Title: Ensemble Methods for Survival Data with Time-Varying Covariates
Description: Implements the conditional inference forest and relative risk forest
algorithm to modeling left-truncated right-censored data with time-invariant
covariates, and (left-truncated) right-censored survival data with time-varying
covariates. It also provides functions to tune the parameters and evaluate the
model fit. See Yao et al. (2022) <doi:10.1177/09622802221111549>.
Author: Weichi Yao [aut, cre],
Halina Frydman [aut],
Denis Larocque [aut],
Jeffrey S. Simonoff [aut]
Maintainer: Weichi Yao <weichi.yao@gmail.com>
Diff between LTRCforests versions 0.6.5 dated 2023-10-19 and 0.7.0 dated 2023-11-29
DESCRIPTION | 8 ++++---- MD5 | 4 ++-- src/LTRCforests.c | 42 +++++++++++++++++++++--------------------- 3 files changed, 27 insertions(+), 27 deletions(-)
Title: Aggregation Operators and Preordered Sets
Description: Tools supporting multi-criteria and group decision making,
including variable number of criteria, by means of
aggregation operators, spread measures,
fuzzy logic connectives, fusion functions,
and preordered sets. Possible applications include,
but are not limited to, quality management, scientometrics,
software engineering, etc.
Author: Marek Gagolewski [aut, cre] ,
Anna Cena [ctb]
Maintainer: Marek Gagolewski <marek@gagolewski.com>
Diff between agop versions 0.2-3 dated 2020-01-08 and 0.2.4 dated 2023-11-29
DESCRIPTION | 14 +-- MD5 | 178 ++++++++++++++++++++-------------------- NEWS | 29 ++---- R/agop-package.R | 16 +-- R/agops-classical.R | 11 +- R/agops-dispersion.R | 11 +- R/agops-impact.R | 11 +- R/check-comonotonicity.R | 11 +- R/distrib-dpareto2-estimators.R | 11 +- R/distrib-dpareto2.R | 11 +- R/distrib-exp-adtest.R | 11 +- R/distrib-pareto2-adtest.R | 11 +- R/distrib-pareto2-estimators.R | 11 +- R/distrib-pareto2-ftest.R | 11 +- R/distrib-pareto2.R | 11 +- R/fuzzylogic-implication.R | 11 +- R/fuzzylogic-negation.R | 11 +- R/fuzzylogic-tconorm.R | 11 +- R/fuzzylogic-tnorm.R | 11 +- R/rel-antisymmetry.R | 11 +- R/rel-assymetry.R | 11 +- R/rel-cyclicity.R | 11 +- R/rel-examples.R | 11 +- R/rel-hasse.R | 11 +- R/rel-irreflexivity.R | 11 +- R/rel-other.R | 11 +- R/rel-reflexivity.R | 11 +- R/rel-symmetry.R | 11 +- R/rel-totality.R | 11 +- R/rel-transitivity.R | 11 +- R/visualization.R | 11 +- man/DiscretizedPareto2.Rd | 6 - man/Pareto2.Rd | 12 +- man/agop-package.Rd | 10 -- man/check_comonotonicity.Rd | 26 +++-- man/dpareto2_estimate_mle.Rd | 14 ++- man/exp_test_ad.Rd | 5 - man/fuzzylogic_implication.Rd | 7 - man/fuzzylogic_negation.Rd | 7 - man/fuzzylogic_tconorm.Rd | 7 - man/fuzzylogic_tnorm.Rd | 7 - man/index_g.Rd | 11 +- man/index_h.Rd | 11 +- man/index_lp.Rd | 11 +- man/index_maxprod.Rd | 11 +- man/index_rp.Rd | 11 +- man/index_w.Rd | 11 +- man/owa.Rd | 3 man/owmax.Rd | 3 man/pareto2_estimate_mle.Rd | 17 ++- man/pareto2_estimate_mmse.Rd | 8 + man/pareto2_test_ad.Rd | 13 +- man/pareto2_test_f.Rd | 24 +++-- man/plot_producer.Rd | 27 ++++-- man/pord_nd.Rd | 26 +++-- man/pord_spread.Rd | 26 +++-- man/pord_weakdom.Rd | 37 ++++---- man/rel_antisymmetric.Rd | 25 +++-- man/rel_asymmetric.Rd | 25 +++-- man/rel_cyclic.Rd | 25 +++-- man/rel_graph.Rd | 26 +++-- man/rel_hasse.Rd | 25 +++-- man/rel_irreflexive.Rd | 25 +++-- man/rel_reflexive.Rd | 25 +++-- man/rel_symmetric.Rd | 25 +++-- man/rel_total.Rd | 25 +++-- man/rel_transitive.Rd | 25 +++-- src/adtest.cpp | 25 ++--- src/agop.cpp | 25 ++--- src/agop.h | 27 +++--- src/agops_classical.cpp | 25 ++--- src/agops_dispersion.cpp | 25 ++--- src/agops_impact.cpp | 25 ++--- src/check_comonotonicity.cpp | 25 ++--- src/distrib_pareto2.cpp | 37 ++++---- src/fuzzylogic_implication.cpp | 25 ++--- src/fuzzylogic_negation.cpp | 25 ++--- src/fuzzylogic_tconorm.cpp | 25 ++--- src/fuzzylogic_tnorm.cpp | 25 ++--- src/prepare_arg.cpp | 27 +++--- src/rel_antisymmetry.cpp | 25 ++--- src/rel_asymmetry.cpp | 25 ++--- src/rel_cyclicity.cpp | 25 ++--- src/rel_examples.cpp | 25 ++--- src/rel_hasse.cpp | 25 ++--- src/rel_irreflexivity.cpp | 25 ++--- src/rel_reflexivity.cpp | 25 ++--- src/rel_symmetry.cpp | 25 ++--- src/rel_totality.cpp | 25 ++--- src/rel_transitivity.cpp | 25 ++--- 90 files changed, 932 insertions(+), 795 deletions(-)
Title: Dyadic Mixed Model for Pedigree Data
Description: Dyadic mixed model analysis with multi-trait responses and
pedigree-based partitioning of individual variation into a range of
environmental and genetic variance components for individual and
maternal effects. Method documented in dmmOverview.pdf; dmm is an
implementation of dispersion mean model described by
Searle et al. (1992) "Variance Components", Wiley, NY.
Author: Neville Jackson
Maintainer: Neville Jackson <nanddjackson@bigpond.com>
Diff between dmm versions 2.1-8 dated 2023-07-16 and 2.1-9 dated 2023-11-29
DESCRIPTION | 10 +-- MD5 | 22 +++---- NAMESPACE | 2 R/mdf.R | 132 +++++++++++++++++++++--------------------- inst/doc/bugs.txt | 2 inst/doc/dmmOverview.pdf |binary inst/doc/mods.txt | 4 - man/condense.dmmarray.Rd | 8 +- man/condense.dmmblockarray.Rd | 16 +++-- man/dmm-package.Rd | 15 ++-- man/dmm.Rd | 4 - man/warcolak.convert.Rd | 12 +-- 12 files changed, 121 insertions(+), 106 deletions(-)
Title: TDT Tests for Extended Haplotypes
Description: Functions and examples are provided for Transmission/disequilibrium tests
for extended marker haplotypes, as in
Clayton, D. and Jones, H. (1999) "Transmission/disequilibrium tests
for extended marker haplotypes". Amer. J. Hum. Genet., 65:1161-1169,
<doi:10.1086/302566>.
Author: David Clayton
Maintainer: Jing Hua Zhao <jinghuazhao@hotmail.com>
Diff between tdthap versions 1.2 dated 2022-10-28 and 1.3 dated 2023-11-29
ChangeLog | 4 DESCRIPTION | 8 - MD5 | 18 +-- build/vignette.rds |binary inst/doc/tdthap-paper.pdf |binary src/nuc_fam.c | 116 ++++++++++----------- src/nuc_fam.h | 16 +- src/package_native_routine_registration_skeleton.c | 2 src/similar.c | 2 src/tdt.c | 44 +++---- 10 files changed, 107 insertions(+), 103 deletions(-)
Title: Replacements for Base String Functions Powered by 'stringi'
Description: English is the native language for only 5% of the World population.
Also, only 17% of us can understand this text. Moreover, the Latin alphabet
is the main one for merely 36% of the total.
The early computer era, now a very long time ago, was dominated by the US.
Due to the proliferation of the internet, smartphones, social media, and
other technologies and communication platforms, this is no longer the case.
This package replaces base R string functions (such as grep(),
tolower(), sprintf(), and strptime()) with ones that fully
support the Unicode standards related to natural language and
date-time processing. It also fixes some long-standing inconsistencies,
and introduces some new, useful features.
Thanks to 'ICU' (International Components for Unicode) and 'stringi',
they are fast, reliable, and portable across different platforms.
Author: Marek Gagolewski [aut, cre, cph]
Maintainer: Marek Gagolewski <marek@gagolewski.com>
Diff between stringx versions 0.2.5 dated 2023-05-21 and 0.2.6 dated 2023-11-29
DESCRIPTION | 8 ++--- MD5 | 54 +++++++++++++++++++-------------------- NEWS | 12 +++++++- R/ISOdatetime.R | 2 - R/about_stringx.R | 2 - R/chartr.R | 2 - R/common.R | 2 - R/constants.R | 2 - R/gregexpr.R | 2 - R/gregextr.R | 2 - R/grepl.R | 2 - R/gsub.R | 2 - R/nchar.R | 2 - R/paste.R | 2 - R/sort.R | 2 - R/sprintf.R | 2 - R/startswith.R | 2 - R/strcoll.R | 2 - R/strptime.R | 18 +++++++------ R/strrep.R | 2 - R/strsplit.R | 2 - R/strtrim.R | 2 - R/strwrap.R | 2 - R/substr.R | 2 - R/trimws.R | 2 - inst/realtest/strptime-all.R | 12 ++++++++ inst/realtest/strptime-stringx.R | 8 +++++ man/strptime.Rd | 11 ++++--- 28 files changed, 99 insertions(+), 66 deletions(-)
Title: Data on Base and Recommended Packages for Current and Previous
Versions of R
Description: Provides a dataset of functions in all base and recommended packages of R versions 0.50 onwards.
Author: David Hugh-Jones [aut, cre]
Maintainer: David Hugh-Jones <davidhughjones@gmail.com>
Diff between rcheology versions 4.3.1.1 dated 2023-11-08 and 4.3.2.0 dated 2023-11-29
DESCRIPTION | 11 ++--- MD5 | 18 ++++---- NEWS.md | 14 ++++++ R/rcheology.R | 28 +++++++++--- README.md | 67 ++++++++++++++++++++++--------- data/rcheology.rda |binary man/figures/README-unnamed-chunk-6-1.png |binary man/figures/README-unnamed-chunk-7-1.png |binary man/rcheology-package.Rd | 21 ++++++--- man/rcheology.Rd | 10 +++- 10 files changed, 120 insertions(+), 49 deletions(-)
Title: R Graphics Output in LaTeX Format
Description: Provides a graphics output device for R that records plots
in a LaTeX-friendly format. The device transforms plotting
commands issued by R functions into LaTeX code blocks. When
included in a LaTeX document, these blocks are interpreted with
the help of 'TikZ'---a graphics package for TeX and friends
written by Till Tantau. Using the 'tikzDevice', the text of R
plots can contain LaTeX commands such as mathematical formula.
The device also allows arbitrary LaTeX code to be inserted into
the output stream.
Author: Charlie Sharpsteen [aut],
Cameron Bracken [aut],
Kirill Mueller [ctb],
Yihui Xie [ctb],
Ralf Stubner [cre],
Nico Bellack [ctb]
Maintainer: Ralf Stubner <ralf.stubner@gmail.com>
Diff between tikzDevice versions 0.12.5 dated 2023-08-17 and 0.12.6 dated 2023-11-29
DESCRIPTION | 6 - MD5 | 30 ++++---- NEWS.md | 7 + build/vignette.rds |binary inst/doc/tikzDevice.pdf |binary src/tikzDevice.c | 107 ++++++++++++++---------------- src/tikzDevice.h | 88 ++++++++++++------------ tests/testthat/Rplots.tex |only tests/testthat/Rplots_colors.tex |only vignettes/figs/annotation.tex | 94 +++++++++++--------------- vignettes/figs/figstandAloneExample-1.pdf |only vignettes/figs/latexEx.tex | 82 ++++++++-------------- vignettes/figs/pdf-example.pdf |binary vignettes/figs/simpleEx.tex | 2 vignettes/figs/tikz-example.tex | 2 vignettes/figs/titlePlot.tex | 2 vignettes/figs/westCoast.tex | 2 vignettes/tikzDevice-concordance.tex |only 18 files changed, 200 insertions(+), 222 deletions(-)
Title: A Collection of Functions for Negligible Effect/Equivalence
Testing
Description: Researchers often want to evaluate whether there is a negligible
relationship among variables. The 'negligible' package provides functions that
are useful for conducting negligible effect testing (also called
equivalence testing). For example, there are functions for evaluating the
equivalence of means or the presence of a negligible association
(correlation or regression). Beribisky, N., Mara, C., & Cribbie, R. A. (2020) <doi:10.20982/tqmp.16.4.p424>.
Beribisky, N., Davidson, H., Cribbie, R. A. (2019) <doi:10.7717/peerj.6853>.
Shiskina, T., Farmus, L., & Cribbie, R. A. (2018) <doi:10.20982/tqmp.14.3.p167>.
Mara, C. & Cribbie, R. A. (2017) <doi:10.1080/00220973.2017.1301356>.
Counsell, A. & Cribbie, R. A. (2015) <doi:10.1111/bmsp.12045>.
van Wieringen, K. & Cribbie, R. A. (2014) <doi:10.1111/bmsp.12015>.
Goertzen, J. R. & Cribbie, R. A. (2010) <doi:10.1348/000711009x475853>.
Cribbie, R. A., Gruman, J. & Arpin-Cribbi [...truncated...]
Author: Robert Cribbie [aut, cre],
Udi Alter [aut],
Nataly Beribisky [aut],
Phil Chalmers [aut],
Alyssa Counsell [aut],
Linda Farmus [aut],
Naomi Martinez Gutierrez [aut],
Victoria Ng [ctb]
Maintainer: Robert Cribbie <cribbie@yorku.ca>
Diff between negligible versions 0.1.4 dated 2023-11-11 and 0.1.5 dated 2023-11-29
DESCRIPTION | 6 MD5 | 4 R/neg.pd.R | 395 ++++++++++++++++++++++++++++++------------------------------ 3 files changed, 204 insertions(+), 201 deletions(-)
Title: Fast Pseudo Random Number Generators
Description: Several fast random number generators are provided as C++
header only libraries: The PCG family by O'Neill (2014
<https://www.cs.hmc.edu/tr/hmc-cs-2014-0905.pdf>) as well as
Xoroshiro128+ and Xoshiro256+ by Blackman and Vigna (2018
<arXiv:1805.01407>). In addition fast functions for generating random
numbers according to a uniform, normal and exponential distribution
are included. The latter two use the Ziggurat algorithm originally
proposed by Marsaglia and Tsang (2000, <doi:10.18637/jss.v005.i08>).
The fast sampling methods support unweighted sampling both with and without
replacement. These functions are exported to R and as a C++ interface and are
enabled for use with the default 64 bit generator from the PCG family,
Xoroshiro128+ and Xoshiro256+ as well as the 64 bit version of the 20 rounds
Threefry engine (Salmon et al., 2011, <doi:10.1145/2063384.2063405>) as
provided by the package 'sitmo'.
Author: Ralf Stubner [aut, cre],
daqana GmbH [cph],
David Blackman [ctb],
Melissa O'Neill [ctb],
Sebastiano Vigna [ctb],
Aaron Lun [ctb],
Kyle Butts [ctb]
Maintainer: Ralf Stubner <ralf.stubner@gmail.com>
Diff between dqrng versions 0.3.1 dated 2023-08-30 and 0.3.2 dated 2023-11-29
DESCRIPTION | 6 +++--- MD5 | 22 +++++++++++----------- NEWS.md | 4 ++++ build/partial.rdb |binary build/vignette.rds |binary inst/doc/cpp-api.html | 4 ++-- inst/doc/dqrng.html | 28 ++++++++++++++-------------- inst/doc/parallel.R | 2 +- inst/doc/parallel.html | 4 ++-- inst/doc/sample.R | 16 ++++++++-------- inst/doc/sample.html | 4 ++-- src/RcppExports.cpp | 22 +++++++++++----------- 12 files changed, 58 insertions(+), 54 deletions(-)
Title: Convolution of Gamma Distributions
Description: Evaluation for density and distribution function of convolution of gamma
distributions in R. Two related exact methods and one approximate method are
implemented with efficient algorithm and C++ code. A quick guide for choosing
correct method and usage of this package is given in package vignette. For the
detail of methods used in this package, we refer the user to
Mathai(1982)<doi:10.1007/BF02481056>,
Moschopoulos(1984)<doi:10.1007/BF02481123>,
Barnabani(2017)<doi:10.1080/03610918.2014.963612>,
Hu et al.(2020)<doi:10.1007/s00180-019-00924-9>.
Author: Chaoran Hu [aut, cre],
Vladimir Pozdnyakov [ths],
Jun Yan [ths]
Maintainer: Chaoran Hu <chaoran.hu@uconn.edu>
Diff between coga versions 1.2.0 dated 2023-08-19 and 1.2.1 dated 2023-11-29
DESCRIPTION | 8 ++++---- MD5 | 12 ++++++------ NEWS.md | 7 +++++++ configure | 18 +++++++++--------- configure.ac | 2 +- inst/CITATION | 4 ++-- src/RcppExports.cpp | 48 ++++++++++++++++++++++++------------------------ 7 files changed, 53 insertions(+), 46 deletions(-)
Title: Size-Constrained Clustering
Description: Provides wrappers for 'scclust', a C library for computationally efficient
size-constrained clustering with near-optimal performance.
See <https://github.com/fsavje/scclust> for more information.
Author: Fredrik Savje [aut, cre],
Michael Higgins [aut],
Jasjeet Sekhon [aut]
Maintainer: Fredrik Savje <fredrik.savje@yale.edu>
Diff between scclust versions 0.2.3 dated 2023-04-24 and 0.2.4 dated 2023-11-29
DESCRIPTION | 8 ++++---- MD5 | 6 +++--- NEWS.md | 4 +++- src/error.c | 4 ++-- 4 files changed, 12 insertions(+), 10 deletions(-)
Title: Visualization and Post-Processing of 'RevBayes' Analyses
Description: Processes and visualizes the output of complex phylogenetic analyses from the 'RevBayes' phylogenetic graphical modeling software.
Author: Carrie Tribble [aut, cre] ,
Michael R. May [aut],
William A. Freyman [aut],
Michael J. Landis [aut],
Lim Jun Ying [aut],
Joelle Barido-Sottani [aut],
Andrew Magee [aut],
Bjorn Tore Kopperud [aut],
Sebastian Hohna [aut],
Nagashima Kengo [ctb],
Schliep [...truncated...]
Maintainer: Carrie Tribble <ctribble09@gmail.com>
Diff between RevGadgets versions 1.2.0 dated 2023-11-16 and 1.2.1 dated 2023-11-29
DESCRIPTION | 6 +++--- MD5 | 8 ++++---- NEWS.md | 3 +++ inst/extdata/graphs/plotPopSizes.rds |binary tests/testthat/test_plotPopSizes.R | 4 ++-- 5 files changed, 12 insertions(+), 9 deletions(-)
Title: Quick Generalized Full Matching
Description: Provides functions for constructing near-optimal generalized full matching.
Generalized full matching is an extension of the original full matching method
to situations with more intricate study designs. The package is made with
large data sets in mind and derives matches more than an order of magnitude
quicker than other methods.
