Title: Statistical Methods for the Analysis of Case-Control Point Data
Description: Statistical methods for analyzing case-control point data. Methods include the ratio of kernel densities, the difference in K Functions, the spatial scan statistic, and q nearest neighbors of cases.
Author: Joshua French [aut, cre]
Maintainer: Joshua French <joshua.french@ucdenver.edu>
Diff between smacpod versions 2.5 dated 2022-11-17 and 2.6 dated 2023-09-21
DESCRIPTION | 10 MD5 | 22 - NEWS.md | 5 R/kdest-summary.R | 12 R/qnn.test.R | 2 R/smacpod-package.R |only R/spscan.test.R | 4 build/vignette.rds |binary inst/doc/smacpod_demo.Rmd | 6 inst/doc/smacpod_demo.html | 704 +++++++++++++++++++++------------------------ man/smacpod.Rd |only man/spscan.test.Rd | 2 vignettes/smacpod_demo.Rmd | 6 13 files changed, 376 insertions(+), 397 deletions(-)
Title: Computation of Bayes Factors for Common Designs
Description: A suite of functions for computing
various Bayes factors for simple designs, including contingency tables,
one- and two-sample designs, one-way designs, general ANOVA designs, and
linear regression.
Author: Richard D. Morey [aut, cre, cph],
Jeffrey N. Rouder [aut],
Tahira Jamil [ctb, cph],
Simon Urbanek [ctb, cph],
Karl Forner [ctb, cph],
Alexander Ly [ctb, cph]
Maintainer: Richard D. Morey <richarddmorey@gmail.com>
Diff between BayesFactor versions 0.9.12-4.4 dated 2022-07-05 and 0.9.12-4.5 dated 2023-09-21
DESCRIPTION | 14 MD5 | 40 NEWS | 7 R/BayesFactorPCL-package.R | 2 R/checking.R | 2 R/meta-ttest-utility.R | 21 R/ttest_tstat.R | 2 build/vignette.rds |binary inst/doc/compare_lme4.html | 536 +++----- inst/doc/index.html | 236 +-- inst/doc/manual.R | 34 inst/doc/manual.Rmd | 175 +- inst/doc/manual.html | 2947 ++++++++++++++++++++++++--------------------- inst/doc/odds_probs.html | 416 ++---- inst/doc/priors.R | 2 inst/doc/priors.Rmd | 2 inst/doc/priors.html | 444 ++---- man/BayesFactor-package.Rd | 2 man/ttest.tstat.Rd | 2 vignettes/manual.Rmd | 175 +- vignettes/priors.Rmd | 2 21 files changed, 2463 insertions(+), 2598 deletions(-)
Title: Fitting Survival Regression Models via 'Stan'
Description: Parametric survival regression models under the maximum likelihood approach via 'Stan'. Implemented regression models include accelerated failure time models, proportional hazards models, proportional odds models, accelerated hazard models, and Yang and Prentice models. Available baseline survival distributions include exponential, Weibull, log-normal, log-logistic, and fatigue (Birnbaum-Saunders) distributions. References: Lawless (2002) <ISBN:9780471372158>; Bennett (1982) <doi:10.1002/sim.4780020223>; Chen and Wang(2000) <doi:10.1080/01621459.2000.10474236>; Demarqui and Mayrink (2021) <doi:10.1214/20-BJPS471>.
Author: Fabio Demarqui [aut, cre, cph]
Maintainer: Fabio Demarqui <fndemarqui@est.ufmg.br>
Diff between survstan versions 0.0.3 dated 2023-08-09 and 0.0.4 dated 2023-09-21
DESCRIPTION | 14 MD5 | 36 NEWS.md | 4 R/aftreg.R | 3 R/utils.R | 4 R/ypreg.R | 3 README.md | 23 build/partial.rdb |binary inst/doc/LRT.R | 54 inst/doc/LRT.Rmd | 78 inst/doc/LRT.html | 154 - inst/doc/survstan.R | 49 inst/doc/survstan.Rmd | 95 - inst/doc/survstan.html | 194 +- inst/stan/chunks/baselines.stan | 53 inst/stan/survreg.stan | 21 src/stanExports_survreg.h | 3271 +++++++++++++++++++++++----------------- vignettes/LRT.Rmd | 78 vignettes/survstan.Rmd | 95 - 19 files changed, 2427 insertions(+), 1802 deletions(-)
Title: R Bindings for the 'prql-compiler' Rust Library
Description: Provides a function to convert 'PRQL' strings to 'SQL' strings.
Combined with other R functions that take 'SQL' as an argument,
'PRQL' can be used on R.
Author: Tatsuya Shima [aut, cre],
Authors of the dependency Rust crates [aut]
Maintainer: Tatsuya Shima <ts1s1andn@gmail.com>
Diff between prqlr versions 0.5.2 dated 2023-09-11 and 0.5.3 dated 2023-09-21
DESCRIPTION | 8 +++--- LICENSE.note | 42 +++++++++++++-------------------- MD5 | 34 +++++++++++++------------- NEWS.md | 14 +++++++++++ R/knitr-engine.R | 22 +++++------------ README.md | 9 +++---- inst/doc/knitr.Rmd | 4 ++- inst/doc/knitr.html | 13 +++++----- inst/doc/prqlr.html | 2 - src/Makevars | 24 +++++++++--------- src/Makevars.win | 30 +++++++++++------------ src/rust/Cargo.lock | 43 +++++++++++++--------------------- src/rust/Cargo.toml | 2 - src/rust/vendor.tar.xz |binary tests/testthat/_snaps/compile.md | 4 +-- tests/testthat/_snaps/knitr-engine.md | 4 +-- tests/testthat/test-compile.R | 2 - vignettes/knitr.Rmd | 4 ++- 18 files changed, 128 insertions(+), 133 deletions(-)
Title: Isotopic Tracer Analysis Using MCMC
Description: Implements Bayesian models to analyze data from tracer addition
experiments. The implemented method was originally described in the article
"A New Method to Reconstruct Quantitative Food Webs and Nutrient Flows from
Isotope Tracer Addition Experiments" by López-Sepulcre et al. (2020)
<doi:10.1086/708546>.
