Title: Vectorised Tools for URL Handling and Parsing
Description: A toolkit for all URL-handling needs, including encoding and decoding,
parsing, parameter extraction and modification. All functions are
designed to be both fast and entirely vectorised. It is intended to be
useful for people dealing with web-related datasets, such as server-side
logs, although may be useful for other situations involving large sets of
URLs.
Author: Os Keyes [aut, cre], Jay Jacobs [aut, cre], Drew Schmidt [aut],
Mark Greenaway [ctb], Bob Rudis [ctb], Alex Pinto [ctb], Maryam Khezrzadeh [ctb], Peter Meilstrup [ctb],
Adam M. Costello [cph], Jeff Bezanson [cph], Peter Meilstrup [ctb], Xueyuan Jiang [ctb]
Maintainer: Os Keyes <ironholds@gmail.com>
Diff between urltools versions 1.7.2 dated 2019-02-04 and 1.7.3 dated 2019-04-14
DESCRIPTION | 8 ++++---- MD5 | 6 +++--- NEWS | 4 ++++ tests/testthat/test_encoding.R | 2 +- 4 files changed, 12 insertions(+), 8 deletions(-)
Title: Update and Manipulate Rd Documentation Objects
Description: Functions for manipulation of R documentation objects,
including functions reprompt() and ereprompt() for updating 'Rd'
documentation for functions, methods and classes; 'Rd' macros for
citations and import of references from 'bibtex' files for use in
'Rd' files and 'roxygen2' comments; 'Rd' macros for evaluating and
inserting snippets of 'R' code and the results of its evaluation or
creating graphics on the fly; and many functions for manipulation of
references and Rd files.
Author: Georgi N. Boshnakov [aut, cre],
Duncan Murdoch [ctb]
Maintainer: Georgi N. Boshnakov <georgi.boshnakov@manchester.ac.uk>
Diff between Rdpack versions 0.10-1 dated 2018-10-04 and 0.11-0 dated 2019-04-14
DESCRIPTION | 13 MD5 | 102 +++--- NAMESPACE | 1 NEWS.md | 42 ++ R/bib.R | 15 - R/manip.R | 24 + R/usage.R | 26 + README.md | 195 +++++++++---- build/partial.rdb |binary build/vignette.rds |binary inst/doc/Inserting_bibtex_references.R | 9 inst/doc/Inserting_bibtex_references.Rnw | 76 +++-- inst/doc/Inserting_bibtex_references.pdf |binary inst/doc/Inserting_figures_and_evaluated_examples.Rnw | 59 ++- inst/doc/Inserting_figures_and_evaluated_examples.pdf |binary man/Rdapply.Rd | 8 man/Rdo2Rdf.Rd | 2 man/Rdo_append_argument.Rd | 32 -- man/Rdo_fetch.Rd |only man/Rdo_get_insert_pos.Rd | 37 -- man/Rdo_reparse.Rd | 17 - man/Rdo_sections.Rd | 7 man/Rdo_set_section.Rd | 17 - man/Rdo_show.Rd | 13 man/Rdpack-package.Rd | 141 +++++---- man/Rdpack_bibstyles.Rd | 18 - man/append_to_Rd_list.Rd | 5 man/c_Rd.Rd | 4 man/char2Rdpiece.Rd | 20 - man/compare_usage1.Rd | 35 -- man/deparse_usage.Rd | 4 man/get_sig_text.Rd | 81 +++-- man/get_usage_text.Rd | 14 man/insert_all_ref.Rd | 11 man/insert_ref.Rd | 36 +- man/list_Rd.Rd | 12 man/makeVignetteReference.Rd | 14 man/parse_Rdpiece.Rd | 9 man/parse_pairlist.Rd | 1 man/parse_usage_text.Rd | 43 +- man/promptUsage.Rd | 5 man/rebib.Rd | 22 - man/reprompt.Rd | 9 tests |only vignettes/Inserting_bibtex_references.Rnw | 76 +++-- vignettes/Inserting_bibtex_references.org | 61 +++- vignettes/Inserting_figures_and_evaluated_examples.Rnw | 59 ++- vignettes/Inserting_figures_and_evaluated_examples.org | 72 +++- vignettes/auto/Inserting_bibtex_references.el | 35 +- vignettes/auto/Inserting_figures_and_evaluated_examples.el | 22 - 50 files changed, 939 insertions(+), 565 deletions(-)
Title: Credit Scorecard Modelling Utils
Description: Provides infrastructure functionalities such as missing value treatment, information value calculation, GINI calculation etc. which are used for developing a traditional credit scorecard as well as a machine learning based model. The functionalities defined are standard steps for any credit underwriting scorecard development, extensively used in financial domain.
Author: Arya Poddar [aut, cre],
Aiana Goyal [ctb],
Kanishk Dogar [ctb]
Maintainer: Arya Poddar <aryapoddar290990@gmail.com>
Diff between scorecardModelUtils versions 0.0.0.9 dated 2018-04-27 and 0.0.1.0 dated 2019-04-14
DESCRIPTION | 6 +++--- MD5 | 26 +++++++++++++------------- R/functions.R | 21 +++++++++++++++++++-- man/cv_filter.Rd | 1 + man/fn_conf_mat.Rd | 1 + man/fn_cross_index.Rd | 1 + man/fn_error.Rd | 1 + man/gini_table.Rd | 6 +++++- man/gradient_boosting_parameters.Rd | 1 + man/random_forest_parameters.Rd | 1 + man/scalling.Rd | 1 + man/scoring.Rd | 1 + man/support_vector_parameters.Rd | 1 + man/vif_filter.Rd | 1 + 14 files changed, 50 insertions(+), 19 deletions(-)
More information about scorecardModelUtils at CRAN
Permanent link
Title: Statistical Learning on Sparse Matrices
Description: Implements many algorithms for statistical learning on
sparse matrices - matrix factorizations, matrix completion,
elastic net regressions, factorization machines.
Also 'rsparse' enhances 'Matrix' package by providing methods for
multithreaded <sparse, dense> matrix products and native slicing of
the sparse matrices in Compressed Sparse Row (CSR) format.
