 phangorn-2.12.1/phangorn/man/parsimony.Rd | 23 phangorn-2.12.1/phangorn/man/phangorn-internal.Rd | 13 phangorn-2.12.1/phangorn/man/phyDat.Rd | 4 phangorn-2.12.1/phangorn/man/plot.ancestral.Rd |only phangorn-2.12.1/phangorn/man/plot.networx.Rd | 15 phangorn-2.12.1/phangorn/man/plot.pml.Rd |only phangorn-2.12.1/phangorn/man/plotBS.Rd | 40 phangorn-2.12.1/phangorn/man/pml.Rd | 17 phangorn-2.12.1/phangorn/man/pml.control.Rd | 44 phangorn-2.12.1/phangorn/man/pml.fit.Rd | 10 phangorn-2.12.1/phangorn/man/pmlPart.Rd | 10 phangorn-2.12.1/phangorn/man/pml_bb.Rd | 28 phangorn-2.12.1/phangorn/man/read.nexus.partitions.Rd |only phangorn-2.12.1/phangorn/man/read.nexus.splits.Rd | 2 phangorn-2.12.1/phangorn/man/read.phyDat.Rd | 4 phangorn-2.12.1/phangorn/man/superTree.Rd | 4 phangorn-2.12.1/phangorn/man/transferBootstrap.Rd | 20 phangorn-2.12.1/phangorn/man/upgma.Rd | 32 phangorn-2.12.1/phangorn/man/write.ancestral.Rd |only phangorn-2.12.1/phangorn/man/write.pml.Rd |only phangorn-2.12.1/phangorn/src/Makevars | 1 phangorn-2.12.1/phangorn/src/RcppExports.cpp | 87 - phangorn-2.12.1/phangorn/src/dist.c | 2 phangorn-2.12.1/phangorn/src/dupAtomMat.cpp | 26 phangorn-2.12.1/phangorn/src/fitch64.cpp | 11 phangorn-2.12.1/phangorn/src/lessAndEqual.h | 50 phangorn-2.12.1/phangorn/src/ml.c | 39 phangorn-2.12.1/phangorn/src/phangorn_utils.cpp | 24 phangorn-2.12.1/phangorn/src/sankoff.c | 235 +-- phangorn-2.12.1/phangorn/tests/testthat |only phangorn-2.12.1/phangorn/tests/testthat.R |only phangorn-2.12.1/phangorn/vignettes/AdvancedFeatures.Rmd | 2 phangorn-2.12.1/phangorn/vignettes/Ancestral.Rmd | 115 + phangorn-2.12.1/phangorn/vignettes/IntertwiningTreesAndNetworks.Rmd | 2 phangorn-2.12.1/phangorn/vignettes/MLbyHand.Rmd | 3 phangorn-2.12.1/phangorn/vignettes/Morphological.Rmd | 16 phangorn-2.12.1/phangorn/vignettes/Networx.Rmd | 3 phangorn-2.12.1/phangorn/vignettes/Trees.Rmd | 18 phangorn-2.12.1/phangorn/vignettes/phangorn.bib | 120 + 167 files changed, 4322 insertions(+), 3875 deletions(-)
Title: Amazon Web Services Software Development Kit
Description: Interface to Amazon Web Services <https://aws.amazon.com>,
including storage, database, and compute services, such as 'Simple
Storage Service' ('S3'), 'DynamoDB' 'NoSQL' database, and 'Lambda'
functions-as-a-service.
Author: David Kretch [aut],
Adam Banker [aut],
Dyfan Jones [cre],
Amazon.com, Inc. [cph]
Maintainer: Dyfan Jones <dyfan.r.jones@gmail.com>
Diff between paws versions 0.6.0 dated 2024-05-16 and 0.7.0 dated 2024-09-17
paws-0.6.0/paws/man/backupstorage.Rd |only paws-0.6.0/paws/man/codestar.Rd |only paws-0.7.0/paws/DESCRIPTION | 24 paws-0.7.0/paws/MD5 | 164 - paws-0.7.0/paws/NAMESPACE | 2 paws-0.7.0/paws/R/paws.R | 1625 ++++++---------- paws-0.7.0/paws/man/accessanalyzer.Rd | 15 paws-0.7.0/paws/man/account.Rd | 7 paws-0.7.0/paws/man/acm.Rd | 2 paws-0.7.0/paws/man/applicationautoscaling.Rd | 3 paws-0.7.0/paws/man/appstream.Rd | 6 paws-0.7.0/paws/man/arczonalshift.Rd | 63 paws-0.7.0/paws/man/auditmanager.Rd | 2 paws-0.7.0/paws/man/autoscaling.Rd | 4 paws-0.7.0/paws/man/backup.Rd | 24 paws-0.7.0/paws/man/batch.Rd | 1 paws-0.7.0/paws/man/bedrock.Rd | 20 paws-0.7.0/paws/man/bedrockruntime.Rd | 5 paws-0.7.0/paws/man/budgets.Rd | 3 paws-0.7.0/paws/man/cloud9.Rd | 26 paws-0.7.0/paws/man/cloudhsmv2.Rd | 34 paws-0.7.0/paws/man/codeartifact.Rd | 9 paws-0.7.0/paws/man/codebuild.Rd | 4 paws-0.7.0/paws/man/codegurureviewer.Rd | 2 paws-0.7.0/paws/man/codegurusecurity.Rd | 14 paws-0.7.0/paws/man/codepipeline.Rd | 3 paws-0.7.0/paws/man/cognitoidentityprovider.Rd | 6 paws-0.7.0/paws/man/cognitosync.Rd | 3 paws-0.7.0/paws/man/computeoptimizer.Rd | 3 paws-0.7.0/paws/man/connect.Rd | 23 paws-0.7.0/paws/man/connectcontactlens.Rd | 19 paws-0.7.0/paws/man/controltower.Rd | 136 + paws-0.7.0/paws/man/customerprofiles.Rd | 7 paws-0.7.0/paws/man/datazone.Rd | 34 paws-0.7.0/paws/man/detective.Rd | 2 paws-0.7.0/paws/man/directconnect.Rd | 2 paws-0.7.0/paws/man/docdb.Rd | 1 paws-0.7.0/paws/man/ec2.Rd | 33 paws-0.7.0/paws/man/ecr.Rd | 6 paws-0.7.0/paws/man/elasticache.Rd | 20 paws-0.7.0/paws/man/elbv2.Rd | 8 paws-0.7.0/paws/man/emrserverless.Rd | 1 paws-0.7.0/paws/man/eventbridge.Rd | 3 paws-0.7.0/paws/man/firehose.Rd | 2 paws-0.7.0/paws/man/fis.Rd | 6 paws-0.7.0/paws/man/glue.Rd | 11 paws-0.7.0/paws/man/guardduty.Rd | 7 paws-0.7.0/paws/man/health.Rd | 5 paws-0.7.0/paws/man/ivs.Rd | 132 - paws-0.7.0/paws/man/ivschat.Rd | 84 paws-0.7.0/paws/man/ivsrealtime.Rd | 126 - paws-0.7.0/paws/man/kinesisanalyticsv2.Rd | 2 paws-0.7.0/paws/man/kms.Rd | 1 paws-0.7.0/paws/man/lakeformation.Rd | 1 paws-0.7.0/paws/man/lambda.Rd | 6 paws-0.7.0/paws/man/licensemanagerlinuxsubscriptions.Rd | 11 paws-0.7.0/paws/man/locationservice.Rd | 4 paws-0.7.0/paws/man/macie2.Rd | 14 paws-0.7.0/paws/man/managedgrafana.Rd | 6 paws-0.7.0/paws/man/marketplacemetering.Rd | 2 paws-0.7.0/paws/man/memorydb.Rd | 16 paws-0.7.0/paws/man/omics.Rd | 2 paws-0.7.0/paws/man/opsworks.Rd | 58 paws-0.7.0/paws/man/paymentcryptographydataplane.Rd | 2 paws-0.7.0/paws/man/personalize.Rd | 8 paws-0.7.0/paws/man/pi.Rd | 6 paws-0.7.0/paws/man/pinpointsmsvoicev2.Rd | 45 paws-0.7.0/paws/man/quicksight.Rd | 7 paws-0.7.0/paws/man/recyclebin.Rd | 2 paws-0.7.0/paws/man/resiliencehub.Rd | 8 paws-0.7.0/paws/man/sagemaker.Rd | 21 paws-0.7.0/paws/man/securityhub.Rd | 28 paws-0.7.0/paws/man/sfn.Rd | 8 paws-0.7.0/paws/man/sqs.Rd | 2 paws-0.7.0/paws/man/ssm.Rd | 10 paws-0.7.0/paws/man/ssmsap.Rd | 3 paws-0.7.0/paws/man/storagegateway.Rd | 8 paws-0.7.0/paws/man/support.Rd | 4 paws-0.7.0/paws/man/swf.Rd | 4 paws-0.7.0/paws/man/telconetworkbuilder.Rd | 2 paws-0.7.0/paws/man/verifiedpermissions.Rd | 4 paws-0.7.0/paws/man/wafv2.Rd | 2 paws-0.7.0/paws/man/workspaces.Rd | 11 paws-0.7.0/paws/man/workspacesweb.Rd | 16 84 files changed, 1439 insertions(+), 1627 deletions(-)
More information about parafac4microbiome at CRAN
Permanent link
Title: An IMAP Client for R
Description: An easy-to-use IMAP client that provides tools for message searching,
selective fetching of message attributes, mailbox management, attachment extraction,
and several other IMAP features, paving the way for e-mail data analysis in R.
Author: Allan Quadros [aut, cre] ,
Paul Smith [ctb],
Kurt Hornik [ctb]
Maintainer: Allan Quadros <allanvcq@gmail.com>
Diff between mRpostman versions 1.1.2 dated 2023-12-17 and 1.1.4 dated 2024-09-17
mRpostman-1.1.2/mRpostman/R/decode-quoted-printable.R |only mRpostman-1.1.2/mRpostman/vignettes/figures/basics/fetch-body.png |only mRpostman-1.1.4/mRpostman/DESCRIPTION | 10 mRpostman-1.1.4/mRpostman/MD5 | 37 +- mRpostman-1.1.4/mRpostman/R/decode-mime-header.R | 23 + mRpostman-1.1.4/mRpostman/R/decode-mime-text.R | 3 mRpostman-1.1.4/mRpostman/R/decode-quoted-printable-header.R |only mRpostman-1.1.4/mRpostman/R/decode-quoted-printable-text.R | 68 ++++- mRpostman-1.1.4/mRpostman/R/zzz.R | 3 mRpostman-1.1.4/mRpostman/README.md | 124 +++------- mRpostman-1.1.4/mRpostman/build/partial.rdb |binary mRpostman-1.1.4/mRpostman/build/vignette.rds |binary mRpostman-1.1.4/mRpostman/inst/CITATION |only mRpostman-1.1.4/mRpostman/inst/doc/basics.R | 110 ++++---- mRpostman-1.1.4/mRpostman/inst/doc/basics.Rmd | 42 ++- mRpostman-1.1.4/mRpostman/inst/doc/basics.html | 113 ++++++--- mRpostman-1.1.4/mRpostman/inst/doc/code_migration.R | 112 ++++----- mRpostman-1.1.4/mRpostman/inst/doc/xoauth2.0.R | 14 - mRpostman-1.1.4/mRpostman/inst/doc/xoauth2.0.html | 14 - mRpostman-1.1.4/mRpostman/man/decode_mime_header.Rd | 18 + mRpostman-1.1.4/mRpostman/vignettes/basics.Rmd | 42 ++- mRpostman-1.1.4/mRpostman/vignettes/figures/basics/fetchbody.png |only 22 files changed, 414 insertions(+), 319 deletions(-)
Title: Super Learner Fitting and Prediction
Description: An implementation of the Super Learner prediction algorithm from
van der Laan, Polley, and Hubbard (2007) <doi:10.2202/1544-6115.1309
using the 'mlr3' framework.
