Title: Bioequivalence Study Data Analysis
Description: Analyze bioequivalence study data with industrial strength. Sample size could be determined for various crossover designs, such as 2x2 design, 2x4 design, 4x4 design, Balaam design, Two-sequence dual design, and William design.
Reference: Chow SC, Liu JP. Design and Analysis of Bioavailability and Bioequivalence Studies. 3rd ed. (2009, ISBN:978-1-58488-668-6).
Author: Kyun-Seop Bae [aut]
Maintainer: Kyun-Seop Bae <k@acr.kr>
Diff between BE versions 0.2.2 dated 2022-08-06 and 0.2.3 dated 2022-09-06
DESCRIPTION | 6 +++--- MD5 | 10 +++++----- R/be2x2.R | 6 ++++++ inst/NEWS.Rd | 17 ++++++++++++----- inst/doc/BE-manual.pdf |binary man/NCAResult4BE.Rd | 2 +- 6 files changed, 27 insertions(+), 14 deletions(-)
Title: Hierarchical Multinomial Processing Tree Modeling
Description: User-friendly analysis of hierarchical multinomial processing tree (MPT)
models that are often used in cognitive psychology. Implements the latent-trait
MPT approach (Klauer, 2010) <DOI:10.1007/s11336-009-9141-0> and the beta-MPT
approach (Smith & Batchelder, 2010) <DOI:10.1016/j.jmp.2009.06.007> to model
heterogeneity of participants. MPT models are conveniently specified by an
.eqn-file as used by other MPT software and data are provided by a .csv-file
or directly in R. Models are either fitted by calling JAGS or by an MPT-tailored
Gibbs sampler in C++ (only for nonhierarchical and beta MPT models). Provides
tests of heterogeneity and MPT-tailored summaries and plotting functions.
A detailed documentation is available in Heck, Arnold, & Arnold (2018)
<DOI:10.3758/s13428-017-0869-7> and a tutorial on MPT modeling can be found
in Schmidt, Erdfelder, & Heck (2022) <DOI:10.31234/osf.io/gh8md>.
Author: Daniel W. Heck [aut, cre] ,
Nina R. Arnold [aut, dtc],
Denis Arnold [aut],
Alexander Ly [ctb],
Marius Barth [ctb]
Maintainer: Daniel W. Heck <dheck@uni-marburg.de>
Diff between TreeBUGS versions 1.4.8 dated 2022-08-23 and 1.4.9 dated 2022-09-06
DESCRIPTION | 11 +- MD5 | 14 +- NEWS | 7 + R/TreeBUGS-package.R | 47 +++++++-- inst/doc/TreeBUGS_1_intro.html | 4 inst/doc/TreeBUGS_2_extended.html | 4 man/TreeBUGS-package.Rd | 45 +++++++-- src/betaMPT.cpp | 183 +++++++++++++++++++------------------- 8 files changed, 190 insertions(+), 125 deletions(-)
Title: Inference for Spatiotemporal Partially Observed Markov Processes
Description: Inference on panel data using spatiotemporal partially-observed Markov process (SpatPOMP) models. To do so, it relies on and extends a number of facilities that the 'pomp' package provides for inference on time series data using partially-observed Markov process (POMP) models. Implemented methods include filtering and inference methods in Park and Ionides (2020) <doi:10.1007/s11222-020-09957-3>, Rebeschini and van Handel (2015) <doi:10.1214/14-AAP1061>, Evensen and van Leeuwen (1996) <doi:10.1029/94JC00572> and Ionides et al. (2021) <doi:10.1080/01621459.2021.1974867>. Pre-print statistical software article: Asfaw et al. (2021) <arXiv:2101.01157>.