List of the algorithms for regression problems:
1) Elastic Net regression via Follow The Proximally-Regularized Leader (FTRL)
Stochastic Gradient Descent (SGD), as per McMahan et al(, <doi:10.1145/2487575.2488200>)
2) Factorization Machines via SGD, as per Rendle (2010, <doi:10.1109/ICDM.2010.127>)
List of algorithms for matrix factorization and matrix completion:
1) Weighted Regularized Matrix Factorization (WRMF) via Alternating Least
Squares (ALS) - paper by Hu, Koren, Volinsky (2008, <doi:10.1109/ICDM.2008.22>)
2) Maximum-Margin Matrix Factorization via ALS, paper by Rennie, Srebro
(2005, <doi:10.1145/1102351.1102441>)
3) Fast Truncated Singular Value Decomposition (SVD), Soft-Thresholded SVD,
Soft-Impute matrix completion via ALS - paper by Hastie, Mazumder
et al. (2014, <arXiv:1410.2596>)
4) Linear-Flow matrix factorization, from 'Practical linear models for
large-scale one-class collaborative filtering' by Sedhain, Bui, Kawale et al
(2016, ISBN:978-1-57735-770-4)
5) GlobalVectors (GloVe) matrix factorization via SGD, paper by Pennington,
Socher, Manning (2014, <https://www.aclweb.org/anthology/D14-1162>)
Package is reasonably fast and memory efficient - it allows to work with large
datasets - millions of rows and millions of columns. This is particularly useful
for practitioners working on recommender systems.
Author: Dmitriy Selivanov [aut, cre, cph]
(<https://orcid.org/0000-0001-5413-1506>),
Drew Schmidt [ctb] (configure script for BLAS, LAPACK detection),
Wei-Chen Chen [ctb] (configure script and work on linking to float
package)
Maintainer: Dmitriy Selivanov <selivanov.dmitriy@gmail.com>
Diff between rsparse versions 0.3.3 dated 2019-04-12 and 0.3.3.1 dated 2019-04-14
DESCRIPTION | 8 ++++--- MD5 | 14 ++++++------ NEWS.md | 3 ++ R/model_GloVe.R | 49 +++++++++++++++++++++++++++++--------------- man/GloVe.Rd | 16 +++++++++----- src/RcppExports.cpp | 4 +-- src/TopProduct.cpp | 22 ++++++++++--------- tests/testthat/test-glove.R | 2 - 8 files changed, 74 insertions(+), 44 deletions(-)
Title: Optimally Robust Influence Curves for Regression and Scale
Description: Functions for the determination of optimally robust influence curves in case of
linear regression with unknown scale and standard normal distributed errors where
the regressor is random.
Author: Matthias Kohl [aut, cre, cph]
Maintainer: Matthias Kohl <Matthias.Kohl@stamats.de>
Diff between RobRex versions 1.1.0 dated 2018-08-05 and 1.2.0 dated 2019-04-14
DESCRIPTION | 26 +++++++++++++------------- MD5 | 14 +++++++------- R/rgsOptIC_AL.R | 4 ++-- R/rgsOptIC_ALc.R | 10 +++++----- R/rgsOptIC_ALs.R | 8 ++++---- R/rgsOptIC_M.R | 12 ++++++------ R/rgsOptIC_MK.R | 6 +++--- inst/NEWS | 9 +++++++++ 8 files changed, 49 insertions(+), 40 deletions(-)
Title: Comfortable Search for R Packages on CRAN Directly from the R
Console
Description: Search for R packages on CRAN directly from the R console, based on the packages' titles, short and long descriptions, or other fields. Combine multiple keywords with logical operators ('and', 'or'), view detailed information on any package and keep track of the latest package contributions to CRAN.
Author: Joachim Zuckarelli [aut, cre] (<https://orcid.org/0000-0002-9280-3016>)
Maintainer: Joachim Zuckarelli <joachim@zuckarelli.de>
Diff between packagefinder versions 0.1.0 dated 2019-04-02 and 0.1.1 dated 2019-04-14
DESCRIPTION | 8 +-- MD5 | 6 +- NEWS.md | 9 ++++ R/packagefinder.r | 113 +++++++++++++++++++++++++++++------------------------- 4 files changed, 77 insertions(+), 59 deletions(-)
Title: Statistical Tests and Graphics for Hardy-Weinberg Equilibrium
Description: Contains tools for exploring Hardy-Weinberg equilibrium (Hardy, 1908; Weinberg, 1908) <doi:10.1126/science.28.706.49> for bi and multi-allelic genetic marker data. All classical tests (chi-square, exact, likelihood-ratio and permutation tests) with bi-allelic variants are included in the package, as well as functions for power computation and for the simulation of marker data under equilibrium and disequilibrium. Routines for dealing with markers on the X-chromosome are included (Graffelman & Weir, 2016) <doi: 10.1038/hdy.2016.20>, including Bayesian procedures. Some exact and permutation procedures also work with multi-allelic variants. Special test procedures that jointly address Hardy-Weinberg equilibrium and equality of allele frequencies in both sexes are supplied, for the bi and multi-allelic case. Functions for testing equilibrium in the presence of missing data by using multiple imputation are also provided. Implements several graphics for exploring the equilibrium status of a large set of bi-allelic markers: ternary plots with acceptance regions, log-ratio plots and Q-Q plots.