Author: Fredrik Savje [aut, cre],
Jasjeet Sekhon [aut],
Michael Higgins [aut]
Maintainer: Fredrik Savje <fredrik.savje@yale.edu>
Diff between quickmatch versions 0.2.1 dated 2018-08-24 and 0.2.2 dated 2023-11-29
DESCRIPTION | 10 +++++----- MD5 | 16 ++++++++-------- NEWS.md | 5 +++++ README.md | 7 ++----- man/covariate_averages.Rd | 3 +-- man/covariate_balance.Rd | 10 ++++++++-- man/lm_match.Rd | 3 +-- man/quickmatch.Rd | 11 +++++++++-- src/error.c | 2 +- 9 files changed, 40 insertions(+), 27 deletions(-)
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2023-09-13 1.2.8
2018-10-01 1.2.7
2018-03-01 1.2.4
2017-09-01 1.1.6
2017-08-09 1.1.4
2017-01-05 1.1.3
2015-08-05 1.1.2
2015-02-03 1.1.1
2013-07-18 1.1.0
2013-06-06 1.0.9
2012-02-01 1.0.8
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2016-09-09 0.0.8
Title: R and C++ Interfaces to 'spdlog' C++ Header Library for Logging
Description: The mature and widely-used C++ logging library 'spdlog' by Gabi Melman provides
many desirable features. This package bundles these header files for easy use by R packages
from both their R and C or C++ code. Explicit use via 'LinkingTo:' is also supported. Also
see the 'spdl' package which enhanced this package with a consistent R and C++ interface.
Author: Dirk Eddelbuettel
Maintainer: Dirk Eddelbuettel <edd@debian.org>
Diff between RcppSpdlog versions 0.0.14 dated 2023-07-10 and 0.0.15 dated 2023-11-29
ChangeLog | 9 +++++++++ DESCRIPTION | 8 ++++---- MD5 | 14 +++++++------- build/partial.rdb |binary build/vignette.rds |binary inst/NEWS.Rd | 8 ++++++++ man/RcppSpdlog-package.Rd | 13 +------------ src/RcppExports.cpp | 32 ++++++++++++++++---------------- 8 files changed, 45 insertions(+), 39 deletions(-)
Title: Epidemic/Network-Related Tools
Description: A collection of epidemic/network-related tools. Simulates transmission of diseases through contact networks. Performs Bayesian inference on network and epidemic parameters, given epidemic data.
Author: Chris Groendyke [aut, cre],
David Welch [aut],
David Hunter [ctb]
Maintainer: Chris Groendyke <cgroendyke@gmail.com>
Diff between epinet versions 2.1.8 dated 2018-02-13 and 2.1.11 dated 2023-11-29
DESCRIPTION | 8 ++++---- MD5 | 8 ++++---- man/Hagelloch.Rd | 2 +- man/ess.Rd | 2 -- src/NetworkEpiMCMCSEIR.c | 2 +- 5 files changed, 10 insertions(+), 12 deletions(-)
Title: Causal Inference with Tree-Based Machine Learning Algorithms
Description: Estimating heterogeneous treatment effects with tree-based machine
learning algorithms and visualizing estimated results in flexible and
presentation-ready ways. For more information, see Brand, Xu, Koch,
and Geraldo (2021) <doi:10.1177/0081175021993503>. Our current package
first started as a fork of the 'causalTree' package on 'GitHub' and we
greatly appreciate the authors for their extremely useful and free package.
Author: Jiahui Xu [cre, aut],
Tanvi Shinkre [aut],
Jennie Brand [aut]
Maintainer: Jiahui Xu <jiahuixu@ucla.edu>
Diff between htetree versions 0.1.17 dated 2023-08-12 and 0.1.18 dated 2023-11-29
DESCRIPTION | 6 +++--- MD5 | 20 ++++++++++---------- R/causalForest.R | 2 +- R/causalTree.R | 2 +- man/causalForest.Rd | 2 +- man/causalTree.Rd | 2 +- man/causalTree.control.Rd | 2 +- man/honest.causalTree.Rd | 2 +- man/honest.rparttree.Rd | 2 +- man/model.frame.causalTree.Rd | 2 +- src/causalTree.c | 3 ++- 11 files changed, 23 insertions(+), 22 deletions(-)
Title: R Bindings to the 'Fstlib' Library
Description: The 'fstlib' library provides multithreaded serialization of compressed data frames using the
'fst' format. The 'fst' format allows for random access of stored data and compression with the 'LZ4' and 'ZSTD'
compressors.
Author: Mark Klik [aut, cre, cph] ,
Yuta Mori [ctb, cph] ,
Przemyslaw Skibinski [ctb, cph] ,
Tino Reichardt [ctb, cph] ,
Yann Collet [ctb, cph] ,
Facebook, Inc. [cph]
Maintainer: Mark Klik <markklik@gmail.com>
Diff between fstcore versions 0.9.14 dated 2023-01-12 and 0.9.16 dated 2023-11-29
fstcore-0.9.14/fstcore/src/fstlib/CMakeLists.txt |only fstcore-0.9.14/fstcore/src/fstlib/LZ4/CMakeLists.txt |only fstcore-0.9.14/fstcore/src/fstlib/ZSTD/CMakeLists.txt |only fstcore-0.9.14/fstcore/tests/testthat/data |only fstcore-0.9.16/fstcore/DESCRIPTION | 8 fstcore-0.9.16/fstcore/MD5 | 159 fstcore-0.9.16/fstcore/NEWS.md | 13 fstcore-0.9.16/fstcore/R/RcppExports.R | 2 fstcore-0.9.16/fstcore/README.md | 4 fstcore-0.9.16/fstcore/cleanup | 2 fstcore-0.9.16/fstcore/configure | 2 fstcore-0.9.16/fstcore/man/figures |only fstcore-0.9.16/fstcore/src/Makevars.in | 1 fstcore-0.9.16/fstcore/src/Makevars.win | 1 fstcore-0.9.16/fstcore/src/RcppExports.cpp | 24 fstcore-0.9.16/fstcore/src/fstlib/LZ4/LICENSE | 48 fstcore-0.9.16/fstcore/src/fstlib/ZSTD/common/allocations.h |only fstcore-0.9.16/fstcore/src/fstlib/ZSTD/common/bits.h |only fstcore-0.9.16/fstcore/src/fstlib/ZSTD/common/bitstream.h | 79 fstcore-0.9.16/fstcore/src/fstlib/ZSTD/common/compiler.h | 29 fstcore-0.9.16/fstcore/src/fstlib/ZSTD/common/cpu.h | 2 fstcore-0.9.16/fstcore/src/fstlib/ZSTD/common/debug.c | 2 fstcore-0.9.16/fstcore/src/fstlib/ZSTD/common/debug.h | 2 fstcore-0.9.16/fstcore/src/fstlib/ZSTD/common/entropy_common.c | 52 fstcore-0.9.16/fstcore/src/fstlib/ZSTD/common/error_private.c | 11 fstcore-0.9.16/fstcore/src/fstlib/ZSTD/common/error_private.h | 2 fstcore-0.9.16/fstcore/src/fstlib/ZSTD/common/fse.h | 88 fstcore-0.9.16/fstcore/src/fstlib/ZSTD/common/fse_decompress.c | 106 fstcore-0.9.16/fstcore/src/fstlib/ZSTD/common/huf.h | 221 - fstcore-0.9.16/fstcore/src/fstlib/ZSTD/common/mem.h | 89 fstcore-0.9.16/fstcore/src/fstlib/ZSTD/common/pool.c | 36 fstcore-0.9.16/fstcore/src/fstlib/ZSTD/common/pool.h | 8 fstcore-0.9.16/fstcore/src/fstlib/ZSTD/common/portability_macros.h | 27 fstcore-0.9.16/fstcore/src/fstlib/ZSTD/common/threading.c | 82 fstcore-0.9.16/fstcore/src/fstlib/ZSTD/common/threading.h | 15 fstcore-0.9.16/fstcore/src/fstlib/ZSTD/common/xxhash.c | 4 fstcore-0.9.16/fstcore/src/fstlib/ZSTD/common/xxhash.h | 16 fstcore-0.9.16/fstcore/src/fstlib/ZSTD/common/zstd_common.c | 37 fstcore-0.9.16/fstcore/src/fstlib/ZSTD/common/zstd_deps.h | 2 fstcore-0.9.16/fstcore/src/fstlib/ZSTD/common/zstd_internal.h | 135 fstcore-0.9.16/fstcore/src/fstlib/ZSTD/common/zstd_trace.h | 6 fstcore-0.9.16/fstcore/src/fstlib/ZSTD/compress/clevels.h | 2 fstcore-0.9.16/fstcore/src/fstlib/ZSTD/compress/fse_compress.c | 131 fstcore-0.9.16/fstcore/src/fstlib/ZSTD/compress/hist.c | 2 fstcore-0.9.16/fstcore/src/fstlib/ZSTD/compress/hist.h | 2 fstcore-0.9.16/fstcore/src/fstlib/ZSTD/compress/huf_compress.c | 403 +- fstcore-0.9.16/fstcore/src/fstlib/ZSTD/compress/zstd_compress.c | 1779 ++++++---- fstcore-0.9.16/fstcore/src/fstlib/ZSTD/compress/zstd_compress_internal.h | 376 +- fstcore-0.9.16/fstcore/src/fstlib/ZSTD/compress/zstd_compress_literals.c | 154 fstcore-0.9.16/fstcore/src/fstlib/ZSTD/compress/zstd_compress_literals.h | 24 fstcore-0.9.16/fstcore/src/fstlib/ZSTD/compress/zstd_compress_sequences.c | 6 fstcore-0.9.16/fstcore/src/fstlib/ZSTD/compress/zstd_compress_sequences.h | 2 fstcore-0.9.16/fstcore/src/fstlib/ZSTD/compress/zstd_compress_superblock.c | 46 fstcore-0.9.16/fstcore/src/fstlib/ZSTD/compress/zstd_compress_superblock.h | 2 fstcore-0.9.16/fstcore/src/fstlib/ZSTD/compress/zstd_cwksp.h | 190 - 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Title: Parametric Ordinary Differential Equations Model of Growth,
Death, and Respiration of Macroinvertebrate and Algae Taxa
Description: Numerically solve and plot solutions of a parametric ordinary
differential equations model of growth, death, and respiration of
macroinvertebrate and algae taxa dependent on pre-defined environmental
factors. The model (version 1.0) is introduced in Schuwirth, N. and
Reichert, P., (2013) <DOI:10.1890/12-0591.1>. This package includes
model extensions and the core functions introduced and used in
Schuwirth, N. et al. (2016) <DOI:10.1111/1365-2435.12605>,
Kattwinkel, M. et al. (2016) <DOI:10.1021/acs.est.5b04068>,
Mondy, C. P., and Schuwirth, N. (2017) <DOI:10.1002/eap.1530>,
and Paillex, A. et al. (2017) <DOI:10.1111/fwb.12927>.
Author: Nele Schuwirth, Peter Reichert, Mikolaj Rybinski
Maintainer: Nele Schuwirth <nele.schuwirth@eawag.ch>
Diff between streambugs versions 1.3 dated 2023-01-27 and 1.4 dated 2023-11-29
DESCRIPTION | 10 MD5 | 78 NAMESPACE | 56 R/get_par_trait_cond.r | 10 R/streambugs-package.r | 14 R/streambugs.r | 1162 R/streambugs_aux.r | 3202 R/streambugs_aux_indval_vec.R | 776 R/streambugs_aux_proc.r | 982 R/streambugs_c.r | 498 R/streambugs_examples.r | 628 R/streambugs_plot.r | 1024 inst/extdata/extended_example-pars.tsv | 5052 - inst/extdata/extended_example-vars_sourcepooltaxa.tsv | 74 man/construct.statevariables.Rd | 88 man/count.feeding.links.Rd | 60 man/decode.statevarnames.Rd | 70 man/foodweb.plot.Rd | 162 man/plot.streambugs.Rd | 60 man/run.streambugs.Rd | 208 man/streambugs-package.Rd | 42 man/streambugs.example.model.extended.Rd | 68 man/streambugs.example.model.toy.Rd | 78 man/streambugs.get.sys.def.Rd | 82 man/streambugs.write.sys.def.Rd | 52 src/streambugs_rhs.c | 17 tests/benchmarks/run_for_toy.R | 348 tests/testthat.R | 8 tests/testthat/extended_example_res_C.csv | 404 tests/testthat/extended_example_sysdef.dat |41028 +++++----- tests/testthat/get_inpind_parval_envcond_habitat-minimum_example.json | 296 tests/testthat/helper_test_example.R | 172 tests/testthat/minimum_example_res_C.csv | 404 tests/testthat/minimum_example_res_R.csv | 404 tests/testthat/minimum_example_sysdef.dat | 4420 - tests/testthat/run_extended_example.R | 86 tests/testthat/run_minimum_example.R | 210 tests/testthat/test_aux.R | 688 tests/testthat/test_extended_example.R | 82 tests/testthat/test_minimum_example.R | 112 40 files changed, 31608 insertions(+), 31607 deletions(-)
Title: R Bindings to the Calendaring Functionality of 'QuantLib'
Description: 'QuantLib' bindings are provided for R using 'Rcpp' via an updated
variant of the header-only 'Quantuccia' project (put together initially by Peter
Caspers) offering an essential subset of 'QuantLib' (and now maintained separately
for the calendaring subset). See the included file 'AUTHORS' for a full list of
contributors to both 'QuantLib' and 'Quantuccia'.
Author: Dirk Eddelbuettel; the authors and contributors of QuantLib
Maintainer: Dirk Eddelbuettel <edd@debian.org>
Diff between RcppQuantuccia versions 0.1.1 dated 2022-10-19 and 0.1.2 dated 2023-11-29
ChangeLog | 16 ++++++++++++++++ DESCRIPTION | 8 ++++---- MD5 | 14 +++++++------- R/RcppExports.R | 2 +- build/partial.rdb |binary inst/NEWS.Rd | 7 +++++++ src/Makevars | 5 +++-- src/RcppExports.cpp | 28 ++++++++++++++-------------- 8 files changed, 52 insertions(+), 28 deletions(-)
More information about RcppQuantuccia at CRAN
Permanent link
Title: Quick Threshold Blocking
Description: Provides functions for assigning treatments in randomized experiments using
near-optimal threshold blocking. The package is made with large data sets in
mind and derives blocks more than an order of magnitude quicker than other
methods.
Author: Fredrik Savje [aut, cre],
Jasjeet Sekhon [aut],
Michael Higgins [aut]
Maintainer: Fredrik Savje <fredrik.savje@yale.edu>
Diff between quickblock versions 0.2.0 dated 2018-08-21 and 0.2.1 dated 2023-11-29
DESCRIPTION | 12 ++++++------ MD5 | 16 ++++++++-------- NEWS.md | 5 +++++ R/quickblock-package.R | 1 - R/quickblock.R | 1 - README.md | 7 ++----- man/quickblock-package.Rd | 1 - man/quickblock.Rd | 10 +++++++--- src/error.c | 2 +- 9 files changed, 29 insertions(+), 26 deletions(-)
Title: Probability Theory for Selecting Candidates in Plant Breeding
Description: Use probability theory under the Bayesian framework for calculating the risk of selecting candidates in a multi-environment context [Dias et al. (2022) <doi:10.1007/s00122-022-04041-y>]. Contained are functions used to fit a Bayesian multi-environment model (based on the available presets), extract posterior values and maximum posterior values, compute the variance components, check the model’s convergence, and calculate the probabilities. For both across and within-environments scopes, the package computes the probability of superior performance and the pairwise probability of superior performance. Furthermore, the probability of superior stability and the pairwise probability of superior stability across environments is estimated. A joint probability of superior performance and stability is also provided.
Author: Saulo Chaves [aut, cre] ,
Kaio Dias [aut, cph] ,
Matheus Krause [aut]
Maintainer: Saulo Chaves <saulo.chaves@ufv.br>
Diff between ProbBreed versions 1.0.3 dated 2023-10-03 and 1.0.3.1 dated 2023-11-29
DESCRIPTION | 6 MD5 | 27 +-- R/bayes_met.R | 459 ++++++++++++++++++++++++++++++++++-------------------- R/extr_outs.R | 37 ++-- R/maize.R |only R/prob_sup.R | 302 +++++++++++++++++------------------ R/soy.R | 60 +++---- README.md | 20 +- build/partial.rdb |binary data/maize.rda |only data/soy.rda |binary man/bayes_met.Rd | 145 +++++++++++++---- man/extr_outs.Rd | 21 +- man/maize.Rd |only man/prob_sup.Rd | 44 ++--- man/soy.Rd | 4 16 files changed, 666 insertions(+), 459 deletions(-)
Title: Multivariate Comparative Tools for Fitting Evolutionary Models
to Morphometric Data
Description: Fits multivariate (Brownian Motion, Early Burst, ACDC, Ornstein-Uhlenbeck and Shifts) models of continuous traits evolution on trees and time series. 'mvMORPH' also proposes high-dimensional multivariate comparative tools (linear models using Generalized Least Squares and multivariate tests) based on penalized likelihood. See
Clavel et al. (2015) <DOI:10.1111/2041-210X.12420>, Clavel et al. (2019) <DOI:10.1093/sysbio/syy045>, and Clavel & Morlon (2020) <DOI:10.1093/sysbio/syaa010>.
Author: Julien Clavel, with contributions from Aaron King, and Emmanuel Paradis
Maintainer: Julien Clavel <julien.clavel@hotmail.fr>
Diff between mvMORPH versions 1.1.7 dated 2023-03-13 and 1.1.8 dated 2023-11-29
DESCRIPTION | 8 +- MD5 | 42 +++++++------- NAMESPACE | 5 + NEWS.md | 7 ++ R/estim.r | 5 + R/fun.r | 48 ++++++++++++++++ R/mvBMTS.r | 2 R/mvOUTS.r | 2 R/mvSIM.r | 2 R/mvgls.dfa.r | 8 +- R/mvmorphPrecalc.r | 2 R/penalized.r | 1 R/plot_methods.r | 117 ++++++++++++++++++++++++++++++++++++++++ R/zzz.r | 2 README.md | 9 +-- data/phyllostomid.rda |binary inst/doc/How_to_use_mvMORPH.pdf |binary inst/doc/tutorial_mvMORPH.pdf |binary man/dfaShape.Rd |only man/mvMORPH-package.Rd | 2 man/mvgls.dfa.Rd | 2 man/pcaShape.Rd |only src/pic_loglik_mvmorph.c | 2 23 files changed, 220 insertions(+), 46 deletions(-)
Title: Combining Tree-Boosting with Gaussian Process and Mixed Effects
Models
Description: An R package that allows for combining tree-boosting with Gaussian process and mixed effects models. It also allows for independently doing tree-boosting as well as inference and prediction for Gaussian process and mixed effects models. See <https://github.com/fabsig/GPBoost> for more information on the software and Sigrist (2022, JMLR) <https://www.jmlr.org/papers/v23/20-322.html> and Sigrist (2023, TPAMI) <doi:10.1109/TPAMI.2022.3168152> for more information on the methodology.
Author: Fabio Sigrist [aut, cre],
Pascal Kuendig [aut],
Benoit Jacob [cph],
Gael Guennebaud [cph],
Nicolas Carre [cph],
Pierre Zoppitelli [cph],
Gauthier Brun [cph],
Jean Ceccato [cph],
Jitse Niesen [cph],
Other authors of Eigen for the included version of E [...truncated...]
Maintainer: Fabio Sigrist <fabiosigrist@gmail.com>
Diff between gpboost versions 1.2.6 dated 2023-10-24 and 1.2.7 dated 2023-11-29
DESCRIPTION | 8 MD5 | 15 R/GPModel.R | 68 - configure.ac | 2 inst |only src/gpboost_R.cpp | 33 tests/testthat/test_GPModel_grouped_random_effects.R | 1239 +++++++++---------- tests/testthat/test_GPModel_non_Gaussian_data.R | 37 tests/testthat/test_z_GPBoost_algorithm.R | 10 9 files changed, 740 insertions(+), 672 deletions(-)
Title: Control Polygon Reduction
Description: Implementation of the Control Polygon Reduction and Control Net
Reduction methods for finding parsimonious B-spline regression models.