Author: Nicholas Williams [aut, cre, cph]
Maintainer: Nicholas Williams <ntwilliams.personal@gmail.com>
Diff between mlr3superlearner versions 0.1.1 dated 2024-09-04 and 0.1.2 dated 2024-09-17
DESCRIPTION | 6 +- MD5 | 12 ++--- NAMESPACE | 1 NEWS.md | 6 ++ R/make_mlr3_resampling.R | 1 R/mlr3superlearner.R | 98 ++++++++++++++++++++++++++++++----------------- R/utils.R | 4 - 7 files changed, 81 insertions(+), 47 deletions(-)
More information about mlr3superlearner at CRAN
Permanent link
Title: Web Interface to 'IsoplotR'
Description: Provides a graphical user interface to the 'IsoplotR' package for radiometric geochronology. The GUI runs in an internet browser and can either be used offline, or hosted on a server to provide online access to the 'IsoplotR' toolbox.
Author: Pieter Vermeesch [aut, cre],
Tim Band [ctb]
Maintainer: Pieter Vermeesch <p.vermeesch@ucl.ac.uk>
Diff between IsoplotRgui versions 6.2 dated 2024-05-04 and 6.3 dated 2024-09-17
DESCRIPTION | 10 +++++----- MD5 | 8 ++++---- inst/www/home/news.html | 4 ++-- inst/www/locales/en/home_id.json | 2 +- inst/www/version.txt | 2 +- 5 files changed, 13 insertions(+), 13 deletions(-)
Title: Semi-Automatic Preprocessing of Messy Data with Change Tracking
for Dataset Cleaning
Description: Tools for assessing data quality, performing exploratory analysis, and
semi-automatic preprocessing of messy data with change tracking for integral dataset cleaning.
Author: David Hervas Marin [aut, cre]
Maintainer: David Hervas Marin <ddhervas@yahoo.es>
Diff between clickR versions 0.9.39 dated 2023-08-07 and 0.9.43 dated 2024-09-17
DESCRIPTION | 12 +++++++----- MD5 | 13 ++++++++----- NAMESPACE | 2 ++ R/check_quality.R | 22 ++++++++++++++++++++++ R/descriptive.R | 24 +++++++++++++++--------- data/messy_mtcars.RData |binary inst |only man/grapes-between-grapes.Rd |only man/grapes-betweenNA-grapes.Rd |only 9 files changed, 54 insertions(+), 19 deletions(-)
Title: Scoring Methodology for Ordered Factors
Description: Starting from a given object representing a fitted model (within
a certain set of model classes) whose linear predictor includes some ordered
factor(s) among the explanatory variables, a new model is constructed and
fitted where each named factor is replaced by a single numeric score, suitably
chosen so that the new variable produces a fit comparable with the standard
methodology based on a set of polynomial contrasts. Two variants of the
present approach have been developed, one in each of the next references:
Azzalini (2023) <doi:10.1002/sta4.624>, (2024) <doi:10.48550/arXiv.2406.15933>.
Author: Adelchi Azzalini [aut, cre]
Maintainer: Adelchi Azzalini <adelchi.azzalini@unipd.it>
Diff between smof versions 1.1.0 dated 2024-03-04 and 1.2.0 dated 2024-09-17
DESCRIPTION | 13 +-- MD5 | 21 ++-- NAMESPACE | 5 - R/smof-methods.R | 66 ++++++++++----- R/smof.R | 224 ++++++++++++++++++++++++++++++++++++++++------------ build/partial.rdb |binary inst/CITATION | 2 inst/NEWS.Rd | 14 +++ man/smof-methods.Rd | 15 +-- man/smof-package.Rd | 2 man/smof.Rd | 145 +++++++++++++++++++++++++-------- man/smof_refit.Rd |only 12 files changed, 374 insertions(+), 133 deletions(-)
Title: Helper Functions for Point Pattern Analysis
Description: Growing collection of helper functions for point pattern analysis. Most functions
are designed to work with the 'spatstat' (<http://spatstat.org>) package. The focus of
most functions are either null models or summary functions for spatial point patterns.
For a detailed description of all null models and summary functions, see
Wiegand and Moloney (2014, ISBN:9781420082548).
Author: Maximilian H.K. Hesselbarth [aut, cre]
Maintainer: Maximilian H.K. Hesselbarth <mhk.hesselbarth@gmail.com>
Diff between onpoint versions 1.0.5 dated 2024-01-10 and 1.0.6 dated 2024-09-17
DESCRIPTION | 8 MD5 | 58 - NEWS.md | 114 +- R/balance_points.R | 166 +-- R/center_l_function.R | 108 - R/estimate_o_ring.R | 104 - R/estimate_pcf_fast.R | 84 - R/plot_quantums.R | 362 +++--- R/rlabel_local.R | 236 ++-- R/simulate_antecedent_conditions.R | 208 +-- R/simulate_heterogenous_pattern.R | 130 +- R/summarize_envelope.R | 1036 +++++++++---------- man/center_l_function.Rd | 2 man/estimate_o_ring.Rd | 4 man/estimate_pcf_fast.Rd | 4 man/figures/README-plot_antecedent-1.png |binary man/figures/README-plot_hetero-1.png |binary man/figures/README-plot_oring-1.png |binary man/figures/README-plot_quantums-1.png |binary man/onpoint.Rd | 2 man/plot_quantums.Rd | 2 man/rlabel_local.Rd | 104 - man/simulate_antecedent_conditions.Rd | 19 man/simulate_heterogenous_pattern.Rd | 4 man/summarize_envelope.Rd | 2 tests/testthat/test-center_l_function.R | 56 - tests/testthat/test-estimate_o_ring.R | 32 tests/testthat/test-estimate_pcf_fast.R | 20 tests/testthat/test-simulate_antecedent_conditions.R | 143 +- tests/testthat/test-simulate_heterogenous_pattern.R | 68 - 30 files changed, 1536 insertions(+), 1540 deletions(-)
Title: Creating Demographic Table
Description: Functions for creating demographic table with simple
summary statistics, with optional comparison(s) over one or
more groups. Numeric variables are summarized in means,
standard deviations, medians, inter-quartile-ranges (IQR),
skewness, Shapiro-Wilk normality test and ranges, and
compared using two-sample t-test, Wilcoxon test, ANOVA and/or
Kruskal-Wallis test. Logical and factor variables are
summarized in counts and percentages and compared using
chi-squared test and/or Fisher's exact test.
Author: Tingting Zhan [aut, cre, cph]
Maintainer: Tingting Zhan <tingtingzhan@gmail.com>
Diff between DemographicTable versions 0.1.8 dated 2024-04-30 and 0.1.9 dated 2024-09-17
DemographicTable-0.1.8/DemographicTable/R/class1List.R |only DemographicTable-0.1.8/DemographicTable/man/class1List.Rd |only DemographicTable-0.1.9/DemographicTable/DESCRIPTION | 37 ++++------ DemographicTable-0.1.9/DemographicTable/MD5 | 16 ++-- DemographicTable-0.1.9/DemographicTable/NAMESPACE | 3 DemographicTable-0.1.9/DemographicTable/R/DemographicTable.R | 8 +- DemographicTable-0.1.9/DemographicTable/R/Sprintf.DemographicTable.R |only DemographicTable-0.1.9/DemographicTable/R/rmd_.DemographicTable.R |only DemographicTable-0.1.9/DemographicTable/R/summaryText.R | 2 DemographicTable-0.1.9/DemographicTable/inst/extR/toCRAN.R | 27 ------- DemographicTable-0.1.9/DemographicTable/man/Sprintf.DemographicTable.Rd |only DemographicTable-0.1.9/DemographicTable/man/rmd_.DemographicTable.Rd |only 12 files changed, 36 insertions(+), 57 deletions(-)
More information about DemographicTable at CRAN
Permanent link
Title: A Computational Tool for Astrochronology
Description: Routines for astrochronologic testing, astronomical time scale construction, and time series analysis <doi:10.1016/j.earscirev.2018.11.015>. Also included are a range of statistical analysis and modeling routines that are relevant to time scale development and paleoclimate analysis.
Author: Stephen Meyers [aut, cre],
Alberto Malinverno [ctb],
Linda Hinnov [ctb],
Christian Zeeden [ctb],
Huaran Liu [ctb],
Vincent Moron [ctb],
Michel Crucifix [ctb]
Maintainer: Stephen Meyers <smeyers@geology.wisc.edu>
Diff between astrochron versions 1.3 dated 2024-05-28 and 1.4 dated 2024-09-17
astrochron-1.3/astrochron/R/FUNCTION-timeOptPlot_v6.R |only astrochron-1.3/astrochron/R/FUNCTION-timeOptTemplatePlot_v6.R |only astrochron-1.3/astrochron/src/Root_Search_v2.c |only astrochron-1.4/astrochron/DESCRIPTION | 24 ++++-- astrochron-1.4/astrochron/MD5 | 40 +++++----- astrochron-1.4/astrochron/NAMESPACE | 4 - astrochron-1.4/astrochron/NEWS | 17 ++++ astrochron-1.4/astrochron/R/FUNCTION-accum_v3.R |only astrochron-1.4/astrochron/R/FUNCTION-linterpLH13_v10.R |only astrochron-1.4/astrochron/R/FUNCTION-timeOptPlot_v7.R |only astrochron-1.4/astrochron/R/FUNCTION-timeOptTemplatePlot_v7.R |only astrochron-1.4/astrochron/R/startupMessage.R | 4 - astrochron-1.4/astrochron/man/accum.Rd |only astrochron-1.4/astrochron/man/astrochron-package.Rd | 4 - astrochron-1.4/astrochron/man/confAdjust.Rd | 2 astrochron-1.4/astrochron/man/eha.Rd | 11 ++ astrochron-1.4/astrochron/man/linterpLH13.Rd |only astrochron-1.4/astrochron/man/lowspec.Rd | 10 +- astrochron-1.4/astrochron/man/makeNoise.Rd | 2 astrochron-1.4/astrochron/man/mtm.Rd | 13 ++- astrochron-1.4/astrochron/man/mtmAR.Rd | 16 +++- astrochron-1.4/astrochron/man/mtmML96.Rd | 11 ++ astrochron-1.4/astrochron/man/mtmPL.Rd | 10 ++ astrochron-1.4/astrochron/man/periodogram.Rd | 10 ++ astrochron-1.4/astrochron/man/timeOpt.Rd | 40 +++++++++- astrochron-1.4/astrochron/src/Root_Search_v3.c |only 26 files changed, 174 insertions(+), 44 deletions(-)
Title: Comparing Two Diagnostic Tests with Dichotomous Results using
Paired Data
Description: Provides a method for comparing the results of two binary diagnostic tests using paired data.
Users can rapidly perform descriptive and inferential statistics in a single function call. Options permit users to select which parameters they are interested in comparing and methods for correction for multiple comparisons.
Confidence intervals are calculated using the methods with the best coverage. Hypothesis tests use the methods with the best asymptotic performance. A summary of the methods is available in Roldán-Nofuentes (2020) <doi:10.1186/s12874-020-00988-y>.
This package is targeted at clinical researchers who want to rapidly and effectively compare results from binary diagnostic tests.
Author: Kyle J. Wilson [cre, aut] ,
Marc Henrion [aut] ,
Jose Antonio Roldan Nofuentes [aut]
Maintainer: Kyle J. Wilson <kyle.jordan.wilson@googlemail.com>
Diff between testCompareR versions 1.0.3 dated 2024-04-30 and 1.0.4 dated 2024-09-17
DESCRIPTION | 12 MD5 | 14 NEWS.md | 6 R/compareR.R | 652 +++++----- build/partial.rdb |binary build/vignette.rds |binary inst/doc/using_testCompareR.R | 260 ++-- inst/doc/using_testCompareR.html | 2396 +++++++++++++++++++-------------------- 8 files changed, 1674 insertions(+), 1666 deletions(-)
Title: Helper Tools for Managing Data, Dates, Missing Values, and Text
Description: An assortment of helper functions for managing data (e.g.,
rotating values in matrices by a user-defined angle, switching from
row- to column-indexing), dates (e.g., intuiting year from messy date
strings), handling missing values (e.g., removing elements/rows across
multiple vectors or matrices if any have an NA), text (e.g.,
flushing reports to the console in real-time); and combining data frames
with different schema (copying, filling, or concatenating columns or
applying functions before combining).
Author: Adam B. Smith [cre, aut]
Maintainer: Adam B. Smith <adam.smith@mobot.org>
Diff between omnibus versions 1.2.13 dated 2024-05-16 and 1.2.14 dated 2024-09-17
DESCRIPTION | 10 ++--- MD5 | 24 +++++++----- NAMESPACE | 3 + NEWS.md | 52 +++++++++++++++------------ R/corner.r | 6 ++- R/omnibus.r | 3 + R/pmatchSafe.r | 8 +++- R/renameCol.r |only R/side.r |only R/unragMatrix.r |only README.md | 102 +++++++++++++++++++++++++++-------------------------- man/corner.Rd | 4 +- man/omnibus.Rd | 5 ++ man/renameCol.Rd |only man/side.Rd |only man/unragMatrix.Rd |only 16 files changed, 125 insertions(+), 92 deletions(-)
Title: Utilities for Developing Data Science Software
Description: Some general helper functions that I (and maybe others) find useful
when developing data science software.