Author: Jan Graffelman [aut, cre],
Christopher Chang [ctb],
Xavi Puig [ctb],
Jan Wigginton [ctb]
Maintainer: Jan Graffelman <jan.graffelman@upc.edu>
Diff between HardyWeinberg versions 1.6.1 dated 2018-05-29 and 1.6.2 dated 2019-04-14
HardyWeinberg-1.6.1/HardyWeinberg/R/loglik.1.R |only HardyWeinberg-1.6.1/HardyWeinberg/R/loglik.2.R |only HardyWeinberg-1.6.1/HardyWeinberg/R/loglik.3.R |only HardyWeinberg-1.6.1/HardyWeinberg/R/loglik.4.R |only HardyWeinberg-1.6.1/HardyWeinberg/R/loglik.5.R |only HardyWeinberg-1.6.1/HardyWeinberg/R/loglik.6.R |only HardyWeinberg-1.6.2/HardyWeinberg/DESCRIPTION | 8 HardyWeinberg-1.6.2/HardyWeinberg/MD5 | 81 ++++--- HardyWeinberg-1.6.2/HardyWeinberg/NAMESPACE | 2 HardyWeinberg-1.6.2/HardyWeinberg/R/AuxQ.R |only HardyWeinberg-1.6.2/HardyWeinberg/R/HWAIC.R | 58 ++++- HardyWeinberg-1.6.2/HardyWeinberg/R/HWChisqLowerl.R | 5 HardyWeinberg-1.6.2/HardyWeinberg/R/HWChisqUpperl.R | 4 HardyWeinberg-1.6.2/HardyWeinberg/R/HWLRtest.R | 24 +- HardyWeinberg-1.6.2/HardyWeinberg/R/HWLowercl.R | 4 HardyWeinberg-1.6.2/HardyWeinberg/R/HWPosterior.R | 109 ++++++---- HardyWeinberg-1.6.2/HardyWeinberg/R/HWTernaryPlot.R | 4 HardyWeinberg-1.6.2/HardyWeinberg/R/HWUppercl.R | 4 HardyWeinberg-1.6.2/HardyWeinberg/R/M11p.R |only HardyWeinberg-1.6.2/HardyWeinberg/R/M12p.R |only HardyWeinberg-1.6.2/HardyWeinberg/R/M13p.R |only HardyWeinberg-1.6.2/HardyWeinberg/R/M14p.R |only HardyWeinberg-1.6.2/HardyWeinberg/R/M15p.R |only HardyWeinberg-1.6.2/HardyWeinberg/R/M21p.R |only HardyWeinberg-1.6.2/HardyWeinberg/R/M22p.R |only HardyWeinberg-1.6.2/HardyWeinberg/R/M23p.R |only HardyWeinberg-1.6.2/HardyWeinberg/R/M24p.R |only HardyWeinberg-1.6.2/HardyWeinberg/R/M25p.R |only HardyWeinberg-1.6.2/HardyWeinberg/R/fder.R |only HardyWeinberg-1.6.2/HardyWeinberg/R/fitmodel12.R |only HardyWeinberg-1.6.2/HardyWeinberg/R/fobj.R |only HardyWeinberg-1.6.2/HardyWeinberg/R/loglik.M11.R |only HardyWeinberg-1.6.2/HardyWeinberg/R/loglik.M12.R |only HardyWeinberg-1.6.2/HardyWeinberg/R/loglik.M14.R |only HardyWeinberg-1.6.2/HardyWeinberg/R/loglik.M15.R |only HardyWeinberg-1.6.2/HardyWeinberg/R/loglik.M21.R |only HardyWeinberg-1.6.2/HardyWeinberg/R/loglik.M22.R |only HardyWeinberg-1.6.2/HardyWeinberg/R/loglik.M23.R |only HardyWeinberg-1.6.2/HardyWeinberg/R/loglik.M24.R |only HardyWeinberg-1.6.2/HardyWeinberg/R/loglik.M25.R |only HardyWeinberg-1.6.2/HardyWeinberg/build/vignette.rds |binary HardyWeinberg-1.6.2/HardyWeinberg/data/JPTsnps.rda |only HardyWeinberg-1.6.2/HardyWeinberg/inst/CITATION | 5 HardyWeinberg-1.6.2/HardyWeinberg/inst/doc/HardyWeinberg.R | 45 ++-- HardyWeinberg-1.6.2/HardyWeinberg/inst/doc/HardyWeinberg.Rnw | 28 ++ HardyWeinberg-1.6.2/HardyWeinberg/inst/doc/HardyWeinberg.pdf |binary HardyWeinberg-1.6.2/HardyWeinberg/man/HWABO.Rd | 2 HardyWeinberg-1.6.2/HardyWeinberg/man/HWAIC.Rd | 11 - HardyWeinberg-1.6.2/HardyWeinberg/man/HWPerm.mult.Rd | 2 HardyWeinberg-1.6.2/HardyWeinberg/man/HWPosterior.Rd | 39 ++- HardyWeinberg-1.6.2/HardyWeinberg/man/HWPower.Rd | 2 HardyWeinberg-1.6.2/HardyWeinberg/man/HWTernaryPlot.Rd | 2 HardyWeinberg-1.6.2/HardyWeinberg/man/HWTriExact.Rd | 2 HardyWeinberg-1.6.2/HardyWeinberg/man/HardyWeinberg-package.Rd | 35 ++- HardyWeinberg-1.6.2/HardyWeinberg/man/JPTsnps.Rd |only HardyWeinberg-1.6.2/HardyWeinberg/vignettes/HardyWeinberg.Rnw | 28 ++ HardyWeinberg-1.6.2/HardyWeinberg/vignettes/HardyWeinberg.bib | 5 57 files changed, 345 insertions(+), 164 deletions(-)
Title: Electrochemical Simulation Tools
Description: Set of functions for digital simulation of electrochemical processes.
Each function allows for implicit and explicit solution of the differential equation using methods like Euler, Backwards implicit, Runge Kutta 4, Crank Nicholson and Backward differentiation formula as well as different number of points for derivative approximation. Several electrochemical processes can be simulated such as: Chronoamperometry, Potential Step, Linear Sweep, Cyclic Voltammetry, Cyclic Voltammetry with electrochemical reaction followed by chemical reaction (EC mechanism) and CV with two following electrochemical reaction (EE mechanism).
Bibliography regarding this methods can be found in the following texts.
Dieter Britz, Jorg Strutwolf (2016) <ISBN:978-3-319-30292-8> .
Allen J. Bard, Larry R. Faulkner (2000) <ISBN:978-0-471-04372-0> .
Author: Federico Maria Vivaldi [aut, cre]
Maintainer: Federico Maria Vivaldi <federico-vivaldi@virgilio.it>
Diff between EleChemr versions 0.9.0 dated 2019-03-18 and 1.0.0 dated 2019-04-14
DESCRIPTION | 10 MD5 | 24 NAMESPACE | 7 R/Derivative.R | 147 +++ R/EleChemr.R | 2069 ++++++++++++++++++++++++++++++++++++++++++++++---------- man/CV.Rd | 13 man/CVEC.Rd | 14 man/CVEE.Rd |only man/ChronAmp.Rd | 12 man/Derv.Rd | 7 man/LinSwp.Rd | 13 man/OneMat.Rd |only man/PotStep.Rd | 10 man/ZeroMat.Rd |only man/invMat.Rd |only 15 files changed, 1897 insertions(+), 429 deletions(-)
Title: Optimally Robust Estimation for Regression-Type Models
Description: Optimally robust estimation for regression-type models using S4 classes and
methods.
