Title: Computation and Visualization of Package Download Counts and
Percentiles
Description: Compute and visualize the cross-sectional and longitudinal number
and rank percentile of package downloads from Posit/RStudio's CRAN mirror.
Author: Peter Li [aut, cre]
Maintainer: Peter Li <lindbrook@gmail.com>
Diff between packageRank versions 0.9.1 dated 2024-05-21 and 0.9.2 dated 2024-07-31
DESCRIPTION | 13 ++++++------- MD5 | 12 ++++++------ NEWS.md | 9 +++++++++ R/cranDownloadsB.R | 4 +++- R/cranDownloadsPlotFunctions.R | 8 ++++++++ R/cranDownloadsPlotSmoother.R | 20 +++++++------------- R/logInfo.R | 13 +++++-------- 7 files changed, 44 insertions(+), 35 deletions(-)
Title: Client for the 'World Bank Indicators API'
Description: Download and search data from the 'World Bank Indicators
API', which provides access to nearly 16,000 time series indicators.
See
<https://datahelpdesk.worldbank.org/knowledgebase/articles/889392-about-the-indicators-api-documentation>
for further details about the API.
Author: Maximilian Muecke [aut, cre]
Maintainer: Maximilian Muecke <muecke.maximilian@gmail.com>
Diff between worldbank versions 0.1.0 dated 2024-07-02 and 0.2.0 dated 2024-07-31
DESCRIPTION | 12 +++---- MD5 | 27 +++++++++-------- NAMESPACE | 1 NEWS.md | 7 +++- R/api.R | 58 ++++++++++++++++++++++---------------- R/assertions.R | 15 +++++++++ R/utils.R | 7 +--- R/worldbank-package.R | 1 README.md | 56 +++++++++++++++++++----------------- man/figures/README-plotting-1.png |binary man/wb_country_indicator.Rd | 19 +++++++++--- man/worldbank-package.Rd | 2 - tests/testthat/_snaps |only tests/testthat/test-api.R | 6 +++ tests/testthat/test-utils.R | 48 +++++++++++++++++++++++++++++++ 15 files changed, 179 insertions(+), 80 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 <rpackages@fredriksavje.com>
Diff between scclust versions 0.2.4 dated 2023-11-29 and 0.2.5 dated 2024-07-31
DESCRIPTION | 12 ++++++------ MD5 | 4 ++-- NEWS.md | 5 +++++ 3 files changed, 13 insertions(+), 8 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 <rpackages@fredriksavje.com>
Diff between quickmatch versions 0.2.2 dated 2023-11-29 and 0.2.3 dated 2024-07-31
quickmatch-0.2.2/quickmatch/src/utilities.c |only quickmatch-0.2.2/quickmatch/src/utilities.h |only quickmatch-0.2.3/quickmatch/DESCRIPTION | 12 +++--- quickmatch-0.2.3/quickmatch/MD5 | 12 ++---- quickmatch-0.2.3/quickmatch/NEWS.md | 9 +++- quickmatch-0.2.3/quickmatch/R/internal.R | 12 +----- quickmatch-0.2.3/quickmatch/src/quickmatch-init.c | 2 - quickmatch-0.2.3/quickmatch/tests/testthat/test_c_errors.R | 24 ------------- 8 files changed, 21 insertions(+), 50 deletions(-)
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 <rpackages@fredriksavje.com>
Diff between quickblock versions 0.2.1 dated 2023-11-29 and 0.2.2 dated 2024-07-31
DESCRIPTION | 12 ++++++------ MD5 | 4 ++-- NEWS.md | 5 +++++ 3 files changed, 13 insertions(+), 8 deletions(-)
Title: Maximum Diversity Weighting
Description: Dimension-reduction methods aim at defining a score that maximizes signal diversity. Three approaches, tree weight, maximum entropy weights, and maximum variance weights are provided. These methods are described in He and Fong (2019) <DOI:10.1002/sim.8212>.
Author: Zonglin He [aut],
Youyi Fong [cre]
Maintainer: Youyi Fong <youyifong@gmail.com>
Diff between mdw versions 2020.6-17 dated 2020-06-18 and 2024.8-1 dated 2024-07-31
ChangeLog | 8 +------- DESCRIPTION | 11 +++++------ MD5 | 11 ++++++----- R/non-normal_categrical_data_generation.R | 3 ++- R/var.weight.R | 2 +- build/vignette.rds |binary inst/doc/mdw-vignette.pdf.asis |only 7 files changed, 15 insertions(+), 20 deletions(-)
Title: Tools for Distance Metrics
Description: Provides tools for constructing, manipulating and using distance metrics.
Author: Fredrik Savje [aut, cre]
Maintainer: Fredrik Savje <rpackages@fredriksavje.com>
Diff between distances versions 0.1.10 dated 2023-11-28 and 0.1.11 dated 2024-07-31
DESCRIPTION | 12 ++++++------ MD5 | 6 +++--- NEWS.md | 5 ++++- src/nn_search_ann.cpp | 8 ++++---- 4 files changed, 17 insertions(+), 14 deletions(-)
Title: Correlates of Protection and Correlates of Risk Functions
Description: Correlates of protection (CoP) and correlates of risk (CoR) study the immune biomarkers associated with an infectious disease outcome, e.g. COVID or HIV-1 infection. This package contains shared functions for analyzing CoP and CoR, including bootstrapping procedures, competing risk estimation, and bootstrapping marginalized risks.
Author: Youyi Fong [cre],
Yiwen He [aut],
Chenchen Yu [aut],
Bhavesh Borate [aut],
Peter Gilbert [aut]
Maintainer: Youyi Fong <youyifong@gmail.com>
Diff between copcor versions 2023.8-27 dated 2023-08-30 and 2024.7-31 dated 2024-07-31
copcor-2023.8-27/copcor/inst/CITATION |only copcor-2024.7-31/copcor/DESCRIPTION | 6 +++--- copcor-2024.7-31/copcor/MD5 | 4 ++-- copcor-2024.7-31/copcor/inst/doc/copcor-vignette.pdf.asis |only 4 files changed, 5 insertions(+), 5 deletions(-)
Title: Marginal Effects for Model Objects
Description: An R port of the margins command from 'Stata', which can be used to
calculate marginal (or partial) effects from model objects.