Author: Peter DeWitt [aut, cre] ,
Samantha MaWhinney [ths],
Nichole Carlson [ths]
Maintainer: Peter DeWitt <dewittpe@gmail.com>
Diff between cpr versions 0.2.3 dated 2017-03-07 and 0.3.0 dated 2023-11-29
cpr-0.2.3/cpr/R/is.R |only cpr-0.2.3/cpr/README.md |only cpr-0.2.3/cpr/man/is.Rd |only cpr-0.2.3/cpr/src/registerDynamicSymbol.c |only cpr-0.2.3/cpr/tests/testthat |only cpr-0.2.3/cpr/tests/testthat.R |only cpr-0.3.0/cpr/DESCRIPTION | 23 cpr-0.3.0/cpr/MD5 | 159 +++--- cpr-0.3.0/cpr/NAMESPACE | 9 cpr-0.3.0/cpr/NEWS.md | 44 + cpr-0.3.0/cpr/R/RcppExports.R | 65 +- cpr-0.3.0/cpr/R/bsplines.R | 95 ++- cpr-0.3.0/cpr/R/btensor.R | 43 + cpr-0.3.0/cpr/R/build_tensor.R | 19 cpr-0.3.0/cpr/R/cn.R | 55 +- cpr-0.3.0/cpr/R/cnr.R | 48 + cpr-0.3.0/cpr/R/cnr_diagnostics.R | 30 - cpr-0.3.0/cpr/R/cp.R | 167 +++--- cpr-0.3.0/cpr/R/cp_diagnostics.R | 31 - cpr-0.3.0/cpr/R/cpr-package.R | 15 cpr-0.3.0/cpr/R/cpr.R | 86 +++ cpr-0.3.0/cpr/R/cpr_diagnostics.R | 44 - cpr-0.3.0/cpr/R/extract_cpr_bsplines.R | 5 cpr-0.3.0/cpr/R/generate_cp_formula_data.R | 48 - cpr-0.3.0/cpr/R/get_spline.R | 74 +- cpr-0.3.0/cpr/R/influence_of.R | 46 - cpr-0.3.0/cpr/R/influence_weights.R | 38 - cpr-0.3.0/cpr/R/knot_expr.R | 28 - cpr-0.3.0/cpr/R/loglikelihood.R | 28 - cpr-0.3.0/cpr/R/plot.cpr_cn.R | 76 +- cpr-0.3.0/cpr/R/predict.R | 22 cpr-0.3.0/cpr/R/spdg.R | 12 cpr-0.3.0/cpr/R/theta.R | 3 cpr-0.3.0/cpr/R/trimmed_quantile.R | 21 cpr-0.3.0/cpr/R/update_bsplines.R | 44 + cpr-0.3.0/cpr/R/wiggle.R | 15 cpr-0.3.0/cpr/R/zzz.R |only cpr-0.3.0/cpr/build/vignette.rds |binary cpr-0.3.0/cpr/data/spdg.rda |binary cpr-0.3.0/cpr/inst/WORDLIST |only cpr-0.3.0/cpr/inst/doc/cpr-pkg.R | 20 cpr-0.3.0/cpr/inst/doc/cpr-pkg.html | 639 +++++++++++++++++++------ cpr-0.3.0/cpr/man/boehm.Rd | 28 - cpr-0.3.0/cpr/man/bsplineD.Rd | 22 cpr-0.3.0/cpr/man/bsplines.Rd | 33 - cpr-0.3.0/cpr/man/btensor.Rd | 4 cpr-0.3.0/cpr/man/build_tensor.Rd | 6 cpr-0.3.0/cpr/man/cn.Rd | 8 cpr-0.3.0/cpr/man/cnr.Rd | 14 cpr-0.3.0/cpr/man/cnr_diagnostics.Rd | 5 cpr-0.3.0/cpr/man/cp.Rd | 32 - cpr-0.3.0/cpr/man/cp_diagnostics.Rd | 7 cpr-0.3.0/cpr/man/cpr-package.Rd | 12 cpr-0.3.0/cpr/man/cpr.Rd | 75 ++ cpr-0.3.0/cpr/man/cpr_diagnostics.Rd | 7 cpr-0.3.0/cpr/man/extract_cpr_bsplines.Rd | 5 cpr-0.3.0/cpr/man/generate_cp_formula_data.Rd | 10 cpr-0.3.0/cpr/man/get_spline.Rd | 3 cpr-0.3.0/cpr/man/get_surface.Rd | 23 cpr-0.3.0/cpr/man/influence_of.Rd | 5 cpr-0.3.0/cpr/man/influence_weights.Rd | 13 cpr-0.3.0/cpr/man/knot_expr.Rd |only cpr-0.3.0/cpr/man/loglikelihood.Rd | 13 cpr-0.3.0/cpr/man/matrix_rank.Rd | 31 - cpr-0.3.0/cpr/man/plot.cpr_bs.Rd | 5 cpr-0.3.0/cpr/man/plot.cpr_cn.Rd | 21 cpr-0.3.0/cpr/man/predict.cpr_cp.Rd | 3 cpr-0.3.0/cpr/man/spdg.Rd | 14 cpr-0.3.0/cpr/man/theta.Rd | 3 cpr-0.3.0/cpr/man/trimmed_quantile.Rd | 11 cpr-0.3.0/cpr/man/update_bsplines.Rd | 4 cpr-0.3.0/cpr/man/wiggle.Rd | 3 cpr-0.3.0/cpr/src/Makevars | 1 cpr-0.3.0/cpr/src/RcppExports.cpp | 47 + cpr-0.3.0/cpr/src/boehm.cpp | 59 +- cpr-0.3.0/cpr/src/bsplines.cpp | 28 - cpr-0.3.0/cpr/src/cpr.cpp | 107 ++-- cpr-0.3.0/cpr/src/cpr.h | 41 - cpr-0.3.0/cpr/src/matrix_rank.cpp | 35 - cpr-0.3.0/cpr/tests/test-bsplines.R |only cpr-0.3.0/cpr/tests/test-btensor.R |only cpr-0.3.0/cpr/tests/test-cnr.R |only cpr-0.3.0/cpr/tests/test-cpr.R |only cpr-0.3.0/cpr/tests/test-influence_of.R |only cpr-0.3.0/cpr/tests/test-knot_expr.R |only cpr-0.3.0/cpr/tests/test-matrix_rank.R |only cpr-0.3.0/cpr/tests/test-recover-know-spline.R |only cpr-0.3.0/cpr/tests/test-trimmed_quantile.R |only cpr-0.3.0/cpr/vignettes/references.bib |only 89 files changed, 1763 insertions(+), 1027 deletions(-)
Title: Interpolation From C
Description: Simple interpolation methods designed to be used from C
code. Supports constant, linear and spline interpolation. An R
wrapper is included but this package is primarily designed to be
used from C code using 'LinkingTo'. The spline calculations are
classical cubic interpolation, e.g., Forsythe, Malcolm and Moler
(1977) <ISBN: 9780131653320>.
Author: Rich FitzJohn [aut, cre],
Imperial College of Science, Technology and Medicine [cph]
Maintainer: Rich FitzJohn <rich.fitzjohn@gmail.com>
Diff between cinterpolate versions 1.0.0 dated 2019-04-10 and 1.0.1 dated 2023-11-29
DESCRIPTION | 17 +++++++----- LICENSE | 4 +- MD5 | 22 +++++++-------- R/interpolate.R | 6 ++-- README.md | 41 +++++++++++++++++++---------- build/vignette.rds |binary inst/doc/cinterpolate.R | 10 +++---- inst/doc/cinterpolate.Rmd | 2 - inst/doc/cinterpolate.html | 59 +++++++++++++++++++++++++++++++----------- man/interpolation_function.Rd | 5 +-- src/interface.c | 2 - vignettes/cinterpolate.Rmd | 2 - 12 files changed, 107 insertions(+), 63 deletions(-)
Title: Flexible Genotyping for Polyploids
Description: Implements empirical Bayes approaches to genotype
polyploids from next generation sequencing data while
accounting for allele bias, overdispersion, and sequencing
error. The main functions are flexdog() and multidog(),
which allow the specification
of many different genotype distributions. Also provided are functions to
simulate genotypes, rgeno(), and read-counts, rflexdog(), as well as
functions to calculate oracle genotyping error rates, oracle_mis(), and
correlation with the true genotypes, oracle_cor(). These latter two
functions are useful for read depth calculations. Run
browseVignettes(package = "updog") in R for example usage. See
Gerard et al. (2018) <doi:10.1534/genetics.118.301468> and
Gerard and Ferrao (2020) <doi:10.1093/bioinformatics/btz852> for details
on the implemented methods.
Author: David Gerard [aut, cre]
Maintainer: David Gerard <gerard.1787@gmail.com>
Diff between updog versions 2.1.4 dated 2023-11-17 and 2.1.5 dated 2023-11-29
DESCRIPTION | 6 MD5 | 14 NEWS.md | 274 ++++---- R/multidog.R | 1564 ++++++++++++++++++++++++------------------------- build/partial.rdb |binary build/vignette.rds |binary inst/doc/multidog.html | 2 src/RcppExports.cpp | 42 - 8 files changed, 953 insertions(+), 949 deletions(-)
Title: Automatic Machine Learning with 'tidymodels'
Description: The goal of this package will be to provide a simple interface for automatic machine learning that fits the 'tidymodels' framework. The intention is to work for regression and classification problems with a simple verb framework.
Author: Steven Sanderson [aut, cre, cph]
Maintainer: Steven Sanderson <spsanderson@gmail.com>
Diff between tidyAML versions 0.0.2 dated 2023-04-20 and 0.0.3 dated 2023-11-29
tidyAML-0.0.2/tidyAML/R/utils-pipe.R |only tidyAML-0.0.2/tidyAML/man/pipe.Rd |only tidyAML-0.0.3/tidyAML/DESCRIPTION | 21 tidyAML-0.0.3/tidyAML/MD5 | 82 +-- tidyAML-0.0.3/tidyAML/NAMESPACE | 4 tidyAML-0.0.3/tidyAML/NEWS.md | 28 + tidyAML-0.0.3/tidyAML/R/00_global_variables.R | 4 tidyAML-0.0.3/tidyAML/R/internals-make-fitted-wflw.R | 10 tidyAML-0.0.3/tidyAML/R/internals-make-preds-wflw.R | 14 tidyAML-0.0.3/tidyAML/R/internals-make-spec-tbl.R | 76 +- tidyAML-0.0.3/tidyAML/R/internals-make-wflw-gee-lin-reg.R |only tidyAML-0.0.3/tidyAML/R/internals-make-wflw.R | 18 tidyAML-0.0.3/tidyAML/R/internals-set-tune-modspec-args.R | 37 - tidyAML-0.0.3/tidyAML/R/internas-full-make-wflw.R |only tidyAML-0.0.3/tidyAML/R/make-classification-fast.R | 14 tidyAML-0.0.3/tidyAML/R/make-model-spec.R | 28 - tidyAML-0.0.3/tidyAML/R/make-regression-fast.R | 12 tidyAML-0.0.3/tidyAML/R/utils-class-to-parsnip.R | 10 tidyAML-0.0.3/tidyAML/R/utils-lib-loads.R | 2 tidyAML-0.0.3/tidyAML/R/utils-reg-to-parsnip.R | 10 tidyAML-0.0.3/tidyAML/R/zzz.R | 2 tidyAML-0.0.3/tidyAML/README.md | 124 +++- tidyAML-0.0.3/tidyAML/inst/doc/getting-started.R | 59 ++ tidyAML-0.0.3/tidyAML/inst/doc/getting-started.Rmd | 118 ++++ tidyAML-0.0.3/tidyAML/inst/doc/getting-started.html | 265 +++++++++- tidyAML-0.0.3/tidyAML/man/core_packages.Rd | 1 tidyAML-0.0.3/tidyAML/man/create_model_spec.Rd | 14 tidyAML-0.0.3/tidyAML/man/create_splits.Rd | 1 tidyAML-0.0.3/tidyAML/man/create_workflow_set.Rd | 1 tidyAML-0.0.3/tidyAML/man/fast_classification.Rd | 2 tidyAML-0.0.3/tidyAML/man/fast_classification_parsnip_spec_tbl.Rd | 1 tidyAML-0.0.3/tidyAML/man/fast_regression_parsnip_spec_tbl.Rd | 1 tidyAML-0.0.3/tidyAML/man/full_internal_make_wflw.Rd |only tidyAML-0.0.3/tidyAML/man/install_deps.Rd | 1 tidyAML-0.0.3/tidyAML/man/internal_make_fitted_wflw.Rd | 3 tidyAML-0.0.3/tidyAML/man/internal_make_spec_tbl.Rd | 11 tidyAML-0.0.3/tidyAML/man/internal_make_wflw.Rd | 1 tidyAML-0.0.3/tidyAML/man/internal_make_wflw_gee_lin_reg.Rd |only tidyAML-0.0.3/tidyAML/man/internal_make_wflw_predictions.Rd | 5 tidyAML-0.0.3/tidyAML/man/internal_set_args_to_tune.Rd | 3 tidyAML-0.0.3/tidyAML/man/load_deps.Rd | 1 tidyAML-0.0.3/tidyAML/man/make_classification_base_tbl.Rd | 1 tidyAML-0.0.3/tidyAML/man/make_regression_base_tbl.Rd | 1 tidyAML-0.0.3/tidyAML/man/match_args.Rd | 1 tidyAML-0.0.3/tidyAML/vignettes/getting-started.Rmd | 118 ++++ 45 files changed, 878 insertions(+), 227 deletions(-)
Title: Utilities for Scoring and Assessing Predictions
Description: Provides a collection of metrics and proper scoring rules
(Tilmann Gneiting & Adrian E Raftery (2007)
<doi:10.1198/016214506000001437>, Jordan, A., Krüger, F., & Lerch, S. (2019)
<doi:10.18637/jss.v090.i12>) within a consistent framework for
evaluation, comparison and visualisation of forecasts.
In addition to proper scoring rules, functions are provided to assess
bias, sharpness and calibration
(Sebastian Funk, Anton Camacho, Adam J. Kucharski, Rachel Lowe, Rosalind
M. Eggo, W. John Edmunds (2019) <doi:10.1371/journal.pcbi.1006785>) of
forecasts.
Several types of predictions (e.g. binary, discrete, continuous) which may
come in different formats (e.g. forecasts represented by predictive samples
or by quantiles of the predictive distribution) can be evaluated.
Scoring metrics can be used either through a convenient data.frame format,
or can be applied as individual functions in a vector / matrix format.
All functionality has been implemented with a focus on pe [...truncated...]
Author: Nikos Bosse [aut, cre] ,
Sam Abbott [aut] ,
Hugo Gruson [aut] ,
Johannes Bracher [ctb] ,
Sebastian Funk [aut]
Maintainer: Nikos Bosse <nikosbosse@gmail.com>
Diff between scoringutils versions 1.1.0 dated 2023-01-30 and 1.2.2 dated 2023-11-29
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scoringutils-1.2.2/scoringutils/R/convenience-functions.R |only scoringutils-1.2.2/scoringutils/R/correlations.R | 7 scoringutils-1.2.2/scoringutils/R/data.R | 12 scoringutils-1.2.2/scoringutils/R/input-check-helpers.R | 74 scoringutils-1.2.2/scoringutils/R/interval_score.R | 20 scoringutils-1.2.2/scoringutils/R/metrics_point_forecasts.R | 6 scoringutils-1.2.2/scoringutils/R/pairwise-comparisons.R | 29 scoringutils-1.2.2/scoringutils/R/pit.R | 18 scoringutils-1.2.2/scoringutils/R/plot.R | 53 scoringutils-1.2.2/scoringutils/R/score.R | 23 scoringutils-1.2.2/scoringutils/R/score_quantile.R | 6 scoringutils-1.2.2/scoringutils/R/summarise_scores.R | 75 scoringutils-1.2.2/scoringutils/R/utils.R | 125 scoringutils-1.2.2/scoringutils/R/utils_data_handling.R | 25 scoringutils-1.2.2/scoringutils/R/zzz.R |only scoringutils-1.2.2/scoringutils/README.md | 123 scoringutils-1.2.2/scoringutils/build/partial.rdb |binary scoringutils-1.2.2/scoringutils/build/vignette.rds |binary scoringutils-1.2.2/scoringutils/data/metrics.rda |binary scoringutils-1.2.2/scoringutils/inst/CITATION | 21 scoringutils-1.2.2/scoringutils/inst/WORDLIST |only scoringutils-1.2.2/scoringutils/inst/create-example-data.R | 2 scoringutils-1.2.2/scoringutils/inst/create-metric-tables.R | 87 scoringutils-1.2.2/scoringutils/inst/doc/metric-details.R | 11 scoringutils-1.2.2/scoringutils/inst/doc/metric-details.Rmd | 5 scoringutils-1.2.2/scoringutils/inst/doc/metric-details.html | 322 - scoringutils-1.2.2/scoringutils/inst/doc/scoring-forecasts-directly.R | 3 scoringutils-1.2.2/scoringutils/inst/doc/scoring-forecasts-directly.Rmd | 3 scoringutils-1.2.2/scoringutils/inst/doc/scoring-forecasts-directly.html | 144 scoringutils-1.2.2/scoringutils/inst/doc/scoringutils.R |only scoringutils-1.2.2/scoringutils/inst/doc/scoringutils.Rmd |only scoringutils-1.2.2/scoringutils/inst/doc/scoringutils.html |only scoringutils-1.2.2/scoringutils/inst/manuscript/R/00-standalone-Figure-replication.R | 6 scoringutils-1.2.2/scoringutils/inst/manuscript/R/toy-example-calibration.R | 2 scoringutils-1.2.2/scoringutils/inst/manuscript/R/toy-example-convergence-outliers.R | 4 scoringutils-1.2.2/scoringutils/inst/manuscript/manuscript.log | 1956 +++++----- scoringutils-1.2.2/scoringutils/inst/manuscript/manuscript.pdf |binary scoringutils-1.2.2/scoringutils/inst/manuscript/manuscript.tex | 1952 ++++----- scoringutils-1.2.2/scoringutils/inst/manuscript/manuscript_files/figure-latex/avail-forecasts-plot-1.pdf |binary scoringutils-1.2.2/scoringutils/inst/manuscript/manuscript_files/figure-latex/correlation-plot-1.pdf |binary scoringutils-1.2.2/scoringutils/inst/manuscript/manuscript_files/figure-latex/coverage-1.pdf |binary scoringutils-1.2.2/scoringutils/inst/manuscript/manuscript_files/figure-latex/forecast-visualisation-1.pdf |binary scoringutils-1.2.2/scoringutils/inst/manuscript/manuscript_files/figure-latex/pairwise-plot-1.pdf |binary scoringutils-1.2.2/scoringutils/inst/manuscript/manuscript_files/figure-latex/pit-plots-1.pdf |binary scoringutils-1.2.2/scoringutils/inst/manuscript/manuscript_files/figure-latex/plot-forecast-counts-1.pdf |only scoringutils-1.2.2/scoringutils/inst/manuscript/manuscript_files/figure-latex/score-heatmap-1.pdf |binary scoringutils-1.2.2/scoringutils/inst/manuscript/manuscript_files/figure-latex/score-table-1.pdf |binary scoringutils-1.2.2/scoringutils/inst/manuscript/manuscript_files/figure-latex/wis-components-1.pdf |binary scoringutils-1.2.2/scoringutils/inst/metrics-overview/metrics-detailed.Rda |binary scoringutils-1.2.2/scoringutils/man/add_coverage.Rd | 3 scoringutils-1.2.2/scoringutils/man/avail_forecasts.Rd | 4 scoringutils-1.2.2/scoringutils/man/bias_quantile.Rd | 9 scoringutils-1.2.2/scoringutils/man/bias_range.Rd | 21 scoringutils-1.2.2/scoringutils/man/check_quantiles.Rd |only scoringutils-1.2.2/scoringutils/man/example_binary.Rd | 2 scoringutils-1.2.2/scoringutils/man/example_continuous.Rd | 2 scoringutils-1.2.2/scoringutils/man/example_point.Rd | 2 scoringutils-1.2.2/scoringutils/man/example_quantile.Rd | 2 scoringutils-1.2.2/scoringutils/man/example_quantile_forecasts_only.Rd | 2 scoringutils-1.2.2/scoringutils/man/example_truth_only.Rd | 2 scoringutils-1.2.2/scoringutils/man/figures/unnamed-chunk-4-1.png |binary scoringutils-1.2.2/scoringutils/man/find_duplicates.Rd | 4 scoringutils-1.2.2/scoringutils/man/get_forecast_unit.Rd | 5 scoringutils-1.2.2/scoringutils/man/get_protected_columns.Rd |only scoringutils-1.2.2/scoringutils/man/interval_score.Rd | 3 scoringutils-1.2.2/scoringutils/man/is_scoringutils_check.Rd |only scoringutils-1.2.2/scoringutils/man/log_shift.Rd |only scoringutils-1.2.2/scoringutils/man/pairwise_comparison.Rd | 6 scoringutils-1.2.2/scoringutils/man/pit_sample.Rd | 4 scoringutils-1.2.2/scoringutils/man/plot_interval_coverage.Rd | 4 scoringutils-1.2.2/scoringutils/man/plot_pit.Rd | 8 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scoringutils-1.2.2/scoringutils/tests/testthat/test-avail_forecasts.R | 4 scoringutils-1.2.2/scoringutils/tests/testthat/test-bias.R | 183 scoringutils-1.2.2/scoringutils/tests/testthat/test-check_forecasts.R | 9 scoringutils-1.2.2/scoringutils/tests/testthat/test-convenience-functions.R |only scoringutils-1.2.2/scoringutils/tests/testthat/test-interval_score.R | 30 scoringutils-1.2.2/scoringutils/tests/testthat/test-pairwise_comparison.R | 63 scoringutils-1.2.2/scoringutils/tests/testthat/test-plot_pit.R | 4 scoringutils-1.2.2/scoringutils/tests/testthat/test-plot_predictions.R | 14 scoringutils-1.2.2/scoringutils/tests/testthat/test-score.R | 6 scoringutils-1.2.2/scoringutils/tests/testthat/test-summarise_scores.R | 56 scoringutils-1.2.2/scoringutils/tests/testthat/test-utils.R |only scoringutils-1.2.2/scoringutils/vignettes/Choosing-a-score.R |only scoringutils-1.2.2/scoringutils/vignettes/Choosing-a-score.html |only scoringutils-1.2.2/scoringutils/vignettes/getting-started.R |only 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Title: R Bindings to the Calendaring Functionality of 'QuantLib'
Description: 'QuantLib' bindings are provided for R using 'Rcpp' via an evolved version
of the initial header-only 'Quantuccia' project offering an subset of 'QuantLib' (now
maintained separately just for the calendaring subset). See the included file 'AUTHORS'
for a full list of contributors to 'QuantLib' (and hence also 'Quantuccia').