Author: Andres Lopez-Sepulcre [aut] ,
Matthieu Bruneaux [aut, cre]
Maintainer: Matthieu Bruneaux <matthieu.bruneaux@gmail.com>
Diff between isotracer versions 1.1.4 dated 2023-03-21 and 1.1.5 dated 2023-09-21
isotracer-1.1.4/isotracer/src/Makevars.win |only isotracer-1.1.5/isotracer/DESCRIPTION | 10 isotracer-1.1.5/isotracer/MD5 | 219 isotracer-1.1.5/isotracer/NEWS.md | 8 isotracer-1.1.5/isotracer/data/aquarium_run.rda |binary isotracer-1.1.5/isotracer/inst/doc/case-study-collins-2016.Rmd | 26 isotracer-1.1.5/isotracer/inst/doc/case-study-collins-2016.html | 28 isotracer-1.1.5/isotracer/inst/doc/tutorial-010-quick-start.Rmd | 44 isotracer-1.1.5/isotracer/inst/doc/tutorial-010-quick-start.html | 46 isotracer-1.1.5/isotracer/inst/doc/tutorial-020-replication.Rmd | 24 isotracer-1.1.5/isotracer/inst/doc/tutorial-020-replication.html | 26 isotracer-1.1.5/isotracer/inst/doc/tutorial-030-steady-state-comps.Rmd | 10 isotracer-1.1.5/isotracer/inst/doc/tutorial-030-steady-state-comps.html | 12 isotracer-1.1.5/isotracer/inst/doc/tutorial-040-pulse-drip-events.Rmd | 14 isotracer-1.1.5/isotracer/inst/doc/tutorial-040-pulse-drip-events.html | 16 isotracer-1.1.5/isotracer/inst/doc/tutorial-050-fixed-effects.Rmd | 42 isotracer-1.1.5/isotracer/inst/doc/tutorial-050-fixed-effects.html | 44 isotracer-1.1.5/isotracer/inst/doc/tutorial-060-units-priors.Rmd | 2 isotracer-1.1.5/isotracer/inst/doc/tutorial-060-units-priors.html | 4 isotracer-1.1.5/isotracer/inst/doc/tutorial-070-prior-predictive-checks.Rmd | 2 isotracer-1.1.5/isotracer/inst/doc/tutorial-070-prior-predictive-checks.html | 4 isotracer-1.1.5/isotracer/inst/doc/tutorial-080-mcmc-output-format.Rmd | 119 isotracer-1.1.5/isotracer/inst/doc/tutorial-080-mcmc-output-format.html | 121 isotracer-1.1.5/isotracer/inst/doc/tutorial-090-post-run-analyses.Rmd | 142 isotracer-1.1.5/isotracer/inst/doc/tutorial-090-post-run-analyses.html | 144 isotracer-1.1.5/isotracer/inst/doc/tutorial-100-posterior-predictive-checks.Rmd | 14 isotracer-1.1.5/isotracer/inst/doc/tutorial-100-posterior-predictive-checks.html | 16 isotracer-1.1.5/isotracer/inst/doc/tutorial-110-derived-parameters.Rmd | 28 isotracer-1.1.5/isotracer/inst/doc/tutorial-110-derived-parameters.html | 30 isotracer-1.1.5/isotracer/inst/doc/tutorial-120-howto-simulations.Rmd | 78 isotracer-1.1.5/isotracer/inst/doc/tutorial-120-howto-simulations.html | 80 isotracer-1.1.5/isotracer/inst/doc/tutorial-130-parameter-identifiability.Rmd | 31 isotracer-1.1.5/isotracer/inst/doc/tutorial-130-parameter-identifiability.html | 64 isotracer-1.1.5/isotracer/inst/stan/networkModel.stan | 146 isotracer-1.1.5/isotracer/src/Makevars | 2 isotracer-1.1.5/isotracer/src/stanExports_networkModel.h | 9940 +++++----- isotracer-1.1.5/isotracer/tests/testthat/test-ui_plotting.R | 15 isotracer-1.1.5/isotracer/vignettes/case-study-collins-2016.Rmd | 26 isotracer-1.1.5/isotracer/vignettes/figures/z-fig-010-unnamed-chunk-18-1.jpeg |binary isotracer-1.1.5/isotracer/vignettes/figures/z-fig-010-unnamed-chunk-21-1.jpeg |binary isotracer-1.1.5/isotracer/vignettes/figures/z-fig-020-unnamed-chunk-16-1.jpeg |binary 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isotracer-1.1.5/isotracer/vignettes/tutorial-100-posterior-predictive-checks.Rmd | 14 isotracer-1.1.5/isotracer/vignettes/tutorial-110-derived-parameters.Rmd | 28 isotracer-1.1.5/isotracer/vignettes/tutorial-120-howto-simulations.Rmd | 78 isotracer-1.1.5/isotracer/vignettes/tutorial-130-parameter-identifiability.Rmd | 31 111 files changed, 6812 insertions(+), 5315 deletions(-)
Title: Modelling Spatial Variation in Disease Risk for Areal Data
Description: Formatting of population and case data, calculation of Standardized
Incidence Ratios, and fitting the BYM model using 'INLA'. For details see Brown (2015) <doi:10.18637/jss.v063.i12>.
Author: Patrick Brown [aut, cre, cph],
Lutong Zhou [aut]
Maintainer: Patrick Brown <patrick.brown@utoronto.ca>
Diff between diseasemapping versions 2.0.2 dated 2023-09-19 and 2.0.3 dated 2023-09-21
DESCRIPTION | 8 ++++---- MD5 | 18 +++++++++--------- R/bym.R | 3 ++- build/diseasemapping.pdf |binary build/stage23.rdb |binary inst/doc/bym.Rnw | 6 ++++++ inst/doc/bym.pdf |binary man/diseasemapping-package.Rd | 8 ++++++-- tests/bym.R | 2 +- vignettes/bym.Rnw | 6 ++++++ 10 files changed, 34 insertions(+), 17 deletions(-)
More information about diseasemapping at CRAN
Permanent link
Title: Automatic Phenotyping of Electronic Health Record at Visit
Resolution
Description: Using Electronic Health Record (EHR) is difficult because most of the time the true characteristic of the patient is not available. Instead we can retrieve the International Classification of Disease code related to the disease of interest or we can count the occurrence of the Unified Medical Language System. None of them is the true phenotype which needs chart review to identify. However chart review is time consuming and costly. 'PheVis' is an algorithm which is phenotyping (i.e identify a characteristic) at the visit level in an unsupervised fashion. It can be used for chronic or acute diseases. An example of how to use 'PheVis' is available in the vignette. Basically there are two functions that are to be used: `train_phevis()` which trains the algorithm and `test_phevis()` which get the predicted probabilities. The detailed method is described in preprint by Ferté et al. (2020) <doi:10.1101/2020.06.15.20131458>.
Author: Thomas Ferte [aut, cre],
Boris P. Hejblum [aut]
Maintainer: Thomas Ferte <thomas.ferte@u-bordeaux.fr>
Diff between PheVis versions 1.0.2 dated 2021-02-23 and 1.0.3 dated 2023-09-21
PheVis-1.0.2/PheVis/R/PheVis.R |only PheVis-1.0.2/PheVis/man/PheVis.Rd |only PheVis-1.0.3/PheVis/DESCRIPTION | 10 PheVis-1.0.3/PheVis/MD5 | 15 PheVis-1.0.3/PheVis/NEWS.md | 8 PheVis-1.0.3/PheVis/R/PheVis-package.R |only PheVis-1.0.3/PheVis/build/partial.rdb |only PheVis-1.0.3/PheVis/build/vignette.rds |binary PheVis-1.0.3/PheVis/inst/doc/TutoPheVis.html | 552 +++++++++++++-------------- PheVis-1.0.3/PheVis/man/PheVis-package.Rd |only PheVis-1.0.3/PheVis/src/RcppExports.cpp | 5 11 files changed, 301 insertions(+), 289 deletions(-)
Title: Paws Low-Level Amazon Web Services API
Description: Functions for making low-level API requests to Amazon Web Services
<https://aws.amazon.com>. The functions handle building, signing, and
sending requests, and receiving responses. They are designed to help build
higher-level interfaces to individual services, such as Simple Storage
Service (S3).
Author: David Kretch [aut],
Adam Banker [aut],
Dyfan Jones [cre],
Amazon.com, Inc. [cph]
Maintainer: Dyfan Jones <dyfan.r.jones@gmail.com>
Diff between paws.common versions 0.6.0 dated 2023-09-06 and 0.6.1 dated 2023-09-21
DESCRIPTION | 6 +- MD5 | 14 +++--- NEWS.md | 4 + R/iniutil.R | 76 ++++++++++++++++++++++++----------- R/xmlutil.R | 3 - tests/testthat/data_ini | 9 +++- tests/testthat/test_handlers_query.R | 24 +++++++++++ tests/testthat/test_iniutil.R | 8 +++ 8 files changed, 110 insertions(+), 34 deletions(-)
Title: Contains Regional Floristic Quality Assessment Databases
Description: Contains regional Floristic Quality Assessment databases that
have been approved or approved with reservations by the U.S. Army
Corps of Engineers (USACE). Paired with the 'fqacalc' R package, these
data sets allow for Floristic Quality Assessment metrics to be
calculated. For information on FQA see Spyreas (2019)
<doi:10.1002/ecs2.2825>. Both packages were developed for the USACE by
the U.S. Army Engineer Research and Development Center's
Environmental Laboratory.