Author: Thomas J. Leeper [aut] ,
Jeffrey Arnold [ctb],
Vincent Arel-Bundock [ctb],
Jacob A. Long [ctb] ,
Ben Bolker [ctb, cre]
Maintainer: Ben Bolker <bolker@mcmaster.ca>
Diff between margins versions 0.3.27 dated 2024-06-13 and 0.3.28 dated 2024-07-31
DESCRIPTION | 9 +++++---- MD5 | 24 +++++++++++++----------- NAMESPACE | 10 ++++++++++ NEWS.md | 4 ++++ R/cplot.R | 2 +- R/find_terms_in_model.R | 3 +++ R/gradient_factory.R | 1 + R/reset_coefs.R | 6 ++++++ inst/doc/Introduction.Rmd |only inst/doc/Introduction.html | 18 +++++++++--------- inst/doc/Stata.Rmd |only inst/doc/Stata.html | 4 ++-- inst/doc/TechnicalDetails.pdf |binary man/cplot.Rd | 14 +++++++------- 14 files changed, 61 insertions(+), 34 deletions(-)
Title: R Client Package for Circle CI
Description: Tools for interacting with the 'Circle CI' API
(<https://circleci.com/docs/api/v2/>). Besides executing common tasks
such as querying build logs and restarting builds, this package also
helps setting up permissions to deploy from builds.
Author: Patrick Schratz [aut, cre] ,
Max Joseph [rev] ,
Sharla Gelfand [rev]
Maintainer: Patrick Schratz <patrick.schratz@gmail.com>
Diff between circle versions 0.7.2 dated 2022-08-24 and 0.7.3 dated 2024-07-31
DESCRIPTION | 36 ++++++++------------ MD5 | 32 +++++++++--------- NAMESPACE | 4 ++ NEWS.md | 9 ++++- R/auth.R | 2 - R/circle-package.R | 2 - R/format-builds-helpers.R | 3 + R/use-circle-deploy.R | 4 +- README.md | 5 +- build/vignette.rds |binary inst/doc/circle.R | 4 +- inst/doc/circle.Rmd | 2 - inst/doc/circle.html | 80 +++++++++++++++++++++++----------------------- inst/doc/tic.R | 2 - inst/doc/tic.html | 76 +++++++++++++++++++++---------------------- man/circle-package.Rd | 19 ++++++++++ vignettes/circle.Rmd | 2 - 17 files changed, 155 insertions(+), 127 deletions(-)
Title: Estimation of Accuracy in Multisite Machine-Learning Models
Description: The effects of the site may severely bias the accuracy of a multisite machine-learning model, even if the analysts removed them when fitting the model in the 'training set' and applying the model in the 'test set' (Solanes et al., Neuroimage 2023, 265:119800). This simple R package estimates the accuracy of a multisite machine-learning model unbiasedly, as described in (Solanes et al., Psychiatry Research: Neuroimaging 2021, 314:111313). It currently supports the estimation of sensitivity, specificity, balanced accuracy (for binary or multinomial variables), the area under the curve, correlation, mean squarer error, and hazard ratio for binomial, multinomial, gaussian, and survival (time-to-event) outcomes.
Author: Joaquim Radua [aut, cre]
Maintainer: Joaquim Radua <quimradua@gmail.com>
Diff between multisite.accuracy versions 1.2 dated 2023-04-18 and 1.3 dated 2024-07-31
DESCRIPTION | 15 ++++--- MD5 | 8 ++-- NAMESPACE | 3 - NEWS | 11 +++++ R/source.R | 115 +++++++++++++++++++++++++++++++++++++++++++++++++++++++++--- 5 files changed, 134 insertions(+), 18 deletions(-)
More information about multisite.accuracy at CRAN
Permanent link
Title: R Interface to the 'QuantLib' Library
Description: The 'RQuantLib' package makes parts of 'QuantLib' accessible from R
The 'QuantLib' project aims to provide a comprehensive software framework
for quantitative finance. The goal is to provide a standard open source library
for quantitative analysis, modeling, trading, and risk management of financial
assets.
Author: Dirk Eddelbuettel [aut, cre] ,
Khanh Nguyen [aut] ,
Terry Leitch [aut]
Maintainer: Dirk Eddelbuettel <edd@debian.org>
Diff between RQuantLib versions 0.4.23 dated 2024-07-23 and 0.4.24 dated 2024-07-31
ChangeLog | 29 ++++++++++++++++ DESCRIPTION | 20 +++++++---- MD5 | 14 +++---- configure | 100 +++++++++++++++++++++++++++++++------------------------- configure.ac | 83 ++++++++++++++++++++++++++-------------------- inst/NEWS.Rd | 24 ++++++++++++- src/Makevars.in | 6 +-- src/vanilla.cpp | 19 ++++++++++ 8 files changed, 196 insertions(+), 99 deletions(-)
Title: Forward Stepwise Deep Autoencoder-Based Monotone NLDR
Description: FS-DAM performs feature extraction through latent variables identification. Implementation is based on autoencoders with monotonicity and orthogonality constraints.
Author: Youyi Fong [cre],
Jun Xu [aut]
Maintainer: Youyi Fong <youyifong@gmail.com>
Diff between FSDAM versions 2024.1-30 dated 2024-01-29 and 2024.7-30 dated 2024-07-31
DESCRIPTION | 6 +++--- MD5 | 3 ++- inst/doc/FSDAM-vignette.pdf.asis |only 3 files changed, 5 insertions(+), 4 deletions(-)
Title: Fast and Vectorized Base 64 Engine
Description: Provides a fast, lightweight, and vectorized base 64 engine
to encode and decode character and raw vectors as well as files stored
on disk. Common base 64 alphabets are supported out of the box
including the standard, URL-safe, bcrypt, crypt, 'BinHex', and
IMAP-modified UTF-7 alphabets. Custom engines can be created to
support unique base 64 encoding and decoding needs.