Author: Dirk Eddelbuettel; the authors and contributors of QuantLib
Maintainer: Dirk Eddelbuettel <edd@debian.org>
Diff between qlcal versions 0.0.8 dated 2023-10-21 and 0.0.9 dated 2023-11-29
qlcal-0.0.8/qlcal/src/Makevars |only qlcal-0.0.8/qlcal/src/Makevars.win |only qlcal-0.0.9/qlcal/ChangeLog | 22 ++++++++++++++++++++++ qlcal-0.0.9/qlcal/DESCRIPTION | 11 +++++------ qlcal-0.0.9/qlcal/MD5 | 23 +++++++++++++---------- qlcal-0.0.9/qlcal/R/RcppExports.R | 2 +- qlcal-0.0.9/qlcal/README.md | 11 +++++------ qlcal-0.0.9/qlcal/build/partial.rdb |binary qlcal-0.0.9/qlcal/cleanup | 3 ++- qlcal-0.0.9/qlcal/configure |only qlcal-0.0.9/qlcal/configure.win |only qlcal-0.0.9/qlcal/inst/NEWS.Rd | 9 +++++++++ qlcal-0.0.9/qlcal/src/Makevars.in |only qlcal-0.0.9/qlcal/src/Makevars.win.in |only qlcal-0.0.9/qlcal/src/RcppExports.cpp | 28 ++++++++++++++-------------- qlcal-0.0.9/qlcal/tools |only 16 files changed, 71 insertions(+), 38 deletions(-)
Title: Multivariate Nonparametric Methods. An Approach Based on Spatial
Signs and Ranks
Description: Multivariate tests, estimates and methods based on the identity score, spatial sign score and spatial rank score are provided. The methods include one and c-sample problems, shape estimation and testing, linear regression and principal components. The methodology is described in Oja (2010) <doi:10.1007/978-1-4419-0468-3> and Nordhausen and Oja (2011) <doi:10.18637/jss.v043.i05>.
Author: Klaus Nordhausen [aut, cre] ,
Jyrki Mottonen [aut] ,
Hannu Oja [aut]
Maintainer: Klaus Nordhausen <klausnordhausenR@gmail.com>
Diff between MNM versions 1.0-3 dated 2018-03-02 and 1.0-4 dated 2023-11-29
DESCRIPTION | 29 +++++++++++++++++++++-------- MD5 | 25 +++++++++++++------------ R/mv2sampleEst.R | 4 ++-- R/mv2sampleEstInternal.R | 4 ++-- build |only data/beans.rda |binary inst/CITATION | 16 ++++++++-------- inst/ChangeLog | 8 ++++++++ man/MNM-package.Rd | 15 ++++----------- man/mv.2way.est.Rd | 2 +- man/mv.2way.test.Rd | 2 +- man/mv.l1lm.Rd | 6 +++--- man/print.mvcloc.Rd | 2 +- man/summary.mvcloc.Rd | 2 +- 14 files changed, 65 insertions(+), 50 deletions(-)
Title: Implementation of the Canny Edge Detector for Images
Description: An implementation of the Canny Edge Detector for detecting edges in images. The package provides an interface to the algorithm available at <https://github.com/Neseb/canny>.
Author: Jan Wijffels [aut, cre, cph],
BNOSAC [cph],
Vincent Maioli [ctb, cph],
IPOL Image Processing On Line [cph]
Maintainer: Jan Wijffels <jwijffels@bnosac.be>
Diff between image.CannyEdges versions 0.1.0 dated 2020-08-01 and 0.1.1 dated 2023-11-29
DESCRIPTION | 8 MD5 | 23 NAMESPACE | 18 NEWS.md |only R/RcppExports.R | 14 R/canny_edges_detector.R | 189 R/pkg.R | 22 README.md | 78 inst/extdata/chairs.pgm |32774 +++++++++++++++++++-------------------- man/image.CannyEdges-package.Rd | 26 man/image_canny_edge_detector.Rd | 145 man/plot.image_canny.Rd | 52 src/tools.c | 6 13 files changed, 16691 insertions(+), 16664 deletions(-)
More information about image.CannyEdges at CRAN
Permanent link
Title: Inference in Graphical Gaussian Models with Edge and Vertex
Symmetries
Description: Estimation, model selection and other aspects of
statistical inference in Graphical Gaussian models with edge and
vertex symmetries (Graphical Gaussian models with colours).
Documentation about 'gRc' is provided in the paper by Hojsgaard and
Lauritzen (2007, <doi:10.18637/jss.v023.i06>) and the paper by
Hojsgaard and Lauritzen (2008, <doi:10.1111/j.1467-9868.2008.00666.x>).
Author: Soeren Hoejsgaard <sorenh@math.aau.dk>, Steffen L. Lauritzen <lauritzen@math.ku.dk>
Maintainer: Soeren Hoejsgaard <sorenh@math.aau.dk>
Diff between gRc versions 0.4.5 dated 2023-04-30 and 0.4.6 dated 2023-11-29
gRc-0.4.5/gRc/R/clever-trace.R |only gRc-0.4.5/gRc/R/coerce-parm.R |only gRc-0.4.5/gRc/R/fit-doc.R |only gRc-0.4.5/gRc/R/fit-main.R |only gRc-0.4.5/gRc/R/fit-rcon-ipm.R |only gRc-0.4.5/gRc/R/fit-rcor-ipm.R |only gRc-0.4.5/gRc/R/fit-rcox-matching.R |only gRc-0.4.5/gRc/R/fit-rcox-scoring.R |only gRc-0.4.5/gRc/R/grc-summary-doc.R |only gRc-0.4.5/gRc/R/repair-K.R |only gRc-0.4.5/gRc/R/score-information4.R |only gRc-0.4.5/gRc/R/set-op.R |only gRc-0.4.5/gRc/R/testing-add1drop1.R |only gRc-0.4.5/gRc/R/testing-comparecc.R |only gRc-0.4.5/gRc/R/testing-misc.R |only gRc-0.4.5/gRc/R/testing-split1join1.R |only gRc-0.4.5/gRc/R/testing-stepwise.R |only gRc-0.4.5/gRc/R/zzz-generating-class.R |only gRc-0.4.5/gRc/R/zzz.R |only gRc-0.4.5/gRc/man/clever-trace.Rd |only gRc-0.4.5/gRc/man/coerce-parm.Rd |only gRc-0.4.6/gRc/DESCRIPTION | 6 +- gRc-0.4.6/gRc/MD5 | 69 ++++++++++++++++----------------- gRc-0.4.6/gRc/NEWS | 11 +++++ gRc-0.4.6/gRc/R/clever_trace.R |only gRc-0.4.6/gRc/R/coerce_parm.R |only gRc-0.4.6/gRc/R/fit_doc.R |only gRc-0.4.6/gRc/R/fit_main.R |only gRc-0.4.6/gRc/R/fit_rcon_ipm.R |only gRc-0.4.6/gRc/R/fit_rcor_ipm.R |only gRc-0.4.6/gRc/R/fit_rcox_matching.R |only gRc-0.4.6/gRc/R/fit_rcox_scoring.R |only gRc-0.4.6/gRc/R/grc_summary_doc.R |only gRc-0.4.6/gRc/R/repair_K.R |only gRc-0.4.6/gRc/R/score_information4.R |only gRc-0.4.6/gRc/R/set_op.R |only gRc-0.4.6/gRc/R/testing_add1drop1.R |only gRc-0.4.6/gRc/R/testing_comparecc.R |only gRc-0.4.6/gRc/R/testing_misc.R |only gRc-0.4.6/gRc/R/testing_split1join1.R |only gRc-0.4.6/gRc/R/testing_stepwise.R |only gRc-0.4.6/gRc/R/utility4.R | 2 gRc-0.4.6/gRc/R/zzz_generating_class.R |only gRc-0.4.6/gRc/man/add1-drop1.Rd | 2 gRc-0.4.6/gRc/man/clever_trace.Rd |only gRc-0.4.6/gRc/man/coerce_parm.Rd |only gRc-0.4.6/gRc/man/comparecc.Rd | 2 gRc-0.4.6/gRc/man/fit-doc.Rd | 2 gRc-0.4.6/gRc/man/fit-main.Rd | 2 gRc-0.4.6/gRc/man/generating-class.Rd | 2 gRc-0.4.6/gRc/man/grc-summary.Rd | 2 gRc-0.4.6/gRc/man/join-split.Rd | 2 gRc-0.4.6/gRc/man/score-information.Rd | 2 gRc-0.4.6/gRc/man/set-op.Rd | 2 gRc-0.4.6/gRc/man/step.Rd | 2 gRc-0.4.6/gRc/src/RcppExports.cpp | 12 ++--- 56 files changed, 64 insertions(+), 56 deletions(-)
Title: A Package for Graphical Modelling in R
Description: The 'gRbase' package provides graphical modelling features
used by e.g. the packages 'gRain', 'gRim' and 'gRc'. 'gRbase' implements
graph algorithms including (i) maximum cardinality search (for marked
and unmarked graphs).
(ii) moralization, (iii) triangulation, (iv) creation of junction tree.
'gRbase' facilitates array operations,
'gRbase' implements functions for testing for conditional independence.
'gRbase' illustrates how hierarchical log-linear models may be
implemented and describes concept of graphical meta
data.
The facilities of the package are documented in the book by Højsgaard,
Edwards and Lauritzen (2012,
<doi:10.1007/978-1-4614-2299-0>) and in the paper by
Dethlefsen and Højsgaard, (2005, <doi:10.18637/jss.v014.i17>).
Please see 'citation("gRbase")' for citation details.
Author: Soeren Hoejsgaard <sorenh@math.aau.dk>
Maintainer: Soeren Hoejsgaard <sorenh@math.aau.dk>
Diff between gRbase versions 2.0.0 dated 2023-09-22 and 2.0.1 dated 2023-11-29
DESCRIPTION | 6 +- MD5 | 25 +++++----- NAMESPACE | 2 NEWS | 10 ++++ R/api_array_tab_create.R | 15 +++++- R/graph_coerce_xxx2yyy.R | 3 + R/graph_querygraph.R | 20 ++++++++ R/init.R |only build/vignette.rds |binary inst/doc/arrays.pdf |binary inst/doc/graphs_chapter.pdf |binary man/graph_query.Rd | 10 +++- src/RcppExports.cpp | 104 ++++++++++++++++++++++---------------------- src/_g_rip-cliques.cpp | 17 +------ 14 files changed, 127 insertions(+), 85 deletions(-)
Title: Convert Gene IDs Between Each Other and Fetch Annotations from
Biomart
Description: Gene Symbols or Ensembl Gene IDs are converted using the Bimap interface in 'AnnotationDbi' in convertId2() but
that function is only provided as fallback mechanism for the most common use cases in data analysis. The main function
in the package is convert.bm() which queries BioMart using the full capacity of the API provided through the
'biomaRt' package. Presets and defaults are provided for convenience but all "marts", "filters" and "attributes"
can be set by the user. Function convert.alias() converts Gene Symbols to Aliases and vice versa and function likely_symbol()
attempts to determine the most likely current Gene Symbol.
Author: Vidal Fey [aut, cre],
Henrik Edgren [aut]
Maintainer: Vidal Fey <vidal.fey@gmail.com>
Diff between convertid versions 0.1.7 dated 2023-11-04 and 0.1.8 dated 2023-11-29
DESCRIPTION | 8 ++++---- MD5 | 6 +++--- R/convertId2.R | 8 ++++++-- man/convert.bm.Rd | 6 ++++++ 4 files changed, 19 insertions(+), 9 deletions(-)
Title: Conway-Maxwell Poisson (COM-Poisson) Regression
Description: Fit Conway-Maxwell Poisson (COM-Poisson or CMP) regression models
to count data (Sellers & Shmueli, 2010) <doi:10.1214/09-AOAS306>. The
package provides functions for model estimation, dispersion testing, and
diagnostics. Zero-inflated CMP regression (Sellers & Raim, 2016)
<doi:10.1016/j.csda.2016.01.007> is also supported.
Author: Kimberly Sellers <kfs7@georgetown.edu>
Thomas Lotze <thomas.lotze@thomaslotze.com>
Andrew Raim <andrew.raim@gmail.com>
Maintainer: Andrew Raim <andrew.raim@gmail.com>
Diff between COMPoissonReg versions 0.8.0 dated 2022-12-02 and 0.8.1 dated 2023-11-29
DESCRIPTION | 8 - MD5 | 64 +++++------ R/cmp-reg.R | 12 +- R/fim.R | 10 - R/mle.R | 2 R/util.R | 4 R/zicmp-reg.R | 10 - R/zip-reg.R | 2 build/vignette.rds |binary inst/doc/vignette.R | 50 ++++---- inst/doc/vignette.Rmd | 2 inst/doc/vignette.pdf |binary src/cmp.cpp | 4 src/z.cpp | 10 - vignettes/vignette.Rmd | 2 vignettes/vignette_files/figure-latex/unnamed-chunk-11-1.pdf |binary vignettes/vignette_files/figure-latex/unnamed-chunk-19-1.pdf |binary vignettes/vignette_files/figure-latex/unnamed-chunk-20-1.pdf |binary vignettes/vignette_files/figure-latex/unnamed-chunk-21-1.pdf |binary vignettes/vignette_files/figure-latex/unnamed-chunk-28-1.pdf |binary vignettes/vignette_files/figure-latex/unnamed-chunk-29-1.pdf |binary vignettes/vignette_files/figure-latex/unnamed-chunk-30-1.pdf |binary vignettes/vignette_files/figure-latex/unnamed-chunk-48-1.pdf |binary vignettes/vignette_files/figure-latex/unnamed-chunk-53-1.pdf |binary vignettes/vignette_files/figure-latex/unnamed-chunk-53-2.pdf |binary vignettes/vignette_files/figure-latex/unnamed-chunk-53-3.pdf |binary vignettes/vignette_files/figure-latex/unnamed-chunk-53-4.pdf |binary vignettes/vignette_files/figure-latex/unnamed-chunk-53-5.pdf |binary vignettes/vignette_files/figure-latex/unnamed-chunk-53-6.pdf |binary vignettes/vignette_files/figure-latex/unnamed-chunk-80-1.pdf |binary vignettes/vignette_files/figure-latex/unnamed-chunk-80-2.pdf |binary vignettes/vignette_files/figure-latex/unnamed-chunk-80-3.pdf |binary vignettes/vignette_files/figure-latex/unnamed-chunk-80-4.pdf |binary 33 files changed, 88 insertions(+), 92 deletions(-)
Title: Trait Evolution on Phylogenies Using the Cauchy Process
Description: The Cauchy Process can model pulsed continuous trait evolution
on phylogenies. The likelihood is tractable, and is used for parameter
inference and ancestral trait reconstruction.
See Bastide and Didier (2023) <doi:10.1093/sysbio/syad053>.
Author: Gilles Didier [aut, cph],
Paul Bastide [aut, cre]
Maintainer: Paul Bastide <paul.bastide@cnrs.fr>
Diff between cauphy versions 1.0.1 dated 2023-09-19 and 1.0.2 dated 2023-11-29
DESCRIPTION | 6 +++--- MD5 | 34 +++++++++++++++++----------------- NEWS.md | 6 ++++++ R/cauphylm.R | 8 ++++---- R/densities.R | 4 ++-- R/fitCauchy.R | 10 +++++----- R/rTraitCauchy.R | 2 +- inst/doc/lizards.html | 4 ++-- man/cauphylm.Rd | 6 +++--- man/fitCauchy.Rd | 6 +++--- man/hdi.ancestralCauchy.Rd | 2 +- man/logDensityTipsCauchy.Rd | 2 +- man/profile.cauphyfit.Rd | 2 +- man/rTraitCauchy.Rd | 2 +- man/vcov.cauphyfit.Rd | 2 +- man/vcov.cauphylm.Rd | 2 +- src/Cauchy.c | 6 +++--- tests/testthat/testCauchyLikelihood.R | 3 +++ 18 files changed, 58 insertions(+), 49 deletions(-)
Title: Interface to 'LMDB'
Description: Key-value store, implemented as a wrapper around 'LMDB';
the "lightning memory-mapped database" <https://www.symas.com/lmdb>.
'LMDB' is a transactional key value store that uses a memory map
for efficient access. This package wraps the entire 'LMDB'
interface (except duplicated keys), and provides objects for
transactions and cursors.
Author: Rich FitzJohn [aut, cre],
Howard Chu [aut, cph],
Symas Corporation [cph],
Martin Hedenfalk [aut, cph],
The OpenLDAP Foundation [cph]
Maintainer: Rich FitzJohn <rich.fitzjohn@gmail.com>
Diff between thor versions 1.1.4 dated 2023-02-07 and 1.1.5 dated 2023-11-29
DESCRIPTION | 6 +++--- MD5 | 10 +++++----- README.md | 2 +- build/vignette.rds |binary inst/doc/thor.html | 22 +++++++++++++++------- src/thor.c | 3 ++- 6 files changed, 26 insertions(+), 17 deletions(-)
Title: Social Ranking Solutions for Power Relations on Coalitions
Description: The notion of power index has been widely used in literature to evaluate the influence of individual players (e.g., voters, political parties, nations, stockholders, etc.) involved in a collective decision situation like an electoral system, a parliament, a council, a management board, etc., where players may form coalitions. Traditionally this ranking is determined through numerical evaluation. More often than not however only ordinal data between coalitions is known. The package 'socialranking' offers a set of solutions to rank players based on a transitive ranking between coalitions, including through CP-Majority, ordinal Banzhaf or lexicographic excellence solution summarized by Tahar Allouche, Bruno Escoffier, Stefano Moretti and Meltem Öztürk (2020, <doi:10.24963/ijcai.2020/3>).