Author: Lennart Oelschlaeger [aut, cre]
Maintainer: Lennart Oelschlaeger <oelschlaeger.lennart@gmail.com>
Diff between oeli versions 0.5.2 dated 2024-06-19 and 0.6.0 dated 2024-09-17
oeli-0.5.2/oeli/R/calculate_density.R |only oeli-0.5.2/oeli/R/catching_exceptions.R |only oeli-0.5.2/oeli/R/date_helpers.R |only oeli-0.5.2/oeli/R/dictionary_helpers.R |only oeli-0.5.2/oeli/R/function_helpers.R |only oeli-0.5.2/oeli/R/index_helpers.R |only oeli-0.5.2/oeli/R/list_helpers.R |only oeli-0.5.2/oeli/R/markov_chain.R |only oeli-0.5.2/oeli/R/package_helpers.R |only oeli-0.5.2/oeli/R/sample_things.R |only oeli-0.5.2/oeli/R/storage_helpers.R |only oeli-0.5.2/oeli/R/timed_evaluation.R |only oeli-0.5.2/oeli/build |only oeli-0.5.2/oeli/inst |only oeli-0.5.2/oeli/man/check_date.Rd |only oeli-0.5.2/oeli/man/cov_2_chol.Rd |only oeli-0.5.2/oeli/man/ddirichlet_cpp.Rd |only oeli-0.5.2/oeli/man/dmvnorm_cpp.Rd |only oeli-0.5.2/oeli/man/dwishart_cpp.Rd |only oeli-0.5.2/oeli/man/find_closest_year.Rd |only oeli-0.5.2/oeli/man/rdirichlet.Rd |only oeli-0.5.2/oeli/man/rdirichlet_cpp.Rd |only oeli-0.5.2/oeli/man/rmvnorm.Rd |only oeli-0.5.2/oeli/man/rmvnorm_cpp.Rd |only oeli-0.5.2/oeli/man/rtnorm_cpp.Rd |only oeli-0.5.2/oeli/man/rwishart.Rd |only oeli-0.5.2/oeli/man/rwishart_cpp.Rd |only oeli-0.5.2/oeli/src/densities.cpp |only oeli-0.5.2/oeli/src/densities.h |only oeli-0.5.2/oeli/src/random_draws.cpp |only oeli-0.5.2/oeli/src/random_draws.h |only oeli-0.5.2/oeli/src/test-densities.cpp |only oeli-0.5.2/oeli/src/test-random_draws.cpp |only oeli-0.5.2/oeli/tests/testthat/_snaps/dictionary_helpers.md |only oeli-0.5.2/oeli/tests/testthat/test-calculate_density.R |only oeli-0.5.2/oeli/tests/testthat/test-date_helpers.R |only oeli-0.5.2/oeli/tests/testthat/test-dictionary_helpers.R |only oeli-0.5.2/oeli/tests/testthat/test-function_helpers.R |only oeli-0.5.2/oeli/tests/testthat/test-index_helpers.R |only oeli-0.5.2/oeli/tests/testthat/test-list_helpers.R |only oeli-0.5.2/oeli/tests/testthat/test-markov_chain.R |only oeli-0.5.2/oeli/tests/testthat/test-package_helpers.R |only oeli-0.5.2/oeli/tests/testthat/test-sample_things.R |only oeli-0.5.2/oeli/tests/testthat/test-storage_helpers.R |only oeli-0.5.2/oeli/tests/testthat/test-timed_evaluation.R |only oeli-0.5.2/oeli/tests/testthat/test-try_something.R |only oeli-0.5.2/oeli/vignettes |only oeli-0.6.0/oeli/DESCRIPTION | 18 oeli-0.6.0/oeli/MD5 | 335 ++-- oeli-0.6.0/oeli/NAMESPACE | 203 +-- oeli-0.6.0/oeli/NEWS.md | 262 ++- oeli-0.6.0/oeli/R/RcppExports.R | 280 ---- oeli-0.6.0/oeli/R/catch-routine-registration.R | 14 oeli-0.6.0/oeli/R/check_correlation_matrix.R | 150 +- oeli-0.6.0/oeli/R/check_covariance_matrix.R | 147 +- oeli-0.6.0/oeli/R/check_list_of_lists.R | 98 - oeli-0.6.0/oeli/R/check_numeric_vector.R | 129 + oeli-0.6.0/oeli/R/check_probability_vector.R | 114 - oeli-0.6.0/oeli/R/check_transition_probability_matrix.R | 137 +- oeli-0.6.0/oeli/R/cholesky_root.R | 163 +- oeli-0.6.0/oeli/R/chunk_vector.R | 111 - oeli-0.6.0/oeli/R/correlated_regressors.R |only oeli-0.6.0/oeli/R/covariance_differencing.R | 169 +- oeli-0.6.0/oeli/R/delete_data_frame_columns.R | 63 oeli-0.6.0/oeli/R/dictionary.R |only oeli-0.6.0/oeli/R/dirichlet.R |only oeli-0.6.0/oeli/R/do.call_timed.R |only oeli-0.6.0/oeli/R/function_arguments.R |only oeli-0.6.0/oeli/R/function_body.R |only oeli-0.6.0/oeli/R/function_defaults.R |only oeli-0.6.0/oeli/R/group_data_frame.R | 69 - oeli-0.6.0/oeli/R/identical_structure.R | 120 - oeli-0.6.0/oeli/R/input_check_response.R |only oeli-0.6.0/oeli/R/insert_matrix_column.R | 150 +- oeli-0.6.0/oeli/R/insert_vector_entry.R | 103 - oeli-0.6.0/oeli/R/match_arg.R | 125 - oeli-0.6.0/oeli/R/match_numerics.R |only oeli-0.6.0/oeli/R/matrix_diagonal_indices.R | 108 - oeli-0.6.0/oeli/R/matrix_indices.R | 77 - oeli-0.6.0/oeli/R/merge_lists.R |only oeli-0.6.0/oeli/R/mvnorm.R |only oeli-0.6.0/oeli/R/oeli-package.R | 63 oeli-0.6.0/oeli/R/package_logo.R | 227 +-- oeli-0.6.0/oeli/R/permutations.R |only oeli-0.6.0/oeli/R/print_matrix.R | 316 ++-- oeli-0.6.0/oeli/R/quiet.R |only oeli-0.6.0/oeli/R/renv_development_packages.R |only oeli-0.6.0/oeli/R/sample_correlation_matrix.R |only oeli-0.6.0/oeli/R/sample_covariance_matrix.R |only oeli-0.6.0/oeli/R/sample_transition_probability_matrix.R |only oeli-0.6.0/oeli/R/simulate_markov_chain.R |only oeli-0.6.0/oeli/R/stationary_distribution.R |only oeli-0.6.0/oeli/R/storage.R |only oeli-0.6.0/oeli/R/subsets.R | 78 - oeli-0.6.0/oeli/R/system_information.R |only oeli-0.6.0/oeli/R/timed.R |only oeli-0.6.0/oeli/R/tnorm.R |only oeli-0.6.0/oeli/R/try_silent.R |only oeli-0.6.0/oeli/R/unexpected_error.R |only oeli-0.6.0/oeli/R/user_confirm.R | 90 - oeli-0.6.0/oeli/R/variable_name.R |only oeli-0.6.0/oeli/R/vector_occurrence.R | 72 - oeli-0.6.0/oeli/R/wishart.R |only oeli-0.6.0/oeli/README.md | 204 ++- oeli-0.6.0/oeli/man/Dictionary.Rd | 343 ++--- oeli-0.6.0/oeli/man/Storage.Rd | 676 +++++----- oeli-0.6.0/oeli/man/check_correlation_matrix.Rd | 109 + oeli-0.6.0/oeli/man/check_covariance_matrix.Rd | 109 + oeli-0.6.0/oeli/man/check_list_of_lists.Rd | 92 - oeli-0.6.0/oeli/man/check_numeric_vector.Rd | 267 ++- oeli-0.6.0/oeli/man/check_probability_vector.Rd | 106 - oeli-0.6.0/oeli/man/check_transition_probability_matrix.Rd | 124 + oeli-0.6.0/oeli/man/chunk_vector.Rd | 89 - oeli-0.6.0/oeli/man/correlated_regressors.Rd |only oeli-0.6.0/oeli/man/cov_to_chol.Rd |only oeli-0.6.0/oeli/man/ddirichlet.Rd | 97 - oeli-0.6.0/oeli/man/delete_data_frame_columns.Rd | 59 oeli-0.6.0/oeli/man/diff_cov.Rd | 141 +- oeli-0.6.0/oeli/man/dmvnorm.Rd | 103 + oeli-0.6.0/oeli/man/do.call_timed.Rd | 81 - oeli-0.6.0/oeli/man/dtnorm.Rd |only oeli-0.6.0/oeli/man/dwishart.Rd | 109 + oeli-0.6.0/oeli/man/figures/README-package_logo-1.png |only oeli-0.6.0/oeli/man/function_arguments.Rd | 72 - oeli-0.6.0/oeli/man/function_body.Rd | 73 - oeli-0.6.0/oeli/man/function_defaults.Rd | 66 oeli-0.6.0/oeli/man/group_data_frame.Rd | 63 oeli-0.6.0/oeli/man/identical_structure.Rd | 79 - oeli-0.6.0/oeli/man/input_check_response.Rd |only oeli-0.6.0/oeli/man/insert_matrix_column.Rd | 115 - oeli-0.6.0/oeli/man/insert_vector_entry.Rd | 100 - oeli-0.6.0/oeli/man/match_arg.Rd | 81 - oeli-0.6.0/oeli/man/match_numerics.Rd | 64 oeli-0.6.0/oeli/man/matrix_diagonal_indices.Rd | 99 - oeli-0.6.0/oeli/man/matrix_indices.Rd | 75 - oeli-0.6.0/oeli/man/merge_lists.Rd | 51 oeli-0.6.0/oeli/man/oeli-package.Rd | 52 oeli-0.6.0/oeli/man/package_logo.Rd | 79 - oeli-0.6.0/oeli/man/permutations.Rd | 62 oeli-0.6.0/oeli/man/print_matrix.Rd | 130 + oeli-0.6.0/oeli/man/quiet.Rd |only oeli-0.6.0/oeli/man/renv_development_packages.Rd | 65 oeli-0.6.0/oeli/man/sample_correlation_matrix.Rd |only oeli-0.6.0/oeli/man/sample_covariance_matrix.Rd | 79 - oeli-0.6.0/oeli/man/sample_transition_probability_matrix.Rd | 65 oeli-0.6.0/oeli/man/simulate_markov_chain.Rd | 68 - oeli-0.6.0/oeli/man/stationary_distribution.Rd | 72 - oeli-0.6.0/oeli/man/subsets.Rd | 20 oeli-0.6.0/oeli/man/system_information.Rd | 63 oeli-0.6.0/oeli/man/timed.Rd | 88 - oeli-0.6.0/oeli/man/try_silent.Rd | 70 - oeli-0.6.0/oeli/man/unexpected_error.Rd | 63 oeli-0.6.0/oeli/man/user_confirm.Rd | 56 oeli-0.6.0/oeli/man/variable_name.Rd | 67 oeli-0.6.0/oeli/man/vector_occurrence.Rd | 72 - oeli-0.6.0/oeli/src/RcppExports.cpp | 76 - oeli-0.6.0/oeli/src/dirichlet.cpp |only oeli-0.6.0/oeli/src/dirichlet.h |only oeli-0.6.0/oeli/src/mvnorm.cpp |only oeli-0.6.0/oeli/src/mvnorm.h |only oeli-0.6.0/oeli/src/test-dirichlet.cpp |only oeli-0.6.0/oeli/src/test-mvnorm.cpp |only oeli-0.6.0/oeli/src/test-tnorm.cpp |only oeli-0.6.0/oeli/src/test-wishart.cpp |only oeli-0.6.0/oeli/src/tnorm.cpp |only oeli-0.6.0/oeli/src/tnorm.h |only oeli-0.6.0/oeli/src/wishart.cpp |only oeli-0.6.0/oeli/src/wishart.h |only oeli-0.6.0/oeli/tests/testthat.R | 24 oeli-0.6.0/oeli/tests/testthat/_snaps/dictionary.md |only oeli-0.6.0/oeli/tests/testthat/test-check_correlation_matrix.R | 132 + oeli-0.6.0/oeli/tests/testthat/test-check_covariance_matrix.R | 108 - oeli-0.6.0/oeli/tests/testthat/test-check_list_of_lists.R | 40 oeli-0.6.0/oeli/tests/testthat/test-check_numeric_vector.R | 64 oeli-0.6.0/oeli/tests/testthat/test-check_probability_vector.R | 66 