Author: Josiah Parry [aut, cre] ,
Etienne Bacher [ctb]
Maintainer: Josiah Parry <josiah.parry@gmail.com>
Diff between b64 versions 0.1.1 dated 2024-07-01 and 0.1.2 dated 2024-07-31
DESCRIPTION | 6 +++--- MD5 | 10 +++++----- src/rust/Cargo.lock | 23 +++++++++++------------ src/rust/Cargo.toml | 3 +++ src/rust/vendor-config.toml | 5 +++++ src/rust/vendor.tar.xz |binary 6 files changed, 27 insertions(+), 20 deletions(-)
Title: Spatially and Temporally Varying Coefficient Models Using
Generalized Additive Models
Description: A framework for specifying spatially, temporally and spatially-and-temporally varying coefficient models using Generalized Additive Models with Gaussian Process smooths. The smooths are parameterised with location and / or time attributes. Importantly the framework supports the investigation of the presence and nature of any space-time dependencies in the data, allows the user to evaluate different model forms (specifications) and to pick the most probable model or to combine multiple varying coefficient models using Bayesian Model Averaging. For more details see: Brunsdon et al (2023) <doi:10.4230/LIPIcs.GIScience.2023.17>, Comber et al (2023) <doi:10.4230/LIPIcs.GIScience.2023.22> and Comber et al (2024) <doi:10.1080/13658816.2023.2270285>.
Author: Lex Comber [aut, cre],
Paul Harris [ctb],
Chris Brunsdon [ctb]
Maintainer: Lex Comber <a.comber@leeds.ac.uk>
Diff between stgam versions 0.0.1.1 dated 2024-07-12 and 0.0.1.2 dated 2024-07-31
DESCRIPTION | 10 +++++----- MD5 | 20 ++++++++++---------- NEWS.md | 6 +++++- R/do_bma.R | 9 ++++----- R/plot_1d_smooth.R | 8 ++++---- README.md | 8 ++++---- inst/doc/space-time-gam-intro.html | 8 ++++---- inst/doc/space-time-gam-model-probs-BMA.html | 14 +++++++------- man/do_bma.Rd | 4 ++-- man/plot_1d_smooth.Rd | 8 ++++---- man/stgam-package.Rd | 2 +- 11 files changed, 50 insertions(+), 47 deletions(-)
Title: Run Code 'With' Temporarily Modified Global State
Description: A set of functions to run code 'with' safely and temporarily
modified global state. Many of these functions were originally a part
of the 'devtools' package, this provides a simple package with limited
dependencies to provide access to these functions.
Author: Jim Hester [aut],
Lionel Henry [aut, cre],
Kirill Mueller [aut],
Kevin Ushey [aut],
Hadley Wickham [aut],
Winston Chang [aut],
Jennifer Bryan [ctb],
Richard Cotton [ctb],
Posit Software, PBC [cph, fnd]
Maintainer: Lionel Henry <lionel@posit.co>
Diff between withr versions 3.0.0 dated 2024-01-16 and 3.0.1 dated 2024-07-31
withr-3.0.0/withr/inst/doc/changing-and-restoring-state.R |only withr-3.0.0/withr/inst/doc/changing-and-restoring-state.Rmd |only withr-3.0.0/withr/inst/doc/changing-and-restoring-state.html |only withr-3.0.0/withr/vignettes/changing-and-restoring-state.Rmd |only withr-3.0.1/withr/DESCRIPTION | 79 +- withr-3.0.1/withr/MD5 | 44 - withr-3.0.1/withr/NEWS.md | 13 withr-3.0.1/withr/R/aaa.R | 31 - withr-3.0.1/withr/R/collate.R | 10 withr-3.0.1/withr/R/defer.R | 15 withr-3.0.1/withr/R/devices.R | 212 ++++--- withr-3.0.1/withr/R/rng.R | 9 withr-3.0.1/withr/R/torture.R | 1 withr-3.0.1/withr/R/with.R | 14 withr-3.0.1/withr/build/vignette.rds |binary withr-3.0.1/withr/inst/doc/withr.R |only withr-3.0.1/withr/inst/doc/withr.Rmd |only withr-3.0.1/withr/inst/doc/withr.html |only withr-3.0.1/withr/man/devices.Rd | 293 +---------- withr-3.0.1/withr/man/with_collate.Rd | 12 withr-3.0.1/withr/man/with_gctorture2.Rd | 3 withr-3.0.1/withr/man/with_tempfile.Rd | 4 withr-3.0.1/withr/tests/testthat/_snaps/defer.md | 10 withr-3.0.1/withr/tests/testthat/helper.R | 4 withr-3.0.1/withr/tests/testthat/test-devices.R | 66 -- withr-3.0.1/withr/tests/testthat/test-par.R | 1 withr-3.0.1/withr/vignettes/withr.Rmd |only 27 files changed, 262 insertions(+), 559 deletions(-)
Title: Variable Importance and Variable Interaction Displays
Description: A suite of plots for displaying variable importance and two-way variable interaction jointly. Can also display partial dependence plots laid out in a pairs plot or 'zenplots' style.