Author: Iris Foxfoot [aut, cre],
U.S. Army Engineer Research and Development Center [cph, fnd]
Maintainer: Iris Foxfoot <iris.r.foxfoot@usace.army.mil>
Diff between fqadata versions 1.0.0 dated 2023-04-17 and 1.1.0 dated 2023-09-21
DESCRIPTION | 6 ++-- MD5 | 11 ++++---- NEWS.md |only README.md | 52 ++++++++++++++++++++++++------------------ data/fqa_citations.rda |binary data/fqa_db.rda |binary tests/testthat/test-fqadata.R | 2 + 7 files changed, 41 insertions(+), 30 deletions(-)
Title: Simulation-Based Inference for Regression Models
Description: Performs simulation-based inference as an alternative to the delta method for obtaining valid confidence intervals and p-values for regression post-estimation quantities, such as average marginal effects and predictions at representative values. This framework for simulation-based inference is especially useful when the resulting quantity is not normally distributed and the delta method approximation fails. The methodology is described in King, Tomz, and Wittenberg (2000) <doi:10.2307/2669316>. 'clarify' is meant to replace some of the functionality of the archived package 'Zelig'; see the vignette "Translating Zelig to clarify" for replicating this functionality.
Author: Noah Greifer [aut, cre] ,
Steven Worthington [aut] ,
Stefano Iacus [aut] ,
Gary King [aut]
Maintainer: Noah Greifer <ngreifer@iq.harvard.edu>
Diff between clarify versions 0.1.3 dated 2023-05-04 and 0.2.0 dated 2023-09-21
clarify-0.1.3/clarify/tests/testthat/fixtures/mimira.rds |only clarify-0.2.0/clarify/DESCRIPTION | 11 clarify-0.2.0/clarify/MD5 | 65 - clarify-0.2.0/clarify/NAMESPACE | 2 clarify-0.2.0/clarify/NEWS.md | 14 clarify-0.2.0/clarify/R/checks.R | 54 - clarify-0.2.0/clarify/R/clarify-package.R | 1 clarify-0.2.0/clarify/R/clarify_est_methods.R | 196 +++ clarify-0.2.0/clarify/R/clarify_predict.R | 51 - clarify-0.2.0/clarify/R/plot.clarify_adrf.R | 67 + clarify-0.2.0/clarify/R/plot.clarify_est.R | 4 clarify-0.2.0/clarify/R/plot.clarify_setx.R | 6 clarify-0.2.0/clarify/R/sim.R | 8 clarify-0.2.0/clarify/R/sim_adrf.R | 171 ++- clarify-0.2.0/clarify/R/sim_ame.R | 276 ++++- clarify-0.2.0/clarify/R/sim_apply.R | 40 clarify-0.2.0/clarify/R/sim_setx.R | 87 - clarify-0.2.0/clarify/R/summary.clarify_est.R | 12 clarify-0.2.0/clarify/R/utils.R | 22 clarify-0.2.0/clarify/build/partial.rdb |binary clarify-0.2.0/clarify/build/vignette.rds |binary clarify-0.2.0/clarify/inst/doc/Zelig.html | 308 +++--- clarify-0.2.0/clarify/inst/doc/clarify.R | 43 clarify-0.2.0/clarify/inst/doc/clarify.Rmd | 148 ++ clarify-0.2.0/clarify/inst/doc/clarify.html | 745 ++++++++------- clarify-0.2.0/clarify/man/sim_adrf.Rd | 20 clarify-0.2.0/clarify/man/sim_ame.Rd | 56 - clarify-0.2.0/clarify/man/sim_apply.Rd | 18 clarify-0.2.0/clarify/man/sim_setx.Rd | 14 clarify-0.2.0/clarify/man/summary.clarify_est.Rd | 5 clarify-0.2.0/clarify/tests/testthat/test-misim.R | 10 clarify-0.2.0/clarify/tests/testthat/test-sim_ame.R | 157 ++- clarify-0.2.0/clarify/vignettes/clarify.Rmd | 148 ++ clarify-0.2.0/clarify/vignettes/references.bib | 15 34 files changed, 1895 insertions(+), 879 deletions(-)
Title: Solving Linear Inverse Models
Description: Functions that (1) find the minimum/maximum of a linear or quadratic function:
min or max (f(x)), where f(x) = ||Ax-b||^2 or f(x) = sum(a_i*x_i)
subject to equality constraints Ex=f and/or inequality constraints Gx>=h,
(2) sample an underdetermined- or overdetermined system Ex=f subject to Gx>=h, and if applicable Ax~=b,
(3) solve a linear system Ax=B for the unknown x. It includes banded and tridiagonal linear systems.
Author: Karline Soetaert [aut, cre],
Karel Van den Meersche [aut],
Dick van Oevelen [aut],
Charles L. Lawson [ctb] ,
Richard J. Hanson [ctb] ,
Jack Dongarra [ctb] ,
Cleve Moler [ctb]
Maintainer: Karline Soetaert <karline.soetaert@nioz.nl>
Diff between limSolve versions 1.5.6 dated 2019-11-14 and 1.5.7 dated 2023-09-21
limSolve-1.5.6/limSolve/inst/doc/E_coli.input |only limSolve-1.5.6/limSolve/inst/doc/linpackcomments |only limSolve-1.5.7/limSolve/DESCRIPTION | 25 limSolve-1.5.7/limSolve/MD5 | 56 - limSolve-1.5.7/limSolve/R/ldei.R | 8 limSolve-1.5.7/limSolve/R/ldp.R | 8 limSolve-1.5.7/limSolve/R/linp.R | 13 limSolve-1.5.7/limSolve/R/lsei.R | 57 + limSolve-1.5.7/limSolve/R/varranges.R | 11 limSolve-1.5.7/limSolve/R/xranges.R | 8 limSolve-1.5.7/limSolve/R/xsample.R | 15 limSolve-1.5.7/limSolve/build/vignette.rds |binary limSolve-1.5.7/limSolve/data/Blending.rda |binary limSolve-1.5.7/limSolve/data/Chemtax.rda |binary limSolve-1.5.7/limSolve/data/E_coli.rda |binary limSolve-1.5.7/limSolve/data/Minkdiet.rda |binary limSolve-1.5.7/limSolve/data/RigaWeb.rda |binary limSolve-1.5.7/limSolve/inst/CITATION | 56 - limSolve-1.5.7/limSolve/inst/doc/limSolve.R | 730 +++++++++++------------ limSolve-1.5.7/limSolve/inst/doc/limSolve.pdf |binary limSolve-1.5.7/limSolve/inst/doc/xsample.R | 21 limSolve-1.5.7/limSolve/inst/doc/xsample.pdf |binary limSolve-1.5.7/limSolve/man/ldei.Rd | 284 ++++---- limSolve-1.5.7/limSolve/man/ldp.Rd | 14 limSolve-1.5.7/limSolve/man/limSolve.rd | 10 limSolve-1.5.7/limSolve/man/linp.Rd | 14 limSolve-1.5.7/limSolve/man/lsei.Rd | 22 limSolve-1.5.7/limSolve/man/varranges.Rd | 14 limSolve-1.5.7/limSolve/man/xranges.Rd | 18 limSolve-1.5.7/limSolve/man/xsample.Rd | 477 +++++++-------- 30 files changed, 1005 insertions(+), 856 deletions(-)
Title: Neighbourhood Functions for Local-Search Algorithms
Description: Neighbourhood functions are key components of
local-search algorithms such as Simulated Annealing or
Threshold Accepting. These functions take a solution and
return a slightly-modified copy of it, i.e. a neighbour.
The package provides a function neighbourfun() that
constructs such neighbourhood functions, based on
parameters such as admissible ranges for elements in a
solution. Supported are numeric and logical solutions.