oeli-0.6.0/oeli/tests/testthat/test-check_transition_probability_matrix.R | 132 - oeli-0.6.0/oeli/tests/testthat/test-cholesky_root.R | 15 oeli-0.6.0/oeli/tests/testthat/test-chunk_vector.R | 34 oeli-0.6.0/oeli/tests/testthat/test-correlated_regressors.R |only oeli-0.6.0/oeli/tests/testthat/test-covariance_differencing.R | 66 oeli-0.6.0/oeli/tests/testthat/test-cpp.R | 2 oeli-0.6.0/oeli/tests/testthat/test-delete_data_frame_columns.R | 36 oeli-0.6.0/oeli/tests/testthat/test-dictionary.R |only oeli-0.6.0/oeli/tests/testthat/test-dirichlet.R |only oeli-0.6.0/oeli/tests/testthat/test-do.call_timed.R |only oeli-0.6.0/oeli/tests/testthat/test-function_arguments.R |only oeli-0.6.0/oeli/tests/testthat/test-function_body.R |only oeli-0.6.0/oeli/tests/testthat/test-function_defaults.R |only oeli-0.6.0/oeli/tests/testthat/test-group_data_frame.R | 64 oeli-0.6.0/oeli/tests/testthat/test-identical_structure.R | 26 oeli-0.6.0/oeli/tests/testthat/test-input_check_response.R |only oeli-0.6.0/oeli/tests/testthat/test-insert_matrix_column.R | 96 - oeli-0.6.0/oeli/tests/testthat/test-insert_vector_entry.R | 56 oeli-0.6.0/oeli/tests/testthat/test-match_arg.R | 68 - oeli-0.6.0/oeli/tests/testthat/test-match_numerics.R |only oeli-0.6.0/oeli/tests/testthat/test-matrix_diagonal_indices.R | 10 oeli-0.6.0/oeli/tests/testthat/test-matrix_indices.R | 30 oeli-0.6.0/oeli/tests/testthat/test-merge_lists.R |only oeli-0.6.0/oeli/tests/testthat/test-mvnorm.R |only oeli-0.6.0/oeli/tests/testthat/test-package_logo.R | 6 oeli-0.6.0/oeli/tests/testthat/test-permutations.R |only oeli-0.6.0/oeli/tests/testthat/test-print_matrix.R | 220 +-- oeli-0.6.0/oeli/tests/testthat/test-quiet.R |only oeli-0.6.0/oeli/tests/testthat/test-sample_correlation_matrix.R |only oeli-0.6.0/oeli/tests/testthat/test-sample_covariance_matrix.R |only oeli-0.6.0/oeli/tests/testthat/test-sample_transition_probability_matrix.R |only oeli-0.6.0/oeli/tests/testthat/test-simulate_markov_chain.R |only oeli-0.6.0/oeli/tests/testthat/test-stationary_distribution.R |only oeli-0.6.0/oeli/tests/testthat/test-storage.R |only oeli-0.6.0/oeli/tests/testthat/test-subsets.R | 46 oeli-0.6.0/oeli/tests/testthat/test-system_information.R |only oeli-0.6.0/oeli/tests/testthat/test-timed.R |only oeli-0.6.0/oeli/tests/testthat/test-try_silent.R |only oeli-0.6.0/oeli/tests/testthat/test-unexpected_error.R |only oeli-0.6.0/oeli/tests/testthat/test-variable_name.R |only oeli-0.6.0/oeli/tests/testthat/test-vector_occurrence.R | 10 oeli-0.6.0/oeli/tests/testthat/test-wishart.R |only 217 files changed, 5564 insertions(+), 4672 deletions(-)
Title: Event Prediction
Description: Predicts enrollment and events at the design or analysis stage using specified enrollment and time-to-event models through simulations.
Author: Kaifeng Lu [aut, cre]
Maintainer: Kaifeng Lu <kaifenglu@gmail.com>
Diff between eventPred versions 0.2.5 dated 2024-02-27 and 0.2.6 dated 2024-09-17
DESCRIPTION | 10 MD5 | 42 NEWS.md | 6 R/eventPred-package.R | 2 R/fitDropout.R | 4 R/fitEvent.R | 4 R/getPrediction.R | 31 R/predictEnrollment.R | 63 R/predictEvent.R | 854 +++++----- R/summarizeObserved.R | 9 build/vignette.rds |binary inst/doc/event_prediction_after_enrollment_completion.html | 2 inst/doc/event_prediction_at_the_design_stage.html | 2 inst/doc/event_prediction_before_enrollment_completion.html | 2 inst/doc/event_prediction_incorporating_covariates.html | 2 inst/doc/event_prediction_incorporating_prior_information.html | 2 inst/shinyApp/app.R | 19 inst/shinyApp/www/manual.pdf |binary man/eventPred-package.Rd | 2 man/getPrediction.Rd | 8 man/predictEnrollment.Rd | 8 man/predictEvent.Rd | 8 22 files changed, 620 insertions(+), 460 deletions(-)
Title: Sensitivities of Prices of Financial Options and Implied
Volatilities
Description: Methods to calculate sensitivities of financial option prices for
European, geometric and arithmetic Asian, and American options, with various
payoff functions in the Black Scholes model, and in more general jump diffusion
models. A shiny app to interactively plot the results is included. Furthermore,
methods to compute implied volatilities are provided for a wide range of option
types and custom payoff functions. Classical formulas are implemented for
European options in the Black Scholes Model, as is presented in Hull, J. C.
(2017), Options, Futures, and Other Derivatives.
In the case of Asian options, Malliavin Monte Carlo Greeks are implemented, see
Hudde, A. & Rüschendorf, L. (2023). European and Asian Greeks for exponential
Lévy processes. <doi:10.1007/s11009-023-10014-5>. For American
options, the Binomial Tree Method is implemented, as is presented in Hull,
J. C. (2017).
Author: Anselm Hudde [aut, cre]
Maintainer: Anselm Hudde <anselmhudde@gmx.de>
Diff between greeks versions 1.4.2 dated 2024-04-23 and 1.4.3 dated 2024-09-17
DESCRIPTION | 8 ++++---- MD5 | 12 ++++++------ R/Greeks_UI.R | 13 ++++++++++++- R/Malliavin_Geometric_Asian_Greeks.R | 18 ++++++------------ build/partial.rdb |binary build/vignette.rds |binary tests/testthat/test-BS_Geometric_Asian_Greeks.R | 2 +- 7 files changed, 29 insertions(+), 24 deletions(-)
Title: Modelization for Functional AutoRegressive Processes
Description: Modelizations and previsions functions for
Functional AutoRegressive processes using
nonparametric methods: functional kernel,
estimation of the covariance operator in
a subspace, ...
Author: Julien Damon [aut, cre],
Serge, Guillas [aut]
Maintainer: Julien Damon <julien.damon@gmail.com>
Diff between far versions 0.6-6 dated 2022-08-13 and 0.6-7 dated 2024-09-17
DESCRIPTION | 22 - INDEX |only MD5 | 63 +-- NAMESPACE | 70 +-- NEWS | 63 +-- R/invgen.R | 80 +-- R/orthonormalization.R | 148 +++---- R/simul.R | 938 +++++++++++++++++++++++----------------------- README.md | 28 - TODO | 14 man/BaseK2BaseC.Rd | 82 ++-- man/base.simul.far.Rd | 82 ++-- man/coef.far.Rd | 160 +++---- man/date.fdata.Rd | 76 +-- man/fapply.Rd | 94 ++-- man/far.Rd | 332 ++++++++-------- man/far.cv.Rd | 218 +++++----- man/fdata.Rd | 184 ++++----- man/interpol.matrix.Rd | 90 ++-- man/invgen.Rd | 44 +- man/is.na.fdata.Rd | 78 +-- man/kerfon.Rd | 192 ++++----- man/maxfdata.Rd | 70 +-- man/multplot.Rd | 176 ++++---- man/orthonormalization.Rd | 110 ++--- man/plot.fdata.Rd | 130 +++--- man/pred.persist.Rd | 140 +++--- man/predict.far.Rd | 196 ++++----- man/predict.kerfon.Rd | 150 +++---- man/select.fdata.Rd | 90 ++-- man/simul.far.sde.Rd | 128 +++--- man/simul.wiener.Rd | 90 ++-- src/far.c | 14 33 files changed, 2181 insertions(+), 2171 deletions(-)
Title: Statistical Framework to Define Subgroups in Complex Datasets
Description: High-dimensional datasets that do not exhibit a clear intrinsic clustered structure pose a challenge to conventional clustering algorithms. For this reason, we developed an unsupervised framework that helps scientists to better subgroup their datasets based on visual cues, please see Gao S, Mutter S, Casey A, Makinen V-P (2019) Numero: a statistical framework to define multivariable subgroups in complex population-based datasets, Int J Epidemiology, 48:369-37, <doi:10.1093/ije/dyy113>. The framework includes the necessary functions to construct a self-organizing map of the data, to evaluate the statistical significance of the observed data patterns, and to visualize the results.
Author: Song Gao [aut],
Stefan Mutter [aut],
Aaron E. Casey [aut],
Ville-Petteri Makinen [aut, cre]
Maintainer: Ville-Petteri Makinen <vpmakine@gmail.com>
Diff between Numero versions 1.9.7 dated 2024-05-11 and 1.9.8 dated 2024-09-17
DESCRIPTION | 29 ++++- MD5 | 18 +-- R/nroPermute.R | 4 inst/doc/intro.html | 184 +++++++++++++++++++------------------- src/abacus.gaussian.configure.cpp | 13 +- src/abacus.version.cpp | 2 src/koho.trainer.distance.cpp | 17 ++- src/medusa.local.h | 2 src/medusa.openfile.cpp | 2 src/nro_permute.cpp | 2 10 files changed, 149 insertions(+), 124 deletions(-)
Title: Fetch Geologic Data from the 'Macrostrat' Platform
Description: Work with the 'Macrostrat' (<https://macrostrat.org/>) Web Service
(v.2, <https://macrostrat.org/api/v2>) to fetch geological data relevant to
the spatial and temporal distribution of sedimentary, igneous, and
metamorphic rocks as well as data extracted from them.