Author: Alan Inglis [aut, cre],
Andrew Parnell [aut],
Catherine Hurley [aut]
Maintainer: Alan Inglis <alan.n.inglis@gmail.com>
Diff between vivid versions 0.2.8 dated 2023-07-10 and 0.2.9 dated 2024-07-31
DESCRIPTION | 8 MD5 | 24 NEWS.md | 7 R/pdpPairs.R | 71 + R/pdpVars.R | 39 R/pdpZen.R | 10 R/vivi.R | 31 build/vignette.rds |binary inst/doc/vividVignette.R | 259 ++++++ inst/doc/vividVignette.Rmd | 702 ++++++++++++++++- inst/doc/vividVignette.html | 1717 ++++++++++++++++++++++++++++++-------------- man/vivi.Rd | 5 vignettes/vividVignette.Rmd | 702 ++++++++++++++++- 13 files changed, 2831 insertions(+), 744 deletions(-)
Title: Orthogonalizing EM: Penalized Regression for Big Tall Data
Description: Solves penalized least squares problems for big tall data
using the orthogonalizing EM algorithm of Xiong et al. (2016)
<doi:10.1080/00401706.2015.1054436>. The main fitting function is oem() and the
functions cv.oem() and xval.oem() are for cross validation, the latter being an
accelerated cross validation function for linear models. The big.oem() function
allows for out of memory fitting. A description of the underlying methods and
code interface is described in Huling and Chien (2022) <doi:10.18637/jss.v104.i06>.
Author: Bin Dai [aut],
Jared Huling [aut, cre] ,
Yixuan Qiu [ctb],
Gael Guennebaud [cph],
Jitse Niesen [cph]
Maintainer: Jared Huling <jaredhuling@gmail.com>
Diff between oem versions 2.0.11 dated 2022-10-13 and 2.0.12 dated 2024-07-31
oem-2.0.11/oem/src/Spectra |only oem-2.0.12/oem/DESCRIPTION | 11 oem-2.0.12/oem/MD5 | 75 +--- oem-2.0.12/oem/NAMESPACE | 1 oem-2.0.12/oem/R/big_oem.R | 32 - oem-2.0.12/oem/R/deprecated_functions.R | 1 oem-2.0.12/oem/R/oem.R | 34 - oem-2.0.12/oem/R/oem_xtx.R | 32 - oem-2.0.12/oem/R/oem_xval.R | 32 - oem-2.0.12/oem/README.md | 94 ++--- oem-2.0.12/oem/build/partial.rdb |only oem-2.0.12/oem/build/vignette.rds |binary oem-2.0.12/oem/inst/CITATION | 19 - oem-2.0.12/oem/inst/doc/oem_vignette.R | 48 +- oem-2.0.12/oem/inst/doc/oem_vignette.html | 540 +++++++++++++++--------------- oem-2.0.12/oem/man/big.oem.Rd | 32 - oem-2.0.12/oem/man/oem.Rd | 34 - oem-2.0.12/oem/man/oem.xtx.Rd | 32 - oem-2.0.12/oem/man/xval.oem.Rd | 32 - oem-2.0.12/oem/src/Makevars | 4 oem-2.0.12/oem/src/Makevars.win | 3 oem-2.0.12/oem/vignettes/mult-1.png |binary 22 files changed, 511 insertions(+), 545 deletions(-)
Title: Sparse Lightweight Arrays and Matrices
Description: Data structures and algorithms for sparse arrays and matrices,
based on index arrays and simple triplet representations, respectively.
Author: Kurt Hornik [aut, cre] ,
David Meyer [aut],
Christian Buchta [aut]
Maintainer: Kurt Hornik <Kurt.Hornik@R-project.org>
Diff between slam versions 0.1-51 dated 2024-07-17 and 0.1-52 dated 2024-07-31
DESCRIPTION | 6 +-- MD5 | 8 ++-- NAMESPACE | 15 ++++++++ R/crossprod.R | 100 ++++++++++++++++++++++++++++++++++++++++------------------ R/matrix.R | 28 ++++++++++++++++ 5 files changed, 119 insertions(+), 38 deletions(-)
More information about patterncausality at CRAN
Permanent link
Title: Meta-Analysis for Detecting Genotype x Environment Associations
Description: Provides functions to perform all steps of genome-wide
association meta-analysis for studying Genotype x Environment
interactions, from collecting the data to the manhattan plot. The
procedure accounts for the potential correlation between studies. In
addition to the Fixed and Random models, one can investigate the
relationship between QTL effects and some qualitative or quantitative
covariate via the test of contrast and the meta-regression,
respectively. The methodology is available from: (De Walsche, A., et
al. (2023) \doi{10.1101/2023.03.01.530237}).
Author: Annaig De Walsche [aut, cre] ,
Tristan Mary-Huard [aut]
Maintainer: Annaig De Walsche <annaig.de-walsche@inrae.fr>
Diff between metaGE versions 1.0.3 dated 2023-09-28 and 1.1.0 dated 2024-07-31
DESCRIPTION | 27 +++++----- MD5 | 52 ++++++++++----------- R/metaGE-package.R | 12 ++++ R/metaGEcollect.R | 51 ++++++++++++-------- R/metaGEfit.R | 20 ++++---- R/metaGEmatcor.R | 10 ++-- R/metaGEplot.R | 104 +++++++++++++++++++++++++----------------- R/metaGEscore.R | 73 ++++++++++++++++------------- R/metaGEtest.R | 42 ++++++++-------- inst/doc/metaGE-vignette.R | 2 inst/doc/metaGE-vignette.html | 60 ++++++++++++------------ man/CheckIncidence.Rd | 2 man/ContrastStatTest.NA.Rd | 6 +- man/ContrastStatTest.Rd | 6 +- man/ReadData.Rd | 2 man/RegressionStatTest.Rd | 2 man/RegressionStatTestNA.Rd | 4 - man/metaGE-package.Rd | 14 +++++ man/metaGE.collect.Rd | 44 ++++++++--------- man/metaGE.cor.Rd | 10 ++-- man/metaGE.fit.Rd | 20 ++++---- man/metaGE.heatmap.Rd | 12 ++-- man/metaGE.incidence.Rd | 4 - man/metaGE.lscore.Rd | 20 ++++---- man/metaGE.manhattan.Rd | 16 +++--- man/metaGE.regplot.Rd | 8 +-- man/metaGE.test.Rd | 18 +++---- 27 files changed, 351 insertions(+), 290 deletions(-)
Title: Estimation of Parameter-Dependent Network Centrality Measures
Description: Provides methods for estimating parameter-dependent network centrality measures with linear-in-means models. Both non linear least squares and maximum likelihood estimators are implemented. The methods allow for both link and node heterogeneity in network effects, endogenous network formation and the presence of unconnected nodes. The routines also compare the explanatory power of parameter-dependent network centrality measures with those of standard measures of network centrality. Benefits and features of the 'econet' package are illustrated using data from Battaglini and Patacchini (2018) and Battaglini, Patacchini, and Leone Sciabolazza (2020). For additional details, see the vignette <doi:10.18637/jss.v102.i08>.