The algorithms were originally created for
portfolio-optimisation applications, but can be used for
other models as well. Several recipes for neighbour
computations are taken from "Numerical Methods and
Optimization in Finance" by M. Gilli, D. Maringer and
E. Schumann (2019, ISBN:978-0128150658).
Author: Enrico Schumann [aut, cre]
Maintainer: Enrico Schumann <es@enricoschumann.net>
Diff between neighbours versions 0.1-2 dated 2022-08-23 and 0.1-3 dated 2023-09-21
ChangeLog | 17 +++++++++++++++-- DESCRIPTION | 9 +++++---- MD5 | 23 +++++++++++++---------- NAMESPACE | 1 + NEWS | 13 +++++++++++++ R/next_subset.R |only build/partial.rdb |only build/vignette.rds |binary inst/doc/neighbours.R | 2 +- inst/doc/neighbours.Rnw | 10 +++++----- inst/doc/neighbours.pdf |binary man/neighbourfun.Rd | 5 +++-- man/next_subset.Rd |only vignettes/neighbours.Rnw | 10 +++++----- 14 files changed, 61 insertions(+), 29 deletions(-)
Title: Creating Tables of Excluded Observations
Description: Instead of counting observations before and after a subset()
call, the ExclusionTable() function reports the number before and after
each subset() call together with the number of observations that have been
excluded. This is especially useful in observational studies for keeping
track how many observations have been excluded for each in-/ or
exclusion criteria. You just need to provide ExclusionTable() with a
dataset and a list of logical filter statements.
Author: Joshua P. Entrop [aut, cre] ,
Simon Steiger [ctb]
Maintainer: Joshua P. Entrop <joshuaentrop@posteo.de>
Diff between ExclusionTable versions 1.0.0 dated 2022-10-05 and 1.1.0 dated 2023-09-21
DESCRIPTION | 21 - MD5 | 16 NEWS.md | 8 R/exclusion_table.R | 593 +++++++++++++++++----------------- R/print.exl_tbl.R | 287 ++++++++-------- README.md | 71 +++- inst/doc/ExclusionTable_vignette.html | 209 +++++------ man/exclusion_table.Rd | 166 ++++----- man/print.exl_tbl.Rd | 40 +- 9 files changed, 742 insertions(+), 669 deletions(-)
More information about ExclusionTable at CRAN
Permanent link
Title: Music Notation Syntax, Manipulation, Analysis and Transcription
in R
Description: Provides a music notation syntax and a collection of music
programming functions for generating, manipulating, organizing, and analyzing
musical information in R. Music syntax can be entered directly in character
strings, for example to quickly transcribe short pieces of music. The
package contains functions for directly performing various mathematical,
logical and organizational operations and musical transformations on special
object classes that facilitate working with music data and notation. The
same music data can be organized in tidy data frames for a familiar and
powerful approach to the analysis of large amounts of structured music data.
Functions are available for mapping seamlessly between these formats and
their representations of musical information. The package also provides an
API to 'LilyPond' (<https://lilypond.org/>) for transcribing musical
representations in R into tablature ("tabs") and sheet music. 'LilyPond' is
open source music engraving software for gener [...truncated...]
Author: Matthew Leonawicz [aut, cre]
Maintainer: Matthew Leonawicz <mfleonawicz@gmail.com>
Diff between tabr versions 0.4.5 dated 2021-02-20 and 0.4.9 dated 2023-09-21
tabr-0.4.5/tabr/man/pipe.Rd |only tabr-0.4.9/tabr/DESCRIPTION | 58 - tabr-0.4.9/tabr/MD5 | 334 +++---- tabr-0.4.9/tabr/NAMESPACE | 6 tabr-0.4.9/tabr/NEWS.md | 74 - tabr-0.4.9/tabr/R/chord_mapping.R | 100 +- tabr-0.4.9/tabr/R/chords.R | 69 - tabr-0.4.9/tabr/R/class_methods.R | 172 +-- tabr-0.4.9/tabr/R/convert.R | 52 - tabr-0.4.9/tabr/R/df.R | 37 tabr-0.4.9/tabr/R/freq.R | 47 - tabr-0.4.9/tabr/R/intervals.R | 33 tabr-0.4.9/tabr/R/keys.R | 16 tabr-0.4.9/tabr/R/lilypond.R | 228 ++-- tabr-0.4.9/tabr/R/lp_render.R | 153 +-- tabr-0.4.9/tabr/R/lyrics.R | 32 tabr-0.4.9/tabr/R/midi.R | 157 +-- tabr-0.4.9/tabr/R/modes.R | 23 tabr-0.4.9/tabr/R/music.R | 90 - tabr-0.4.9/tabr/R/noteinfo.R | 36 tabr-0.4.9/tabr/R/notes.R | 263 ++--- tabr-0.4.9/tabr/R/options.R | 4 tabr-0.4.9/tabr/R/phrase.R | 93 - tabr-0.4.9/tabr/R/phrase_helpers.R | 47 - tabr-0.4.9/tabr/R/pitch.R | 27 tabr-0.4.9/tabr/R/plot.R | 50 - tabr-0.4.9/tabr/R/repeats.R | 65 - tabr-0.4.9/tabr/R/scales.R | 71 - tabr-0.4.9/tabr/R/sf.R | 151 +-- tabr-0.4.9/tabr/R/snippet.R | 212 ++-- tabr-0.4.9/tabr/R/strings.R | 6 tabr-0.4.9/tabr/R/tabr.R | 105 -- tabr-0.4.9/tabr/R/time.R | 23 tabr-0.4.9/tabr/R/tracks.R | 119 +- tabr-0.4.9/tabr/R/transpose.R | 36 tabr-0.4.9/tabr/R/utils.R | 29 tabr-0.4.9/tabr/R/zzz.R | 25 tabr-0.4.9/tabr/README.md | 275 ++--- tabr-0.4.9/tabr/build/vignette.rds |binary tabr-0.4.9/tabr/inst/WORDLIST | 20 tabr-0.4.9/tabr/inst/doc/tabr-prog-chords.Rmd | 40 tabr-0.4.9/tabr/inst/doc/tabr-prog-chords.html | 907 +++++++++++-------- tabr-0.4.9/tabr/inst/doc/tabr-prog-music.Rmd | 10 tabr-0.4.9/tabr/inst/doc/tabr-prog-music.html | 534 ++++++----- tabr-0.4.9/tabr/inst/doc/tabr-prog-noteinfo.Rmd | 6 tabr-0.4.9/tabr/inst/doc/tabr-prog-noteinfo.html | 318 ++++-- tabr-0.4.9/tabr/inst/doc/tabr-prog-notes.R | 22 tabr-0.4.9/tabr/inst/doc/tabr-prog-notes.Rmd | 124 +- tabr-0.4.9/tabr/inst/doc/tabr-prog-notes.html | 933 +++++++++++--------- tabr-0.4.9/tabr/inst/doc/tabr-prog-nw.R | 2 tabr-0.4.9/tabr/inst/doc/tabr-prog-nw.Rmd | 20 tabr-0.4.9/tabr/inst/doc/tabr-prog-nw.html | 418 +++++--- tabr-0.4.9/tabr/inst/doc/tabr-prog-scales.Rmd | 42 tabr-0.4.9/tabr/inst/doc/tabr-prog-scales.html | 