Author: Kidus Asfaw [aut],
Aaron A. King [aut],
Edward Ionides [cre, aut],
Joonha Park [ctb],
Allister Ho [ctb],
Jesse Wheeler [ctb]
Maintainer: Edward Ionides <ionides@umich.edu>
Diff between spatPomp versions 0.29.0.0 dated 2022-01-15 and 0.30.0.1 dated 2022-09-06
spatPomp-0.29.0.0/spatPomp/R/mcap.R |only spatPomp-0.29.0.0/spatPomp/data/city_data_UK.csv |only spatPomp-0.29.0.0/spatPomp/data/measlesUK.csv |only spatPomp-0.29.0.0/spatPomp/man/gbm.Rd |only spatPomp-0.29.0.0/spatPomp/man/mcap.Rd |only spatPomp-0.29.0.0/spatPomp/src/iabf.c |only spatPomp-0.29.0.0/spatPomp/tests/testthat |only spatPomp-0.29.0.0/spatPomp/tests/testthat.R |only spatPomp-0.30.0.1/spatPomp/DESCRIPTION | 48 ++-- spatPomp-0.30.0.1/spatPomp/MD5 | 167 ++++++++++------- spatPomp-0.30.0.1/spatPomp/NAMESPACE | 14 - spatPomp-0.30.0.1/spatPomp/R/abf.R | 31 +-- spatPomp-0.30.0.1/spatPomp/R/abfir.R | 12 - spatPomp-0.30.0.1/spatPomp/R/as_data_frame.R | 5 spatPomp-0.30.0.1/spatPomp/R/bm.R | 9 spatPomp-0.30.0.1/spatPomp/R/bpfilter.R | 55 ++++- spatPomp-0.30.0.1/spatPomp/R/dunit_measure.R | 3 spatPomp-0.30.0.1/spatPomp/R/enkf.R | 8 spatPomp-0.30.0.1/spatPomp/R/eunit_measure.R | 5 spatPomp-0.30.0.1/spatPomp/R/gbm.R | 11 + spatPomp-0.30.0.1/spatPomp/R/girf.R | 15 + spatPomp-0.30.0.1/spatPomp/R/he10.R |only spatPomp-0.30.0.1/spatPomp/R/he10coordinates.R |only spatPomp-0.30.0.1/spatPomp/R/he10demography.R |only spatPomp-0.30.0.1/spatPomp/R/he10measles.R |only spatPomp-0.30.0.1/spatPomp/R/he10mle.R |only spatPomp-0.30.0.1/spatPomp/R/ibpf.R |only spatPomp-0.30.0.1/spatPomp/R/ienkf.R | 10 - spatPomp-0.30.0.1/spatPomp/R/igirf.R | 15 + spatPomp-0.30.0.1/spatPomp/R/iubf.R | 17 + spatPomp-0.30.0.1/spatPomp/R/lorenz.R | 15 + spatPomp-0.30.0.1/spatPomp/R/measles.R | 53 +++-- spatPomp-0.30.0.1/spatPomp/R/munit_measure.R | 4 spatPomp-0.30.0.1/spatPomp/R/package.R | 2 spatPomp-0.30.0.1/spatPomp/R/plot.R | 3 spatPomp-0.30.0.1/spatPomp/R/runit_measure.R | 4 spatPomp-0.30.0.1/spatPomp/R/simulate.R | 50 ++--- spatPomp-0.30.0.1/spatPomp/R/spatPomp.R | 7 spatPomp-0.30.0.1/spatPomp/R/spatPomp_Csnippet.R | 1 spatPomp-0.30.0.1/spatPomp/R/vec_dmeasure.R | 1 spatPomp-0.30.0.1/spatPomp/R/vec_rmeasure.R | 1 spatPomp-0.30.0.1/spatPomp/R/vunit_measure.R | 4 spatPomp-0.30.0.1/spatPomp/README.md | 9 spatPomp-0.30.0.1/spatPomp/build |only spatPomp-0.30.0.1/spatPomp/data/city_data_UK.csv.gz |only spatPomp-0.30.0.1/spatPomp/data/he10coordinates.csv.gz |only spatPomp-0.30.0.1/spatPomp/data/he10demography.csv.gz |only spatPomp-0.30.0.1/spatPomp/data/he10measles.csv.gz |only spatPomp-0.30.0.1/spatPomp/data/he10mle.csv.gz |only spatPomp-0.30.0.1/spatPomp/data/measlesUK.csv.gz |only spatPomp-0.30.0.1/spatPomp/inst/NEWS | 8 spatPomp-0.30.0.1/spatPomp/inst/NEWS.Rd | 7 spatPomp-0.30.0.1/spatPomp/man/abf.Rd | 12 + spatPomp-0.30.0.1/spatPomp/man/abfir.Rd | 19 + spatPomp-0.30.0.1/spatPomp/man/bm.Rd | 15 + spatPomp-0.30.0.1/spatPomp/man/bpfilter.Rd | 23 +- spatPomp-0.30.0.1/spatPomp/man/city_data_UK.Rd | 1 spatPomp-0.30.0.1/spatPomp/man/dunit_measure.Rd | 3 spatPomp-0.30.0.1/spatPomp/man/enkf.Rd | 8 spatPomp-0.30.0.1/spatPomp/man/eunit_measure.Rd | 3 spatPomp-0.30.0.1/spatPomp/man/girf.Rd | 18 + spatPomp-0.30.0.1/spatPomp/man/he10.Rd |only spatPomp-0.30.0.1/spatPomp/man/ibpf.Rd |only spatPomp-0.30.0.1/spatPomp/man/ienkf.Rd | 13 - spatPomp-0.30.0.1/spatPomp/man/igirf.Rd | 22 +- spatPomp-0.30.0.1/spatPomp/man/iubf.Rd | 16 + spatPomp-0.30.0.1/spatPomp/man/lorenz.Rd | 48 ++++ spatPomp-0.30.0.1/spatPomp/man/macros/cite.Rd | 28 +- spatPomp-0.30.0.1/spatPomp/man/measles.Rd | 26 +- spatPomp-0.30.0.1/spatPomp/man/measlesUK.Rd | 3 spatPomp-0.30.0.1/spatPomp/man/munit_measure.Rd | 6 spatPomp-0.30.0.1/spatPomp/man/runit_measure.Rd | 6 spatPomp-0.30.0.1/spatPomp/man/simulate.Rd | 15 + spatPomp-0.30.0.1/spatPomp/man/spatPomp-package.Rd | 2 spatPomp-0.30.0.1/spatPomp/man/spatPomp.Rd | 25 +- spatPomp-0.30.0.1/spatPomp/man/spatPomp_Csnippet.Rd | 3 spatPomp-0.30.0.1/spatPomp/man/vec_dmeasure.Rd | 3 spatPomp-0.30.0.1/spatPomp/man/vec_rmeasure.Rd | 3 spatPomp-0.30.0.1/spatPomp/man/vunit_measure.Rd | 6 spatPomp-0.30.0.1/spatPomp/src/init.c | 1 spatPomp-0.30.0.1/spatPomp/src/resample.c | 13 - spatPomp-0.30.0.1/spatPomp/tests/README |only spatPomp-0.30.0.1/spatPomp/tests/abf.R |only spatPomp-0.30.0.1/spatPomp/tests/abfir.R |only spatPomp-0.30.0.1/spatPomp/tests/bm-01.png |only spatPomp-0.30.0.1/spatPomp/tests/bm-02.png |only spatPomp-0.30.0.1/spatPomp/tests/bm-03.png |only spatPomp-0.30.0.1/spatPomp/tests/bm.R |only spatPomp-0.30.0.1/spatPomp/tests/bm.Rout.save |only spatPomp-0.30.0.1/spatPomp/tests/bpfilter.R |only spatPomp-0.30.0.1/spatPomp/tests/enkf.R |only spatPomp-0.30.0.1/spatPomp/tests/gbm.R |only spatPomp-0.30.0.1/spatPomp/tests/gbm.Rout.save |only spatPomp-0.30.0.1/spatPomp/tests/girf.R |only spatPomp-0.30.0.1/spatPomp/tests/he10.R |only spatPomp-0.30.0.1/spatPomp/tests/he10.Rout.save |only spatPomp-0.30.0.1/spatPomp/tests/ibpf.R |only spatPomp-0.30.0.1/spatPomp/tests/ienkf.R |only spatPomp-0.30.0.1/spatPomp/tests/igirf.R |only spatPomp-0.30.0.1/spatPomp/tests/iter_filter.R |only spatPomp-0.30.0.1/spatPomp/tests/iter_filter.Rout.save |only spatPomp-0.30.0.1/spatPomp/tests/iubf.R |only spatPomp-0.30.0.1/spatPomp/tests/lorenz.R |only spatPomp-0.30.0.1/spatPomp/tests/lorenz.Rout.save |only spatPomp-0.30.0.1/spatPomp/tests/measles.R |only spatPomp-0.30.0.1/spatPomp/tests/measles.Rout.save |only spatPomp-0.30.0.1/spatPomp/tests/pfilter.R |only spatPomp-0.30.0.1/spatPomp/tests/plot.R |only spatPomp-0.30.0.1/spatPomp/tests/simulate.R |only 109 files changed, 652 insertions(+), 283 deletions(-)
Title: Tools to Manage a Parametric Function that Describes Phenology
and More
Description: Functions used to fit and test the phenology of species based on counts. Based on Girondot, M. (2010) <doi:10.3354/esr00292> for the phenology function, Girondot, M. (2017) <doi:10.1016/j.ecolind.2017.05.063> for the convolution of negative binomial, Girondot, M. and Rizzo, A. (2015) <doi:10.2993/etbi-35-02-337-353.1> for Bayesian estimate, Pfaller JB, ..., Girondot M (2019) <doi:10.1007/s00227-019-3545-x> for tag-loss estimate, Hancock J, ..., Girondot M (2019) <doi:10.1016/j.ecolmodel.2019.04.013> for nesting history, Laloe J-O, ..., Girondot M, Hays GC (2020) <doi:10.1007/s00227-020-03686-x> for aggregating several seasons.
Author: Marc Girondot
Maintainer: Marc Girondot <marc.girondot@gmail.com>
Diff between phenology versions 7.8 dated 2022-07-15 and 7.9 dated 2022-09-06
DESCRIPTION | 10 +++++----- MD5 | 22 +++++++++++----------- NEWS | 9 +++++++++ R/CI.RMU.R | 39 +++++++++++++++++++++++++-------------- R/add_phenology.R | 2 +- R/fit_phenology.R | 2 ++ R/phenology-package.R | 6 +++--- man/CI.RMU.Rd | 5 ++++- man/figures/imgfile.png |binary man/phenology-package.Rd | 6 +++--- man/plot.Tagloss.Rd | 4 ++-- man/plot.phenology.Rd | 4 ++-- 12 files changed, 67 insertions(+), 42 deletions(-)
Title: Tools for Environmental Analyses, Ecotoxicology and Various R
Functions
Description: Contains miscellaneous functions useful for managing 'NetCDF' files (see <https://en.wikipedia.org/wiki/NetCDF>), get moon phase and time for sun rise and fall, tide level, analyse and reconstruct periodic time series of temperature with irregular sinusoidal pattern, show scales and wind rose in plot with change of color of text, Metropolis-Hastings algorithm for Bayesian MCMC analysis, plot graphs or boxplot with error bars, search files in disk by there names or their content, read the contents of all files from a folder at one time.