Author: Marco Battaglini [aut] ,
Valerio Leone Sciabolazza [aut, cre]
,
Eleonora Patacchini [aut] ,
Sida Peng [aut]
Maintainer: Valerio Leone Sciabolazza <valerio.leonesciabolazza@uniroma1.it>
Diff between econet versions 1.0.0 dated 2022-04-28 and 1.0.0.1 dated 2024-07-31
DESCRIPTION | 6 +++--- MD5 | 23 ++++++++++++----------- R/sysdata.rda |binary build/vignette.rds |binary data/G_alumni_111.rda |binary data/G_cosponsor_111.rda |binary data/G_model_A_test.rda |binary data/a_G_alumni_111.rda |binary data/a_db_alumni.rda |binary data/db_alumni_test.rda |binary data/db_cosponsor.rda |binary inst/doc/econet.pdf |binary inst/doc/econet.tex |only 13 files changed, 15 insertions(+), 14 deletions(-)
Title: Cross-Validation for Model Selection
Description: Cross-validate one or multiple regression and classification models
and get relevant evaluation metrics in a tidy format. Validate the
best model on a test set and compare it to a baseline evaluation.
Alternatively, evaluate predictions from an external model. Currently
supports regression and classification (binary and multiclass).
Described in chp. 5 of Jeyaraman, B. P., Olsen, L. R.,
& Wambugu M. (2019, ISBN: 9781838550134).
Author: Ludvig Renbo Olsen [aut, cre] ,
Hugh Benjamin Zachariae [aut],
Indrajeet Patil [ctb] ,
Daniel Luedecke [ctb]
Maintainer: Ludvig Renbo Olsen <r-pkgs@ludvigolsen.dk>
Diff between cvms versions 1.6.1 dated 2024-02-27 and 1.6.2 dated 2024-07-31
cvms-1.6.1/cvms/build/cvms.pdf |only cvms-1.6.2/cvms/DESCRIPTION | 10 +-- cvms-1.6.2/cvms/MD5 | 28 +++++----- cvms-1.6.2/cvms/NEWS.md | 4 + cvms-1.6.2/cvms/R/plot_confusion_matrix.R | 12 ++++ cvms-1.6.2/cvms/build/stage23.rdb |only cvms-1.6.2/cvms/build/vignette.rds |binary cvms-1.6.2/cvms/inst/doc/Creating_a_confusion_matrix.html | 6 +- cvms-1.6.2/cvms/inst/doc/available_metrics.html | 8 +- cvms-1.6.2/cvms/inst/doc/cross_validating_custom_functions.html | 10 +-- cvms-1.6.2/cvms/inst/doc/evaluate_by_id.html | 6 +- cvms-1.6.2/cvms/inst/doc/picking_the_number_of_folds_for_cross-validation.html | 8 +- cvms-1.6.2/cvms/man/plot_confusion_matrix.Rd | 12 ++++ cvms-1.6.2/cvms/tests/testthat/test_cross_validate.R | 2 cvms-1.6.2/cvms/tests/testthat/test_plotting_functions.R | 18 ++++-- cvms-1.6.2/cvms/vignettes/man/figures/vignette_pick_k-unnamed-chunk-5-1.png |binary 16 files changed, 79 insertions(+), 45 deletions(-)
More information about amVennDiagram5 at CRAN
Permanent link
Title: Analyzing Animal's Rhythmicity
Description: Analyze and visualize the rhythmic behavior of animals using the
degree of functional coupling (See Scheibe (1999) <doi:10.1076/brhm.30.2.216.1420>),
compute and visualize harmonic power, actograms, average activity and diurnality
index.