Author: Lewis A. Jones [aut, cre, cph]
,
William Gearty [aut] ,
Christopher D. Dean [aut] ,
Bethany Allen [aut]
Maintainer: Lewis A. Jones <LewisA.Jones@outlook.com>
Diff between rmacrostrat versions 0.0.1 dated 2024-07-31 and 0.0.2 dated 2024-09-17
rmacrostrat-0.0.1/rmacrostrat/R/release.R |only rmacrostrat-0.0.2/rmacrostrat/DESCRIPTION | 14 rmacrostrat-0.0.2/rmacrostrat/MD5 | 45 - rmacrostrat-0.0.2/rmacrostrat/NEWS.md | 5 rmacrostrat-0.0.2/rmacrostrat/R/get_eodp.R | 4 rmacrostrat-0.0.2/rmacrostrat/README.md | 14 rmacrostrat-0.0.2/rmacrostrat/build/partial.rdb |binary rmacrostrat-0.0.2/rmacrostrat/build/vignette.rds |binary rmacrostrat-0.0.2/rmacrostrat/inst/doc/geologic-map.Rmd | 70 +- rmacrostrat-0.0.2/rmacrostrat/inst/doc/geologic-map.html | 70 +- rmacrostrat-0.0.2/rmacrostrat/inst/doc/geological-completeness.Rmd | 88 +-- rmacrostrat-0.0.2/rmacrostrat/inst/doc/geological-completeness.html | 262 ++++------ rmacrostrat-0.0.2/rmacrostrat/inst/doc/stratigraphic-column.Rmd | 34 - rmacrostrat-0.0.2/rmacrostrat/inst/doc/stratigraphic-column.html | 38 - rmacrostrat-0.0.2/rmacrostrat/man/figures/strat_column.png |binary rmacrostrat-0.0.2/rmacrostrat/man/get_eodp.Rd | 4 rmacrostrat-0.0.2/rmacrostrat/man/rmacrostrat-package.Rd | 2 rmacrostrat-0.0.2/rmacrostrat/vignettes/column_e-1.png |binary rmacrostrat-0.0.2/rmacrostrat/vignettes/column_f-1.png |binary rmacrostrat-0.0.2/rmacrostrat/vignettes/geologic-map.Rmd | 70 +- rmacrostrat-0.0.2/rmacrostrat/vignettes/geological-completeness.Rmd | 88 +-- rmacrostrat-0.0.2/rmacrostrat/vignettes/stratigraphic-column.Rmd | 34 - rmacrostrat-0.0.2/rmacrostrat/vignettes/visualize_counts-1.png |binary rmacrostrat-0.0.2/rmacrostrat/vignettes/visualize_proportions-1.png |binary 24 files changed, 388 insertions(+), 454 deletions(-)
Title: Density, Distribution, and Sampling Functions for Evidence
Accumulation Models
Description: Calculate the probability density functions (PDFs) for two threshold evidence
accumulation models (EAMs). These are defined using the following Stochastic
Differential Equation (SDE), dx(t) = v(x(t),t)*dt+D(x(t),t)*dW, where x(t) is
the accumulated evidence at time t, v(x(t),t) is the drift rate, D(x(t),t) is
the noise scale, and W is the standard Wiener process. The boundary conditions
of this process are the upper and lower decision thresholds, represented by b_u(t)
and b_l(t), respectively. Upper threshold b_u(t) > 0, while lower threshold b_l(t) < 0.
The initial condition of this process x(0) = z where b_l(t) < z < b_u(t). We
represent this as the relative start point w = z/(b_u(0)-b_l(0)), defined as
a ratio of the initial threshold location. This package generates the PDF using
the same approach as the 'python' package it is based upon, 'PyBEAM' by Murrow and Holmes
(2023) <doi:10.3758/s13428-023-02162-w>. First, it converts the SDE model into the
forwards Fokke [...truncated...]
Author: Raphael Hartmann [aut, cre] ,
Matthew Murrow [aut]
Maintainer: Raphael Hartmann <raphael.hartmann@protonmail.com>
Diff between ream versions 1.0-2 dated 2024-09-16 and 1.0-3 dated 2024-09-17
DESCRIPTION | 6 +++--- MD5 | 16 ++++++++-------- inst/doc/guidline.html | 4 ++-- src/Model.h | 4 ++-- src/Model_T.h | 2 +- src/Model_TW.h | 2 +- src/Model_TX.h | 2 +- src/R_wrapper.cpp | 18 ++++-------------- src/models_tw.h | 38 ++++++++++++++++++++++++++++++-------- 9 files changed, 52 insertions(+), 40 deletions(-)
Title: Create Longitudinal Google Trends Data
Description: 'Google Trends' provides cross-sectional and time-series data on searches, but lacks readily available
longitudinal data. Researchers, who want to create longitudinal 'Google Trends' on their own, face practical challenges, such as normalized counts that make it difficult to combine
cross-sectional and time-series data and limitations in data formats and timelines that limit data
granularity over extended time periods.
This package addresses these issues and enables researchers to generate longitudinal 'Google Trends' data.
This package is built on 'pytrends', a Python library that acts as the unofficial 'Google Trends API' to collect 'Google Trends' data. As long as the 'Google Trends API', 'pytrends' and all their dependencies are working, this package will work.
During testing, we noticed that for the same input (keyword, topic, data_format, timeline), the output index can vary from time to time. Besides, if the keyword is not very popular, then the resulting dataset will contain a [...truncated...]
Author: Taeyong Park [cre, cph, aut],
Malika Dixit [aut]
Maintainer: Taeyong Park <taeyongp@andrew.cmu.edu>
Diff between PytrendsLongitudinalR versions 0.1.3 dated 2024-09-15 and 0.1.4 dated 2024-09-17
DESCRIPTION | 10 ++++++---- MD5 | 10 ++++++---- R/install.R | 2 +- R/logging_config.R | 6 +++--- R/zzz.R | 5 ++--- README.md |only man/figures |only 7 files changed, 18 insertions(+), 15 deletions(-)
More information about PytrendsLongitudinalR at CRAN
Permanent link
Title: Physics-Informed Spatial and Functional Data Analysis
Description: An implementation of regression models with partial differential regularizations, making use of the Finite Element Method. The models efficiently handle data distributed over irregularly shaped domains and can comply with various conditions at the boundaries of the domain. A priori information about the spatial structure of the phenomenon under study can be incorporated in the model via the differential regularization. See Sangalli, L. M. (2021) <doi:10.1111/insr.12444> "Spatial Regression With Partial Differential Equation Regularisation" for an overview. The release 1.1-9 requires R (>= 4.2.0) to be installed on windows machines.
Author: Eleonora Arnone [aut, cre],
Aldo Clemente [aut],
Laura M. Sangalli [aut],
Eardi Lila [aut],
Jim Ramsay [aut],
Luca Formaggia [aut],
Giovanni Ardenghi [ctb],
Blerta Begu [ctb],
Michele Cavazzutti [ctb],
Alessandra Colli [ctb],
Alberto Colombo [ctb],
L [...truncated...]
Maintainer: Eleonora Arnone <eleonora.arnone@polimi.it>
Diff between fdaPDE versions 1.1-19 dated 2024-07-15 and 1.1-20 dated 2024-09-17
DESCRIPTION | 8 +++---- MD5 | 6 ++--- src/C_Libraries/FEMtriangulation.c | 40 ++++++++++++++++++------------------- src/C_Libraries/triangle.c | 14 ++++++------ 4 files changed, 34 insertions(+), 34 deletions(-)
Title: Embed 'SWI'-'Prolog'
Description: Interface to 'SWI'-'Prolog', <https://www.swi-prolog.org/>. This package is normally not loaded directly, please refer to package 'rolog' instead. The purpose of this package is to provide the 'Prolog' runtime on systems that do not have a software installation of 'SWI'-'Prolog'.
Author: Matthias Gondan [aut, com, cre] ,
Jan Wielemaker [ctb, cph] ,
European Commission [fnd]
Maintainer: Matthias Gondan <Matthias.Gondan-Rochon@uibk.ac.at>
Diff between rswipl versions 9.3.7.2 dated 2024-07-09 and 9.3.11 dated 2024-09-17
rswipl-9.3.11/rswipl/DESCRIPTION | 16 rswipl-9.3.11/rswipl/MD5 | 428 ++-- rswipl-9.3.11/rswipl/NEWS.md | 16 rswipl-9.3.11/rswipl/R/RcppExports.R | 8 rswipl-9.3.11/rswipl/R/query.R | 54 rswipl-9.3.11/rswipl/R/rswipl.R | 61 rswipl-9.3.11/rswipl/man/clear.Rd | 7 rswipl-9.3.11/rswipl/man/query.Rd | 27 rswipl-9.3.11/rswipl/man/submit.Rd | 15 rswipl-9.3.11/rswipl/man/swipl.Rd | 21 rswipl-9.3.11/rswipl/src/Makevars | 18 rswipl-9.3.11/rswipl/src/RcppExports.cpp | 20 rswipl-9.3.11/rswipl/src/install.libs.R | 2 rswipl-9.3.11/rswipl/src/rswipl.cpp | 297 ++ rswipl-9.3.11/rswipl/src/swipl-devel/CMAKE.md | 30 rswipl-9.3.11/rswipl/src/swipl-devel/README.md | 2 rswipl-9.3.11/rswipl/src/swipl-devel/VERSION | 2 rswipl-9.3.11/rswipl/src/swipl-devel/app/qlf.pl | 2 rswipl-9.3.11/rswipl/src/swipl-devel/boot/init.pl | 50 rswipl-9.3.11/rswipl/src/swipl-devel/boot/messages.pl | 7 rswipl-9.3.11/rswipl/src/swipl-devel/boot/syspred.pl | 3 rswipl-9.3.11/rswipl/src/swipl-devel/boot/toplevel.pl | 4 rswipl-9.3.11/rswipl/src/swipl-devel/cmake/Locations.cmake | 11 rswipl-9.3.11/rswipl/src/swipl-devel/cmake/Params.cmake | 17 rswipl-9.3.11/rswipl/src/swipl-devel/cmake/Utils.cmake | 2 rswipl-9.3.11/rswipl/src/swipl-devel/cmake/port/Darwin.cmake | 1 rswipl-9.3.11/rswipl/src/swipl-devel/library/build/tools.pl | 28 rswipl-9.3.11/rswipl/src/swipl-devel/library/dcg/high_order.pl | 4 rswipl-9.3.11/rswipl/src/swipl-devel/library/dialect/xsb/machine.pl | 5 rswipl-9.3.11/rswipl/src/swipl-devel/library/pprint.pl | 2 rswipl-9.3.11/rswipl/src/swipl-devel/library/prolog_colour.pl | 4 rswipl-9.3.11/rswipl/src/swipl-devel/library/prolog_pack.pl | 18 rswipl-9.3.11/rswipl/src/swipl-devel/library/shlib.pl | 18 rswipl-9.3.11/rswipl/src/swipl-devel/packages/archive/test_archive.pl | 53 rswipl-9.3.11/rswipl/src/swipl-devel/packages/clib/CMakeLists.txt | 4 rswipl-9.3.11/rswipl/src/swipl-devel/packages/clib/clib.doc | 8 rswipl-9.3.11/rswipl/src/swipl-devel/packages/clib/crypt.c | 8 rswipl-9.3.11/rswipl/src/swipl-devel/packages/clib/nonblockio.c | 20 rswipl-9.3.11/rswipl/src/swipl-devel/packages/clib/test_af_unix.pl | 8 rswipl-9.3.11/rswipl/src/swipl-devel/packages/clib/test_uuid.pl |only rswipl-9.3.11/rswipl/src/swipl-devel/packages/clib/uuid.pl | 27 rswipl-9.3.11/rswipl/src/swipl-devel/packages/cpp/CMakeLists.txt | 12 rswipl-9.3.11/rswipl/src/swipl-devel/packages/cpp/SWI-cpp2-atommap.h | 63 rswipl-9.3.11/rswipl/src/swipl-devel/packages/cpp/SWI-cpp2-flags.h |only rswipl-9.3.11/rswipl/src/swipl-devel/packages/cpp/SWI-cpp2-plx.h | 419 ++-- rswipl-9.3.11/rswipl/src/swipl-devel/packages/cpp/SWI-cpp2.cpp | 30 rswipl-9.3.11/rswipl/src/swipl-devel/packages/cpp/SWI-cpp2.h | 202 +- rswipl-9.3.11/rswipl/src/swipl-devel/packages/cpp/pl2cpp2.doc | 484 ++++ rswipl-9.3.11/rswipl/src/swipl-devel/packages/cpp/test_cpp.cpp | 493 ++++ rswipl-9.3.11/rswipl/src/swipl-devel/packages/cpp/test_cpp.pl | 121 + rswipl-9.3.11/rswipl/src/swipl-devel/packages/http/http.doc | 2 rswipl-9.3.11/rswipl/src/swipl-devel/packages/http/http_open.pl | 87 rswipl-9.3.11/rswipl/src/swipl-devel/packages/plunit/plunit.doc | 2 rswipl-9.3.11/rswipl/src/swipl-devel/packages/plunit/swi.pl | 1 rswipl-9.3.11/rswipl/src/swipl-devel/packages/sgml/sgml.doc | 6 rswipl-9.3.11/rswipl/src/swipl-devel/packages/sgml/sgml2pl.c | 4 rswipl-9.3.11/rswipl/src/swipl-devel/packages/ssl/CMakeLists.txt | 2 rswipl-9.3.11/rswipl/src/swipl-devel/packages/ssl/common.h |only rswipl-9.3.11/rswipl/src/swipl-devel/packages/ssl/config.h.cmake | 2 