Author: Matthias Kohl [cre, aut, cph],
Peter Ruckdeschel [aut, cph]
Maintainer: Matthias Kohl <Matthias.Kohl@stamats.de>
Diff between ROptRegTS versions 1.1.0 dated 2018-08-04 and 1.2.0 dated 2019-04-14
DESCRIPTION | 26 +++++++++++++------------- MD5 | 30 +++++++++++++++--------------- R/Av2CondContIC.R | 2 +- R/CondIC.R | 20 ++++++++------------ R/Expectation.R | 6 +++--- R/L2RegTypeFamily.R | 10 ++++++---- R/getAsRiskRegTS.R | 4 ++-- R/getIneffDiff.R | 2 +- R/getInfRobRegTypeIC_asBias.R | 2 +- R/getInfRobRegTypeIC_asCov.R | 18 +++++++++--------- R/getInfRobRegTypeIC_asGRisk_c2.R | 2 +- R/getInfStandRegTS.R | 10 +++++----- R/leastFavorableRadius.R | 2 +- R/optIC.R | 4 ++-- R/radiusMinimaxIC.R | 4 ++-- inst/NEWS | 9 +++++++++ 16 files changed, 79 insertions(+), 72 deletions(-)
Title: Descriptive Statistics, Transition Plots, and More
Description: Tools for making the descriptive "Table 1" used in medical
articles, a transition plot for showing changes between categories
(also known as a Sankey diagram), flow charts by extending the grid package,
a method for variable selection based on the SVD, Bézier lines with arrows complementing the
ones in the 'grid' package, and more.
Author: Max Gordon <max@gforge.se>
Maintainer: Max Gordon <max@gforge.se>
Diff between Gmisc versions 1.8 dated 2019-01-09 and 1.8.1 dated 2019-04-14
DESCRIPTION | 8 +++--- MD5 | 28 +++++++++++------------ NEWS | 4 +++ R/RcppExports.R | 4 +-- R/bezier_private_functions.R | 2 - R/transitionPlot_helpers.R | 2 - build/vignette.rds |binary inst/doc/Descriptives.html | 35 +++++++++++++++-------------- inst/doc/Grid-based_flowcharts.html | 29 +++++++++++++----------- inst/doc/Transition-class.html | 41 ++++++++++++++++++---------------- inst/doc/transitionPlot.html | 43 +++++++++++++++++++----------------- man/gnrlBezierPoints.Rd | 4 +-- src/gnrlBezier.cpp | 4 +-- tests/testthat/Rplots.pdf |binary tests/testthat/test-bezier.R | 2 - 15 files changed, 111 insertions(+), 95 deletions(-)
Title: Text Processing for Small or Big Data Files
Description: It offers functions for splitting, parsing, tokenizing and creating a vocabulary for big text data files. Moreover, it includes functions for building a document-term matrix and extracting information from those (term-associations, most frequent terms). It also embodies functions for calculating token statistics (collocations, look-up tables, string dissimilarities) and functions to work with sparse matrices. Lastly, it includes functions for Word Vector Representations (i.e. 'GloVe', 'fasttext') and incorporates functions for the calculation of (pairwise) text document dissimilarities. The source code is based on 'C++11' and exported in R through the 'Rcpp', 'RcppArmadillo' and 'BH' packages.
Author: Lampros Mouselimis <mouselimislampros@gmail.com>
Maintainer: Lampros Mouselimis <mouselimislampros@gmail.com>
Diff between textTinyR versions 1.1.2 dated 2018-07-25 and 1.1.3 dated 2019-04-14
DESCRIPTION | 11 MD5 | 50 - NAMESPACE | 23 NEWS.md | 16 R/utils.R | 34 README.md | 2 inst/doc/functionality_of_textTinyR_package.R | 4 inst/doc/functionality_of_textTinyR_package.Rmd | 10 inst/doc/functionality_of_textTinyR_package.html | 35 inst/doc/word_vectors_doc2vec.R | 3 inst/doc/word_vectors_doc2vec.Rmd | 13 inst/doc/word_vectors_doc2vec.html | 39 man/JACCARD_DICE.Rd | 4 man/TEXT_DOC_DISSIM.Rd | 3 man/read_characters.Rd | 3 man/tokenize_transform_text.Rd | 6 man/tokenize_transform_vec_docs.Rd | 7 man/vocabulary_parser.Rd | 5 src/batch_tokenization.h | 18 src/token_big_files.h | 16 src/tokenization.h | 19 tests/testthat/helper-function_for_tests.R | 76 + tests/testthat/test-utf_locale.R | 1083 +++++++++++------------ vignettes/functionality_of_textTinyR_package.Rmd | 10 vignettes/vocab_subset_200terms.txt | 4 vignettes/word_vectors_doc2vec.Rmd | 13 26 files changed, 864 insertions(+), 643 deletions(-)
Title: Calculates the Test-Statistic for the Drift Burst Hypothesis
Description: Calculates the T-Statistic for the drift burst hypothesis from the working paper Christensen, Oomen and Reno (2018) <DOI:10.2139/ssrn.2842535>. The authors' MATLAB code is available upon request, see: <https://papers.ssrn.com/sol3/papers.cfm?abstract_id=2842535>.
Author: Emil Sjoerup
Maintainer: Emil Sjoerup <emilsjoerup@live.dk>
Diff between DriftBurstHypothesis versions 0.1.1 dated 2019-01-24 and 0.1.2 dated 2019-04-14
ChangeLog | 9 +++ DESCRIPTION | 10 +-- MD5 | 14 ++--- NAMESPACE | 4 + R/Driftbursts.R | 81 ++++++++++++++++++++++-------- build/partial.rdb |binary man/drift_bursts.Rd | 82 ++++++++++++++++++++++++++----- src/DBH.cpp | 136 +++++++++++++++++++--------------------------------- 8 files changed, 200 insertions(+), 136 deletions(-)
More information about DriftBurstHypothesis at CRAN
Permanent link
Title: High Performance Tools for Combinatorics and Computational
Mathematics
Description: Provides optimized functions implemented in C++ with 'Rcpp'
for solving problems in combinatorics and computational mathematics.