482 ++++++---- tabr-0.4.9/tabr/man/append_phrases.Rd | 128 +- tabr-0.4.9/tabr/man/articulations.Rd | 34 tabr-0.4.9/tabr/man/as_music_df.Rd | 159 +-- tabr-0.4.9/tabr/man/chord-compare.Rd | 92 - tabr-0.4.9/tabr/man/chord-filter.Rd | 91 - tabr-0.4.9/tabr/man/chord-mapping.Rd | 283 +++--- tabr-0.4.9/tabr/man/chord_arpeggiate.Rd | 90 - tabr-0.4.9/tabr/man/chord_def.Rd | 127 +- tabr-0.4.9/tabr/man/chord_invert.Rd | 102 +- tabr-0.4.9/tabr/man/chord_is_major.Rd | 84 - tabr-0.4.9/tabr/man/chord_set.Rd | 96 +- tabr-0.4.9/tabr/man/chords.Rd | 426 ++++----- tabr-0.4.9/tabr/man/double-bracket.Rd | 6 tabr-0.4.9/tabr/man/dyad.Rd | 120 +- tabr-0.4.9/tabr/man/figures/README-banner-1.png |only tabr-0.4.9/tabr/man/figures/README-plot_music-1.png |binary tabr-0.4.9/tabr/man/figures/logo.png |binary tabr-0.4.9/tabr/man/freq_ratio.Rd | 104 +- tabr-0.4.9/tabr/man/hp.Rd | 58 - tabr-0.4.9/tabr/man/interval_semitones.Rd | 56 - tabr-0.4.9/tabr/man/intervals.Rd | 199 ++-- tabr-0.4.9/tabr/man/is_diatonic.Rd | 60 - tabr-0.4.9/tabr/man/keys.Rd | 118 +- tabr-0.4.9/tabr/man/lilypond.Rd | 365 +++---- tabr-0.4.9/tabr/man/lilypond_root.Rd | 60 - tabr-0.4.9/tabr/man/lp_chord_id.Rd | 84 - tabr-0.4.9/tabr/man/lyrics.Rd | 146 +-- tabr-0.4.9/tabr/man/midily.Rd | 182 +-- tabr-0.4.9/tabr/man/miditab.Rd | 131 +- tabr-0.4.9/tabr/man/mode-helpers.Rd | 187 +--- tabr-0.4.9/tabr/man/music-helpers.Rd | 137 +- tabr-0.4.9/tabr/man/music.Rd | 278 ++--- tabr-0.4.9/tabr/man/n_measures.Rd | 181 +-- tabr-0.4.9/tabr/man/notate.Rd | 66 - tabr-0.4.9/tabr/man/note-checks.Rd | 10 tabr-0.4.9/tabr/man/note-coerce.Rd | 36 tabr-0.4.9/tabr/man/note-equivalence.Rd | 27 tabr-0.4.9/tabr/man/note-logic.Rd | 16 tabr-0.4.9/tabr/man/note-metadata.Rd | 16 tabr-0.4.9/tabr/man/note-summaries.Rd | 16 tabr-0.4.9/tabr/man/note_slice.Rd | 40 tabr-0.4.9/tabr/man/noteinfo.Rd | 144 +-- tabr-0.4.9/tabr/man/phrase-checks.Rd | 219 ++-- tabr-0.4.9/tabr/man/phrase.Rd | 171 +-- tabr-0.4.9/tabr/man/pitch_freq.Rd | 186 +-- tabr-0.4.9/tabr/man/pitch_seq.Rd | 113 +- tabr-0.4.9/tabr/man/plot_fretboard.Rd | 288 +++--- tabr-0.4.9/tabr/man/plot_music.Rd | 296 +++--- tabr-0.4.9/tabr/man/ratio_to_cents.Rd | 7 tabr-0.4.9/tabr/man/read_midi.Rd | 163 +-- tabr-0.4.9/tabr/man/render_chordchart.Rd | 215 ++-- tabr-0.4.9/tabr/man/render_music.Rd | 492 +++++----- tabr-0.4.9/tabr/man/repeats.Rd | 195 ++-- tabr-0.4.9/tabr/man/rest.Rd | 4 tabr-0.4.9/tabr/man/scale-deg.Rd | 261 ++--- tabr-0.4.9/tabr/man/scale-helpers.Rd | 168 +-- tabr-0.4.9/tabr/man/scale_chords.Rd | 84 - tabr-0.4.9/tabr/man/score.Rd | 77 - tabr-0.4.9/tabr/man/sf_phrase.Rd | 401 ++++---- tabr-0.4.9/tabr/man/simplify_phrase.Rd | 87 - tabr-0.4.9/tabr/man/single-bracket.Rd | 6 tabr-0.4.9/tabr/man/string_unfold.Rd | 80 - tabr-0.4.9/tabr/man/tab.Rd | 337 +++---- tabr-0.4.9/tabr/man/tabr-c.Rd | 7 tabr-0.4.9/tabr/man/tabr-head.Rd | 7 tabr-0.4.9/tabr/man/tabr-length.Rd | 7 tabr-0.4.9/tabr/man/tabr-methods.Rd | 79 - tabr-0.4.9/tabr/man/tabr-rep.Rd | 7 tabr-0.4.9/tabr/man/tabr-rev.Rd | 7 tabr-0.4.9/tabr/man/tabr.Rd | 119 +- tabr-0.4.9/tabr/man/tabr_options.Rd | 58 - tabr-0.4.9/tabr/man/to_tabr.Rd | 226 ++-- tabr-0.4.9/tabr/man/track.Rd | 202 ++-- tabr-0.4.9/tabr/man/trackbind.Rd | 104 +- tabr-0.4.9/tabr/man/transpose.Rd | 116 +- tabr-0.4.9/tabr/man/tuplet.Rd | 105 +- tabr-0.4.9/tabr/man/valid-noteinfo.Rd | 120 +- tabr-0.4.9/tabr/man/valid-notes.Rd | 50 - tabr-0.4.9/tabr/tests/testthat/test-chord-mapping.R | 2 tabr-0.4.9/tabr/tests/testthat/test-chords.R | 26 tabr-0.4.9/tabr/tests/testthat/test-convert.R | 2 tabr-0.4.9/tabr/tests/testthat/test-df.R | 2 tabr-0.4.9/tabr/tests/testthat/test-freq.R | 4 tabr-0.4.9/tabr/tests/testthat/test-helpers.R | 11 tabr-0.4.9/tabr/tests/testthat/test-intervals.R | 2 tabr-0.4.9/tabr/tests/testthat/test-keys.R | 2 tabr-0.4.9/tabr/tests/testthat/test-lyrics.R | 2 tabr-0.4.9/tabr/tests/testthat/test-methods.R | 2 tabr-0.4.9/tabr/tests/testthat/test-modes.R | 2 tabr-0.4.9/tabr/tests/testthat/test-music.R | 2 tabr-0.4.9/tabr/tests/testthat/test-noteinfo.R | 2 tabr-0.4.9/tabr/tests/testthat/test-notes.R | 40 tabr-0.4.9/tabr/tests/testthat/test-opts.R | 2 tabr-0.4.9/tabr/tests/testthat/test-outputs.R | 36 tabr-0.4.9/tabr/tests/testthat/test-phrase.R | 2 tabr-0.4.9/tabr/tests/testthat/test-pitch.R | 2 tabr-0.4.9/tabr/tests/testthat/test-plot.R | 2 tabr-0.4.9/tabr/tests/testthat/test-read-midi.R | 2 tabr-0.4.9/tabr/tests/testthat/test-repeats.R | 2 tabr-0.4.9/tabr/tests/testthat/test-scales.R | 24 tabr-0.4.9/tabr/tests/testthat/test-sf.R | 2 tabr-0.4.9/tabr/tests/testthat/test-snippet.R | 4 tabr-0.4.9/tabr/tests/testthat/test-steps.R | 2 tabr-0.4.9/tabr/tests/testthat/test-strings.R | 2 tabr-0.4.9/tabr/tests/testthat/test-substitutions.R | 2 tabr-0.4.9/tabr/tests/testthat/test-time.R | 2 tabr-0.4.9/tabr/tests/testthat/test-transpose.R | 48 - tabr-0.4.9/tabr/tests/testthat/test-tunings.R | 2 tabr-0.4.9/tabr/tests/testthat/test-utils.R | 3 tabr-0.4.9/tabr/vignettes/tabr-prog-chords.Rmd | 40 tabr-0.4.9/tabr/vignettes/tabr-prog-music.Rmd | 10 tabr-0.4.9/tabr/vignettes/tabr-prog-noteinfo.Rmd | 6 tabr-0.4.9/tabr/vignettes/tabr-prog-notes.Rmd | 124 +- tabr-0.4.9/tabr/vignettes/tabr-prog-nw.Rmd | 20 tabr-0.4.9/tabr/vignettes/tabr-prog-scales.Rmd | 42 169 files changed, 8887 insertions(+), 8410 deletions(-)
Title: Utilities for Producing Maps
Description: Provides a minimal, light-weight set of tools for producing nice looking maps in R, with support for map projections. See Brown (2016) <doi:10.32614/RJ-2016-005>.