rswipl-9.3.11/rswipl/src/swipl-devel/packages/ssl/crypto.pl | 1 rswipl-9.3.11/rswipl/src/swipl-devel/packages/ssl/crypto4pl.c | 7 rswipl-9.3.11/rswipl/src/swipl-devel/packages/ssl/cryptolib.c | 14 rswipl-9.3.11/rswipl/src/swipl-devel/packages/ssl/ssl4pl.c | 35 rswipl-9.3.11/rswipl/src/swipl-devel/scripts/configure | 8 rswipl-9.3.11/rswipl/src/swipl-devel/scripts/macosx_bundle_fixup.sh | 24 rswipl-9.3.11/rswipl/src/swipl-devel/scripts/make-distribution | 28 rswipl-9.3.11/rswipl/src/swipl-devel/scripts/make-ppa | 15 rswipl-9.3.11/rswipl/src/swipl-devel/snap/snapcraft.yaml | 2 rswipl-9.3.11/rswipl/src/swipl-devel/src/CMakeLists.txt | 10 rswipl-9.3.11/rswipl/src/swipl-devel/src/SWI-Prolog.h | 453 ++-- rswipl-9.3.11/rswipl/src/swipl-devel/src/Tests/core/test_acyclic.pl | 39 rswipl-9.3.11/rswipl/src/swipl-devel/src/Tests/core/test_arith.pl | 412 ++++ rswipl-9.3.11/rswipl/src/swipl-devel/src/Tests/core/test_continuation.pl | 41 rswipl-9.3.11/rswipl/src/swipl-devel/src/Tests/core/test_format.pl | 26 rswipl-9.3.11/rswipl/src/swipl-devel/src/Tests/core/test_occurs_check.pl | 75 rswipl-9.3.11/rswipl/src/swipl-devel/src/Tests/core/test_read.pl | 47 rswipl-9.3.11/rswipl/src/swipl-devel/src/Tests/core/test_string.pl | 9 rswipl-9.3.11/rswipl/src/swipl-devel/src/Tests/core/test_syntax.pl |only rswipl-9.3.11/rswipl/src/swipl-devel/src/Tests/core/test_unify.pl | 39 rswipl-9.3.11/rswipl/src/swipl-devel/src/Tests/core/test_write.pl | 48 rswipl-9.3.11/rswipl/src/swipl-devel/src/Tests/files/test_pipe.pl | 2 rswipl-9.3.11/rswipl/src/swipl-devel/src/Tests/foreign/hello.c | 2 rswipl-9.3.11/rswipl/src/swipl-devel/src/Tests/save/test_saved_states.pl | 17 rswipl-9.3.11/rswipl/src/swipl-devel/src/Tests/thread_wait/test_thread_signals.pl | 41 rswipl-9.3.11/rswipl/src/swipl-devel/src/compat/sicstus.h | 14 rswipl-9.3.11/rswipl/src/swipl-devel/src/config/wincfg.h | 2 rswipl-9.3.11/rswipl/src/swipl-devel/src/libbf/cutils.c | 2 rswipl-9.3.11/rswipl/src/swipl-devel/src/libbf/cutils.h | 12 rswipl-9.3.11/rswipl/src/swipl-devel/src/libbf/libbf.c | 110 - rswipl-9.3.11/rswipl/src/swipl-devel/src/minizip/iowin32.c | 4 rswipl-9.3.11/rswipl/src/swipl-devel/src/os/pl-apple.c | 2 rswipl-9.3.11/rswipl/src/swipl-devel/src/os/pl-buffer.c | 12 rswipl-9.3.11/rswipl/src/swipl-devel/src/os/pl-codelist.c | 4 rswipl-9.3.11/rswipl/src/swipl-devel/src/os/pl-cstack.c | 38 rswipl-9.3.11/rswipl/src/swipl-devel/src/os/pl-ctype.c | 54 rswipl-9.3.11/rswipl/src/swipl-devel/src/os/pl-ctype.h | 10 rswipl-9.3.11/rswipl/src/swipl-devel/src/os/pl-file.c | 692 +++--- rswipl-9.3.11/rswipl/src/swipl-devel/src/os/pl-file.h | 6 rswipl-9.3.11/rswipl/src/swipl-devel/src/os/pl-files.c | 168 - rswipl-9.3.11/rswipl/src/swipl-devel/src/os/pl-fmt.c | 104 - rswipl-9.3.11/rswipl/src/swipl-devel/src/os/pl-glob.c | 56 rswipl-9.3.11/rswipl/src/swipl-devel/src/os/pl-locale.c | 98 rswipl-9.3.11/rswipl/src/swipl-devel/src/os/pl-option.c | 64 rswipl-9.3.11/rswipl/src/swipl-devel/src/os/pl-option.h | 2 rswipl-9.3.11/rswipl/src/swipl-devel/src/os/pl-os.c | 90 rswipl-9.3.11/rswipl/src/swipl-devel/src/os/pl-prologflag.c | 300 +-- rswipl-9.3.11/rswipl/src/swipl-devel/src/os/pl-stream.c | 96 rswipl-9.3.11/rswipl/src/swipl-devel/src/os/pl-string.c | 14 rswipl-9.3.11/rswipl/src/swipl-devel/src/os/pl-table.c | 24 rswipl-9.3.11/rswipl/src/swipl-devel/src/os/pl-table.h | 4 rswipl-9.3.11/rswipl/src/swipl-devel/src/os/pl-tai.c | 52 rswipl-9.3.11/rswipl/src/swipl-devel/src/os/pl-text.c | 169 - rswipl-9.3.11/rswipl/src/swipl-devel/src/os/pl-text.h | 4 rswipl-9.3.11/rswipl/src/swipl-devel/src/os/windows/ssl_applink.c | 4 rswipl-9.3.11/rswipl/src/swipl-devel/src/os/windows/uxnt.c | 70 rswipl-9.3.11/rswipl/src/swipl-devel/src/parms.h.cmake | 6 rswipl-9.3.11/rswipl/src/swipl-devel/src/pl-alloc-inline.h | 2 rswipl-9.3.11/rswipl/src/swipl-devel/src/pl-alloc.c | 98 rswipl-9.3.11/rswipl/src/swipl-devel/src/pl-alloc.h | 4 rswipl-9.3.11/rswipl/src/swipl-devel/src/pl-allocpool.c | 2 rswipl-9.3.11/rswipl/src/swipl-devel/src/pl-arith.c | 364 +-- rswipl-9.3.11/rswipl/src/swipl-devel/src/pl-arith.h | 4 rswipl-9.3.11/rswipl/src/swipl-devel/src/pl-atom.c | 228 +- rswipl-9.3.11/rswipl/src/swipl-devel/src/pl-attvar.c | 88 rswipl-9.3.11/rswipl/src/swipl-devel/src/pl-attvar.h | 2 rswipl-9.3.11/rswipl/src/swipl-devel/src/pl-bag.c | 24 rswipl-9.3.11/rswipl/src/swipl-devel/src/pl-btree.c | 14 rswipl-9.3.11/rswipl/src/swipl-devel/src/pl-builtin.h | 10 rswipl-9.3.11/rswipl/src/swipl-devel/src/pl-codelist.h | 4 rswipl-9.3.11/rswipl/src/swipl-devel/src/pl-comp.c | 729 +++---- rswipl-9.3.11/rswipl/src/swipl-devel/src/pl-cont.c | 24 rswipl-9.3.11/rswipl/src/swipl-devel/src/pl-copyterm.c | 91 rswipl-9.3.11/rswipl/src/swipl-devel/src/pl-coverage.c | 52 rswipl-9.3.11/rswipl/src/swipl-devel/src/pl-data.h | 2 rswipl-9.3.11/rswipl/src/swipl-devel/src/pl-dbref.c | 36 rswipl-9.3.11/rswipl/src/swipl-devel/src/pl-dde.c | 28 rswipl-9.3.11/rswipl/src/swipl-devel/src/pl-debug.c | 22 rswipl-9.3.11/rswipl/src/swipl-devel/src/pl-dict.c | 204 +- rswipl-9.3.11/rswipl/src/swipl-devel/src/pl-error.c | 123 - rswipl-9.3.11/rswipl/src/swipl-devel/src/pl-event.c | 66 rswipl-9.3.11/rswipl/src/swipl-devel/src/pl-event.h | 2 rswipl-9.3.11/rswipl/src/swipl-devel/src/pl-ext.c | 2 rswipl-9.3.11/rswipl/src/swipl-devel/src/pl-flag.c | 16 rswipl-9.3.11/rswipl/src/swipl-devel/src/pl-fli.c | 930 ++++----- rswipl-9.3.11/rswipl/src/swipl-devel/src/pl-fli.h | 106 - rswipl-9.3.11/rswipl/src/swipl-devel/src/pl-funct.c | 16 rswipl-9.3.11/rswipl/src/swipl-devel/src/pl-gc.c | 176 - rswipl-9.3.11/rswipl/src/swipl-devel/src/pl-gc.h | 8 rswipl-9.3.11/rswipl/src/swipl-devel/src/pl-gmp.c | 88 rswipl-9.3.11/rswipl/src/swipl-devel/src/pl-gvar.c | 45 rswipl-9.3.11/rswipl/src/swipl-devel/src/pl-gvar.h | 5 rswipl-9.3.11/rswipl/src/swipl-devel/src/pl-incl.h | 60 rswipl-9.3.11/rswipl/src/swipl-devel/src/pl-index.c | 128 - rswipl-9.3.11/rswipl/src/swipl-devel/src/pl-indirect.c | 14 rswipl-9.3.11/rswipl/src/swipl-devel/src/pl-init.c | 164 - rswipl-9.3.11/rswipl/src/swipl-devel/src/pl-init.h | 2 rswipl-9.3.11/rswipl/src/swipl-devel/src/pl-inline.h | 42 rswipl-9.3.11/rswipl/src/swipl-devel/src/pl-list.c | 70 rswipl-9.3.11/rswipl/src/swipl-devel/src/pl-load.c | 40 rswipl-9.3.11/rswipl/src/swipl-devel/src/pl-main.c | 6 rswipl-9.3.11/rswipl/src/swipl-devel/src/pl-modul.c | 154 - rswipl-9.3.11/rswipl/src/swipl-devel/src/pl-mutex.c | 76 rswipl-9.3.11/rswipl/src/swipl-devel/src/pl-nt.c | 76 rswipl-9.3.11/rswipl/src/swipl-devel/src/pl-ntconsole.c | 20 rswipl-9.3.11/rswipl/src/swipl-devel/src/pl-ntmain.c | 127 - rswipl-9.3.11/rswipl/src/swipl-devel/src/pl-op.c | 52 rswipl-9.3.11/rswipl/src/swipl-devel/src/pl-prims.c | 522 ++--- rswipl-9.3.11/rswipl/src/swipl-devel/src/pl-privitf.c | 32 rswipl-9.3.11/rswipl/src/swipl-devel/src/pl-pro.c | 78 rswipl-9.3.11/rswipl/src/swipl-devel/src/pl-pro.h | 2 rswipl-9.3.11/rswipl/src/swipl-devel/src/pl-proc.c | 470 ++-- rswipl-9.3.11/rswipl/src/swipl-devel/src/pl-prof.c | 76 rswipl-9.3.11/rswipl/src/swipl-devel/src/pl-qlf.c | 198 - rswipl-9.3.11/rswipl/src/swipl-devel/src/pl-read.c | 561 ++--- rswipl-9.3.11/rswipl/src/swipl-devel/src/pl-rec.c | 168 - rswipl-9.3.11/rswipl/src/swipl-devel/src/pl-ressymbol.c | 2 rswipl-9.3.11/rswipl/src/swipl-devel/src/pl-ressymbol.h | 2 rswipl-9.3.11/rswipl/src/swipl-devel/src/pl-segstack.c | 12 rswipl-9.3.11/rswipl/src/swipl-devel/src/pl-segstack.h | 24 rswipl-9.3.11/rswipl/src/swipl-devel/src/pl-setup.c | 134 - rswipl-9.3.11/rswipl/src/swipl-devel/src/pl-srcfile.c | 248 +- rswipl-9.3.11/rswipl/src/swipl-devel/src/pl-string.c | 66 rswipl-9.3.11/rswipl/src/swipl-devel/src/pl-supervisor.c | 54 rswipl-9.3.11/rswipl/src/swipl-devel/src/pl-sys.c | 8 rswipl-9.3.11/rswipl/src/swipl-devel/src/pl-tabling.c | 994 +++++----- rswipl-9.3.11/rswipl/src/swipl-devel/src/pl-term.c | 4 rswipl-9.3.11/rswipl/src/swipl-devel/src/pl-termhash.c | 36 rswipl-9.3.11/rswipl/src/swipl-devel/src/pl-termwalk.c | 36 rswipl-9.3.11/rswipl/src/swipl-devel/src/pl-thread.c | 702 +++---- rswipl-9.3.11/rswipl/src/swipl-devel/src/pl-thread.h | 8 rswipl-9.3.11/rswipl/src/swipl-devel/src/pl-trace.c | 222 +- rswipl-9.3.11/rswipl/src/swipl-devel/src/pl-transaction.c | 68 rswipl-9.3.11/rswipl/src/swipl-devel/src/pl-trie.c | 314 +-- rswipl-9.3.11/rswipl/src/swipl-devel/src/pl-undo.c | 14 rswipl-9.3.11/rswipl/src/swipl-devel/src/pl-util.c | 2 rswipl-9.3.11/rswipl/src/swipl-devel/src/pl-variant.c | 70 rswipl-9.3.11/rswipl/src/swipl-devel/src/pl-vmi.c | 180 - rswipl-9.3.11/rswipl/src/swipl-devel/src/pl-wam.c | 236 +- rswipl-9.3.11/rswipl/src/swipl-devel/src/pl-wam.h | 6 rswipl-9.3.11/rswipl/src/swipl-devel/src/pl-wrap.c | 44 rswipl-9.3.11/rswipl/src/swipl-devel/src/pl-write.c | 354 +-- rswipl-9.3.11/rswipl/src/swipl-devel/src/pl-xterm.c | 14 rswipl-9.3.11/rswipl/src/swipl-devel/src/pl-zip.c | 96 rswipl-9.3.11/rswipl/src/swipl-devel/src/swipl-ld.c | 74 rswipl-9.3.11/rswipl/src/swipl-devel/src/test.pl | 700 ------- rswipl-9.3.11/rswipl/src/swipl-devel/src/test/dmalloc.c | 8 rswipl-9.3.11/rswipl/src/swipl-devel/src/wasm/pl-wasm.c | 14 rswipl-9.3.11/rswipl/src/swipl-devel/src/win32/console/complete.c | 16 rswipl-9.3.11/rswipl/src/swipl-devel/src/win32/console/console.c | 192 - rswipl-9.3.11/rswipl/src/swipl-devel/src/win32/console/console.h | 3 rswipl-9.3.11/rswipl/src/swipl-devel/src/win32/console/edit.c | 20 rswipl-9.3.11/rswipl/src/swipl-devel/src/win32/console/history.c | 8 rswipl-9.3.11/rswipl/src/swipl-devel/src/win32/console/menu.c | 14 rswipl-9.3.11/rswipl/src/swipl-devel/src/wrap-gcc.c | 10 rswipl-9.3.11/rswipl/tests |only rswipl-9.3.7.2/rswipl/src/Makevars.old |only rswipl-9.3.7.2/rswipl/src/swipl-devel/library/checklast.pl |only rswipl-9.3.7.2/rswipl/src/swipl-devel/library/checkselect.pl |only rswipl-9.3.7.2/rswipl/src/swipl-devel/packages/ssl/util.h |only 219 files changed, 10183 insertions(+), 8519 deletions(-)
Title: Programming with Big Data -- Interface to 'ZeroMQ'
Description: 'ZeroMQ' is a well-known library for high-performance
asynchronous messaging in scalable, distributed applications. This
package provides high level R wrapper functions to easily utilize
'ZeroMQ'. We mainly focus on interactive client/server programming
frameworks. For convenience, a minimal 'ZeroMQ' library (4.2.2)
is shipped with 'pbdZMQ', which can be used if no system installation
of 'ZeroMQ' is available. A few wrapper functions compatible with
'rzmq' are also provided.