Author: Felix Fritz [aut, cre],
Jochen Staudacher [aut, cph, ths],
Moretti Stefano [aut, cph, ths]
Maintainer: Felix Fritz <felix.fritz@dauphine.eu>
Diff between socialranking versions 1.0.1 dated 2023-08-23 and 1.1.0 dated 2023-11-29
DESCRIPTION | 6 MD5 | 102 ++-- NAMESPACE | 36 + NEWS.md | 8 R/PowerRelation.R | 16 R/SocialRanking.R | 20 R/appendMissingCoalitions.R | 2 R/asPowerRelation.R | 4 R/banzhaf.R | 2 R/cpmajority.R | 35 + R/dominance.R | 2 R/generator.R | 1 R/kramerSimpson.R | 92 +--- R/lexcel.R | 2 R/lexcel1.R | 41 +- R/lexcel2.R |only R/lexcelP.R |only R/lexcelPS.R |only R/makePowerRelationMonotonic.R | 2 R/pipes.R | 211 ++++++++-- build/partial.rdb |binary build/vignette.rds |binary inst/REFERENCES.bib | 10 inst/doc/socialranking.R | 34 + inst/doc/socialranking.Rmd | 265 +++++++++--- inst/doc/socialranking.html | 736 ++++++++++++++++++++++++------------ inst/doc/socialranking_pdf.R | 34 + inst/doc/socialranking_pdf.Rmd | 269 +++++++++---- inst/doc/socialranking_pdf.pdf |binary man/L1Scores.Rd | 49 +- man/L2Scores.Rd |only man/LPSScores.Rd |only man/LPScores.Rd |only man/PowerRelation.Rd | 16 man/SocialRanking.Rd | 16 man/appendMissingCoalitions.Rd | 2 man/as.PowerRelation.Rd | 4 man/copelandScores.Rd | 3 man/cpMajorityComparison.Rd | 26 - man/cumulativeScores.Rd | 3 man/doRanking.Rd | 2 man/dominates.Rd | 4 man/kramerSimpsonScores.Rd | 64 --- man/lexcelScores.Rd | 5 man/makePowerRelationMonotonic.Rd | 2 man/ordinalBanzhafScores.Rd | 5 man/testRelation.Rd | 54 ++ tests/testthat/test-kramerSimpson.R | 18 tests/testthat/test-lexcel1.R | 113 +++++ vignettes/preamble.tex | 2 vignettes/references.bib | 36 + vignettes/socialranking.Rmd | 265 +++++++++--- vignettes/socialranking_pdf.Rmd | 269 +++++++++---- vignettes/tables/functionTable.html | 4 vignettes/tables/functionTable.tex | 2 55 files changed, 1973 insertions(+), 921 deletions(-)
Title: Simulate Experimental Crosses
Description: Simulate and plot general experimental crosses. The focus is on simulating genotypes with an aim towards flexibility rather than speed. Meiosis is simulated following the Stahl model, in which chiasma locations are the superposition of two processes: a proportion p coming from a process exhibiting no interference, and the remainder coming from a process following the chi-square model.
Author: Karl W Broman [aut, cre]
Maintainer: Karl W Broman <broman@wisc.edu>
Diff between simcross versions 0.3-6 dated 2020-09-24 and 0.6 dated 2023-11-29
DESCRIPTION | 10 MD5 | 33 +- NEWS.md | 9 R/mouseL_cox-data.R | 2 R/mouseL_mgi-data.R | 2 R/sim_from_pedigree.R | 2 README.md | 4 build/partial.rdb |only build/vignette.rds |binary data/AILped.RData |binary data/mouseL_cox.RData |binary data/mouseL_mgi.RData |binary inst/doc/simcross.Rmd | 25 + inst/doc/simcross.html | 686 +++++++++++++++++++++++++++++++++-------------- man/mouseL_cox.Rd | 2 man/mouseL_mgi.Rd | 2 man/sim_from_pedigree.Rd | 2 vignettes/simcross.Rmd | 25 + 18 files changed, 567 insertions(+), 237 deletions(-)
Title: Computes Statistics for Relational Event History Data
Description: Computes a variety of statistics for relational event models. Relational event models enable researchers to investigate both exogenous and endogenous factors influencing the evolution of a time-ordered sequence of events. These models are categorized into tie-oriented models (Butts, C., 2008, <doi:10.1111/j.1467-9531.2008.00203.x>), where the probability of a dyad interacting next is modeled in a single step, and actor-oriented models (Stadtfeld, C., & Block, P., 2017, <doi:10.15195/v4.a14>), which first model the probability of a sender initiating an interaction and subsequently the probability of the sender's choice of receiver. The package is designed to compute a variety of statistics that summarize exogenous and endogenous influences on the event stream for both types of models.
Author: Marlyne Meijerink-Bosman [aut, cre],
Giuseppe Arena [ctb],
Diana Karimova [ctb],
Rumana Lakdawala [ctb],
Mahdi Shafiee Kamalabad [ctb],
Fabio Generoso Vieira [ctb],
Roger Leenders [ctb],
Joris Mulder [ctb]
Maintainer: Marlyne Meijerink-Bosman <m.l.meijerink@tilburguniversity.edu>
Diff between remstats versions 3.2.0 dated 2023-11-17 and 3.2.1 dated 2023-11-29
DESCRIPTION | 8 +-- MD5 | 16 +++---- NEWS.md | 9 ++++ R/bind_remstats.R | 4 + R/helpers.R | 2 inst/include/remstats_RcppExports.h | 8 +-- src/RcppExports.cpp | 28 ++++++------ src/aomstats.cpp | 81 ++++++++++++++++++++---------------- src/tomstats.cpp | 7 +-- 9 files changed, 95 insertions(+), 68 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 1.2.5 dated 2022-05-31 and 1.2.6 dated 2023-11-29
DESCRIPTION | 20 MD5 | 36 NEWS.md | 221 +++-- R/RcppExports.R | 236 +++--- build/partial.rdb |binary build/vignette.rds |binary inst/doc/intro.R | 2 inst/doc/intro.html | 427 +++++------ inst/doc/proc_approx.R | 6 inst/doc/proc_approx.Rmd | 10 inst/doc/proc_approx.html | 1653 ++++++++++++++++++++++---------------------- inst/doc/proc_exact.R | 2 inst/doc/proc_exact.Rmd | 4 inst/doc/proc_exact.html | 1144 +++++++++++++++--------------- inst/doc/use_with_rcpp.R | 2 inst/doc/use_with_rcpp.html | 14 src/RcppExports.cpp | 54 - vignettes/proc_approx.Rmd | 10 vignettes/proc_exact.Rmd | 4 19 files changed, 1938 insertions(+), 1907 deletions(-)
More information about PoissonBinomial at CRAN
Permanent link
Title: Landscape Meteorology Tools
Description: Functions to estimate weather variables at any position of a landscape [De Caceres et al. (2018) <doi:10.1016/j.envsoft.2018.08.003>].
Author: Miquel De Caceres [aut, cre] ,
Victor Granda [aut] ,
Nicolas Martin [aut] ,
Antoine Cabon [aut]
Maintainer: Miquel De Caceres <miquelcaceres@gmail.com>
Diff between meteoland versions 2.1.0 dated 2023-08-21 and 2.2.1 dated 2023-11-29
DESCRIPTION | 8 +-- MD5 | 40 ++++++++--------- NEWS.md | 3 + R/RcppExports.R | 6 +- R/defaultInterpolationParams.R | 12 +++-- R/tidy_interpolation.R | 16 ++++-- build/partial.rdb |binary build/vignette.rds |binary data/meteoland_interpolator_example.rda |binary inst/doc/reshaping-meteo.R | 2 inst/doc/reshaping-meteo.html | 62 +++++++++++++-------------- inst/doc/tidy-meteoland.R | 2 inst/doc/tidy-meteoland.html | 28 ++++++++++-- inst/include/meteoland_RcppExports.h | 2 man/defaultInterpolationParams.Rd | 5 +- man/penman.Rd | 4 - src/PET.cpp | 8 +-- src/RcppExports.cpp | 60 +++++++++++++------------- src/utils.cpp | 4 - src/utils.h | 4 - tests/testthat/test-03_interpolator_object.R | 6 +- 21 files changed, 155 insertions(+), 117 deletions(-)
Title: Graph Based Multiple Comparison Procedures
Description: Functions and a graphical user interface for graphical described
multiple test procedures.
Author: Kornelius Rohmeyer [aut, cre],
Florian Klinglmueller [aut]
Maintainer: Kornelius Rohmeyer <rohmeyer@small-projects.de>
Diff between gMCP versions 0.8-15 dated 2020-03-23 and 0.8-16 dated 2023-11-29
gMCP-0.8-15/gMCP/java/org/af/gMCP/config/VersionComparator.java |only gMCP-0.8-15/gMCP/java/org/af/gMCP/gui/dialogs/TellAboutOnlineUpate.java |only gMCP-0.8-16/gMCP/DESCRIPTION | 17 - gMCP-0.8-16/gMCP/MD5 | 107 +++++----- gMCP-0.8-16/gMCP/NEWS | 13 + gMCP-0.8-16/gMCP/R/convertFromOldClassDefinition.R | 2 gMCP-0.8-16/gMCP/R/doRUnitTests.R | 6 gMCP-0.8-16/gMCP/R/exampleGraphs.R | 6 gMCP-0.8-16/gMCP/R/gMCP.R | 6 gMCP-0.8-16/gMCP/R/gMCP.extended.R | 6 gMCP-0.8-16/gMCP/R/gPAD.R | 6 gMCP-0.8-16/gMCP/R/generateBounds.R | 2 gMCP-0.8-16/gMCP/R/graph2latex.R | 12 - gMCP-0.8-16/gMCP/R/graphMCP.R | 8 gMCP-0.8-16/gMCP/R/graphTest.R | 2 gMCP-0.8-16/gMCP/R/helperGUI.R | 6 gMCP-0.8-16/gMCP/R/initJava.R |only gMCP-0.8-16/gMCP/R/misc.R | 8 gMCP-0.8-16/gMCP/R/onLoad.R | 80 ------- gMCP-0.8-16/gMCP/R/rqmvnorm.R | 2 gMCP-0.8-16/gMCP/R/startGUIs.R | 1 gMCP-0.8-16/gMCP/build/partial.rdb |only gMCP-0.8-16/gMCP/build/vignette.rds |binary gMCP-0.8-16/gMCP/inst/CITATION | 22 +- gMCP-0.8-16/gMCP/inst/doc/AQuickStart.pdf |binary gMCP-0.8-16/gMCP/inst/doc/gMCP.pdf |binary gMCP-0.8-16/gMCP/inst/doc/parametric.pdf |binary gMCP-0.8-16/gMCP/inst/java/gsrmtp.jar |binary gMCP-0.8-16/gMCP/java/build.xml | 92 ++++---- gMCP-0.8-16/gMCP/java/org/af/gMCP/config/GeneralConfig.java | 20 - gMCP-0.8-16/gMCP/java/org/af/gMCP/gui/CreateGraphGUI.java | 17 - gMCP-0.8-16/gMCP/java/org/af/gMCP/gui/dialogs/ShowLicense.java |only gMCP-0.8-16/gMCP/java/org/af/gMCP/gui/options/MiscPanel.java | 13 - gMCP-0.8-16/gMCP/man/bonferroni.test.Rd | 10 gMCP-0.8-16/gMCP/man/bonferroni.trimmed.simes.test.Rd | 10 gMCP-0.8-16/gMCP/man/calcPower.Rd | 18 + gMCP-0.8-16/gMCP/man/doInterim.Rd | 4 gMCP-0.8-16/gMCP/man/exampleGraphs.Rd | 41 +-- gMCP-0.8-16/gMCP/man/gMCP-package.Rd | 22 +- gMCP-0.8-16/gMCP/man/gMCP.Rd | 24 +- gMCP-0.8-16/gMCP/man/gMCP.extended.Rd | 17 + gMCP-0.8-16/gMCP/man/generateBounds.Rd | 12 - gMCP-0.8-16/gMCP/man/generatePvals.Rd | 11 - gMCP-0.8-16/gMCP/man/graph2latex.Rd | 26 +- gMCP-0.8-16/gMCP/man/graphGUI.Rd | 10 gMCP-0.8-16/gMCP/man/graphTest.Rd | 19 + gMCP-0.8-16/gMCP/man/matrix2graph.Rd | 3 gMCP-0.8-16/gMCP/man/parametric.test.Rd | 13 - gMCP-0.8-16/gMCP/man/rejectNode.Rd | 5 gMCP-0.8-16/gMCP/man/replaceVariables.Rd | 10 gMCP-0.8-16/gMCP/man/rqmvnorm.Rd | 10 gMCP-0.8-16/gMCP/man/sampSize.Rd | 18 + gMCP-0.8-16/gMCP/man/sampSizeCore.Rd | 13 + gMCP-0.8-16/gMCP/man/secondStageTest.Rd | 11 - gMCP-0.8-16/gMCP/man/simes.on.subsets.test.Rd | 12 - gMCP-0.8-16/gMCP/man/simes.test.Rd | 10 gMCP-0.8-16/gMCP/man/unitTestsGMCP.Rd | 11 - 57 files changed, 423 insertions(+), 371 deletions(-)
Title: Matrix Exponential, Log, 'etc'
Description: Computation of the matrix exponential, logarithm, sqrt,
and related quantities, using traditional and modern methods.
Author: Martin Maechler [aut, cre] ,
Christophe Dutang [aut] ,
Vincent Goulet [aut] ,
Douglas Bates [ctb] ,
David Firth [ctb] ),
Marina Shapira [ctb] ),
Michael Stadelmann [ctb]
Maintainer: Martin Maechler <maechler@stat.math.ethz.ch>
Diff between expm versions 0.999-7 dated 2023-01-09 and 0.999-8 dated 2023-11-29
ChangeLog | 9 +++++++++ DESCRIPTION | 8 ++++---- MD5 | 22 +++++++++++----------- build/partial.rdb |binary build/vignette.rds |binary inst/doc/expm.pdf |binary inst/test-tools.R | 2 +- man/expm.Higham08.Rd | 16 ++++++++++------ man/expmCond.Rd | 2 +- src/R_dgebal.c | 4 +--- tests/ex.R | 24 +++++++++++++++++++++--- tests/exact-ex.R | 7 +++++-- 12 files changed, 63 insertions(+), 31 deletions(-)
Title: Tools for Parsing and Generating XML Within R and S-Plus
Description: Many approaches for both reading and
creating XML (and HTML) documents (including DTDs), both local
and accessible via HTTP or FTP. Also offers access to an
'XPath' "interpreter".
Author: CRAN Team [ctb, cre] ,
Duncan Temple Lang [aut] ,
Tomas Kalibera [ctb]
Maintainer: CRAN Team <CRAN@r-project.org>
Diff between XML versions 3.99-0.15 dated 2023-11-02 and 3.99-0.16 dated 2023-11-29
DESCRIPTION | 6 +++--- MD5 | 8 ++++---- man/parseDTD.Rd | 6 ++++-- man/xmlTreeParse.Rd | 2 +- src/DocParse.c | 2 +- 5 files changed, 13 insertions(+), 11 deletions(-)
Title: Derivatives of the First-Passage Time Density and Cumulative
Distribution Function, and Random Sampling from the (Truncated)
First-Passage Time Distribution
Description: First, we provide functions to calculate the partial derivative of the first-passage time diffusion probability density function (PDF) and cumulative
distribution function (CDF) with respect to the first-passage time t (only for PDF), the upper barrier a, the drift rate v, the relative starting point w, the
non-decision time t0, the inter-trial variability of the drift rate sv, the inter-trial variability of the rel. starting point sw, and the inter-trial variability
of the non-decision time st0. In addition the PDF and CDF themselves are also provided. Most calculations are done on the logarithmic scale to make it more stable.
Since the PDF, CDF, and their derivatives are represented as infinite series, we give the user the option to control the approximation errors with the argument
'precision'. For the numerical integration we used the C library cubature by Johnson, S. G. (2005-2013) <https://github.com/stevengj/cubature>. Numerical integration is
required whenever sv, sw, and [...truncated...]
Author: Raphael Hartmann [aut, cre],
Karl C. Klauer [cph, aut, ctb, ths],
Steven G. Johnson [ctb],
Jean M. Linhart [ctb],
Brian Gough [ctb],
Gerard Jungman [ctb],
Rudolf Schuerer [ctb],
Przemyslaw Sliwa [ctb],
Jason H. Stover [ctb]
Maintainer: Raphael Hartmann <raphael.hartmann@protonmail.com>
Diff between WienR versions 0.3-14 dated 2023-07-04 and 0.3-15 dated 2023-11-29
DESCRIPTION | 6 +++--- MD5 | 10 +++++----- build/partial.rdb |binary src/Makevars | 2 +- src/Makevars.win | 2 +- src/derivs.cpp | 25 ++++++++++++------------- 6 files changed, 22 insertions(+), 23 deletions(-)
Title: Amos Tanay's Group High Performance Statistical Utilities
Description: A collection of high performance utilities to compute
distance, correlation, auto correlation, clustering and other tasks.
Contains graph clustering algorithm described in "MetaCell: analysis
of single-cell RNA-seq data using K-nn graph partitions" (Yael Baran,
Akhiad Bercovich, Arnau Sebe-Pedros, Yaniv Lubling, Amir Giladi, Elad
Chomsky, Zohar Meir, Michael Hoichman, Aviezer Lifshitz & Amos Tanay,
2019 <doi:10.1186/s13059-019-1812-2>).
Author: Michael Hoichman [aut],
Aviezer Lifshitz [aut, cre]
Maintainer: Aviezer Lifshitz <aviezer.lifshitz@weizmann.ac.il>
Diff between tgstat versions 2.3.24 dated 2023-06-27 and 2.3.25 dated 2023-11-29
DESCRIPTION | 6 +++--- MD5 | 8 ++++---- NEWS.md | 4 ++++ build/vignette.rds |binary src/tgstat.cpp | 7 ++++--- 5 files changed, 15 insertions(+), 10 deletions(-)
Title: Text Analysis Utilities
Description: Utilities for text analysis.
Author: Christian Buchta [aut],
Kurt Hornik [aut, cre] ,
Ingo Feinerer [aut],
David Meyer [aut]
Maintainer: Kurt Hornik <Kurt.Hornik@R-project.org>
Diff between tau versions 0.0-24 dated 2021-07-21 and 0.0-25 dated 2023-11-29
DESCRIPTION | 6 +++--- MD5 | 6 +++--- R/sysdata.rda |binary src/textcnt.c | 2 +- 4 files changed, 7 insertions(+), 7 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 0.9.0.3 dated 2023-10-12 and 0.9.0.4 dated 2023-11-29
DESCRIPTION | 8 +++---- MD5 | 10 ++++----- R/simer.Data.R | 48 ++++++++++++++++++++++++++--------------------- data/simdata.rda |binary src/MinimalProgressBar.h | 11 ++++++---- src/pedigree.cpp | 24 +++++++++++++---------- 6 files changed, 57 insertions(+), 44 deletions(-)
Title: Identify Rogue Taxa in Sets of Phylogenetic Trees
Description: Rogue ("wildcard") taxa are leaves with uncertain phylogenetic
position.
Their position may vary from tree to tree under inference methods that yield a
tree set (e.g. bootstrapping, Bayesian tree searches, maximum parsimony).
The presence of rogue taxa in a tree set can potentially remove all
information from a consensus tree. The information content of a consensus
tree - a function of its resolution and branch support values - can often be
increased by removing rogue taxa.
'Rogue' provides an explicitly information-theoretic approach to rogue
detection (Smith 2022) <doi:10.1093/sysbio/syab099>,
and an interface to 'RogueNaRok' (Aberer et al. 2013)
<doi:10.1093/sysbio/sys078>.