Utilizes parallel programming via 'RcppThread' for maximal performance.
Also makes use of the RMatrix class from the 'RcppParallel' library.
There are combination/permutation functions with constraint parameters
that allow for generation of all combinations/permutations of a vector
meeting specific criteria (e.g. finding all combinations such
that the sum is between two bounds). Capable of generating specific
combinations/permutations (e.g. retrieve only the nth lexicographical
result) which sets up nicely for parallelization as well as random
sampling. Gmp support permits exploration where the total number of
results is large (e.g. comboSample(10000, 500, n = 4)). Additionally,
there are several high performance number theoretic functions that
are useful for problems common in computational mathematics. Some of
these functions make use of the fast integer division library
'libdivide' by <http://ridiculousfish.com>. The primeSieve function
is based on the segmented sieve of Eratosthenes implementation by
Kim Walisch. It is also efficient for large numbers by using the
cache friendly improvements originally developed by Tomás Oliveira.
Finally, there is a prime counting function that implements Legendre's
formula based on the algorithm by Kim Walisch.
Author: Joseph Wood
Maintainer: Joseph Wood <jwood000@gmail.com>
Diff between RcppAlgos versions 2.3.1 dated 2019-03-21 and 2.3.2 dated 2019-04-14
DESCRIPTION | 6 - MD5 | 66 ++++++------ README.md | 51 +++++---- inst/NEWS.Rd | 7 + inst/include/CleanConvert.h | 128 +++++++++++++++++++----- inst/include/CombPermUtils.h | 22 ++-- inst/include/Combinatorics.h | 5 inst/include/ConstraintsUtils.h | 78 +++++++------- inst/include/CountGmp.h | 10 - inst/include/Eratosthenes.h | 104 +++++++++++++------ inst/include/MotleyPrimes.h | 9 - inst/include/NthResult.h | 8 - inst/include/importExportMPZ.h | 4 src/CombPermUtils.cpp | 24 +--- src/Combinatorics.cpp | 89 ++++------------ src/CountGmp.cpp | 12 +- src/DivNumSieve.cpp | 31 +---- src/NthResult.cpp | 8 - src/PollardRho.cpp | 14 +- src/Primes.cpp | 34 ++---- src/SampCombPerm.cpp | 163 ++++++++++++------------------- src/importExportMPZ.cpp | 80 +++++++++++---- tests/testthat/testComboGeneral.R | 14 +- tests/testthat/testDivisorsRcpp.R | 6 - tests/testthat/testDivisorsSieve.R | 6 - tests/testthat/testEulerPhiSieve.R | 10 - tests/testthat/testIsPrimeRcpp.R | 6 - tests/testthat/testNumDivisorSieve.R | 10 - tests/testthat/testPermuteGeneral.R | 29 ++++- tests/testthat/testPrimeCount.R | 2 tests/testthat/testPrimeFactorize.R | 6 - tests/testthat/testPrimeFactorizeSieve.R | 6 - tests/testthat/testPrimeSieve.R | 8 - tests/testthat/testSample.R | 43 +++++--- 34 files changed, 603 insertions(+), 496 deletions(-)
Title: Miscellaneous Functions from M. Kohl
Description: Contains several functions for statistical data analysis; e.g. for sample size and power calculations, computation of confidence intervals and tests, and generation of similarity matrices.
Author: Matthias Kohl [aut, cre] (<https://orcid.org/0000-0001-9514-8910>)
Maintainer: Matthias Kohl <Matthias.Kohl@stamats.de>
Diff between MKmisc versions 1.2 dated 2018-12-11 and 1.3 dated 2019-04-14
DESCRIPTION | 16 MD5 | 36 NAMESPACE | 12 NEWS | 19 R/binomCI.R | 13 R/hsu.t.test.R |only R/mod.oneway.test.R |only R/mod.t.test.R |only R/normCI.R | 27 R/normDiffCI.R |only R/pairwise.mod.t.test.R |only R/powerHsuttest.R |only build/vignette.rds |binary inst/doc/MKmisc.R | 195 +++- inst/doc/MKmisc.Rmd | 270 ++++- inst/doc/MKmisc.html | 2041 ++++++++++++++++++++++++++++----------------- man/0MKmisc-package.Rd | 6 man/hsu.t.test.Rd |only man/mod.oneway.test.Rd |only man/mod.t.test.Rd |only man/normCI.Rd | 8 man/normDiffCI.Rd |only man/pairwise.mod.t.test.Rd |only man/power.hsu.t.test.Rd |only vignettes/MKmisc.Rmd | 270 ++++- 25 files changed, 1914 insertions(+), 999 deletions(-)
Title: Model Selection and Multimodel Inference Made Easy
Description: Automated model selection and model-averaging. Provides a
wrapper for glm and other functions, automatically generating
all possible models (under constraints set by the user) with
the specified response and explanatory variables, and finding
the best models in terms of some Information Criterion (AIC,
AICc or BIC). Can handle very large numbers of candidate
models. Features a Genetic Algorithm to find the best models
when an exhaustive screening of the candidates is not feasible.
Author: Vincent Calcagno <vincent.calcagno@sophia.inra.fr>
Maintainer: Vincent Calcagno <vincent.calcagno@sophia.inra.fr>
Diff between glmulti versions 1.0.7 dated 2013-04-12 and 1.0.7.1 dated 2019-04-14
DESCRIPTION | 8 ++++---- MD5 | 6 +++--- NAMESPACE | 9 ++++++++- R/onLoad.R | 2 +- 4 files changed, 16 insertions(+), 9 deletions(-)
Title: Kernel k Nearest Neighbors
Description: Extends the simple k-nearest neighbors algorithm by incorporating numerous kernel functions and a variety of distance metrics. The package takes advantage of 'RcppArmadillo' to speed up the calculation of distances between observations.