Author: Marc Girondot
Maintainer: Marc Girondot <marc.girondot@gmail.com>
Diff between HelpersMG versions 5.5 dated 2022-07-14 and 5.6 dated 2022-09-06
DESCRIPTION | 10 +++++----- MD5 | 16 ++++++++-------- NEWS | 9 +++++++++ R/HelpersMG-package.R | 6 +++--- R/d.R | 5 +++-- inst/shiny/cutter/ui.R | 2 +- man/HelpersMG-package.Rd | 6 +++--- man/figures/TB.png |binary man/ggamma.Rd | 10 +++++----- 9 files changed, 37 insertions(+), 27 deletions(-)
Title: Tools to Analyze the Thermal Reaction Norm of Embryo Growth
Description: Tools to analyze the embryo growth and the sexualisation thermal reaction norms. See <doi:10.7717/peerj.8451> for tsd functions; see <doi:10.1016/j.jtherbio.2014.08.005> for thermal reaction norm of embryo growth.
Author: Marc Girondot <marc.girondot@gmail.com>
Maintainer: Marc Girondot <marc.girondot@gmail.com>
Diff between embryogrowth versions 8.6 dated 2022-07-14 and 8.7 dated 2022-09-06
DESCRIPTION | 10 +++++----- MD5 | 14 +++++++------- NEWS | 7 ++++++- R/embryogrowth-package.R | 6 +++--- R/tsd.R | 8 ++++++-- inst/shiny/ui.R | 2 +- man/embryogrowth-package.Rd | 6 +++--- man/figures/E.png |binary 8 files changed, 31 insertions(+), 22 deletions(-)
Title: Tools to Study Bone Compactness
Description: Bone Profiler is a scientific method and a software used to model
bone section for paleontological and ecological studies. See Girondot and Laurin
(2003) <https://www.researchgate.net/publication/280021178_Bone_profiler_A_tool_to_quantify_model_and_statistically_compare_bone-section_compactness_profiles>
and Gônet, Laurin and Girondot (2022) <https://palaeo-electronica.org/content/2022/3590-bone-section-compactness-model>.
Author: Marc Girondot <marc.girondot@gmail.com>
Maintainer: Marc Girondot <marc.girondot@gmail.com>
Diff between BoneProfileR versions 2.3 dated 2022-07-16 and 2.4 dated 2022-09-06
DESCRIPTION | 10 +++++----- MD5 | 14 +++++++------- NEWS | 7 ++++++- R/BoneProfileR-package.R | 6 +++--- inst/shiny/ui.R | 2 +- man/BP_Report.Rd | 4 ++-- man/BoneProfileR-package.Rd | 6 +++--- man/figures/E.png |binary 8 files changed, 27 insertions(+), 22 deletions(-)
Title: Data Version Control for the Targets Package
Description: In computationally demanding data analysis pipelines,
the 'targets' R package (2021, <doi:10.21105/joss.02959>) maintains
an up-to-date set of results while skipping tasks that do not need to rerun.
This process increases speed and increases trust in the final end product.
However, it also overwrites old output with new output, and past
results disappear by default. To preserve historical output, the 'gittargets'
package captures version-controlled snapshots of the data store,
and each snapshot links to the underlying commit of the source code.
That way, when the user rolls back the code to a previous branch or commit,
'gittargets' can recover the data contemporaneous with that commit so that
all targets remain up to date.
Author: William Michael Landau [aut, cre]
,
Saras Windecker [rev],
David Neuzerling [rev],
Eli Lilly and Company [cph]
Maintainer: William Michael Landau <will.landau@gmail.com>
Diff between gittargets versions 0.0.4 dated 2022-08-05 and 0.0.5 dated 2022-09-06
DESCRIPTION | 6 - MD5 | 20 ++--- NEWS.md | 5 + R/tar_git_ok.R | 37 +++------- R/utils_git.R | 69 ++++++++++++++++--- build/vignette.rds |binary inst/doc/git.R | 70 +++++++++---------- inst/doc/git.html | 141 ++++++++++++++++++++++++++++++++------- man/tar_git_ok.Rd | 2 tests/testthat/helper-git.R | 5 - tests/testthat/test-tar_git_ok.R | 12 +++ 11 files changed, 253 insertions(+), 114 deletions(-)
Title: An API Generator for R
Description: Gives the ability to automatically generate and serve an HTTP API
from R functions using the annotations in the R documentation around your
functions.