Author: Martin R. Smith [aut, cre, cph]
,
Andre J. Aberer [aut, cph]
Maintainer: Martin R. Smith <martin.smith@durham.ac.uk>
Diff between Rogue versions 2.1.5 dated 2023-03-20 and 2.1.6 dated 2023-11-29
DESCRIPTION | 10 +-- MD5 | 30 +++++----- NEWS.md | 8 ++ R/SPIC.R | 6 +- R/stability.R | 48 ++++++++++++++-- build/partial.rdb |binary build/vignette.rds |binary inst/WORDLIST | 1 inst/doc/Bayesian.R | 18 ++---- inst/doc/Bayesian.Rmd | 19 ++---- inst/doc/Bayesian.html | 144 ++++++++++++++++++++++++------------------------- man/RogueTaxa.Rd | 6 +- man/TipInstability.Rd | 21 ++++++- man/TipVolatility.Rd | 16 +++++ src/rnr/Tree.c | 6 +- vignettes/Bayesian.Rmd | 19 ++---- 16 files changed, 215 insertions(+), 137 deletions(-)
Title: Circular / Ring Buffers
Description: Circular / ring buffers in R and C. There are a couple
of different buffers here with different implementations that
represent different trade-offs.
Author: Rich FitzJohn [aut, cre],
Imperial College of Science, Technology and Medicine [cph]
Maintainer: Rich FitzJohn <rich.fitzjohn@gmail.com>
Diff between ring versions 1.0.4 dated 2023-04-28 and 1.0.5 dated 2023-11-29
DESCRIPTION | 8 MD5 | 36 +- NEWS.md | 8 R/ring_buffer_bytes.R | 61 ++- R/ring_buffer_bytes_typed.R | 22 - R/ring_buffer_env.R | 26 - build/vignette.rds |binary inst/doc/ring.html | 8 inst/doc/ring_applications.html | 4 inst/include/ring/ring.c | 10 man/ring_buffer_bytes.Rd | 576 ++++++++++++++++++------------------- man/ring_buffer_bytes_translate.Rd | 550 +++++++++++++++++------------------ man/ring_buffer_bytes_typed.Rd | 560 ++++++++++++++++++----------------- man/ring_buffer_env.Rd | 551 +++++++++++++++++------------------ src/convert.h | 1 src/ring_r.c | 14 src/ring_r.h | 1 src/test.h | 1 src/util.h | 1 19 files changed, 1243 insertions(+), 1195 deletions(-)
Title: Extensible Data Pattern Searching Framework
Description: Extensible framework for
subgroup discovery (Atzmueller (2015) <doi:10.1002/widm.1144>),
contrast patterns (Chen (2022) <doi:10.48550/arXiv.2209.13556>),
emerging patterns (Dong (1999) <doi:10.1145/312129.312191>) and
association rules (Agrawal (1994) <https://www.vldb.org/conf/1994/P487.PDF>).
Both crisp (binary) and fuzzy data are supported.
It generates conditions in the form of elementary conjunctions, evaluates
them on a dataset and checks the induced sub-data for interesting statistical
properties. Currently, the package searches for implicative association rules
and conditional correlations (Hájek (1978) <doi:10.1007/978-3-642-66943-9>).
A user-defined function may be defined to evaluate on each generated
condition to search for custom patterns.
Author: Michal Burda [aut, cre]
Maintainer: Michal Burda <michal.burda@osu.cz>
Diff between nuggets versions 1.0.0 dated 2023-11-28 and 1.0.1 dated 2023-11-29
DESCRIPTION | 6 - MD5 | 12 +-- NEWS.md | 9 +- README.md | 157 +++++++++++++++++++++++++++++--------------- build/partial.rdb |binary src/test-antichain-Node.cpp | 29 ++++++-- src/test-antichain-Tree.cpp | 24 +++++- 7 files changed, 163 insertions(+), 74 deletions(-)
Title: Stochastic Island Biogeography Theory Made Easy
Description: Develops stochastic models based on the Theory of Island
Biogeography (TIB) of MacArthur and Wilson (1967) <doi:10.1023/A:1016393430551>
and extensions. It implements methods to estimate colonization and
extinction rates (including environmental variables) given presence-absence
data, simulates community assembly, and performs model selection.
Author: Vicente Jimenez [aut, cre],
David Alonso [aut]
Maintainer: Vicente Jimenez <vicente.jimenez.ontiveros@gmail.com>
Diff between island versions 0.2.9 dated 2023-01-23 and 0.2.10 dated 2023-11-29
DESCRIPTION | 10 MD5 | 68 NEWS.md | 5 R/RatesToProbabilities.R | 2 R/island.R | 4 build/partial.rdb |binary build/vignette.rds |binary inst/CITATION | 9 inst/doc/IBDmodels.R | 2 inst/doc/IBDmodels.Rmd | 2 inst/doc/IBDmodels.html | 522 +++- inst/doc/detectability.R | 10 inst/doc/detectability.html | 735 ++++- inst/doc/island.R | 12 inst/doc/island.html | 1964 ++++++++++------ man/cetotrans.Rd | 2 man/island.Rd | 13 src/Counting_Type_of_Transitions.c | 2 src/GSL_MacKenzie_NLL_Uneven_Function.c | 2 src/GSL_MacKenzie_NLLikelihood_Function.c | 2 src/GSL_NLL_Function_Uneven.c | 2 src/GSL_NLLikelihood_Function.c | 8 src/IO_AKAIKE_Model_Selection.c | 4 src/IO_Missing_Values.c | 2 src/MODEL_SELECTION_UPGMA_MacKENZIE_R_SHLIB.c | 6 src/MODEL_SELECTION_UPGMA_R_FUNCTION.c | 4 src/MODEL_SELECTION_UPGMA_R_SHLIB.c | 8 src/MacKenzie_NLLikelihood_Function.c | 18 src/Parameter_Model.c | 4 src/R_SHLIB___mle_MacKenzie_NLLikelihood_Minimization.c | 2 src/R_SHLIB___mle_NLL_Uneven_Minimization.c | 4 src/UPGMA_CLUSTERING_PARTITION.c | 2 src/mle_Col_Ext_Uneven_Matrix_R_SHLIB.c | 2 src/upgma_clustering.c | 6 vignettes/IBDmodels.Rmd | 2 35 files changed, 2407 insertions(+), 1033 deletions(-)
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2018-05-17 0.1.4
2018-04-21 0.1.3
2017-10-29 0.1.2
2017-06-05 0.1.1
2016-11-27 0.1.0
Title: Read, Write and Edit 'xlsx' Files
Description: Simplifies the creation of 'xlsx' files by
providing a high level interface to writing, styling and editing
worksheets.
Author: Jordan Mark Barbone [aut] ,
Jan Marvin Garbuszus [aut, cre],
Oliver Roy [ctb],
openxlsx authors [cph] ,
Arseny Kapoulkine [ctb, cph]
Maintainer: Jan Marvin Garbuszus <jan.garbuszus@ruhr-uni-bochum.de>
Diff between openxlsx2 versions 1.1 dated 2023-10-23 and 1.2 dated 2023-11-29
openxlsx2-1.1/openxlsx2/tests/testthat/test-aaa.R |only openxlsx2-1.2/openxlsx2/DESCRIPTION | 7 openxlsx2-1.2/openxlsx2/MD5 | 83 +- openxlsx2-1.2/openxlsx2/NEWS.md | 21 openxlsx2-1.2/openxlsx2/R/baseXML.R | 6 openxlsx2-1.2/openxlsx2/R/class-comment.R | 2 openxlsx2-1.2/openxlsx2/R/class-workbook-wrappers.R | 20 openxlsx2-1.2/openxlsx2/R/class-workbook.R | 135 ++- openxlsx2-1.2/openxlsx2/R/class-worksheet.R | 9 openxlsx2-1.2/openxlsx2/R/conditional_formatting.R | 4 openxlsx2-1.2/openxlsx2/R/converters.R | 9 openxlsx2-1.2/openxlsx2/R/helper-functions.R | 391 ++++++---- openxlsx2-1.2/openxlsx2/R/illegal-characters.R | 42 - openxlsx2-1.2/openxlsx2/R/openxlsx2-package.R | 7 openxlsx2-1.2/openxlsx2/R/wb_styles.R | 3 openxlsx2-1.2/openxlsx2/R/write.R | 74 - openxlsx2-1.2/openxlsx2/R/write_xlsx.R | 6 openxlsx2-1.2/openxlsx2/build/vignette.rds |binary openxlsx2-1.2/openxlsx2/inst/WORDLIST | 1 openxlsx2-1.2/openxlsx2/man/openxlsx2_options.Rd | 6 openxlsx2-1.2/openxlsx2/man/wbWorkbook.Rd | 5 openxlsx2-1.2/openxlsx2/man/wb_add_pivot_table.Rd | 3 openxlsx2-1.2/openxlsx2/man/wb_copy_cells.Rd | 5 openxlsx2-1.2/openxlsx2/src/helper_functions.cpp | 2 openxlsx2-1.2/openxlsx2/src/load_workbook.cpp | 6 openxlsx2-1.2/openxlsx2/src/styles_xml.cpp | 32 openxlsx2-1.2/openxlsx2/src/xlsb.cpp | 2 openxlsx2-1.2/openxlsx2/src/xlsb_funs.h | 4 openxlsx2-1.2/openxlsx2/tests/testthat/helper.R | 19 openxlsx2-1.2/openxlsx2/tests/testthat/test-asserts.R | 1 openxlsx2-1.2/openxlsx2/tests/testthat/test-base_font.R | 2 openxlsx2-1.2/openxlsx2/tests/testthat/test-class-chart-sheet.R | 1 openxlsx2-1.2/openxlsx2/tests/testthat/test-class-color.R | 1 openxlsx2-1.2/openxlsx2/tests/testthat/test-class-comment.R | 1 openxlsx2-1.2/openxlsx2/tests/testthat/test-class-hyperlink.R | 1 openxlsx2-1.2/openxlsx2/tests/testthat/test-class-workbook-utils.R | 2 openxlsx2-1.2/openxlsx2/tests/testthat/test-class-workbook-wrappers.R | 1 openxlsx2-1.2/openxlsx2/tests/testthat/test-class-workbook.R | 33 openxlsx2-1.2/openxlsx2/tests/testthat/test-cloneWorksheet.R | 71 + openxlsx2-1.2/openxlsx2/tests/testthat/test-formulas.R | 24 openxlsx2-1.2/openxlsx2/tests/testthat/test-named_regions.R | 31 openxlsx2-1.2/openxlsx2/tests/testthat/test-wb_styles.R | 2 openxlsx2-1.2/openxlsx2/tests/testthat/test-writing_posixct.R | 21 43 files changed, 763 insertions(+), 333 deletions(-)
Title: An R Package for the Mean Measure of Divergence (MMD)
Description: Offers a graphical user interface for the calculation of the mean measure of divergence, with facilities for trait selection and graphical representations <doi:10.1002/ajpa.23336>.
Author: Frederic Santos [aut, cre]
Maintainer: Frederic Santos <frederic.santos@u-bordeaux.fr>
Diff between AnthropMMD versions 4.0.2 dated 2023-08-08 and 4.0.3 dated 2023-11-29
DESCRIPTION | 6 +++--- MD5 | 12 ++++++------ NEWS.md | 8 +++++++- build/vignette.rds |binary inst/doc/intro_AnthropMMD.R | 2 +- inst/doc/intro_AnthropMMD.html | 2 +- man/AnthropMMD-package.Rd | 13 +++++-------- 7 files changed, 23 insertions(+), 20 deletions(-)
Title: Basic Robust Statistics
Description: "Essential" Robust Statistics.
Tools allowing to analyze data with robust methods. This includes
regression methodology including model selections and multivariate
statistics where we strive to cover the book "Robust Statistics,
Theory and Methods" by 'Maronna, Martin and Yohai'; Wiley 2006.
Author: Martin Maechler [aut, cre] ,
Peter Rousseeuw [ctb] ,
Christophe Croux [ctb] ,
Valentin Todorov [aut] ,
Andreas Ruckstuhl [aut] ,
Matias Salibian-Barrera [aut] ,
Tobias Verbeke [ctb, fnd] ,
Manuel Koller [aut] ,
Eduardo L. T. Conceicao [aut] ,
Maria A [...truncated...]
Maintainer: Martin Maechler <maechler@stat.math.ethz.ch>
Diff between robustbase versions 0.99-0 dated 2023-06-16 and 0.99-1 dated 2023-11-29
DESCRIPTION | 15 ++++++++----- MD5 | 42 +++++++++++++++++++------------------- R/AAA.R | 2 - R/MTestimador2.R | 28 ++++++++++--------------- R/lmrob.MM.R | 1 R/lmrob.R | 10 +-------- TODO | 5 ++++ build/partial.rdb |binary build/vignette.rds |binary inst/NEWS.Rd | 18 +++++++++++++--- inst/doc/fastMcd-kmini.pdf |binary inst/doc/lmrob_simulation.pdf |binary inst/doc/psi_functions.pdf |binary inst/xtraR/platform-sessionInfo.R | 5 ++-- man/glmrob.Rd | 2 - man/lmrob.control.Rd | 2 - man/nlrob.control.Rd | 25 ++++++++++++++-------- man/outlierStats.Rd | 2 - man/r6pack.Rd | 12 +++++----- src/lmrob.c | 5 ++-- src/mc.c | 11 ++++++--- src/monitor.c | 2 - 22 files changed, 105 insertions(+), 82 deletions(-)
Title: R Interface to 'IGN' Web Services
Description: Automatic open data acquisition from resources of IGN
('Institut National de Information Geographique et forestiere')
(<https://www.ign.fr/>). Available datasets include various types of
raster and vector data, such as digital elevation models, state
borders, spatial databases, cadastral parcels, and more. There also
access to point clouds data ('LIDAR') and specifics API
(<https://apicarto.ign.fr/api/doc/>).
Author: Paul Carteron [aut, cre]
Maintainer: Paul Carteron <carteronpaul@gmail.com>
Diff between happign versions 0.2.1 dated 2023-11-18 and 0.2.2 dated 2023-11-29
DESCRIPTION | 6 +- MD5 | 22 ++++----- NAMESPACE | 1 NEWS.md | 5 +- R/get_layers_metadata.R | 1 R/get_wfs.R | 11 ++-- R/get_wms_raster.R | 23 +++++---- R/get_wmts.R | 63 ++++++++++++++++++-------- R/utils.R | 15 ++++++ man/get_wmts.Rd | 8 ++- tests/testthat/test-get_wms_raster_utils.R | 19 +++++++ tests/testthat/test-get_wmts.R | 70 ++++++++++++++++++++++++----- 12 files changed, 183 insertions(+), 61 deletions(-)
Title: Infrastructure for Ordering Objects Using Seriation
Description: Infrastructure for ordering objects with an implementation of several
seriation/sequencing/ordination techniques to reorder matrices, dissimilarity
matrices, and dendrograms. Also provides (optimally) reordered heatmaps,
color images and clustering visualizations like dissimilarity plots, and
visual assessment of cluster tendency plots (VAT and iVAT). Hahsler et al (2008) <doi:10.18637/jss.v025.i03>.
Author: Michael Hahsler [aut, cre, cph]
,
Christian Buchta [aut, cph],
Kurt Hornik [aut, cph] ,
David Barnett [ctb],
Michael Brusco [ctb, cph],
Michael Friendly [ctb],
Hans-Friedrich Koehn [ctb, cph],
Fionn Murtagh [ctb, cph],
Stephanie Stahl [ctb, cph]
Maintainer: Michael Hahsler <mhahsler@lyle.smu.edu>
Diff between seriation versions 1.5.2 dated 2023-11-26 and 1.5.3 dated 2023-11-29
DESCRIPTION | 8 ++++---- MD5 | 10 +++++----- NEWS.md | 5 ++--- inst/doc/seriation.pdf |binary src/bea.f | 2 ++ tests/testthat/test-seriate.R | 21 +++++++++++++-------- 6 files changed, 26 insertions(+), 20 deletions(-)
Title: Fast, Sensitive, and Accurate Integration of Single Cell Data
Description: Implementation of the Harmony algorithm for single cell integration, described in Korsunsky et al <doi:10.1038/s41592-019-0619-0>. Package includes a standalone Harmony function and interfaces to external frameworks.
Author: Ilya Korsunsky [cre, aut] ,
Martin Hemberg [aut] ,
Nikolaos Patikas [aut, ctb] ,
Hongcheng Yao [aut, ctb] ,
Nghia Millard [aut] ,
Jean Fan [aut, ctb] ,
Kamil Slowikowski [aut, ctb] ,
Miles Smith [ctb],
Soumya Raychaudhuri [aut]
Maintainer: Ilya Korsunsky <ilya.korsunsky@gmail.com>
Diff between harmony versions 1.1.0 dated 2023-10-23 and 1.2.0 dated 2023-11-29
DESCRIPTION | 6 MD5 | 48 +- NEWS | 7 R/RcppExports.R | 8 R/harmony_option.R | 41 -- R/ui.R | 16 build/partial.rdb |binary build/vignette.rds |binary inst/doc/Seurat.html | 64 +-- inst/doc/detailedWalkthrough.R | 2 inst/doc/detailedWalkthrough.Rmd | 2 inst/doc/detailedWalkthrough.html | 628 ++++++++++++++++----------------- inst/doc/quickstart.html | 37 - man/HarmonyMatrix.Rd | 5 man/RunHarmony.Rd | 5 man/RunHarmony.Seurat.Rd | 5 man/RunHarmony.SingleCellExperiment.Rd | 5 man/RunHarmony.default.Rd | 5 man/harmony_options.Rd | 20 - src/RcppExports.cpp | 26 - src/harmony.cpp | 144 ++++--- src/harmony.h | 18 src/utils.cpp | 36 - src/utils.h | 5 vignettes/detailedWalkthrough.Rmd | 2 25 files changed, 552 insertions(+), 583 deletions(-)
Title: Bindings to the 'Geospatial Data Abstraction Library' Raster API
Description: Interface to the Raster API of the 'Geospatial Data Abstraction
Library' ('GDAL') supporting manual creation of uninitialized datasets,
creation from existing raster as template, low level I/O, configuration of
virtual raster (VRT), coordinate transformation, and access to 'gdalwarp'
for reprojection. Includes several 'GDAL' algorithms and functions for
working with spatial reference systems. Calling signatures resemble the
native C, C++ and Python APIs provided by the 'GDAL' project
(<https://gdal.org>). Bindings are implemented via exposed C++ class
encapsulating a 'GDALDataset' and its associated 'GDALRasterBand' objects,
plus several stand-alone functions. Additional functionality includes:
class 'RunningStats' for efficient summary statistics on large data
streams; class 'CmbTable' for counting unique combinations of integers
with a hash table; raster 'combine()' to identify and count unique pixel
combinations across multiple input layers; raster 'calc()' to evaluate
an R ex [...truncated...]