Author: Lampros Mouselimis <mouselimislampros@gmail.com>
Maintainer: Lampros Mouselimis <mouselimislampros@gmail.com>
Diff between KernelKnn versions 1.0.8 dated 2018-01-16 and 1.0.9 dated 2019-04-14
DESCRIPTION | 10 - MD5 | 28 ++-- NAMESPACE | 4 NEWS.md | 5 README.md | 3 build/vignette.rds |binary inst/doc/binary_classification_using_the_ionosphere_data.html | 70 ++++++---- inst/doc/image_classification_using_MNIST_CIFAR_data.html | 28 +++- inst/doc/regression_using_the_housing_data.html | 28 +++- man/KernelKnn.Rd | 6 man/distMat.KernelKnn.Rd | 4 man/distMat.KernelKnnCV.Rd | 4 man/distMat.knn.index.dist.Rd | 4 tests/testthat/test-dist_kernelknnCV.R | 24 +++ tests/testthat/test-distance_metrics.R | 12 - 15 files changed, 162 insertions(+), 68 deletions(-)
Title: Gaussian Mixture Models, K-Means, Mini-Batch-Kmeans, K-Medoids
and Affinity Propagation Clustering
Description: Gaussian mixture models, k-means, mini-batch-kmeans, k-medoids and affinity propagation clustering with the option to plot, validate, predict (new data) and estimate the optimal number of clusters. The package takes advantage of 'RcppArmadillo' to speed up the computationally intensive parts of the functions. For more information, see (i) "Clustering in an Object-Oriented Environment" by Anja Struyf, Mia Hubert, Peter Rousseeuw (1997), Journal of Statistical Software, <doi:10.18637/jss.v001.i04>; (ii) "Web-scale k-means clustering" by D. Sculley (2010), ACM Digital Library, <doi:10.1145/1772690.1772862>; (iii) "Armadillo: a template-based C++ library for linear algebra" by Sanderson et al (2016), The Journal of Open Source Software, <doi:10.21105/joss.00026>; (iv) "Clustering by Passing Messages Between Data Points" by Brendan J. Frey and Delbert Dueck, Science 16 Feb 2007: Vol. 315, Issue 5814, pp. 972-976, <doi:10.1126/science.1136800>.
Author: Lampros Mouselimis [aut, cre],
Conrad Sanderson [cph] (Author of the C++ Armadillo library),
Ryan Curtin [cph] (Author of the C++ Armadillo library),
Siddharth Agrawal [cph] (Author of the C code of the Mini-Batch-Kmeans
algorithm
(https://github.com/siddharth-agrawal/Mini-Batch-K-Means)),
Brendan Frey [cph] (Author of the matlab code of the Affinity
propagation algorithm (for commercial use please contact the author
of the matlab code)),
Delbert Dueck [cph] (Author of the matlab code of the Affinity
propagation algorithm)
Maintainer: Lampros Mouselimis <mouselimislampros@gmail.com>
Diff between ClusterR versions 1.1.8 dated 2019-01-11 and 1.1.9 dated 2019-04-14
DESCRIPTION | 15 +-- MD5 | 38 +++---- NEWS.md | 8 + R/RcppExports.R | 4 R/clustering_functions.R | 172 +++++++++++++++++++++++++++++------- README.md | 2 inst/doc/the_clusterR_package.html | 36 ++++++- inst/include/ClusterRHeader.h | 42 ++++---- inst/include/affinity_propagation.h | 67 ++++++++++---- man/AP_preferenceRange.Rd | 4 man/Optimal_Clusters_GMM.Rd | 13 ++ man/Optimal_Clusters_KMeans.Rd | 21 +++- man/Optimal_Clusters_Medoids.Rd | 14 ++ src/RcppExports.cpp | 15 +-- src/export_inst_folder_headers.cpp | 8 - src/init.c | 4 tests/testthat/test-AP.R | 13 +- tests/testthat/test-gmm.R | 52 +++++++++- tests/testthat/test-kmeans.R | 80 ++++++++++++++-- tests/testthat/test-medoids.R | 22 ++++ 20 files changed, 485 insertions(+), 145 deletions(-)
Title: Interface to 'MLflow'
Description: R interface to 'MLflow', open source platform for the complete machine
learning life cycle, see <https://mlflow.org/>. This package supports installing
'MLflow', tracking experiments, creating and running projects, and saving and
serving models.
Author: Matei Zaharia [aut, cre],
Javier Luraschi [aut],
Kevin Kuo [aut] (<https://orcid.org/0000-0001-7803-7901>),
RStudio [cph]
Maintainer: Matei Zaharia <matei@databricks.com>
Diff between mlflow versions 0.9.0 dated 2019-03-28 and 0.9.0.1 dated 2019-04-14
DESCRIPTION | 6 - MD5 | 100 +++++++++--------- NAMESPACE | 17 --- R/databricks-utils.R | 6 - R/install.R | 17 ++- R/project-run.R | 15 +- R/python.R | 8 - R/tracking-client.R | 31 +++-- R/tracking-fluent.R | 8 - R/tracking-rest.R | 59 +++++++--- R/tracking-utils.R | 15 ++ man/mlflow_cli.Rd | 5 man/mlflow_client.Rd | 4 man/mlflow_client_create_run.Rd | 4 man/mlflow_client_delete_experiment.Rd | 2 man/mlflow_client_get_experiment.Rd | 2 man/mlflow_client_get_run.Rd | 4 man/mlflow_client_list_artifacts.Rd | 4 man/mlflow_client_list_experiments.Rd | 2 man/mlflow_client_log_artifact.Rd | 6 - man/mlflow_client_log_metric.Rd | 2 man/mlflow_client_log_param.Rd | 4 man/mlflow_client_restore_experiment.Rd | 4 man/mlflow_client_set_tag.Rd | 2 man/mlflow_client_set_terminated.Rd | 2 man/mlflow_end_run.Rd | 2 man/mlflow_get_tracking_uri.Rd | 2 man/mlflow_install.Rd | 4 man/mlflow_load_model.Rd | 8 - man/mlflow_log_artifact.Rd | 6 - man/mlflow_log_metric.Rd | 2 man/mlflow_log_model.Rd | 2 man/mlflow_log_param.Rd | 2 man/mlflow_param.Rd | 10 - man/mlflow_predict_model.Rd | 4 man/mlflow_restore_snapshot.Rd | 2 man/mlflow_rfunc_predict.Rd | 4 man/mlflow_rfunc_serve.Rd | 6 - man/mlflow_run.Rd | 14 +- man/mlflow_save_flavor.Rd | 4 man/mlflow_save_flavor.keras.engine.training.Model.Rd | 4 man/mlflow_save_model.Rd | 2 man/mlflow_server.Rd | 2 man/mlflow_set_experiment.Rd | 4 man/mlflow_set_tag.Rd | 2 man/mlflow_start_run.Rd | 2 man/mlflow_ui.Rd | 4 man/mlflow_uninstall.Rd | 2 tests/testthat/test-client.R | 58 ++++++++++ tests/testthat/test-run.R | 37 ++++++ tests/testthat/test-tracking.R | 31 +++++ 51 files changed, 365 insertions(+), 184 deletions(-)
Title: Unconstrained Numerical Optimization Algorithms
Description: Optimization algorithms implemented in R, including
conjugate gradient (CG), Broyden-Fletcher-Goldfarb-Shanno (BFGS) and the
limited memory BFGS (L-BFGS) methods. Most internal parameters can be set
through the call interface. The solvers hold up quite well for
higher-dimensional problems.