Author: Barret Schloerke [cre, aut] ,
Jeff Allen [aut, ccp],
Bruno Tremblay [ctb],
Frans van Dunne [ctb],
Sebastiaan Vandewoude [ctb],
RStudio [cph, fnd]
Maintainer: Barret Schloerke <barret@rstudio.com>
Diff between plumber versions 1.2.0 dated 2022-07-09 and 1.2.1 dated 2022-09-06
DESCRIPTION | 8 ++--- MD5 | 28 +++++++++--------- NEWS.md | 5 +++ build/plumber.pdf |binary man/Plumber.Rd | 4 +- man/PlumberEndpoint.Rd | 8 ++--- man/PlumberStatic.Rd | 60 +++++++++++++++++++------------------- man/PlumberStep.Rd | 4 +- man/deprecated.Rd | 8 ++--- man/deprecated_r6.Rd | 70 ++++++++++++++++++++++----------------------- man/parsers.Rd | 30 +++++++++---------- man/plumb_api.Rd | 6 +-- man/register_parser.Rd | 4 +- man/register_serializer.Rd | 6 +-- man/serializers.Rd | 54 +++++++++++++++++----------------- 15 files changed, 150 insertions(+), 145 deletions(-)
Title: Model Wrappers for Projection Methods
Description: Bindings for additional regression models for use with the
'parsnip' package, including ordinary and spare partial least squares
models for regression and classification (Rohart et al (2017)
<doi:10.1371/journal.pcbi.1005752>).
Author: Max Kuhn [aut, cre] ,
RStudio [cph, fnd]
Maintainer: Max Kuhn <max@rstudio.com>
Diff between plsmod versions 0.2.0 dated 2022-03-09 and 1.0.0 dated 2022-09-06
DESCRIPTION | 19 ++++++++-------- MD5 | 24 ++++++++++---------- NEWS.md | 4 +++ R/pls_data.R | 16 ++++++++----- R/predict.R | 33 ++++++++++++++------------- R/tidiers.R | 4 +-- README.md | 5 +--- man/plsmod-package.Rd | 30 ++++++++++++++++++------- tests/spelling.R | 9 +++++-- tests/testthat/test-class-pls.R | 45 ++++++++++++++++++++------------------ tests/testthat/test-class-spls.R | 46 ++++++++++++++++++++------------------- tests/testthat/test-reg-pls.R | 28 +++++++++++------------ tests/testthat/test-reg-spls.R | 27 ++++++++++------------ 13 files changed, 158 insertions(+), 132 deletions(-)
Title: Regression, Inference, and General Data Analysis Tools in R
Description: A set of tools to streamline data analysis. Learning both R and introductory statistics at the same time can be challenging, and so we created 'rigr' to facilitate common data analysis tasks and enable learners to focus on statistical concepts. We provide easy-to-use interfaces for descriptive statistics, one- and two-sample inference, and regression analyses. 'rigr' output includes key information while omitting unnecessary details that can be confusing to beginners. Heteroscedasticity-robust ("sandwich") standard errors are returned by default, and multiple partial F-tests and tests for contrasts are easy to specify. A single regression function can fit both linear and generalized linear models, allowing students to more easily make connections between different classes of models.
Author: Amy D Willis [aut, cre] ,
Taylor Okonek [aut],
Charles J Wolock [aut],
Brian D Williamson [aut],
Scott S Emerson [aut],
Andrew J Spieker [aut],
Yiqun T Chen [aut],
Travis Y Hee Wai [ctb],
James P Hughes [ctb],
R Core Team [ctb],
Akhil S Bhel [ctb],
T [...truncated...]
Maintainer: Amy D Willis <adwillis@uw.edu>
Diff between rigr versions 1.0.3 dated 2022-06-08 and 1.0.4 dated 2022-09-06
DESCRIPTION | 13 MD5 | 52 - NAMESPACE | 3 R/anova.R |only R/anova_utils.R |only R/descrip.R | 7 R/lincom.R | 90 ++ R/lincom_utils.R | 12 R/proptest.R | 13 R/proptesti.R | 34 R/regress.R | 1004 +++++++++++++++++++---------- R/regress_utils.R | 158 ++++ README.md | 14 inst/doc/descrip_intro.html | 6 inst/doc/one_and_two_sample_inference.html | 4 inst/doc/regress_intro.R | 4 inst/doc/regress_intro.Rmd | 16 inst/doc/regress_intro.html | 74 +- man/anova.uRegress.Rd |only man/lincom.Rd | 23 man/proptesti.Rd | 3 man/regress.Rd | 40 - tests/testthat.R | 1 tests/testthat/test_anova.R |only tests/testthat/test_lincom.R | 36 + tests/testthat/test_proptesti.R | 6 tests/testthat/test_regress.R | 49 + tests/testthat/test_wilcoxon.R | 24 vignettes/regress_intro.Rmd | 16 29 files changed, 1216 insertions(+), 486 deletions(-)
Title: Testing for Shiny Applications
Description: Automated unit testing of Shiny applications through a headless 'Chromium' browser.