Author: Wei-Chen Chen [aut, cre],
Drew Schmidt [aut],
Christian Heckendorf [aut] ,
George Ostrouchov [aut] ,
Whit Armstrong [ctb] ,
Brian Ripley [ctb] ,
R Core team [ctb] ,
Philipp A. [ctb] ,
Elliott Sales de Andrade [ctb] ,
Spencer Aiello [ctb] ,
Paul Andre [...truncated...]
Maintainer: Wei-Chen Chen <wccsnow@gmail.com>
Diff between pbdZMQ versions 0.3-12 dated 2024-09-07 and 0.3-13 dated 2024-09-17
ChangeLog | 3 +++ DESCRIPTION | 8 ++++---- MD5 | 6 +++--- src/R_zmq.h | 2 +- 4 files changed, 11 insertions(+), 8 deletions(-)
Title: Stepwise Regression Analysis
Description: The stepwise regression analysis is a statistical technique used to identify a subset of predictor variables essential for constructing predictive models. This package performs stepwise regression analysis across various regression models such as linear, logistic, Cox proportional hazards, Poisson, Gamma, and negative binomial regression. It incorporates diverse stepwise regression algorithms like forward selection, backward elimination, and bidirectional elimination alongside the best subset method. Additionally, it offers a wide range of selection criteria, including Akaike Information Criterion (AIC), Sawa Bayesian Information Criterion (BIC), and Significance Levels (SL). We validated the output accuracy of StepReg using public datasets within the SAS software environment. To facilitate efficient model comparison and selection, StepReg allows for multiple strategies and selection metrics to be executed in a single function call. Moreover, StepReg integrates a Shiny application for [...truncated...]
Author: Junhui Li [cre] ,
Junhui Li [aut],
Kai Hu [aut],
Xiaohuan Lu [aut],
Kun Cheng [ctb],
Sushmita N Nayak [ctb],
Cesar Bautista Sotelo [ctb],
Michael A Lodato [ctb],
Robert H Brown [ctb],
Wenxin Liu [aut],
Lihua Julie Zhu [aut]
Maintainer: Junhui Li <junhui.li11@umassmed.edu>
Diff between StepReg versions 1.5.2 dated 2024-08-16 and 1.5.3 dated 2024-09-17
DESCRIPTION | 16 MD5 | 23 - R/plot.StepReg.R | 65 ++- R/stepwiseUtils.R | 40 +- R/tobacco.R |only data/tobacco.RData |only inst/doc/StepReg.R | 6 inst/doc/StepReg.Rmd | 6 inst/doc/StepReg.html | 224 ++++++------ inst/shiny/rsconnect/shinyapps.io/junhuiliumass/StepReg.dcf | 2 man/StepReg-package.Rd | 4 man/tobacco.Rd |only tests/sas_benchmark.xlsx |binary vignettes/StepReg.Rmd | 6 14 files changed, 215 insertions(+), 177 deletions(-)
Title: 'Amazon Web Services' Cost Management Services
Description: Interface to 'Amazon Web Services' cost management services,
including cost and usage reports, budgets, pricing, and more
<https://aws.amazon.com/>.
Author: David Kretch [aut],
Adam Banker [aut],
Dyfan Jones [cre],
Amazon.com, Inc. [cph]
Maintainer: Dyfan Jones <dyfan.r.jones@gmail.com>
Diff between paws.cost.management versions 0.6.1 dated 2024-05-15 and 0.7.0 dated 2024-09-17
DESCRIPTION | 10 MD5 | 89 ++-- R/billingconductor_operations.R | 96 +++- R/billingconductor_service.R | 4 R/budgets_interfaces.R | 40 +- R/budgets_operations.R | 175 +++++++- R/budgets_service.R | 7 R/costandusagereportservice_operations.R | 21 - R/costandusagereportservice_service.R | 4 R/costexplorer_operations.R | 123 ++++-- R/costexplorer_service.R | 4 R/marketplacecatalog_operations.R | 39 + R/marketplacecatalog_service.R | 4 R/marketplacecommerceanalytics_operations.R | 6 R/marketplacecommerceanalytics_service.R | 4 R/marketplaceentitlementservice_operations.R | 3 R/marketplaceentitlementservice_service.R | 4 R/marketplacemetering_operations.R | 12 R/marketplacemetering_service.R | 26 - R/paymentcryptographycontrolplane_interfaces.R | 2 R/paymentcryptographycontrolplane_operations.R | 60 ++- R/paymentcryptographycontrolplane_service.R | 4 R/paymentcryptographydataplane_interfaces.R | 38 - R/paymentcryptographydataplane_operations.R | 200 +++++----- R/paymentcryptographydataplane_service.R | 8 R/pricing_operations.R | 15 R/pricing_service.R | 4 R/savingsplans_operations.R | 30 + R/savingsplans_service.R | 4 man/budgets.Rd | 3 man/budgets_create_budget.Rd | 11 man/budgets_create_budget_action.Rd | 7 man/budgets_list_tags_for_resource.Rd |only man/budgets_tag_resource.Rd |only man/budgets_untag_resource.Rd |only man/paymentcryptographydataplane.Rd | 2 man/paymentcryptographydataplane_decrypt_data.Rd | 14 man/paymentcryptographydataplane_encrypt_data.Rd | 18 man/paymentcryptographydataplane_generate_card_validation_data.Rd | 8 man/paymentcryptographydataplane_generate_mac.Rd | 16 man/paymentcryptographydataplane_generate_pin_data.Rd | 22 - man/paymentcryptographydataplane_re_encrypt_data.Rd | 29 + man/paymentcryptographydataplane_translate_pin_data.Rd | 40 +- man/paymentcryptographydataplane_verify_auth_request_cryptogram.Rd | 26 - man/paymentcryptographydataplane_verify_card_validation_data.Rd | 10 man/paymentcryptographydataplane_verify_mac.Rd | 14 man/paymentcryptographydataplane_verify_pin_data.Rd | 30 - 47 files changed, 839 insertions(+), 447 deletions(-)
More information about paws.cost.management at CRAN
Permanent link
Title: Core Tools for Packages in the 'fable' Framework
Description: Provides tools, helpers and data structures for
developing models and time series functions for 'fable' and extension
packages. These tools support a consistent and tidy interface for time
series modelling and analysis.
Author: Mitchell O'Hara-Wild [aut, cre]
,
Rob Hyndman [aut],
Earo Wang [aut] ,
Di Cook [ctb],
George Athanasopoulos [ctb],
David Holt [ctb]
Maintainer: Mitchell O'Hara-Wild <mail@mitchelloharawild.com>
Diff between fabletools versions 0.4.2 dated 2024-04-22 and 0.5.0 dated 2024-09-17
fabletools-0.4.2/fabletools/build/fabletools.pdf |only fabletools-0.5.0/fabletools/DESCRIPTION | 11 - fabletools-0.5.0/fabletools/MD5 | 35 ++-- fabletools-0.5.0/fabletools/NAMESPACE | 4 fabletools-0.5.0/fabletools/NEWS.md | 24 +++ fabletools-0.5.0/fabletools/R/forecast.R | 96 ++++++------- fabletools-0.5.0/fabletools/R/generate.R | 42 +++-- fabletools-0.5.0/fabletools/R/irf.R |only fabletools-0.5.0/fabletools/R/mable.R | 2 fabletools-0.5.0/fabletools/R/plot.R | 18 ++ fabletools-0.5.0/fabletools/R/utils.R | 19 ++ fabletools-0.5.0/fabletools/build/stage23.rdb |binary fabletools-0.5.0/fabletools/build/vignette.rds |binary fabletools-0.5.0/fabletools/inst/WORDLIST | 3 fabletools-0.5.0/fabletools/inst/doc/extension_models.html | 44 +++-- fabletools-0.5.0/fabletools/man/IRF.Rd |only fabletools-0.5.0/fabletools/man/generate.mdl_df.Rd | 2 fabletools-0.5.0/fabletools/man/mable.Rd | 12 - fabletools-0.5.0/fabletools/tests/testthat/Rplots.pdf |binary fabletools-0.5.0/fabletools/tests/testthat/test-generate.R | 5 20 files changed, 183 insertions(+), 134 deletions(-)
Title: Estimation of Cell Infiltration Based on Cell Crosstalk
Description: A systematic biology tool was developed to identify cell infiltration via an Individualized Cell crosstalk network. 'CITMIC' first constructed a weighted cell crosstalk network by integrating Cell-target interaction information, biological process data from the Gene Ontology (GO) database, and gene transcriptomic data in a specific sample, and then, it used a network propagation algorithm on the network to identify cell infiltration for the sample. Ultimately, cell infiltration in the patient dataset was obtained by normalizing the centrality scores of the cells.