Author: James Melville [aut, cre]
Maintainer: James Melville <jlmelville@gmail.com>
Diff between mize versions 0.2.0 dated 2018-09-14 and 0.2.1 dated 2019-04-14
mize-0.2.0/mize/R/DONTCHECKMEIN.R |only mize-0.2.0/mize/vignettes/DONTCHECKMEIN.md |only mize-0.2.1/mize/DESCRIPTION | 6 mize-0.2.1/mize/MD5 | 20 - mize-0.2.1/mize/NEWS.md | 11 mize-0.2.1/mize/R/schmidt.R | 4 mize-0.2.1/mize/R/step_size.R | 4 mize-0.2.1/mize/build/vignette.rds |binary mize-0.2.1/mize/inst/doc/convergence.html | 305 ++++++++++-------- mize-0.2.1/mize/inst/doc/mize.html | 477 +++++++++++++++-------------- mize-0.2.1/mize/inst/doc/mmds.html | 247 ++++++++------- mize-0.2.1/mize/inst/doc/stateful.html | 371 ++++++++++++---------- 12 files changed, 776 insertions(+), 669 deletions(-)
Title: Mixed-Effect Models, Particularly Spatial Models
Description: Inference based on mixed-effect models, including generalized linear mixed models with spatial correlations and models with non-Gaussian random effects (e.g., Beta). Both classical geostatistical models, and Markov random field models on irregular grids, can be fitted. Variation in residual variance (heteroscedasticity) can itself be represented by a generalized linear mixed model. Various approximations of likelihood or restricted likelihood are implemented, in particular h-likelihood (Lee and Nelder 2001 <doi:10.1093/biomet/88.4.987>) and Laplace approximation.
Author: François Rousset [aut, cre, cph]
(<https://orcid.org/0000-0003-4670-0371>),
Jean-Baptiste Ferdy [aut, cph],
Alexandre Courtiol [aut] (<https://orcid.org/0000-0003-0637-2959>),
GSL authors [ctb] (src/gsl_bessel.*)
Maintainer: François Rousset <francois.rousset@umontpellier.fr>
Diff between spaMM versions 2.6.1 dated 2019-01-14 and 2.7.1 dated 2019-04-14
spaMM-2.6.1/spaMM/tests/testthat/test-MRF.R |only spaMM-2.7.1/spaMM/DESCRIPTION | 10 spaMM-2.7.1/spaMM/MD5 | 213 ++-- spaMM-2.7.1/spaMM/NAMESPACE | 15 spaMM-2.7.1/spaMM/R/CanonizeRanPars.R | 15 spaMM-2.7.1/spaMM/R/GLM.fit.R | 674 +++++++------ spaMM-2.7.1/spaMM/R/HLCor.R | 4 spaMM-2.7.1/spaMM/R/HLCor_body.R | 58 + spaMM-2.7.1/spaMM/R/HLFactorList.R | 80 + spaMM-2.7.1/spaMM/R/HLfit.R | 2 spaMM-2.7.1/spaMM/R/HLfit_Internals.R | 833 ++++++++--------- spaMM-2.7.1/spaMM/R/HLfit_b_internals.R | 29 spaMM-2.7.1/spaMM/R/HLfit_body.R | 167 +-- spaMM-2.7.1/spaMM/R/HLfit_body_augZXy.R | 9 spaMM-2.7.1/spaMM/R/HLframes.R | 67 - spaMM-2.7.1/spaMM/R/LR.R | 322 +++++- spaMM-2.7.1/spaMM/R/LevenbergMstep.R | 4 spaMM-2.7.1/spaMM/R/MakeCovEst.R | 2 spaMM-2.7.1/spaMM/R/Matern_family.R | 2 spaMM-2.7.1/spaMM/R/RcppExports.R | 8 spaMM-2.7.1/spaMM/R/SEM.R | 19 spaMM-2.7.1/spaMM/R/ZAL_class.R |only spaMM-2.7.1/spaMM/R/calc_LRT.R | 365 +------ spaMM-2.7.1/spaMM/R/calc_logdisp_cov.R | 424 +++++++- spaMM-2.7.1/spaMM/R/confint.R | 9 spaMM-2.7.1/spaMM/R/corrHLfit-internals.R | 81 + spaMM-2.7.1/spaMM/R/corrHLfit.R | 9 spaMM-2.7.1/spaMM/R/corrHLfit_body.R | 6 spaMM-2.7.1/spaMM/R/corrMM.LRT.R | 17 spaMM-2.7.1/spaMM/R/correlationFns.R | 8 spaMM-2.7.1/spaMM/R/cov_new_fix.R | 129 +- spaMM-2.7.1/spaMM/R/determine_spprec.R | 65 + spaMM-2.7.1/spaMM/R/dispGammaGLM.R | 9 spaMM-2.7.1/spaMM/R/extractors.R | 200 +++- spaMM-2.7.1/spaMM/R/fit_as_ZX.R | 71 + spaMM-2.7.1/spaMM/R/fit_as_sparsePrecision.R | 62 + spaMM-2.7.1/spaMM/R/fitme.R | 7 spaMM-2.7.1/spaMM/R/fitme_body.R | 25 spaMM-2.7.1/spaMM/R/fitmecorrHLfit_body_internals.R | 71 + spaMM-2.7.1/spaMM/R/geo_info.R | 146 ++ spaMM-2.7.1/spaMM/R/inverse.Gamma.R | 1 spaMM-2.7.1/spaMM/R/locoptim.R | 5 spaMM-2.7.1/spaMM/R/makeLowerUpper.R | 49 - spaMM-2.7.1/spaMM/R/mapMM.R | 30 spaMM-2.7.1/spaMM/R/multiFRK.R | 444 ++++++--- spaMM-2.7.1/spaMM/R/newPLS.R | 171 ++- spaMM-2.7.1/spaMM/R/plot.HLfit.R | 2 spaMM-2.7.1/spaMM/R/plot_effects.R |only spaMM-2.7.1/spaMM/R/postfit_internals.R |only spaMM-2.7.1/spaMM/R/predict.R | 251 +++-- spaMM-2.7.1/spaMM/R/predict_marg.R | 12 spaMM-2.7.1/spaMM/R/preprocess.R | 292 ++++- spaMM-2.7.1/spaMM/R/preprocess_internals.R | 2 spaMM-2.7.1/spaMM/R/sXaug_EigenDense_QRP_Chol_scaled.R | 45 spaMM-2.7.1/spaMM/R/sXaug_Matrix_QRP_CHM.R | 70 + spaMM-2.7.1/spaMM/R/sXaug_sparsePrecisions.R | 413 ++++---- spaMM-2.7.1/spaMM/R/save.R | 2 spaMM-2.7.1/spaMM/R/simulate.HL.R | 31 spaMM-2.7.1/spaMM/R/spaMM.data.R | 131 +- spaMM-2.7.1/spaMM/R/spaMM_boot.R | 57 - spaMM-2.7.1/spaMM/R/spaMM_error.R | 36 spaMM-2.7.1/spaMM/R/summary.HL.R | 26 spaMM-2.7.1/spaMM/R/terms.R | 3 spaMM-2.7.1/spaMM/R/update.HL.R | 29 spaMM-2.7.1/spaMM/R/utils.R | 4 spaMM-2.7.1/spaMM/build/partial.rdb |binary spaMM-2.7.1/spaMM/data/small_spde.RData |only spaMM-2.7.1/spaMM/inst/NEWS.Rd | 38 spaMM-2.7.1/spaMM/man/GLM.fit.Rd | 2 spaMM-2.7.1/spaMM/man/HLCor.Rd | 4 spaMM-2.7.1/spaMM/man/HLfit.Rd | 10 spaMM-2.7.1/spaMM/man/IMRF.Rd |only spaMM-2.7.1/spaMM/man/Matern.corr.Rd | 2 spaMM-2.7.1/spaMM/man/ZAXlist.Rd |only spaMM-2.7.1/spaMM/man/anova.HLfit.Rd | 21 spaMM-2.7.1/spaMM/man/corrHLfit.Rd | 2 spaMM-2.7.1/spaMM/man/corr_family.Rd | 2 spaMM-2.7.1/spaMM/man/covStruct.Rd | 8 spaMM-2.7.1/spaMM/man/extractors.Rd | 26 spaMM-2.7.1/spaMM/man/fixed.LRT.Rd | 2 spaMM-2.7.1/spaMM/man/get_matrix.Rd | 5 spaMM-2.7.1/spaMM/man/get_ranPars.Rd | 2 spaMM-2.7.1/spaMM/man/mapMM.Rd | 2 spaMM-2.7.1/spaMM/man/negbin.Rd | 4 spaMM-2.7.1/spaMM/man/options.Rd | 5 spaMM-2.7.1/spaMM/man/plot.HL.Rd | 2 spaMM-2.7.1/spaMM/man/plot_effect.Rd |only spaMM-2.7.1/spaMM/man/predict.Rd | 2 spaMM-2.7.1/spaMM/man/rankinfo.Rd | 18 spaMM-2.7.1/spaMM/man/spaMM-internal.Rd | 3 spaMM-2.7.1/spaMM/man/spaMM.Rd | 23 spaMM-2.7.1/spaMM/man/spaMM_boot.Rd | 19 spaMM-2.7.1/spaMM/man/stripHLfit.Rd | 4 spaMM-2.7.1/spaMM/man/sym_svd.Rd | 4 spaMM-2.7.1/spaMM/man/update.Rd | 16 spaMM-2.7.1/spaMM/src/RcppExports.cpp | 26 spaMM-2.7.1/spaMM/tests/test-all.R | 6 spaMM-2.7.1/spaMM/tests/testthat/test-AR1.R | 21 spaMM-2.7.1/spaMM/tests/testthat/test-CAR.R | 20 spaMM-2.7.1/spaMM/tests/testthat/test-DHARMa.R |only spaMM-2.7.1/spaMM/tests/testthat/test-IMRF.R |only spaMM-2.7.1/spaMM/tests/testthat/test-LRT-boot.R | 21 spaMM-2.7.1/spaMM/tests/testthat/test-Matern-spprec.R | 1 spaMM-2.7.1/spaMM/tests/testthat/test-Rasch.R | 4 spaMM-2.7.1/spaMM/tests/testthat/test-adjacency-long.R | 11 spaMM-2.7.1/spaMM/tests/testthat/test-augZXy.R | 1 spaMM-2.7.1/spaMM/tests/testthat/test-confint.R | 2 spaMM-2.7.1/spaMM/tests/testthat/test-dhglm.R | 1 spaMM-2.7.1/spaMM/tests/testthat/test-fixedLRT.R | 6 spaMM-2.7.1/spaMM/tests/testthat/test-negbin1.R |only spaMM-2.7.1/spaMM/tests/testthat/test-ranCoefs.R | 55 - spaMM-2.7.1/spaMM/tests/testthat/test-random-slope.R | 6 spaMM-2.7.1/spaMM/tests/testthat/test-spaMM.R | 43 113 files changed, 4251 insertions(+), 2542 deletions(-)