Author: Patrick Brown [aut, cre, cph]
Maintainer: Patrick Brown <patrick.brown@utoronto.ca>
Diff between mapmisc versions 2.0.0 dated 2023-09-13 and 2.0.1 dated 2023-09-21
DESCRIPTION | 8 - MD5 | 28 ++-- R/crsRegion.R | 13 +- R/getTiles.R | 9 + R/openmap.R | 4 R/tonerToTrans.R | 52 +++++--- R/tpers.R | 4 R/wrapPoly.R | 8 - inst/doc/north.html | 28 ++-- inst/doc/perspective.R | 2 inst/doc/perspective.Rmd | 13 -- inst/doc/perspective.html | 284 +++++++++++++++++++++++++++++++++++++++++++--- man/geonames.Rd | 10 + man/tonerToTrans.Rd | 14 +- vignettes/perspective.Rmd | 13 -- 15 files changed, 385 insertions(+), 105 deletions(-)
More information about chem.databases at CRAN
Permanent link
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2020-06-03 0.1.6
Title: Nonlinear Root Finding, Equilibrium and Steady-State Analysis of
Ordinary Differential Equations
Description: Routines to find the root of nonlinear functions, and to perform steady-state and equilibrium analysis of ordinary differential equations (ODE).
Includes routines that: (1) generate gradient and jacobian matrices (full and banded),
(2) find roots of non-linear equations by the 'Newton-Raphson' method,
(3) estimate steady-state conditions of a system of (differential) equations in full, banded or sparse form, using the 'Newton-Raphson' method, or by dynamically running,
(4) solve the steady-state conditions for uni-and multicomponent 1-D, 2-D, and 3-D partial differential equations, that have been converted to ordinary differential equations
by numerical differencing (using the method-of-lines approach).
Includes fortran code.
Author: Karline Soetaert [aut, cre],
Alan C. Hindmarsh [ctb] ,
S.C. Eisenstat [ctb] ,
Cleve Moler [ctb] ,
Jack Dongarra [ctb] ,
Youcef Saad [ctb]
Maintainer: Karline Soetaert <karline.soetaert@nioz.nl>
Diff between rootSolve versions 1.8.2.3 dated 2021-09-29 and 1.8.2.4 dated 2023-09-21
rootSolve-1.8.2.3/rootSolve/inst/doc/vignettes.bib |only rootSolve-1.8.2.4/rootSolve/DESCRIPTION | 6 - rootSolve-1.8.2.4/rootSolve/MD5 | 13 +-- rootSolve-1.8.2.4/rootSolve/build |only rootSolve-1.8.2.4/rootSolve/inst/CITATION | 54 +++++++------- rootSolve-1.8.2.4/rootSolve/inst/doc/rootSolve.R |only rootSolve-1.8.2.4/rootSolve/inst/doc/rootSolve.pdf |binary rootSolve-1.8.2.4/rootSolve/man/rootSolve.Rd | 8 -- rootSolve-1.8.2.4/rootSolve/src/dsparsk.f | 76 ++++++++++----------- 9 files changed, 76 insertions(+), 81 deletions(-)
Title: Interface to Chromosome Counts Database API
Description: A programmatic interface to the Chromosome Counts Database
(<https://ccdb.tau.ac.il/>), Rice et al. (2014) <doi:10.1111/nph.13191>.
This package is part of the 'ROpenSci' suite (<https://ropensci.org>).
Author: Matthew Pennell [aut] ,
Paula Andrea Martinez [aut] ,
Karl W Broman [aut, cre]
Maintainer: Karl W Broman <broman@wisc.edu>
Diff between chromer versions 0.5 dated 2023-08-20 and 0.6 dated 2023-09-21
DESCRIPTION | 10 +++++----- MD5 | 10 +++++----- NEWS.md | 10 +++++++++- R/ccdb_down.R | 2 +- R/counts.R | 2 +- README.md | 8 ++++---- 6 files changed, 25 insertions(+), 17 deletions(-)
Title: Solvers for Boundary Value Problems of Differential Equations
Description: Functions that solve boundary value problems ('BVP') of systems of ordinary
differential equations ('ODE') and differential algebraic equations ('DAE').
The functions provide an interface to the FORTRAN functions
'twpbvpC', 'colnew/colsys', and an R-implementation of the shooting method.
Mazzia, F., J.R. Cash and K. Soetaert, 2014.
Author: Karline Soetaert [aut, cre] ,
Jeff Cash [aut],
Francesca Mazzia [aut],
Uri M. Ascher [ctb] ,
G. Bader [ctb] ,
J. Christiansen [ctb] ,
Robert R. Russell [ctb]
Maintainer: Karline Soetaert <karline.soetaert@nioz.nl>
Diff between bvpSolve versions 1.4.4 dated 2023-07-07 and 1.4.4.1 dated 2023-09-21
DESCRIPTION | 6 +++--- MD5 | 12 ++++++------ inst/doc/bvpSolve.pdf |binary inst/doc/bvpTests.pdf |binary man/bvpSolve.Rd | 5 ----- src/colnewR.f | 28 ++++++++++++++-------------- src/colsysR.f | 28 ++++++++++++++-------------- 7 files changed, 37 insertions(+), 42 deletions(-)
Title: Interface to the World Database on Protected Areas
Description: Fetch and clean data from the World Database on Protected
Areas (WDPA) and the World Database on Other Effective Area-Based
Conservation Measures (WDOECM). Data is obtained from Protected Planet
<https://www.protectedplanet.net/en>. To augment data cleaning procedures,
users can install the 'prepr' R package (available at
<https://github.com/dickoa/prepr>). For more information on this package,
see Hanson (2022) <doi:10.21105/joss.04594>.
Author: Jeffrey O Hanson [aut, cre]
Maintainer: Jeffrey O Hanson <jeffrey.hanson@uqconnect.edu.au>
Diff between wdpar versions 1.3.5 dated 2023-08-08 and 1.3.7 dated 2023-09-21
DESCRIPTION | 6 +- MD5 | 16 +++---- NEWS.md | 17 +++++++ R/package.R | 2 R/st_erase_overlaps.R | 2 inst/doc/wdpar.html | 69 +++++++++++++++----------------- man/figures/README-readme-map-1.png |binary man/wdpar.Rd | 1 tests/testthat/test_st_erase_overlaps.R | 26 +++++++++++- 9 files changed, 90 insertions(+), 49 deletions(-)
Title: Inference and Prediction of ToxicoKinetic (TK) Models
Description: The MOSAICbioacc application is a turnkey package providing bioaccumulation
factors (BCF/BMF/BSAF) from a toxicokinetic (TK) model fitted to
accumulation-depuration data. It is designed to fulfil the requirements
of regulators when examining applications for market authorization of active
substances. See Ratier et al. (2021) <doi:10.1101/2021.09.08.459421>.