Author: Chris Toney [aut, cre] ,
Frank Warmerdam [ctb, cph] ,
Even Rouault [ctb, cph] ,
Marius Appel [ctb, cph] ,
Daniel James [ctb, cph] ,
Peter Dimov [ctb, cph]
Maintainer: Chris Toney <chris.toney@usda.gov>
Diff between gdalraster versions 1.6.0 dated 2023-10-27 and 1.7.0 dated 2023-11-29
gdalraster-1.6.0/gdalraster/inst/extdata/sr_20200829.json |only gdalraster-1.6.0/gdalraster/inst/extdata/storm_lake_lcp_source.html |only gdalraster-1.6.0/gdalraster/inst/extdata/storml_elev_source.html |only gdalraster-1.6.0/gdalraster/inst/extdata/storml_evc_source.html |only gdalraster-1.6.0/gdalraster/inst/extdata/storml_evh_source.html |only gdalraster-1.6.0/gdalraster/inst/extdata/storml_evt_source.html |only gdalraster-1.6.0/gdalraster/inst/extdata/storml_tcc_source.html |only gdalraster-1.7.0/gdalraster/DESCRIPTION | 6 gdalraster-1.7.0/gdalraster/MD5 | 98 - gdalraster-1.7.0/gdalraster/NAMESPACE | 2 gdalraster-1.7.0/gdalraster/NEWS.md | 24 gdalraster-1.7.0/gdalraster/R/RcppExports.R | 345 +++++ gdalraster-1.7.0/gdalraster/R/gdalraster.R | 19 gdalraster-1.7.0/gdalraster/R/gdalraster_proc.R | 497 +++++++- gdalraster-1.7.0/gdalraster/README.md | 38 gdalraster-1.7.0/gdalraster/build/vignette.rds |binary gdalraster-1.7.0/gdalraster/configure | 22 gdalraster-1.7.0/gdalraster/configure.ac | 4 gdalraster-1.7.0/gdalraster/inst/doc/gdal-config-quick-ref.R |only gdalraster-1.7.0/gdalraster/inst/doc/gdal-config-quick-ref.Rmd |only gdalraster-1.7.0/gdalraster/inst/doc/gdal-config-quick-ref.html |only gdalraster-1.7.0/gdalraster/inst/doc/raster-api-tutorial.R | 4 gdalraster-1.7.0/gdalraster/inst/doc/raster-api-tutorial.Rmd | 7 gdalraster-1.7.0/gdalraster/inst/doc/raster-api-tutorial.html | 356 +++-- gdalraster-1.7.0/gdalraster/inst/doc/raster-attribute-tables.R | 34 gdalraster-1.7.0/gdalraster/inst/doc/raster-attribute-tables.Rmd | 44 gdalraster-1.7.0/gdalraster/inst/doc/raster-attribute-tables.html | 253 +--- gdalraster-1.7.0/gdalraster/inst/extdata/LF20_EVT_220.csv | 208 --- gdalraster-1.7.0/gdalraster/inst/extdata/metadata.zip |only gdalraster-1.7.0/gdalraster/inst/extdata/ynp_fires_1984_2022.gpkg |only gdalraster-1.7.0/gdalraster/man/GDALRaster-class.Rd | 18 gdalraster-1.7.0/gdalraster/man/buildVRT.Rd |only gdalraster-1.7.0/gdalraster/man/calc.Rd | 3 gdalraster-1.7.0/gdalraster/man/createCopy.Rd | 2 gdalraster-1.7.0/gdalraster/man/dem_proc.Rd | 2 gdalraster-1.7.0/gdalraster/man/gdalraster-package.Rd | 17 gdalraster-1.7.0/gdalraster/man/get_cache_used.Rd | 3 gdalraster-1.7.0/gdalraster/man/get_config_option.Rd | 2 gdalraster-1.7.0/gdalraster/man/polygonize.Rd |only gdalraster-1.7.0/gdalraster/man/rasterFromRaster.Rd | 2 gdalraster-1.7.0/gdalraster/man/rasterToVRT.Rd | 16 gdalraster-1.7.0/gdalraster/man/rasterize.Rd |only gdalraster-1.7.0/gdalraster/man/set_config_option.Rd | 4 gdalraster-1.7.0/gdalraster/man/translate.Rd |only gdalraster-1.7.0/gdalraster/man/warp.Rd | 163 ++ gdalraster-1.7.0/gdalraster/src/RcppExports.cpp | 181 ++ gdalraster-1.7.0/gdalraster/src/gdal_exp.cpp | 620 ++++++++-- gdalraster-1.7.0/gdalraster/src/gdalraster.cpp | 2 gdalraster-1.7.0/gdalraster/src/gdalraster.h | 19 gdalraster-1.7.0/gdalraster/src/ogr_util.cpp |only gdalraster-1.7.0/gdalraster/src/ogr_util.h |only gdalraster-1.7.0/gdalraster/src/running_stats.h | 1 gdalraster-1.7.0/gdalraster/tests/testthat/test-gdal_exp.R | 79 + gdalraster-1.7.0/gdalraster/tests/testthat/test-gdal_helpers.R | 1 gdalraster-1.7.0/gdalraster/tests/testthat/test-gdal_rat.R | 18 gdalraster-1.7.0/gdalraster/tests/testthat/test-gdalraster_proc.R | 93 + gdalraster-1.7.0/gdalraster/tests/testthat/test-ogr_util.R |only gdalraster-1.7.0/gdalraster/vignettes/gdal-config-quick-ref.Rmd |only gdalraster-1.7.0/gdalraster/vignettes/raster-api-tutorial.Rmd | 7 gdalraster-1.7.0/gdalraster/vignettes/raster-attribute-tables.Rmd | 44 60 files changed, 2461 insertions(+), 797 deletions(-)
Title: Mining Association Rules and Frequent Itemsets
Description: Provides the infrastructure for representing, manipulating and analyzing
transaction data and patterns (frequent itemsets and association rules).
Also provides C implementations of the association mining algorithms Apriori and Eclat.
Hahsler, Gruen and Hornik (2005) <doi:10.18637/jss.v014.i15>.
Author: Michael Hahsler [aut, cre, cph]
,
Christian Buchta [aut, cph],
Bettina Gruen [aut, cph],
Kurt Hornik [aut, cph] ,
Christian Borgelt [ctb, cph],
Ian Johnson [ctb],
Makhlouf Ledmi [ctb]
Maintainer: Michael Hahsler <mhahsler@lyle.smu.edu>
Diff between arules versions 1.7-6 dated 2023-03-23 and 1.7-7 dated 2023-11-29
DESCRIPTION | 8 +- MD5 | 72 ++++++++++----------- NEWS.md | 15 ++++ R/Adult.R | 2 R/apriori.R | 3 R/confint.R | 5 + R/fim4r.R | 115 ++++++++++++++++++++++------------ R/interestMeasures.R | 32 +++++++++ R/is.redundant.R | 24 ++++--- R/is.significant.R | 46 ++++++++----- R/itemMatrix.R | 4 - R/read_write.R | 12 +-- R/transactions.R | 2 R/warm.R | 1 README.md | 139 +++++++++++++++++++++++++++++------------- build/partial.rdb |binary build/vignette.rds |binary data/Adult.rda |binary data/AdultUCI.rda |binary data/Epub.rda |binary data/Groceries.rda |binary data/Income.rda |binary data/IncomeESL.rda |binary data/Mushroom.rda |binary data/SunBai.rda |binary inst/doc/arules.pdf |binary man/Adult.Rd | 2 man/apriori.Rd | 3 man/fim4r.Rd | 86 ++++++++++++++++--------- man/interestMeasure.Rd | 3 man/is.redundant.Rd | 22 ++++-- man/is.significant.Rd | 36 ++++++---- man/write.Rd | 12 +-- src/rapriori.c | 74 +++++++++++----------- src/reclat.c | 44 ++++++------- tests/testthat/test-confint.R | 7 ++ tests/testthat/test-fim4r.R | 9 ++ 37 files changed, 499 insertions(+), 279 deletions(-)
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2021-11-15 1.0.2.0
2021-07-27 1.0.1.0
2021-07-12 1.0.0.0
Title: Simulate Cognitive Diagnostic Model ('CDM') Data
Description: Provides efficient R and 'C++' routines to simulate cognitive diagnostic
model data for Deterministic Input, Noisy "And" Gate ('DINA') and
reduced Reparameterized Unified Model ('rRUM') from
Culpepper and Hudson (2017) <doi: 10.1177/0146621617707511>,
Culpepper (2015) <doi:10.3102/1076998615595403>, and
de la Torre (2009) <doi:10.3102/1076998607309474>.
Author: James Joseph Balamuta [aut, cre, cph]
,
Steven Andrew Culpepper [aut, cph]
,
Aaron Hudson [ctb, cph]
Maintainer: James Joseph Balamuta <balamut2@illinois.edu>
Diff between simcdm versions 0.1.1 dated 2019-03-10 and 0.1.2 dated 2023-11-29
DESCRIPTION | 19 - MD5 | 45 ++-- NEWS.md | 16 + R/RcppExports.R | 2 README.md | 49 ++-- build/partial.rdb |only build/vignette.rds |binary inst/CITATION | 15 + inst/doc/overview-simcdm.R | 22 +- inst/doc/overview-simcdm.html | 407 ++++++++++++++++++++++----------------- inst/doc/simcdm-in-packages.html | 257 +++++++++++++++--------- man/attribute_bijection.Rd | 2 man/attribute_classes.Rd | 2 man/attribute_inv_bijection.Rd | 2 man/sim_dina_attributes.Rd | 2 man/sim_dina_class.Rd | 2 man/sim_dina_items.Rd | 2 man/sim_eta_matrix.Rd | 4 man/sim_q_matrix.Rd | 2 man/sim_subject_attributes.Rd | 2 man/simcdm-package.Rd | 14 - src/Makevars | 3 src/Makevars.win | 3 src/RcppExports.cpp | 27 +- 24 files changed, 524 insertions(+), 375 deletions(-)
Title: Bayesian Estimation of the Reduced Reparameterized Unified Model
with Gibbs Sampling
Description: Implementation of Gibbs sampling algorithm for Bayesian Estimation
of the Reduced Reparameterized Unified Model ('rrum'), described by
Culpepper and Hudson (2017) <doi: 10.1177/0146621617707511>.
Author: Steven Andrew Culpepper [aut, cph]
,
Aaron Hudson [aut, cph] ,
James Joseph Balamuta [aut, cph, cre]
Maintainer: James Joseph Balamuta <balamut2@illinois.edu>
Diff between rrum versions 0.2.0 dated 2019-02-11 and 0.2.1 dated 2023-11-29
rrum-0.2.0/rrum/man/rrum_helper.Rd |only rrum-0.2.1/rrum/DESCRIPTION | 17 ++++++++-------- rrum-0.2.1/rrum/MD5 | 26 ++++++++++++------------- rrum-0.2.1/rrum/NEWS.md | 23 ++++++++++++++++++++++ rrum-0.2.1/rrum/R/RcppExports.R | 5 ++-- rrum-0.2.1/rrum/R/rrum-package.R | 15 ++++++++++---- rrum-0.2.1/rrum/README.md | 23 ++++++++++------------ rrum-0.2.1/rrum/build |only rrum-0.2.1/rrum/inst/CITATION | 37 ++++++++++++++++++++---------------- rrum-0.2.1/rrum/man/rrum-package.Rd | 22 ++++++++++++++------- rrum-0.2.1/rrum/man/rrum.Rd | 12 +++++++++-- rrum-0.2.1/rrum/src/Makevars | 3 -- rrum-0.2.1/rrum/src/Makevars.win | 3 -- rrum-0.2.1/rrum/src/RcppExports.cpp | 7 +++++- rrum-0.2.1/rrum/src/rRUM_Gibbs.cpp | 3 +- 15 files changed, 124 insertions(+), 72 deletions(-)
Title: Multivariate Synthetic Control Method Using Time Series
Description: Three generalizations of the synthetic control method (which has
already an implementation in package 'Synth') are implemented: first,
'MSCMT' allows for using multiple outcome variables, second, time series
can be supplied as economic predictors, and third, a well-defined
cross-validation approach can be used.
Much effort has been taken to make the implementation as stable as possible
(including edge cases) without losing computational efficiency.
A detailed description of the main algorithms is given in
Becker and Klößner (2018) <doi:10.1016/j.ecosta.2017.08.002>.
Author: Martin Becker [aut, cre] ,
Stefan Kloessner [aut],
Karline Soetaert [com],
Jack Dongarra [cph],
R.J. Hanson [cph],
K.H. Haskell [cph],
Cleve Moler [cph],
LAPACK authors [cph]
Maintainer: Martin Becker <martin.becker@mx.uni-saarland.de>
Diff between MSCMT versions 1.3.8 dated 2023-11-13 and 1.3.9 dated 2023-11-29
DESCRIPTION | 8 ++++---- MD5 | 10 +++++----- NEWS | 8 ++++++++ build/partial.rdb |binary inst/doc/WorkingWithMSCMT.html | 20 ++++++++++---------- src/DE.c | 6 +++--- 6 files changed, 30 insertions(+), 22 deletions(-)
Title: Multivariate Normal Distribution
Description: Calculates and differentiates probabilities and density of (conditional) multivariate normal distribution and Gaussian copula (with various marginal distributions) using methods described in A. Genz (2004) <doi:10.1023/B:STCO.0000035304.20635.31>, A. Genz, F. Bretz (2009) <doi:10.1007/978-3-642-01689-9>, H. I. Gassmann (2003) <doi:10.1198/1061860032283> and E. Kossova, B. Potanin (2018) <https://ideas.repec.org/a/ris/apltrx/0346.html>.
Author: Bogdan Potanin [aut, cre, ctb],
Sofiia Dolgikh [ctb]
Maintainer: Bogdan Potanin <bogdanpotanin@gmail.com>
Diff between mnorm versions 1.2.1 dated 2023-08-22 and 1.2.2 dated 2023-11-29
DESCRIPTION | 8 ++++---- MD5 | 6 +++--- R/RcppExports.R | 2 +- src/RcppExports.cpp | 32 ++++++++++++++++---------------- 4 files changed, 24 insertions(+), 24 deletions(-)
Title: Curriculum Vitae for R Markdown
Description: Provides templates and functions to simplify the production and maintenance of curriculum vitae.
Author: Mitchell O'Hara-Wild [aut, cre]
,
Rob Hyndman [aut] ,
Yihui Xie [ctb] ,
Albert Krewinkel [cph] ,
JooYoung Seo [ctb] ,
Isabelle Greco [ctb]
Maintainer: Mitchell O'Hara-Wild <mail@mitchelloharawild.com>
Diff between vitae versions 0.5.3 dated 2023-03-21 and 0.5.4 dated 2023-11-29
DESCRIPTION | 6 MD5 | 34 +-- NEWS.md | 5 R/bibliography.R | 12 - R/cv_document.R | 23 -- R/preview.R | 3 README.md | 4 inst/doc/data.html | 48 ++-- inst/doc/extending.html | 90 ++++---- inst/doc/vitae.html | 10 inst/multiple-bibliographies.lua | 106 +++++----- inst/rmarkdown/templates/awesomecv/resources/awesome-cv.tex | 41 ++- inst/rmarkdown/templates/hyndman/resources/hyndmantemplate.tex | 39 ++- inst/rmarkdown/templates/latexcv/resources/classic/main.tex | 39 ++- inst/rmarkdown/templates/moderncv/resources/moderncv.tex | 39 ++- inst/rmarkdown/templates/twentyseconds/resources/twentysecondstemplate.tex | 39 ++- man/insert_preview.Rd | 2 tests/testthat/test-entries.R | 2 18 files changed, 311 insertions(+), 231 deletions(-)
Title: Animal Trajectory Analysis
Description: A toolbox to assist with statistical analysis of animal trajectories.
It provides simple access to algorithms for calculating and assessing a variety of
characteristics such as speed and acceleration, as well as multiple measures of
straightness or tortuosity. Some support is provided for 3-dimensional trajectories.
McLean & Skowron Volponi (2018) <doi:10.1111/eth.12739>.
Author: Jim McLean [aut, cre]
Maintainer: Jim McLean <jim_mclean@optusnet.com.au>
Diff between trajr versions 1.5.0 dated 2023-06-24 and 1.5.1 dated 2023-11-29
trajr-1.5.0/trajr/R/trajr.R |only trajr-1.5.0/trajr/man/trajr.Rd |only trajr-1.5.0/trajr/vignettes/examples_cache/html/Emax_2cbf85b91f8d5d2c01c465dfc908751d.RData |only trajr-1.5.0/trajr/vignettes/examples_cache/html/Emax_2cbf85b91f8d5d2c01c465dfc908751d.rdb |only trajr-1.5.0/trajr/vignettes/examples_cache/html/Emax_2cbf85b91f8d5d2c01c465dfc908751d.rdx |only trajr-1.5.0/trajr/vignettes/examples_cache/html/Sinuosity_ebb98b053fdddd3c0a1eb59540d0256b.RData |only trajr-1.5.0/trajr/vignettes/examples_cache/html/Sinuosity_ebb98b053fdddd3c0a1eb59540d0256b.rdb |only trajr-1.5.0/trajr/vignettes/examples_cache/html/Sinuosity_ebb98b053fdddd3c0a1eb59540d0256b.rdx |only trajr-1.5.1/trajr/DESCRIPTION | 10 trajr-1.5.1/trajr/MD5 | 39 +-- trajr-1.5.1/trajr/NEWS.md | 4 trajr-1.5.1/trajr/R/speed.R | 2 trajr-1.5.1/trajr/R/straightness.R | 5 trajr-1.5.1/trajr/R/trajr-package.R |only trajr-1.5.1/trajr/README.md | 107 ++++------ trajr-1.5.1/trajr/build/partial.rdb |only trajr-1.5.1/trajr/inst/doc/stop-start.html | 4 trajr-1.5.1/trajr/inst/doc/trajr-vignette.Rmd | 3 trajr-1.5.1/trajr/inst/doc/trajr-vignette.html | 10 trajr-1.5.1/trajr/man/TrajSinuosity2.Rd | 5 trajr-1.5.1/trajr/man/trajr-package.Rd |only trajr-1.5.1/trajr/vignettes/examples_cache/html/Emax_a361e40e2eb48c558806844df310ae0a.RData |only trajr-1.5.1/trajr/vignettes/examples_cache/html/Emax_a361e40e2eb48c558806844df310ae0a.rdb |only trajr-1.5.1/trajr/vignettes/examples_cache/html/Emax_a361e40e2eb48c558806844df310ae0a.rdx |only trajr-1.5.1/trajr/vignettes/examples_cache/html/Sinuosity_33614eec99d8bece77dc27b33a654572.RData |only trajr-1.5.1/trajr/vignettes/examples_cache/html/Sinuosity_33614eec99d8bece77dc27b33a654572.rdb |only trajr-1.5.1/trajr/vignettes/examples_cache/html/Sinuosity_33614eec99d8bece77dc27b33a654572.rdx |only trajr-1.5.1/trajr/vignettes/examples_cache/html/__packages | 1 trajr-1.5.1/trajr/vignettes/trajr-vignette.Rmd | 3 29 files changed, 100 insertions(+), 93 deletions(-)
Title: Random Generation Functionality for the 'spatstat' Family
Description: Functionality for random generation of spatial data in the 'spatstat' family of packages.
Generates random spatial patterns of points according to many simple rules (complete spatial randomness,
Poisson, binomial, random grid, systematic, cell), randomised alteration of patterns
(thinning, random shift, jittering), simulated realisations of random point processes including
simple sequential inhibition, Matern inhibition models, Neyman-Scott cluster processes
(using direct, Brix-Kendall, or hybrid algorithms),
log-Gaussian Cox processes, product shot noise cluster processes
and Gibbs point processes (using Metropolis-Hastings birth-death-shift algorithm,
alternating Gibbs sampler, or coupling-from-the-past perfect simulation).
Also generates random spatial patterns of line segments,
random tessellations, and random images (random noise, random mosaics).
Excludes random generation on a linear network,
which is covered by the separate package 'spatstat.linnet'.
Author: Adrian Baddeley [aut, cre, cph]
,
Rolf Turner [aut, cph] ,
Ege Rubak [aut, cph] ,
Tilman Davies [aut, cph] ,
Kasper Klitgaard Berthelsen [ctb, cph],
David Bryant [ctb, cph],
Ya-Mei Chang [ctb, cph],
Ute Hahn [ctb],
Abdollah Jalilian [ctb],
Dominic Sc [...truncated...]
Maintainer: Adrian Baddeley <Adrian.Baddeley@curtin.edu.au>
Diff between spatstat.random versions 3.2-1 dated 2023-10-21 and 3.2-2 dated 2023-11-29
spatstat.random-3.2-1/spatstat.random/src/fexitc.c |only spatstat.random-3.2-2/spatstat.random/DESCRIPTION | 8 ++-- spatstat.random-3.2-2/spatstat.random/MD5 | 19 ++++------ spatstat.random-3.2-2/spatstat.random/NEWS | 7 +++ spatstat.random-3.2-2/spatstat.random/inst/doc/packagesizes.txt | 1 spatstat.random-3.2-2/spatstat.random/man/rPSNCP.Rd | 16 ++++---- spatstat.random-3.2-2/spatstat.random/src/areaint.c | 6 --- spatstat.random-3.2-2/spatstat.random/src/badgey.c | 4 -- spatstat.random-3.2-2/spatstat.random/src/getcif.c | 4 -- spatstat.random-3.2-2/spatstat.random/src/geyer.c | 4 -- spatstat.random-3.2-2/spatstat.random/src/methas.c | 6 +-- 11 files changed, 35 insertions(+), 40 deletions(-)
More information about spatstat.random at CRAN
Permanent link
Title: 'Rcpp' Integration for the 'mlpack' Library
Description: A fast, flexible machine learning library, written in C++, that
aims to provide fast, extensible implementations of cutting-edge
machine learning algorithms. See also Curtin et al. (2023)
<doi:10.21105/joss.05026>.