Author: Junwei Han [aut, cre, cph],
Xilong Zhao [aut]
Maintainer: Junwei Han <hanjunwei1981@163.com>
Diff between CITMIC versions 0.1.0 dated 2024-06-14 and 0.1.1 dated 2024-09-17
DESCRIPTION | 8 +-- MD5 | 24 ++++----- NAMESPACE | 5 +- R/CITMIC.R | 111 ++++++++++++++++++++++++++------------------- R/GetData_CITMIC.R | 2 R/data.R | 2 inst/doc/CITMIC.R | 10 +++- inst/doc/CITMIC.Rmd | 33 ++++++++++--- inst/doc/CITMIC.html | 121 +++++++++++++++++++++++++++++++++++++------------- man/CITMIC.Rd | 58 +++++++++++++---------- man/CITMIC_Data.Rd | 1 man/GetData_CITMIC.Rd | 2 vignettes/CITMIC.Rmd | 33 ++++++++++--- 13 files changed, 268 insertions(+), 142 deletions(-)
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2021-06-15 0.3.1
2021-06-02 0.3.0
2020-06-16 0.2.0
2020-04-16 0.1.1
2020-03-20 0.1.0
Title: Vectorised Probability Distributions
Description: Vectorised distribution objects with tools for manipulating,
visualising, and using probability distributions. Designed to allow model
prediction outputs to return distributions rather than their parameters,
allowing users to directly interact with predictive distributions in a
data-oriented workflow. In addition to providing generic replacements for
p/d/q/r functions, other useful statistics can be computed including means,
variances, intervals, and highest density regions.
Author: Mitchell O'Hara-Wild [aut, cre]
,
Matthew Kay [aut] ,
Alex Hayes [aut] ,
Rob Hyndman [aut] ,
Earo Wang [ctb] ,
Vencislav Popov [ctb]
Maintainer: Mitchell O'Hara-Wild <mail@mitchelloharawild.com>
Diff between distributional versions 0.4.0 dated 2024-02-07 and 0.5.0 dated 2024-09-17
distributional-0.4.0/distributional/tests/testthat/test-dist_categorical.R |only distributional-0.4.0/distributional/tests/testthat/test-dist_lognormal.R |only distributional-0.5.0/distributional/DESCRIPTION | 28 ++ distributional-0.5.0/distributional/MD5 | 66 ++++--- distributional-0.5.0/distributional/NAMESPACE | 46 ++++ distributional-0.5.0/distributional/NEWS.md | 40 ++++ distributional-0.5.0/distributional/R/default.R | 39 +++- distributional-0.5.0/distributional/R/dist_categorical.R | 7 distributional-0.5.0/distributional/R/dist_gev.R |only distributional-0.5.0/distributional/R/dist_gh.R |only distributional-0.5.0/distributional/R/dist_gk.R |only distributional-0.5.0/distributional/R/dist_gpd.R |only distributional-0.5.0/distributional/R/dist_missing.R | 6 distributional-0.5.0/distributional/R/dist_multivariate_normal.R | 26 +- distributional-0.5.0/distributional/R/dist_percentile.R | 38 +++- distributional-0.5.0/distributional/R/dist_sample.R | 69 ++++--- distributional-0.5.0/distributional/R/distribution.R | 37 +++ distributional-0.5.0/distributional/R/mixture.R | 76 +++++--- distributional-0.5.0/distributional/R/support.R | 27 +- distributional-0.5.0/distributional/R/transformed.R | 57 +++++- distributional-0.5.0/distributional/R/utils.R | 5 distributional-0.5.0/distributional/README.md | 28 +- distributional-0.5.0/distributional/man/dist_gev.Rd |only distributional-0.5.0/distributional/man/dist_gh.Rd |only distributional-0.5.0/distributional/man/dist_gk.Rd |only distributional-0.5.0/distributional/man/dist_gpd.Rd |only distributional-0.5.0/distributional/man/dist_multivariate_normal.Rd | 6 distributional-0.5.0/distributional/man/dist_sample.Rd | 6 distributional-0.5.0/distributional/man/distributional-package.Rd | 2 distributional-0.5.0/distributional/man/figures/README-plot-1.png |binary distributional-0.5.0/distributional/man/new_support_region.Rd | 4 distributional-0.5.0/distributional/tests/testthat/test-apply.R | 13 - distributional-0.5.0/distributional/tests/testthat/test-dist-categorical.R |only distributional-0.5.0/distributional/tests/testthat/test-dist-gh.R |only distributional-0.5.0/distributional/tests/testthat/test-dist-gk.R |only distributional-0.5.0/distributional/tests/testthat/test-dist-lognormal.R |only distributional-0.5.0/distributional/tests/testthat/test-dist-missing.R |only distributional-0.5.0/distributional/tests/testthat/test-dist-multivariate-normal.R | 9 distributional-0.5.0/distributional/tests/testthat/test-mixture.R | 83 +++++++- distributional-0.5.0/distributional/tests/testthat/test-support.R |only distributional-0.5.0/distributional/tests/testthat/test-transformations.R | 94 +++++++++- distributional-0.5.0/distributional/tests/testthat/test_gev.R |only distributional-0.5.0/distributional/tests/testthat/test_gpd.R |only 43 files changed, 638 insertions(+), 174 deletions(-)
More information about distributional at CRAN
Permanent link
Title: Bayesian Whole-Genome Regression
Description: Whole-genome regression methods on Bayesian framework fitted via EM
or Gibbs sampling, single step (<doi:10.1534/g3.119.400728>), univariate and multivariate (<doi:10.1186/s12711-022-00730-w>),
with optional kernel term and sampling techniques (<doi:10.1186/s12859-017-1582-3>).
Author: Alencar Xavier [aut, cre] ,
William Muir [aut],
David Habier [aut],
Kyle Kocak [aut],
Shizhong Xu [aut],
Katy Rainey [aut]
Maintainer: Alencar Xavier <alenxav@gmail.com>
Diff between bWGR versions 2.2.9 dated 2024-05-20 and 2.2.10 dated 2024-09-17
DESCRIPTION | 8 ++-- MD5 | 17 +++++----- R/RcppExports.R | 8 +++- R/mix.R | 6 +-- demo/multivariates.R | 30 ++++++++--------- man/bWGR.Rd | 4 +- man/mvr.Rd | 18 ++++++---- src/RcppEigen20230423.cpp | 77 ++++++++++++++++++++++++++++++++-------------- src/RcppExports.cpp | 23 +++++++++++-- src/RegisteringDynamic.c |only 10 files changed, 122 insertions(+), 69 deletions(-)
Title: Feature Extraction and Statistics for Time Series
Description: Provides a collection of features, decomposition methods,
statistical summaries and graphics functions for the analysing tidy time
series data. The package name 'feasts' is an acronym comprising of its key
features: Feature Extraction And Statistics for Time Series.
Author: Mitchell O'Hara-Wild [aut, cre],
Rob Hyndman [aut],
Earo Wang [aut],
Di Cook [ctb],
Thiyanga Talagala [ctb] ,
Leanne Chhay [ctb]
Maintainer: Mitchell O'Hara-Wild <mail@mitchelloharawild.com>
Diff between feasts versions 0.3.2 dated 2024-03-15 and 0.4.0 dated 2024-09-17
DESCRIPTION | 8 ++--- MD5 | 31 ++++++++++++---------- NAMESPACE | 4 ++ NEWS.md | 17 ++++++++++++ R/features.R | 45 +++++++++++++++++++++++++++++++++ R/graphics.R | 45 +++++++++++++++++++++++++++++---- README.md | 44 +++++++++++++++++--------------- build/vignette.rds |binary inst/doc/feasts.html | 2 - man/ACF.Rd | 2 - man/cointegration_johansen.Rd |only man/cointegration_phillips_ouliaris.Rd |only man/gg_irf.Rd |only man/gg_lag.Rd | 9 +++++- man/gg_season.Rd | 9 +++++- man/gg_subseries.Rd | 9 +++++- tests/testthat/Rplots.pdf |binary tests/testthat/test-graphics.R | 8 ++--- 18 files changed, 181 insertions(+), 52 deletions(-)
Title: Data Supporting the 'VGAM' Package
Description: Mainly data sets to accompany the VGAM package and
the book "Vector Generalized Linear and
Additive Models: With an Implementation in R" (Yee, 2015)
<DOI:10.1007/978-1-4939-2818-7>.
These are used to illustrate vector generalized
linear and additive models (VGLMs/VGAMs), and associated models
(Reduced-Rank VGLMs, Quadratic RR-VGLMs, Row-Column
Interaction Models, and constrained and unconstrained ordination
models in ecology). This package now contains some
old VGAM family functions which have been replaced by newer
ones (often because they are now special cases).
Author: Thomas Yee [aut, cre, cph] ,
James Gray [dtc]
Maintainer: Thomas Yee <t.yee@auckland.ac.nz>
Diff between VGAMdata versions 1.1-9 dated 2023-09-18 and 1.1-12 dated 2024-09-17
DESCRIPTION | 8 +- MD5 | 176 +++++++++++++++++++++++--------------------- NAMESPACE | 23 +++++ NEWS | 13 +++ R/family.fishing.R | 2 R/family.laplace.R |only R/family.vd1.R | 2 R/family.vd2.R | 125 +------------------------------ data/SardiniaHotels.rda |binary data/airbnb.ac.rda |binary data/bb.de.rda |binary data/bd.us.rda |binary data/belcap.rda |binary data/covid19.nz.rda |binary data/crashf.au.rda |binary data/crim.nz.rda |only data/crime.us.rda |binary data/ecb06it.rda |binary data/ecb14it.rda |binary data/exam1.rda |binary data/fibre15.rda |binary data/fibre1dot5.rda |binary data/flamingo.rda |binary data/gala.rda |binary data/hued.rda |binary data/huie.rda |binary data/huse.rda |binary data/mbflood.rda |binary data/oly12.rda |binary data/pirates1.rda |binary data/pirates2.rda |binary data/prison.us.rda |binary data/profs.nz.rda |binary data/rainfall.rda |binary data/rar.df.rda |binary data/rugby.rda |binary data/rugby.ties.rda |binary data/smqP.rda |binary data/students.tw.rda |binary data/trapO.rda |binary data/tube10.rda |binary data/ugss.rda |binary data/vtinpat.rda |binary data/wffc.indiv.rda |binary data/wffc.nc.rda |binary data/wffc.rda |binary data/wffc.teams.rda |binary data/xs.nz.rda |binary demo/binom2.or.R | 30 ++++--- demo/cqo.R | 71 +++++++++-------- demo/distributions.R | 8 +- demo/lmsqreg.R | 31 ++++--- demo/vgam.R | 20 ++--- demo/zipoisson.R | 33 ++++---- man/SardiniaHotels.Rd | 7 + man/alaplace3.Rd |only man/alaplaceUC.Rd |only man/bellUC.Rd | 2 man/bellff.Rd | 14 +-- man/bigamma.mckay.Rd | 10 +- man/crim.nz.Rd |only man/exam1.Rd | 159 ++++++++++++++++++++------------------- man/genpoisson.Rd | 4 - man/laplace.Rd |only man/laplaceUC.Rd |only man/loglaplace.Rd |only man/notdocumentedyet.Rd | 26 +++++- man/oalog.Rd | 28 +++---- man/oalogUC.Rd | 2 man/oapospoisson.Rd | 24 +++--- man/oazeta.Rd | 28 +++---- man/oazetaUC.Rd | 2 man/oilog.Rd | 22 ++--- man/oilogUC.Rd | 14 +-- man/oiposbinomUC.Rd | 10 +- man/oiposbinomial.Rd | 44 +++++------ man/oipospoisUC.Rd | 14 +-- man/oipospoisson.Rd | 28 +++---- man/oizeta.Rd | 28 +++---- man/oizetaUC.Rd | 8 +- man/oizipf.Rd | 22 ++--- man/oizipfUC.Rd | 12 +-- man/otlog.Rd | 24 +++--- man/otlogUC.Rd | 16 ++-- man/otpospoisUC.Rd | 14 +-- man/otpospoisson.Rd | 20 ++--- man/otzeta.Rd | 30 +++---- man/otzetaUC.Rd | 14 +-- man/posbinomUC.Rd | 4 - man/posnegbinUC.Rd | 4 - man/prison.us.Rd | 191 ++++++++++++++++++++++++------------------------ man/smqP.Rd | 5 - man/triangle.Rd |only man/triangleUC.Rd |only 94 files changed, 673 insertions(+), 699 deletions(-)