Author: Virgile Baudrot [aut, cre],
Sandrine Charles [aut],
Ophelia Gestin [ctb],
Milena Kaag [aut],
Christelle Lopes [ctb],
Gauthier Multari [ctb],
Alain Pave [ctb],
Aude Ratier [aut],
Aurelie Siberchicot [aut]
Maintainer: Virgile Baudrot <virgile.baudrot@qonfluens.com>
Diff between rbioacc versions 1.1-0 dated 2022-01-12 and 1.2-0 dated 2023-09-21
DESCRIPTION | 28 MD5 | 37 R/stanmodels.R | 2 README.md | 57 inst/CITATION |only inst/doc/MWE.Rmd | 2 inst/doc/MWE.html | 189 - inst/doc/Tutorial.html | 338 +- inst/stan/TK.stan | 16 inst/stan/TK_predict.stan | 14 inst/stan/include/linear_interpolation.stan | 32 inst/stan/odeTK.stan | 24 src/Makevars | 5 src/stanExports_TK.cc | 2 src/stanExports_TK.h | 4242 +++++++++++++++------------- src/stanExports_TK_predict.cc | 2 src/stanExports_TK_predict.h | 2930 +++++++++++-------- src/stanExports_odeTK.cc | 2 src/stanExports_odeTK.h | 3915 ++++++++++++++----------- vignettes/MWE.Rmd | 2 20 files changed, 6611 insertions(+), 5228 deletions(-)
Title: Interface to 'Azure Resource Manager'
Description: A lightweight but powerful R interface to the 'Azure Resource Manager' REST API. The package exposes a comprehensive class framework and related tools for creating, updating and deleting 'Azure' resource groups, resources and templates. While 'AzureRMR' can be used to manage any 'Azure' service, it can also be extended by other packages to provide extra functionality for specific services. Part of the 'AzureR' family of packages.
Author: Hong Ooi [aut, cre],
Microsoft [cph]
Maintainer: Hong Ooi <hongooi73@gmail.com>
Diff between AzureRMR versions 2.4.3 dated 2021-10-23 and 2.4.4 dated 2023-09-21
DESCRIPTION | 8 MD5 | 74 ++--- NEWS.md | 5 R/az_login.R | 12 R/az_resgroup.R | 10 R/az_resource.R | 2 R/az_rm.R | 4 R/az_role.R | 4 R/az_subscription.R | 16 - R/az_template.R | 4 R/build_tpl_json.R | 2 R/locks.R | 2 R/rbac.R | 2 README.md | 6 build/vignette.rds |binary inst/doc/auth.Rmd | 2 inst/doc/auth.html | 293 +++++++++++++------- inst/doc/extend.html | 667 ++++++++++++++++++++++++++-------------------- inst/doc/intro.Rmd | 10 inst/doc/intro.html | 628 +++++++++++++++++++++++++------------------ inst/doc/parallel.html | 267 +++++++++++------- inst/doc/template.Rmd | 2 inst/doc/template.html | 279 +++++++++++-------- man/az_resource.Rd | 8 man/az_resource_group.Rd | 10 man/az_rm.Rd | 4 man/az_role_assignment.Rd | 2 man/az_role_definition.Rd | 2 man/az_subscription.Rd | 7 man/az_template.Rd | 4 man/azure_login.Rd | 10 man/build_template.Rd | 2 man/lock.Rd | 8 man/rbac.Rd | 8 man/utils.Rd | 3 vignettes/auth.Rmd | 2 vignettes/intro.Rmd | 10 vignettes/template.Rmd | 2 38 files changed, 1437 insertions(+), 944 deletions(-)
Title: Tools for Exploring Multivariate Data via ICS/ICA
Description: Implementation of Tyler, Critchley, Duembgen and Oja's (JRSS B, 2009,
<doi:10.1111/j.1467-9868.2009.00706.x>) and Oja, Sirkia and Eriksson's
(AJS, 2006, <https://www.ajs.or.at/index.php/ajs/article/view/vol35,%20no2%263%20-%207>) method of two different
scatter matrices to obtain an invariant coordinate system or independent
components, depending on the underlying assumptions.
Author: Klaus Nordhausen [aut, cre] ,
Andreas Alfons [aut] ,
Aurore Archimbaud [aut] ,
Hannu Oja [aut] ,
Anne Ruiz-Gazen [aut] ,
David E. Tyler [aut]
Maintainer: Klaus Nordhausen <klausnordhausenR@gmail.com>
Diff between ICS versions 1.4-0 dated 2023-09-09 and 1.4-1 dated 2023-09-21
DESCRIPTION | 8 MD5 | 18 +- NEWS | 8 R/ICS_S3.R | 5 R/covW.R | 130 +++++++------- build/partial.rdb |binary inst/doc/ICS.pdf |binary man/ICS_scatter.Rd | 1 man/covW.Rd | 6 tests/testthat/test-ICS_S3_tests.R | 328 ++++++++++++++++++------------------- 10 files changed, 253 insertions(+), 251 deletions(-)
Title: Fault Tolerant Simple Network of Workstations
Description: Extension of the snow package supporting fault tolerant and reproducible applications, as well as supporting easy-to-use parallel programming - only one function is needed. Dynamic cluster size is also available.
Author: Hana Sevcikova, A. J. Rossini
Maintainer: Hana Sevcikova <hanas@uw.edu>
Diff between snowFT versions 1.6-0 dated 2017-06-17 and 1.6-1 dated 2023-09-21
ChangeLog | 4 ++++ DESCRIPTION | 8 ++++---- MD5 | 8 ++++---- NAMESPACE | 2 +- R/mpi.R | 8 +++++++- 5 files changed, 20 insertions(+), 10 deletions(-)
Title: Seamless 'Nonmem' Simulation Platform
Description: A complete and seamless 'Nonmem' simulation interface from within R. Turns 'Nonmem' control streams into simulation control streams, executes them with specified simulation input data and returns the results. The simulation is performed by 'Nonmem', eliminating time spent and risks of re-implementation of models in other tools.
Author: Philip Delff [aut, cre],
Matthew Fidler [ctb]
Maintainer: Philip Delff <philip@delff.dk>
Diff between NMsim versions 0.0.3 dated 2023-09-20 and 0.0.4 dated 2023-09-21
DESCRIPTION | 12 ++++++------ MD5 | 11 ++++++----- R/NMexec.R | 2 +- R/NMreadExt.R | 10 +++++----- R/NMreadPhi.R | 3 +-- tests/testthat.R |only tests/testthat/test_addEVID2.R | 2 +- 7 files changed, 20 insertions(+), 20 deletions(-)
Title: Tools and Data for the International Soil Radiocarbon Database
Description: This is the central location for data and tools for the development,
maintenance, analysis, and deployment of the International Soil Radiocarbon Database
(ISRaD). ISRaD was developed as a collaboration between the U.S. Geological Survey
Powell Center and the Max Planck Institute for Biogeochemistry. This R package provides
tools for accessing and manipulating ISRaD data, compiling local data using the ISRaD
data structure, and simple query and reporting functions for ISRaD. For more detailed
information visit the ISRaD website at: <https://soilradiocarbon.org/>.
Author: Alison Hoyt [aut],
Jeffrey Beem-Miller [aut, cre],
Shane Stoner [aut],
J. Grey Monroe [aut],
Caitlin Hicks-Pries [aut],
Paul A. Levine [aut]
Maintainer: Jeffrey Beem-Miller <jbeem@bgc-jena.mpg.de>
Diff between ISRaD versions 2.5.4 dated 2023-08-09 and 2.5.5 dated 2023-09-21
DESCRIPTION | 6 +++--- MD5 | 4 ++-- R/Graven_2017.R | 2 +- 3 files changed, 6 insertions(+), 6 deletions(-)
Title: Download Official Spatial Data Sets of Brazil
Description: Easy access to official spatial data sets of Brazil as 'sf' objects
in R. The package includes a wide range of geospatial data available
at various geographic scales and for various years with harmonized
attributes, projection and fixed topology.
Author: Rafael H. M. Pereira [aut, cre]
,
Caio Nogueira Goncalves [aut],
Paulo Henrique Fernandes de Araujo [ctb],
Guilherme Duarte Carvalho [ctb],
Rodrigo Almeida de Arruda [ctb],
Igor Nascimento [ctb],
Barbara Santiago Pedreira da Costa [ctb],
Welligtton S [...truncated...]