Author: Hassan-Roland Nasser [aut, cre],
Marie Schneider [aut, ctb],
Joanna Stachowicz [aut, rev],
Christina Umstaetter [aut, ths]
Maintainer: Hassan-Roland Nasser <hassan.nasser@me.com>
Diff between digiRhythm versions 2.1 dated 2024-07-25 and 2.2 dated 2024-07-31
digiRhythm-2.1/digiRhythm/man/lowest_possible_harmonic_period.Rd |only digiRhythm-2.2/digiRhythm/DESCRIPTION | 7 digiRhythm-2.2/digiRhythm/MD5 | 54 digiRhythm-2.2/digiRhythm/NAMESPACE | 3 digiRhythm-2.2/digiRhythm/R/actogram.R | 3 digiRhythm-2.2/digiRhythm/R/dfc.R | 89 - digiRhythm-2.2/digiRhythm/R/globals.R | 1 digiRhythm-2.2/digiRhythm/R/is_dgm_friendly.R | 17 digiRhythm-2.2/digiRhythm/R/lomb_scargle_periodogram.R | 11 digiRhythm-2.2/digiRhythm/R/utils.R | 25 digiRhythm-2.2/digiRhythm/README.md | 182 -- digiRhythm-2.2/digiRhythm/inst/doc/Actgram_diurnality_avg_activity.R | 7 digiRhythm-2.2/digiRhythm/inst/doc/Actgram_diurnality_avg_activity.Rmd | 9 digiRhythm-2.2/digiRhythm/inst/doc/Actgram_diurnality_avg_activity.html | 15 digiRhythm-2.2/digiRhythm/inst/doc/DFC_and_HP_and_changing_plots.R | 14 digiRhythm-2.2/digiRhythm/inst/doc/DFC_and_HP_and_changing_plots.Rmd | 24 digiRhythm-2.2/digiRhythm/inst/doc/DFC_and_HP_and_changing_plots.html | 639 ++++------ digiRhythm-2.2/digiRhythm/inst/doc/Loading_and_preprocessing_data_in_DigiRhythm.Rmd | 2 digiRhythm-2.2/digiRhythm/inst/doc/Loading_and_preprocessing_data_in_DigiRhythm.html | 24 digiRhythm-2.2/digiRhythm/inst/doc/Visualisation.R | 9 digiRhythm-2.2/digiRhythm/inst/doc/Visualisation.Rmd | 17 digiRhythm-2.2/digiRhythm/inst/doc/Visualisation.html | 23 digiRhythm-2.2/digiRhythm/man/dfc.Rd | 33 digiRhythm-2.2/digiRhythm/man/highest_possible_harm_cutoff.Rd |only digiRhythm-2.2/digiRhythm/man/pbaluev.Rd | 3 digiRhythm-2.2/digiRhythm/vignettes/Actgram_diurnality_avg_activity.Rmd | 9 digiRhythm-2.2/digiRhythm/vignettes/DFC_and_HP_and_changing_plots.Rmd | 24 digiRhythm-2.2/digiRhythm/vignettes/Loading_and_preprocessing_data_in_DigiRhythm.Rmd | 2 digiRhythm-2.2/digiRhythm/vignettes/Visualisation.Rmd | 17 29 files changed, 560 insertions(+), 703 deletions(-)
Title: Build and Manipulate Study Cohorts Using a Common Data Model
Description: Create and manipulate study cohorts in data mapped to the
Observational Medical Outcomes Partnership Common Data Model.
Author: Edward Burn [aut, cre] ,
Marti Catala [aut] ,
Nuria Mercade-Besora [aut] ,
Marta Alcalde-Herraiz [aut] ,
Mike Du [aut] ,
Yuchen Guo [aut] ,
Xihang Chen [aut] ,
Kim Lopez [aut]
Maintainer: Edward Burn <edward.burn@ndorms.ox.ac.uk>
Diff between CohortConstructor versions 0.2.1 dated 2024-06-14 and 0.2.2 dated 2024-07-31
DESCRIPTION | 8 MD5 | 42 R/conceptCohort.R | 83 + R/intersectCohorts.R | 1059 ++++++++++++------------- R/measurementCohort.R | 28 R/requireCohortIntersectFlag.R | 294 +++--- R/requireConceptIntersectFlag.R | 268 +++--- R/requireTableIntersectFlag.R | 256 +++--- R/subsetCohorts.R | 14 R/unionCohorts.R | 32 R/validateFunctions.R | 19 inst/doc/a01_building_base_cohorts.html | 22 inst/doc/a02_applying_cohort_restrictions.html | 16 tests/testthat/setup.R | 106 +- tests/testthat/test-conceptCohort.R | 53 - tests/testthat/test-measurementCohort.R | 32 tests/testthat/test-requireCohortIntersect.R | 594 +++++++------- tests/testthat/test-requireConceptIntersect.R | 610 +++++++------- tests/testthat/test-requireTableIntersect.R | 594 +++++++------- tests/testthat/test-subsetCohorts.R | 23 tests/testthat/test-trimDemographics.R | 790 +++++++++--------- tests/testthat/test-unionCohorts.R | 82 + 22 files changed, 2576 insertions(+), 2449 deletions(-)
More information about CohortConstructor at CRAN
Permanent link
Title: Solving Mixed Model Equations in R
Description: Structural multivariate-univariate linear mixed model solver for estimation of multiple random effects with unknown variance-covariance structures (e.g., heterogeneous and unstructured) and known covariance among levels of random effects (e.g., pedigree and genomic relationship matrices) (Covarrubias-Pazaran, 2016 <doi:10.1371/journal.pone.0156744>; Maier et al., 2015 <doi:10.1016/j.ajhg.2014.12.006>; Jensen et al., 1997). REML estimates can be obtained using the Direct-Inversion Newton-Raphson and Direct-Inversion Average Information algorithms for the problems r x r (r being the number of records) or using the Henderson-based average information algorithm for the problem c x c (c being the number of coefficients to estimate). Spatial models can also be fitted using the two-dimensional spline functionality available.
Author: Giovanny Covarrubias-Pazaran [aut, cre]
Maintainer: Giovanny Covarrubias-Pazaran <cova_ruber@live.com.mx>
Diff between sommer versions 4.3.4 dated 2024-03-17 and 4.3.5 dated 2024-07-31
CHANGELOG | 15 DESCRIPTION | 17 - MD5 | 80 ++--- NAMESPACE | 2 R/FUN_spatial_b.R | 436 ++++++++++++++++++++++++++++ R/FUN_special.R | 242 +++++++++++---- R/FUN_utils.R | 2 R/mmec.R | 4 R/mmer.R | 2 inst/doc/v2.sommer.changes.and.faqs.Rmd | 2 inst/doc/v2.sommer.changes.and.faqs.pdf |binary inst/doc/v3.sommer.qg.Rmd | 3 inst/doc/v3.sommer.qg.pdf |binary inst/doc/v4.sommer.gxe.R | 44 ++ inst/doc/v4.sommer.gxe.Rmd | 46 ++ inst/doc/v4.sommer.gxe.pdf |binary inst/doc/v5.sommer.vs.lme4.R | 13 inst/doc/v5.sommer.vs.lme4.Rmd | 15 man/DT_example.Rd | 3 man/GWAS.Rd | 2 man/H.Rd |only man/atc.Rd | 6 man/covc.Rd | 12 man/csc.Rd | 10 man/dsc.Rd | 6 man/isc.Rd | 29 + man/redmm.Rd | 6 man/rrc.Rd | 105 ++++-- man/tps.Rd |only man/usc.Rd | 6 man/vsc.Rd | 2 src/MNR.cpp | 22 - vignettes/v1.sommer.quick.start.html | 461 +++++++++++++++--------------- vignettes/v2.sommer.changes.and.faqs.Rmd | 2 vignettes/v2.sommer.changes.and.faqs.html | 19 - vignettes/v3.sommer.qg.Rmd | 3 vignettes/v3.sommer.qg.html | 5 vignettes/v4.sommer.gxe.Rmd | 46 ++ vignettes/v4.sommer.gxe.html | 77 +++-- vignettes/v5.sommer.vs.lme4.Rmd | 15 vignettes/v5.sommer.vs.lme4.html | 119 ++++--- vignettes/v6.sommer.spatial.html | 4 42 files changed, 1308 insertions(+), 575 deletions(-)
Title: Genotyping Triploids (or Diploids) from Luminescence Data
Description: Genotyping of triploid individuals from luminescence data (marker probeset A and B). Works also for diploids.