Author: Barret Schloerke [cre, aut] ,
RStudio [cph, fnd],
Winston Chang [ctb] ,
Gabor Csardi [ctb] ,
Hadley Wickham [ctb] ,
Mango Solutions [cph, ccp]
Maintainer: Barret Schloerke <barret@rstudio.com>
Diff between shinytest2 versions 0.1.0 dated 2022-04-27 and 0.1.1 dated 2022-09-06
DESCRIPTION | 10 MD5 | 26 NEWS.md | 4 inst/doc/in-depth.html | 839 ++++++++++++++++++------------- inst/doc/robust.html | 937 ++++++++++++++++++++--------------- inst/doc/shinytest2.html | 451 ++++++++++------- inst/doc/use-ci.html | 415 +++++++++------ inst/doc/use-package.html | 281 +++++----- inst/doc/using-monkey-testing.html | 441 +++++++++------- inst/doc/z-migration.html | 981 +++++++++++++++++++++---------------- inst/doc/zzz-faq.html | 297 ++++++----- man/AppDriver.Rd | 200 +++---- man/test_app.Rd | 8 man/use_shinytest2.Rd | 6 14 files changed, 2877 insertions(+), 2019 deletions(-)
Title: Simple Git Client for R
Description: Simple git client for R based on 'libgit2' <https://libgit2.org> with
support for SSH and HTTPS remotes. All functions in 'gert' use basic R data
types (such as vectors and data-frames) for their arguments and return values.
User credentials are shared with command line 'git' through the git-credential
store and ssh keys stored on disk or ssh-agent.
Author: Jeroen Ooms [aut, cre] ,
Jennifer Bryan [ctb]
Maintainer: Jeroen Ooms <jeroen@berkeley.edu>
Diff between gert versions 1.7.1 dated 2022-08-18 and 1.8.0 dated 2022-09-06
gert-1.7.1/gert/tests/testthat/ssh.key |only gert-1.8.0/gert/DESCRIPTION | 6 - gert-1.8.0/gert/MD5 | 16 ++- gert-1.8.0/gert/NEWS | 10 ++ gert-1.8.0/gert/configure | 15 +++ gert-1.8.0/gert/inst/doc/gert.html | 123 ++++++++++++++--------------- gert-1.8.0/gert/src/Makevars.win | 2 gert-1.8.0/gert/tests/testthat/ecdsa.key |only gert-1.8.0/gert/tests/testthat/ed25519.key |only gert-1.8.0/gert/tests/testthat/rsa3072.key |only gert-1.8.0/gert/tests/testthat/test-auth.R | 22 ++--- 11 files changed, 109 insertions(+), 85 deletions(-)
Title: Tools for Working with Posterior Distributions
Description: Provides useful tools for both users and developers of packages
for fitting Bayesian models or working with output from Bayesian models.
The primary goals of the package are to:
(a) Efficiently convert between many different useful formats of
draws (samples) from posterior or prior distributions.
(b) Provide consistent methods for operations commonly performed on draws,
for example, subsetting, binding, or mutating draws.
(c) Provide various summaries of draws in convenient formats.
(d) Provide lightweight implementations of state of the art posterior
inference diagnostics. References: Vehtari et al. (2021)
<doi:10.1214/20-BA1221>.
Author: Paul-Christian Buerkner [aut, cre],
Jonah Gabry [aut],
Matthew Kay [aut],
Aki Vehtari [aut],
Måns Magnusson [ctb],
Rok Česnovar [ctb],
Ben Lambert [ctb],
Ozan Adıguezel [ctb],
Jacob Socolar [ctb]
Maintainer: Paul-Christian Buerkner <paul.buerkner@gmail.com>
Diff between posterior versions 1.3.0 dated 2022-08-15 and 1.3.1 dated 2022-09-06
DESCRIPTION | 8 +-- MD5 | 12 ++--- NEWS.md | 4 + R/merge_chains.R | 2 inst/doc/posterior.html | 98 ++++++++++++++++++++++---------------------- inst/doc/rvar.html | 4 - tests/testthat/test-print.R | 1 7 files changed, 67 insertions(+), 62 deletions(-)
Title: Fast Algorithms for Fitting Topic Models and Non-Negative Matrix
Factorizations to Count Data
Description: Implements fast, scalable optimization algorithms for
fitting topic models ("grade of membership" models) and
non-negative matrix factorizations to count data. The methods
exploit the special relationship between the multinomial topic
model (also, "probabilistic latent semantic indexing") and Poisson
non-negative matrix factorization. The package provides tools to
compare, annotate and visualize model fits, including functions to
efficiently create "structure plots" and identify key features in
topics. The 'fastTopics' package is a successor to the 'CountClust'
package.