Author: Yashwant Singh Parihar [aut, ctb, cph],
Ryan Curtin [aut, ctb, cph, cre],
Dirk Eddelbuettel [aut, ctb, cph],
James Balamuta [aut, ctb, cph],
Bill March [ctb, cph],
Dongryeol Lee [ctb, cph],
Nishant Mehta [ctb, cph],
Parikshit Ram [ctb, cph],
James Cl [...truncated...]
Maintainer: Ryan Curtin <ryan@ratml.org>
Diff between mlpack versions 4.2.1 dated 2023-09-26 and 4.3.0 dated 2023-11-29
mlpack-4.2.1/mlpack/inst/include/mlpack/methods/ann/layer/not_adapted/layer_norm.hpp |only mlpack-4.2.1/mlpack/inst/include/mlpack/methods/ann/layer/not_adapted/layer_norm_impl.hpp |only mlpack-4.2.1/mlpack/inst/include/mlpack/methods/ann/layer/not_adapted/multihead_attention.hpp |only mlpack-4.2.1/mlpack/inst/include/mlpack/methods/ann/layer/not_adapted/multihead_attention_impl.hpp |only mlpack-4.3.0/mlpack/DESCRIPTION | 8 mlpack-4.3.0/mlpack/MD5 | 236 +++++----- mlpack-4.3.0/mlpack/R/package.R | 1 mlpack-4.3.0/mlpack/inst/include/mlpack/base.hpp | 37 + mlpack-4.3.0/mlpack/inst/include/mlpack/core/dists/regression_distribution.hpp | 4 mlpack-4.3.0/mlpack/inst/include/mlpack/core/dists/regression_distribution_impl.hpp | 5 mlpack-4.3.0/mlpack/inst/include/mlpack/core/util/gitversion.hpp | 2 mlpack-4.3.0/mlpack/inst/include/mlpack/core/util/version.hpp | 4 mlpack-4.3.0/mlpack/inst/include/mlpack/methods/ann/activation_functions/activation_functions.hpp | 18 mlpack-4.3.0/mlpack/inst/include/mlpack/methods/ann/activation_functions/bipolar_sigmoid_function.hpp | 16 mlpack-4.3.0/mlpack/inst/include/mlpack/methods/ann/activation_functions/elish_function.hpp | 49 +- mlpack-4.3.0/mlpack/inst/include/mlpack/methods/ann/activation_functions/elliot_function.hpp | 20 mlpack-4.3.0/mlpack/inst/include/mlpack/methods/ann/activation_functions/gaussian_function.hpp | 19 mlpack-4.3.0/mlpack/inst/include/mlpack/methods/ann/activation_functions/gelu_function.hpp | 37 - mlpack-4.3.0/mlpack/inst/include/mlpack/methods/ann/activation_functions/hard_sigmoid_function.hpp | 20 mlpack-4.3.0/mlpack/inst/include/mlpack/methods/ann/activation_functions/hard_swish_function.hpp | 28 - mlpack-4.3.0/mlpack/inst/include/mlpack/methods/ann/activation_functions/hyper_sinh_function.hpp | 14 mlpack-4.3.0/mlpack/inst/include/mlpack/methods/ann/activation_functions/identity_function.hpp | 18 mlpack-4.3.0/mlpack/inst/include/mlpack/methods/ann/activation_functions/inverse_quadratic_function.hpp | 18 mlpack-4.3.0/mlpack/inst/include/mlpack/methods/ann/activation_functions/lisht_function.hpp | 20 mlpack-4.3.0/mlpack/inst/include/mlpack/methods/ann/activation_functions/logistic_function.hpp | 16 mlpack-4.3.0/mlpack/inst/include/mlpack/methods/ann/activation_functions/mish_function.hpp | 28 - mlpack-4.3.0/mlpack/inst/include/mlpack/methods/ann/activation_functions/multi_quadratic_function.hpp | 24 - mlpack-4.3.0/mlpack/inst/include/mlpack/methods/ann/activation_functions/poisson1_function.hpp | 20 mlpack-4.3.0/mlpack/inst/include/mlpack/methods/ann/activation_functions/quadratic_function.hpp | 20 mlpack-4.3.0/mlpack/inst/include/mlpack/methods/ann/activation_functions/rectifier_function.hpp | 21 mlpack-4.3.0/mlpack/inst/include/mlpack/methods/ann/activation_functions/silu_function.hpp | 33 - mlpack-4.3.0/mlpack/inst/include/mlpack/methods/ann/activation_functions/softplus_function.hpp | 20 mlpack-4.3.0/mlpack/inst/include/mlpack/methods/ann/activation_functions/softsign_function.hpp | 20 mlpack-4.3.0/mlpack/inst/include/mlpack/methods/ann/activation_functions/spline_function.hpp | 24 - mlpack-4.3.0/mlpack/inst/include/mlpack/methods/ann/activation_functions/swish_function.hpp | 29 - mlpack-4.3.0/mlpack/inst/include/mlpack/methods/ann/activation_functions/tanh_exponential_function.hpp | 29 - mlpack-4.3.0/mlpack/inst/include/mlpack/methods/ann/activation_functions/tanh_function.hpp | 18 mlpack-4.3.0/mlpack/inst/include/mlpack/methods/ann/dists/bernoulli_distribution_impl.hpp | 2 mlpack-4.3.0/mlpack/inst/include/mlpack/methods/ann/ffn_impl.hpp | 38 - mlpack-4.3.0/mlpack/inst/include/mlpack/methods/ann/layer/adaptive_max_pooling.hpp | 4 mlpack-4.3.0/mlpack/inst/include/mlpack/methods/ann/layer/adaptive_max_pooling_impl.hpp | 3 mlpack-4.3.0/mlpack/inst/include/mlpack/methods/ann/layer/adaptive_mean_pooling.hpp | 4 mlpack-4.3.0/mlpack/inst/include/mlpack/methods/ann/layer/adaptive_mean_pooling_impl.hpp | 3 mlpack-4.3.0/mlpack/inst/include/mlpack/methods/ann/layer/add.hpp | 4 mlpack-4.3.0/mlpack/inst/include/mlpack/methods/ann/layer/add_impl.hpp | 1 mlpack-4.3.0/mlpack/inst/include/mlpack/methods/ann/layer/add_merge.hpp | 4 mlpack-4.3.0/mlpack/inst/include/mlpack/methods/ann/layer/add_merge_impl.hpp | 9 mlpack-4.3.0/mlpack/inst/include/mlpack/methods/ann/layer/alpha_dropout.hpp | 8 mlpack-4.3.0/mlpack/inst/include/mlpack/methods/ann/layer/alpha_dropout_impl.hpp | 5 mlpack-4.3.0/mlpack/inst/include/mlpack/methods/ann/layer/base_layer.hpp | 13 mlpack-4.3.0/mlpack/inst/include/mlpack/methods/ann/layer/batch_norm.hpp | 6 mlpack-4.3.0/mlpack/inst/include/mlpack/methods/ann/layer/batch_norm_impl.hpp | 7 mlpack-4.3.0/mlpack/inst/include/mlpack/methods/ann/layer/c_relu.hpp | 8 mlpack-4.3.0/mlpack/inst/include/mlpack/methods/ann/layer/c_relu_impl.hpp | 19 mlpack-4.3.0/mlpack/inst/include/mlpack/methods/ann/layer/celu.hpp | 8 mlpack-4.3.0/mlpack/inst/include/mlpack/methods/ann/layer/celu_impl.hpp | 5 mlpack-4.3.0/mlpack/inst/include/mlpack/methods/ann/layer/concat.hpp | 12 mlpack-4.3.0/mlpack/inst/include/mlpack/methods/ann/layer/concat_impl.hpp | 19 mlpack-4.3.0/mlpack/inst/include/mlpack/methods/ann/layer/concatenate.hpp | 8 mlpack-4.3.0/mlpack/inst/include/mlpack/methods/ann/layer/concatenate_impl.hpp | 1 mlpack-4.3.0/mlpack/inst/include/mlpack/methods/ann/layer/convolution.hpp | 8 mlpack-4.3.0/mlpack/inst/include/mlpack/methods/ann/layer/convolution_impl.hpp | 11 mlpack-4.3.0/mlpack/inst/include/mlpack/methods/ann/layer/dropconnect.hpp | 8 mlpack-4.3.0/mlpack/inst/include/mlpack/methods/ann/layer/dropconnect_impl.hpp | 3 mlpack-4.3.0/mlpack/inst/include/mlpack/methods/ann/layer/dropout.hpp | 8 mlpack-4.3.0/mlpack/inst/include/mlpack/methods/ann/layer/dropout_impl.hpp | 1 mlpack-4.3.0/mlpack/inst/include/mlpack/methods/ann/layer/elu.hpp | 8 mlpack-4.3.0/mlpack/inst/include/mlpack/methods/ann/layer/elu_impl.hpp | 5 mlpack-4.3.0/mlpack/inst/include/mlpack/methods/ann/layer/flexible_relu.hpp | 8 mlpack-4.3.0/mlpack/inst/include/mlpack/methods/ann/layer/flexible_relu_impl.hpp | 10 mlpack-4.3.0/mlpack/inst/include/mlpack/methods/ann/layer/ftswish.hpp | 8 mlpack-4.3.0/mlpack/inst/include/mlpack/methods/ann/layer/ftswish_impl.hpp | 7 mlpack-4.3.0/mlpack/inst/include/mlpack/methods/ann/layer/grouped_convolution.hpp | 8 mlpack-4.3.0/mlpack/inst/include/mlpack/methods/ann/layer/grouped_convolution_impl.hpp | 11 mlpack-4.3.0/mlpack/inst/include/mlpack/methods/ann/layer/hard_tanh.hpp | 8 mlpack-4.3.0/mlpack/inst/include/mlpack/methods/ann/layer/hard_tanh_impl.hpp | 5 mlpack-4.3.0/mlpack/inst/include/mlpack/methods/ann/layer/identity.hpp | 4 mlpack-4.3.0/mlpack/inst/include/mlpack/methods/ann/layer/identity_impl.hpp | 1 mlpack-4.3.0/mlpack/inst/include/mlpack/methods/ann/layer/layer.hpp | 4 mlpack-4.3.0/mlpack/inst/include/mlpack/methods/ann/layer/layer_norm.hpp |only mlpack-4.3.0/mlpack/inst/include/mlpack/methods/ann/layer/layer_norm_impl.hpp |only mlpack-4.3.0/mlpack/inst/include/mlpack/methods/ann/layer/layer_types.hpp | 2 mlpack-4.3.0/mlpack/inst/include/mlpack/methods/ann/layer/leaky_relu.hpp | 16 mlpack-4.3.0/mlpack/inst/include/mlpack/methods/ann/layer/leaky_relu_impl.hpp | 10 mlpack-4.3.0/mlpack/inst/include/mlpack/methods/ann/layer/linear.hpp | 4 mlpack-4.3.0/mlpack/inst/include/mlpack/methods/ann/layer/linear3d.hpp | 4 mlpack-4.3.0/mlpack/inst/include/mlpack/methods/ann/layer/linear3d_impl.hpp | 1 mlpack-4.3.0/mlpack/inst/include/mlpack/methods/ann/layer/linear_impl.hpp | 5 mlpack-4.3.0/mlpack/inst/include/mlpack/methods/ann/layer/linear_no_bias.hpp | 4 mlpack-4.3.0/mlpack/inst/include/mlpack/methods/ann/layer/linear_no_bias_impl.hpp | 5 mlpack-4.3.0/mlpack/inst/include/mlpack/methods/ann/layer/log_softmax.hpp | 9 mlpack-4.3.0/mlpack/inst/include/mlpack/methods/ann/layer/log_softmax_impl.hpp | 5 mlpack-4.3.0/mlpack/inst/include/mlpack/methods/ann/layer/lstm.hpp | 8 mlpack-4.3.0/mlpack/inst/include/mlpack/methods/ann/layer/lstm_impl.hpp | 5 mlpack-4.3.0/mlpack/inst/include/mlpack/methods/ann/layer/max_pooling.hpp | 6 mlpack-4.3.0/mlpack/inst/include/mlpack/methods/ann/layer/max_pooling_impl.hpp | 5 mlpack-4.3.0/mlpack/inst/include/mlpack/methods/ann/layer/mean_pooling.hpp | 4 mlpack-4.3.0/mlpack/inst/include/mlpack/methods/ann/layer/mean_pooling_impl.hpp | 3 mlpack-4.3.0/mlpack/inst/include/mlpack/methods/ann/layer/multi_layer.hpp | 4 mlpack-4.3.0/mlpack/inst/include/mlpack/methods/ann/layer/multi_layer_impl.hpp | 15 mlpack-4.3.0/mlpack/inst/include/mlpack/methods/ann/layer/multihead_attention.hpp |only mlpack-4.3.0/mlpack/inst/include/mlpack/methods/ann/layer/multihead_attention_impl.hpp |only mlpack-4.3.0/mlpack/inst/include/mlpack/methods/ann/layer/noisylinear.hpp | 4 mlpack-4.3.0/mlpack/inst/include/mlpack/methods/ann/layer/noisylinear_impl.hpp | 5 mlpack-4.3.0/mlpack/inst/include/mlpack/methods/ann/layer/not_adapted/reparametrization_impl.hpp | 2 mlpack-4.3.0/mlpack/inst/include/mlpack/methods/ann/layer/padding.hpp | 4 mlpack-4.3.0/mlpack/inst/include/mlpack/methods/ann/layer/padding_impl.hpp | 1 mlpack-4.3.0/mlpack/inst/include/mlpack/methods/ann/layer/parametric_relu.hpp | 8 mlpack-4.3.0/mlpack/inst/include/mlpack/methods/ann/layer/parametric_relu_impl.hpp | 5 mlpack-4.3.0/mlpack/inst/include/mlpack/methods/ann/layer/radial_basis_function.hpp | 1 mlpack-4.3.0/mlpack/inst/include/mlpack/methods/ann/layer/radial_basis_function_impl.hpp | 1 mlpack-4.3.0/mlpack/inst/include/mlpack/methods/ann/layer/relu6.hpp | 8 mlpack-4.3.0/mlpack/inst/include/mlpack/methods/ann/layer/relu6_impl.hpp | 5 mlpack-4.3.0/mlpack/inst/include/mlpack/methods/ann/layer/serialization.hpp | 2 mlpack-4.3.0/mlpack/inst/include/mlpack/methods/ann/layer/softmax.hpp | 9 mlpack-4.3.0/mlpack/inst/include/mlpack/methods/ann/layer/softmax_impl.hpp | 5 mlpack-4.3.0/mlpack/inst/include/mlpack/methods/ann/layer/softmin.hpp | 8 mlpack-4.3.0/mlpack/inst/include/mlpack/methods/ann/layer/softmin_impl.hpp | 5 mlpack-4.3.0/mlpack/inst/include/mlpack/methods/ann/regularizer/lregularizer_impl.hpp | 2 mlpack-4.3.0/mlpack/inst/include/mlpack/methods/ann/rnn_impl.hpp | 7 mlpack-4.3.0/mlpack/inst/include/mlpack/methods/linear_regression/linear_regression.hpp | 9 mlpack-4.3.0/mlpack/inst/include/mlpack/methods/reinforcement_learning/q_networks/categorical_dqn.hpp | 2 mlpack-4.3.0/mlpack/inst/include/mlpack/methods/softmax_regression/softmax_regression_impl.hpp | 2 123 files changed, 890 insertions(+), 513 deletions(-)
Title: Distributions Hermite Polynomial Approximation
Description: Multivariate conditional and marginal densities, moments, cumulative distribution functions as well as binary choice and sample selection models based on Hermite polynomial approximation which was proposed and described by A. Gallant and D. W. Nychka (1987) <doi:10.2307/1913241>.
Author: Potanin Bogdan
Maintainer: Potanin Bogdan <bogdanpotanin@gmail.com>
Diff between hpa versions 1.3.1 dated 2023-05-07 and 1.3.3 dated 2023-11-29
DESCRIPTION | 10 ++--- MD5 | 6 +-- R/RcppExports.R | 2 - src/RcppExports.cpp | 90 ++++++++++++++++++++++++++-------------------------- 4 files changed, 54 insertions(+), 54 deletions(-)
Title: Lightweight Well-Known Geometry Parsing
Description: Provides a minimal R and C++ API for parsing
well-known binary and well-known text representation of
geometries to and from R-native formats.
Well-known binary is compact
and fast to parse; well-known text is human-readable
and is useful for writing tests. These formats are
useful in R only if the information they contain can be
accessed in R, for which high-performance functions
are provided here.
Author: Dewey Dunnington [aut, cre] ,
Edzer Pebesma [aut] ,
Anthony North [ctb]
Maintainer: Dewey Dunnington <dewey@fishandwhistle.net>
Diff between wk versions 0.9.0 dated 2023-10-22 and 0.9.1 dated 2023-11-29
DESCRIPTION | 6 +++--- MD5 | 14 +++++++------- NEWS.md | 4 ++++ inst/include/wk-v1-impl.c | 2 +- src/debug-filter.c | 36 ++++++++++++++++++------------------ src/sfc-writer.c | 3 ++- src/wkb-writer.c | 2 +- src/xy-writer.c | 6 +++--- 8 files changed, 39 insertions(+), 34 deletions(-)
Title: Open Source Geometry Engine ('GEOS') C API
Description: Provides the Open Source Geometry Engine ('GEOS') as a
C API that can be used to write high-performance C and C++
geometry operations using R as an interface. Headers are provided
to make linking to and using these functions from C++ code as
easy and as safe as possible. This package contains an internal
copy of the 'GEOS' library to guarantee the best possible
consistency on multiple platforms.
Author: Dewey Dunnington [aut, cre] ,
GEOS authors [aut],
Martin Davis [ctb, cph],
Benjamin Campbell [ctb, cph],
Tomasz Sowa [ctb, cph],
Christian Kaiser [ctb, cph],
David Skea [ctb, cph],
Daniel Baston [ctb, cph],
Sandro Santilli [ctb, cph],
Mateusz Loskot [...truncated...]
Maintainer: Dewey Dunnington <dewey@fishandwhistle.net>
Diff between libgeos versions 3.11.1-1 dated 2023-01-19 and 3.11.1-2 dated 2023-11-29
DESCRIPTION | 8 ++++---- MD5 | 12 ++++++------ NEWS.md | 4 ++++ README.md | 5 ++--- src/Makevars | 1 - src/Makevars.win | 1 - src/libgeos-cpp-compat.cpp | 2 +- 7 files changed, 17 insertions(+), 16 deletions(-)
Title: Generalized Additive Models
Description: Functions for fitting and working with generalized
additive models, as described in chapter 7 of "Statistical Models in S" (Chambers and Hastie (eds), 1991), and "Generalized Additive Models" (Hastie and Tibshirani, 1990).
Author: Trevor Hastie
Maintainer: Trevor Hastie <hastie@stanford.edu>
Diff between gam versions 1.22-2 dated 2023-03-27 and 1.22-3 dated 2023-11-29
ChangeLog | 2 ++ DESCRIPTION | 8 ++++---- MD5 | 6 +++--- src/loessc.c | 6 +++--- 4 files changed, 12 insertions(+), 10 deletions(-)
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2023-04-17 1.0.4
2022-05-05 1.0
2021-05-06 0.1-1
2018-05-11 0.1
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2018-04-20 0.9.7
2015-10-09 0.9.5
2015-04-27 0.9.4
2014-05-19 0.9.2
2014-05-17 0.9.1