Two main functions: Run_Clustering() that regroups individuals with a same genotype based on proximity and
Run_Genotyping() that assigns a genotype to each cluster. For Shiny interface use: launch_GenoShiny().
Author: Julien Roche [aut, cre],
Florence Phocas [aut],
Mathieu Besson [aut],
Pierre Patrice [aut],
Marc Vandeputte [aut],
Francois Allal [aut],
Pierrick Haffray [aut]
Maintainer: Julien Roche <jjm.roche@gmail.com>
Diff between GenoTriplo versions 1.0.4 dated 2024-02-28 and 1.1.0 dated 2024-07-31
DESCRIPTION | 8 MD5 | 28 R/App_GenoTriploShiny.R | 2141 +++++++++++++++++++++--------------------- R/function_GenoTot_pop_dif.R | 173 +-- R/function_GenoTot_pop_same.R | 144 +- R/function_calculNbSD_gp.R | 20 R/function_clustering.R | 436 ++++---- R/function_create_dataset.R | 136 +- R/function_run_clustering.R | 220 ++-- R/function_run_genotyping.R | 481 ++++----- R/function_verifSD_gp.R | 1 data/GenoTriplo_to_clust.rda |binary data/GenoTriplo_to_geno.rda |binary man/Clustering.Rd | 12 man/Run_Clustering.Rd | 2 15 files changed, 1965 insertions(+), 1837 deletions(-)
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2024-07-30 1.2.5
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2023-10-13 0.1.0
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2023-10-09 0.1.0
Title: Modeling and Forecasting Visitor Counts Using Social Media
Description: Performs modeling and forecasting of park visitor counts
using social media data and (partial) on-site visitor counts.
Specifically, the model is built based on an automatic decomposition
of the trend and seasonal components of the social media-based park visitor counts,
from which short-term forecasts of the visitor counts and percent changes
in the visitor counts can be made. A reference for the underlying model that 'VisitorCounts' uses can be found at
Russell Goebel, Austin Schmaltz, Beth Ann Brackett, Spencer A. Wood, Kimihiro Noguchi (2023) <doi:10.1002/for.2965> .
Author: Robert Bowen [aut, cre],
Russell Goebel [aut],
Beth Ann Brackett [ctb],
Kimihiro Noguchi [aut],
Dylan Way [aut]
Maintainer: Robert Bowen <robertbowen.bham@gmail.com>
Diff between VisitorCounts versions 2.0.0 dated 2024-03-25 and 2.0.1 dated 2024-07-31
VisitorCounts-2.0.0/VisitorCounts/inst/WORDLIST |only VisitorCounts-2.0.0/VisitorCounts/tests/spelling.R |only VisitorCounts-2.0.1/VisitorCounts/DESCRIPTION | 18 VisitorCounts-2.0.1/VisitorCounts/MD5 | 109 VisitorCounts-2.0.1/VisitorCounts/NAMESPACE | 2 VisitorCounts-2.0.1/VisitorCounts/NEWS.md | 15 VisitorCounts-2.0.1/VisitorCounts/R/classes.R | 414 - VisitorCounts-2.0.1/VisitorCounts/R/data.R | 116 VisitorCounts-2.0.1/VisitorCounts/R/function_auto_decompose.R | 584 +- VisitorCounts-2.0.1/VisitorCounts/R/function_estimate_lag.R | 382 - VisitorCounts-2.0.1/VisitorCounts/R/function_visitation_model.R | 2186 +++++----- VisitorCounts-2.0.1/VisitorCounts/R/helpers_visitation_model.R | 428 - VisitorCounts-2.0.1/VisitorCounts/R/methods_plot.R | 1046 ++-- VisitorCounts-2.0.1/VisitorCounts/R/methods_predict.R | 578 +- VisitorCounts-2.0.1/VisitorCounts/R/methods_print.R | 298 - VisitorCounts-2.0.1/VisitorCounts/R/methods_summary.R | 300 - VisitorCounts-2.0.1/VisitorCounts/README.md | 260 - VisitorCounts-2.0.1/VisitorCounts/build/vignette.rds |binary VisitorCounts-2.0.1/VisitorCounts/inst/doc/VisitorCounts.R | 182 VisitorCounts-2.0.1/VisitorCounts/inst/doc/VisitorCounts.Rmd | 378 - VisitorCounts-2.0.1/VisitorCounts/inst/doc/VisitorCounts.html | 1237 ++--- VisitorCounts-2.0.1/VisitorCounts/man/auto_decompose.Rd | 152 VisitorCounts-2.0.1/VisitorCounts/man/check_arguments.Rd | 80 VisitorCounts-2.0.1/VisitorCounts/man/convert_ts_forecast_to_df.Rd |only VisitorCounts-2.0.1/VisitorCounts/man/decompose_proxy.Rd | 196 VisitorCounts-2.0.1/VisitorCounts/man/estimate_lag.Rd | 138 VisitorCounts-2.0.1/VisitorCounts/man/estimate_parameters.Rd | 118 VisitorCounts-2.0.1/VisitorCounts/man/fit_model.Rd | 62 VisitorCounts-2.0.1/VisitorCounts/man/flickr_userdays.Rd | 38 VisitorCounts-2.0.1/VisitorCounts/man/forest_visitation.Rd | 54 VisitorCounts-2.0.1/VisitorCounts/man/generate_proxy_trend_forecasts.Rd | 68 VisitorCounts-2.0.1/VisitorCounts/man/imputation.Rd | 34 VisitorCounts-2.0.1/VisitorCounts/man/new_decomposition.Rd | 46 VisitorCounts-2.0.1/VisitorCounts/man/new_visitation_forecast.Rd | 114 VisitorCounts-2.0.1/VisitorCounts/man/new_visitation_forecast_ensemble.Rd | 2 VisitorCounts-2.0.1/VisitorCounts/man/new_visitation_model.Rd | 116 VisitorCounts-2.0.1/VisitorCounts/man/park_visitation.Rd | 58 VisitorCounts-2.0.1/VisitorCounts/man/plot.decomposition.Rd | 104 VisitorCounts-2.0.1/VisitorCounts/man/plot.visitation_forecast.Rd | 142 VisitorCounts-2.0.1/VisitorCounts/man/plot.visitation_forecast_ensemble.Rd | 87 VisitorCounts-2.0.1/VisitorCounts/man/plot.visitation_model.Rd | 86 VisitorCounts-2.0.1/VisitorCounts/man/predict.decomposition.Rd | 110 VisitorCounts-2.0.1/VisitorCounts/man/predict.visitation_model.Rd | 126 VisitorCounts-2.0.1/VisitorCounts/man/print.decomposition.Rd | 74 VisitorCounts-2.0.1/VisitorCounts/man/print.visitation_forecast.Rd | 70 VisitorCounts-2.0.1/VisitorCounts/man/print.visitation_model.Rd | 68 VisitorCounts-2.0.1/VisitorCounts/man/summary.decomposition.Rd | 74 VisitorCounts-2.0.1/VisitorCounts/man/summary.visitation_forecast.Rd | 70 VisitorCounts-2.0.1/VisitorCounts/man/summary.visitation_model.Rd | 68 VisitorCounts-2.0.1/VisitorCounts/man/visitation_model.Rd | 292 - VisitorCounts-2.0.1/VisitorCounts/man/yearsToMonths.Rd | 38 VisitorCounts-2.0.1/VisitorCounts/tests/testthat.R | 10 VisitorCounts-2.0.1/VisitorCounts/tests/testthat/test_lag.R | 41 VisitorCounts-2.0.1/VisitorCounts/tests/testthat/test_predict.R | 189 VisitorCounts-2.0.1/VisitorCounts/tests/testthat/test_trim_inputs_vm.R | 135 VisitorCounts-2.0.1/VisitorCounts/tests/testthat/test_vm_log_boolean.R | 161 VisitorCounts-2.0.1/VisitorCounts/vignettes/VisitorCounts.Rmd | 378 - 57 files changed, 6021 insertions(+), 6111 deletions(-)
Title: Tools for Building Regression and Classification Models
Description: Collection of tools for regression and classification tasks. The package implements a consistent user interface to the most popular regression and classification algorithms, such as random forest, neural networks, C5 trees and support vector machines, and complements it with a handful of auxiliary functions, such as variable importance and a tuning function for the parameters.
Author: Andri Signorell [aut, cre],
Bernhard Compton [ctb],
Marcel Dettling [ctb],
Alexandre Hainard [ctb],
Max Kuhn [ctb],
Frederique Lisacek [ctb],
Michal Majka [ctb],
Markus Mueller [ctb],
Dan Putler [ctb],
Jean-Charles Sanchez [ctb],
Natalia Tiberti [ctb] [...truncated...]
Maintainer: Andri Signorell <andri@signorell.net>
Diff between ModTools versions 0.9.6 dated 2024-01-23 and 0.9.12 dated 2024-07-31
DESCRIPTION | 16 ++++++--- MD5 | 24 ++++++++------ NAMESPACE | 78 +++++++++++++++++++++++++++++++++++++++++------- NEWS | 10 +++++- R/ModTools.R | 12 +------ R/utils.R |only README.md |only build/partial.rdb |binary data/d.pima.rda |binary data/d.pima2.rda |binary man/FitMod.Rd | 2 - man/ModTools-package.Rd | 8 ++-- man/Rules.Rd | 4 +- man/bioChemists.Rd | 54 ++++++++++++++++----------------- 14 files changed, 138 insertions(+), 70 deletions(-)
Title: Lightweight Extension of the Base R Graphics System
Description: Lightweight extension of the base R graphics system, with support
for automatic legends, facets, and various other enhancements.
Author: Grant McDermott [aut, cre] ,
Vincent Arel-Bundock [aut] ,
Achim Zeileis [aut] ,
Etienne Bacher [ctb]
Maintainer: Grant McDermott <gmcd@amazon.com>
Diff between tinyplot versions 0.1.0 dated 2024-06-20 and 0.2.0 dated 2024-07-31
.Rinstignore |only DESCRIPTION | 12 MD5 | 27 - NAMESPACE | 4 NEWS.md | 32 + R/assertions.R |only R/by_aesthetics.R | 10 R/density.R |only R/draw_elements.R |only R/draw_legend.R | 11 R/facet.R |only R/histogram.R |only R/sanitize.R |only R/setup_device.R |only R/tinyplot.R | 948 ++++++++++++++++++------------------------------------ R/zzz.R | 34 + README.md | 26 - man/tinyplot.Rd | 263 ++++++++------ tests/tinytest.R | 5 19 files changed, 585 insertions(+), 787 deletions(-)