Maintainer: Rafael H. M. Pereira <rafa.pereira.br@gmail.com>
Diff between geobr versions 1.8.0 dated 2023-09-09 and 1.8.1 dated 2023-09-21
DESCRIPTION | 8 ++++---- MD5 | 14 +++++++------- R/read_statistical_grid.R | 4 ++-- inst/doc/intro_to_geobr.R | 36 +++++++++++++++++++----------------- inst/doc/intro_to_geobr.Rmd | 36 ++++++++++++++++++++---------------- man/read_statistical_grid.Rd | 4 ++-- tests/tests_rafa/test_rafa.R | 2 ++ vignettes/intro_to_geobr.Rmd | 36 ++++++++++++++++++++---------------- 8 files changed, 76 insertions(+), 64 deletions(-)
Title: Fast Change Point Detection via Sequential Gradient Descent
Description: Implements fast change point detection algorithm based on the
paper "Sequential Gradient Descent and Quasi-Newton's Method for
Change-Point Analysis" by Xianyang Zhang, Trisha Dawn
<https://proceedings.mlr.press/v206/zhang23b.html>. The algorithm
is based on dynamic programming with pruning and sequential gradient
descent. It is able to detect change points a magnitude faster than
the vanilla Pruned Exact Linear Time(PELT). The package includes examples
of linear regression, logistic regression, Poisson regression, penalized
linear regression data, and whole lot more examples with custom cost
function in case the user wants to use their own cost function.
Author: Xingchi Li [aut, cre, cph] ,
Xianyang Zhang [aut, cph],
Trisha Dawn [aut, cph]
Maintainer: Xingchi Li <anthony.li@stat.tamu.edu>
Diff between fastcpd versions 0.6.2 dated 2023-09-14 and 0.7.0 dated 2023-09-21
fastcpd-0.6.2/fastcpd/src/fastcpd_test.cc |only fastcpd-0.6.2/fastcpd/tests/testthat/test-RcppExports.R |only fastcpd-0.7.0/fastcpd/DESCRIPTION | 6 fastcpd-0.7.0/fastcpd/MD5 | 39 - fastcpd-0.7.0/fastcpd/NEWS.md | 20 fastcpd-0.7.0/fastcpd/R/RcppExports.R | 28 - fastcpd-0.7.0/fastcpd/R/catch-routine-registration.R | 7 fastcpd-0.7.0/fastcpd/R/fastcpd-class.R | 28 - fastcpd-0.7.0/fastcpd/R/fastcpd.R | 184 +++++- fastcpd-0.7.0/fastcpd/README.md | 7 fastcpd-0.7.0/fastcpd/man/fastcpd-class.Rd | 16 fastcpd-0.7.0/fastcpd/man/fastcpd.Rd | 208 +++++-- fastcpd-0.7.0/fastcpd/man/print.Rd | 2 fastcpd-0.7.0/fastcpd/man/show.Rd | 2 fastcpd-0.7.0/fastcpd/man/summary.Rd | 4 fastcpd-0.7.0/fastcpd/src/RcppExports.cpp | 3 fastcpd-0.7.0/fastcpd/src/fastcpd.cc | 60 +- fastcpd-0.7.0/fastcpd/src/fastcpd.h | 107 ++- fastcpd-0.7.0/fastcpd/src/test-fastcpd.cc |only fastcpd-0.7.0/fastcpd/src/test-runner.cc | 5 fastcpd-0.7.0/fastcpd/tests/testthat/test-cpp.R |only fastcpd-0.7.0/fastcpd/tests/testthat/test-experiments.R |only fastcpd-0.7.0/fastcpd/tests/testthat/test-fastcpd.R | 432 +--------------- 23 files changed, 545 insertions(+), 613 deletions(-)
Title: R for High-Dimensional Omic Data
Description: Represents high-dimensional data as tables of features, samples and measurements, and a design list for tracking the meaning of individual variables. Using this format, filtering, normalization, and other transformations of a dataset can be carried out in a flexible manner. 'romic' takes advantage of these transformations to create interactive 'shiny' apps for exploratory data analysis such as an interactive heatmap.
Author: Sean Hackett [aut, cre] ,
Calico Life Sciences LLC [cph, fnd]
Maintainer: Sean Hackett <sean@calicolabs.com>
Diff between romic versions 1.1.1 dated 2023-02-02 and 1.1.3 dated 2023-09-21
romic-1.1.1/romic/R/romic.R |only romic-1.1.1/romic/man/romic.Rd |only romic-1.1.1/romic/tests/testthat/test-coerce_to_classes.R |only romic-1.1.1/romic/tests/testthat/test-downsampling.R |only romic-1.1.1/romic/tests/testthat/test-factor_pks.R |only romic-1.1.1/romic/tests/testthat/test-import_export.R |only romic-1.1.1/romic/tests/testthat/test-test-variable_partial_string_matching.R |only romic-1.1.1/romic/tests/testthat/test-triple_omic.R |only romic-1.1.3/romic/DESCRIPTION | 12 romic-1.1.3/romic/MD5 | 78 - romic-1.1.3/romic/NAMESPACE | 1 romic-1.1.3/romic/NEWS.md | 15 romic-1.1.3/romic/R/app_heatmap.R | 492 ---------- romic-1.1.3/romic/R/data_classes.R | 193 +++ romic-1.1.3/romic/R/dim_reduction.R | 58 - romic-1.1.3/romic/R/export.R | 35 romic-1.1.3/romic/R/hclust.R |only romic-1.1.3/romic/R/module_ggbiv.R | 2 romic-1.1.3/romic/R/module_lasso.R | 50 - romic-1.1.3/romic/R/mutates.R | 12 romic-1.1.3/romic/R/romic-package.R |only romic-1.1.3/romic/R/utils.R | 2 romic-1.1.3/romic/build/vignette.rds |binary romic-1.1.3/romic/inst/doc/romic.html | 19 romic-1.1.3/romic/man/add_pcs.Rd | 9 romic-1.1.3/romic/man/convert_wide_to_tidy_omic.Rd | 5 romic-1.1.3/romic/man/create_tidy_omic.Rd | 5 romic-1.1.3/romic/man/downsample_heatmap.Rd | 12 romic-1.1.3/romic/man/export_tomic_as_tidy.Rd | 4 romic-1.1.3/romic/man/export_tomic_as_triple.Rd | 4 romic-1.1.3/romic/man/export_tomic_as_wide.Rd | 5 romic-1.1.3/romic/man/get_tomic_table.Rd |only romic-1.1.3/romic/man/hclust_order.Rd | 2 romic-1.1.3/romic/man/infer_tomic_table_type.Rd | 2 romic-1.1.3/romic/man/plot_heatmap.Rd | 11 romic-1.1.3/romic/man/remove_missing_values.Rd | 5 romic-1.1.3/romic/man/romic-package.Rd |only romic-1.1.3/romic/tests/testthat.R | 10 romic-1.1.3/romic/tests/testthat/_snaps |only romic-1.1.3/romic/tests/testthat/helper.R |only romic-1.1.3/romic/tests/testthat/test-app_heatmap.R |only romic-1.1.3/romic/tests/testthat/test-data_classes.R |only romic-1.1.3/romic/tests/testthat/test-design.R |only romic-1.1.3/romic/tests/testthat/test-export.R |only romic-1.1.3/romic/tests/testthat/test-filters.R |only romic-1.1.3/romic/tests/testthat/test-hclust.R | 17 romic-1.1.3/romic/tests/testthat/test-module_ggbiv.R |only romic-1.1.3/romic/tests/testthat/test-module_gguniv.R |only romic-1.1.3/romic/tests/testthat/test-mutates.R |only romic-1.1.3/romic/tests/testthat/test-utils.R |only 50 files changed, 434 insertions(+), 626 deletions(-)