Author: Peter Carbonetto [aut, cre],
Kevin Luo [aut],
Kushal Dey [aut],
Joyce Hsiao [ctb],
Abhishek Sarkar [ctb],
Anthony Hung [ctb],
Xihui Lin [ctb],
Paul C. Boutros [ctb],
Minzhe Wang [ctb],
Tracy Ke [ctb],
Matthew Stephens [aut]
Maintainer: Peter Carbonetto <peter.carbonetto@gmail.com>
Diff between fastTopics versions 0.6-135 dated 2022-05-27 and 0.6-142 dated 2022-09-06
DESCRIPTION | 8 - MD5 | 25 +-- R/datasim.R | 6 R/fit_poisson_nmf.R | 2 R/zzz.R |only README.md | 9 + build/partial.rdb |binary inst/doc/relationship.html | 218 ++++++++++++++++++++----------- inst/doc/topics_vs_clusters.html | 185 ++++++++++++++++---------- tests/testthat/test_de_analysis.R | 6 tests/testthat/test_fit_multinom_model.R | 2 tests/testthat/test_fit_poisson_nmf.R | 6 tests/testthat/test_likelihood.R | 10 - tests/testthat/test_poisson2multinom.R | 2 14 files changed, 306 insertions(+), 173 deletions(-)
Title: Data Validation and Organization of Metadata for Local and
Remote Tables
Description: Validate data in data frames, 'tibble' objects, 'Spark'
'DataFrames', and database tables. Validation pipelines can be made using
easily-readable, consecutive validation steps. Upon execution of the
validation plan, several reporting options are available. User-defined
thresholds for failure rates allow for the determination of appropriate
reporting actions. Many other workflows are available including an
information management workflow, where the aim is to record, collect, and
generate useful information on data tables.
Author: Richard Iannone [aut, cre] ,
Mauricio Vargas [aut]
Maintainer: Richard Iannone <riannone@me.com>
Diff between pointblank versions 0.11.0 dated 2022-07-13 and 0.11.1 dated 2022-09-06
pointblank-0.11.0/pointblank/README.md |only pointblank-0.11.1/pointblank/DESCRIPTION | 8 pointblank-0.11.1/pointblank/MD5 | 161 ++++------ pointblank-0.11.1/pointblank/NEWS.md | 4 pointblank-0.11.1/pointblank/R/utils.R | 31 + pointblank-0.11.1/pointblank/man/action_levels.Rd | 34 -- pointblank-0.11.1/pointblank/man/all_passed.Rd | 16 pointblank-0.11.1/pointblank/man/col_count_match.Rd | 50 +-- pointblank-0.11.1/pointblank/man/col_exists.Rd | 46 +- pointblank-0.11.1/pointblank/man/col_is_character.Rd | 44 +- pointblank-0.11.1/pointblank/man/col_is_date.Rd | 58 +-- pointblank-0.11.1/pointblank/man/col_is_factor.Rd | 58 +-- pointblank-0.11.1/pointblank/man/col_is_integer.Rd | 46 +- pointblank-0.11.1/pointblank/man/col_is_logical.Rd | 58 +-- pointblank-0.11.1/pointblank/man/col_is_numeric.Rd | 58 +-- pointblank-0.11.1/pointblank/man/col_is_posix.Rd | 58 +-- pointblank-0.11.1/pointblank/man/col_schema.Rd | 36 -- pointblank-0.11.1/pointblank/man/col_schema_match.Rd | 60 +-- pointblank-0.11.1/pointblank/man/col_vals_between.Rd | 48 +- pointblank-0.11.1/pointblank/man/col_vals_decreasing.Rd | 51 +-- pointblank-0.11.1/pointblank/man/col_vals_equal.Rd | 30 - pointblank-0.11.1/pointblank/man/col_vals_expr.Rd | 38 -- pointblank-0.11.1/pointblank/man/col_vals_gt.Rd | 46 +- pointblank-0.11.1/pointblank/man/col_vals_gte.Rd | 46 +- pointblank-0.11.1/pointblank/man/col_vals_in_set.Rd | 44 +- pointblank-0.11.1/pointblank/man/col_vals_increasing.Rd | 50 +-- pointblank-0.11.1/pointblank/man/col_vals_lt.Rd | 30 - pointblank-0.11.1/pointblank/man/col_vals_lte.Rd | 30 - pointblank-0.11.1/pointblank/man/col_vals_make_set.Rd | 44 +- pointblank-0.11.1/pointblank/man/col_vals_make_subset.Rd | 44 +- pointblank-0.11.1/pointblank/man/col_vals_not_between.Rd | 48 +- pointblank-0.11.1/pointblank/man/col_vals_not_equal.Rd | 30 - pointblank-0.11.1/pointblank/man/col_vals_not_in_set.Rd | 6 pointblank-0.11.1/pointblank/man/col_vals_not_null.Rd | 28 - pointblank-0.11.1/pointblank/man/col_vals_null.Rd | 28 - pointblank-0.11.1/pointblank/man/col_vals_regex.Rd | 58 +-- pointblank-0.11.1/pointblank/man/col_vals_within_spec.Rd | 48 +- pointblank-0.11.1/pointblank/man/conjointly.Rd | 34 -- pointblank-0.11.1/pointblank/man/create_agent.Rd | 38 +- pointblank-0.11.1/pointblank/man/create_informant.Rd | 38 +- pointblank-0.11.1/pointblank/man/create_multiagent.Rd | 42 +- pointblank-0.11.1/pointblank/man/draft_validation.Rd | 35 +- pointblank-0.11.1/pointblank/man/email_create.Rd | 2 pointblank-0.11.1/pointblank/man/file_tbl.Rd | 2 pointblank-0.11.1/pointblank/man/get_agent_report.Rd | 22 - pointblank-0.11.1/pointblank/man/get_agent_x_list.Rd | 16 pointblank-0.11.1/pointblank/man/get_multiagent_report.Rd | 36 +- pointblank-0.11.1/pointblank/man/get_tt_param.Rd | 30 - pointblank-0.11.1/pointblank/man/has_columns.Rd | 34 -- pointblank-0.11.1/pointblank/man/incorporate.Rd | 38 +- pointblank-0.11.1/pointblank/man/info_columns.Rd | 2 pointblank-0.11.1/pointblank/man/info_columns_from_tbl.Rd | 34 -- pointblank-0.11.1/pointblank/man/info_section.Rd | 2 pointblank-0.11.1/pointblank/man/info_snippet.Rd | 4 pointblank-0.11.1/pointblank/man/info_tabular.Rd | 2 pointblank-0.11.1/pointblank/man/interrogate.Rd | 22 - pointblank-0.11.1/pointblank/man/log4r_step.Rd | 12 pointblank-0.11.1/pointblank/man/row_count_match.Rd | 54 +-- pointblank-0.11.1/pointblank/man/rows_complete.Rd | 30 - pointblank-0.11.1/pointblank/man/rows_distinct.Rd | 30 - pointblank-0.11.1/pointblank/man/scan_data.Rd | 2 pointblank-0.11.1/pointblank/man/serially.Rd | 36 -- pointblank-0.11.1/pointblank/man/snip_highest.Rd | 2 pointblank-0.11.1/pointblank/man/snip_list.Rd | 2 pointblank-0.11.1/pointblank/man/snip_lowest.Rd | 2 pointblank-0.11.1/pointblank/man/snip_stats.Rd | 2 pointblank-0.11.1/pointblank/man/specially.Rd | 54 +-- pointblank-0.11.1/pointblank/man/tbl_match.Rd | 54 +-- pointblank-0.11.1/pointblank/man/tbl_source.Rd | 2 pointblank-0.11.1/pointblank/man/tt_string_info.Rd | 32 - pointblank-0.11.1/pointblank/man/tt_summary_stats.Rd | 80 ++-- pointblank-0.11.1/pointblank/man/tt_tbl_colnames.Rd | 38 -- pointblank-0.11.1/pointblank/man/tt_tbl_dims.Rd | 20 - pointblank-0.11.1/pointblank/man/tt_time_shift.Rd | 68 +--- pointblank-0.11.1/pointblank/man/tt_time_slice.Rd | 58 +-- pointblank-0.11.1/pointblank/man/write_testthat_file.Rd | 34 -- pointblank-0.11.1/pointblank/man/yaml_agent_interrogate.Rd | 4 pointblank-0.11.1/pointblank/man/yaml_agent_show_exprs.Rd | 2 pointblank-0.11.1/pointblank/man/yaml_informant_incorporate.Rd | 2 pointblank-0.11.1/pointblank/man/yaml_read_agent.Rd | 4 pointblank-0.11.1/pointblank/man/yaml_read_informant.Rd | 2 pointblank-0.11.1/pointblank/man/yaml_write.Rd | 40 +- 82 files changed, 1198 insertions(+), 1474 deletions(-)
Title: Data Sets Useful for Modeling Examples
Description: Data sets used for demonstrating or testing model-related
packages are contained in this package.
Author: Max Kuhn [aut, cre],
RStudio [cph, fnd]
Maintainer: Max Kuhn <max@rstudio.com>
Diff between modeldata versions 1.0.0 dated 2022-07-01 and 1.0.1 dated 2022-09-06
DESCRIPTION | 10 +++++----- MD5 | 10 +++++----- NEWS.md | 4 ++++ R/simulations.R | 2 +- man/ames.Rd | 4 +++- man/sim_classification.Rd | 2 +- 6 files changed, 19 insertions(+), 13 deletions(-)
Title: Binary Classification via GMDH-Type Neural Network Algorithms
Description: Performs binary classification via Group Method of Data Handling (GMDH) - type neural network algorithms. There exist two main algorithms available in GMDH() and dceGMDH() functions. GMDH() performs classification via GMDH algorithm for a binary response and returns important variables. dceGMDH() performs classification via diverse classifiers ensemble based on GMDH (dce-GMDH) algorithm. Also, the package produces a well-formatted table of descriptives for a binary response. Moreover, it produces confusion matrix, its related statistics and scatter plot (2D and 3D) with classification labels of binary classes to assess the prediction performance. All 'GMDH2' functions are designed for a binary response (Dag et al., 2019, <https://download.atlantis-press.com/article/125911202.pdf>).
Author: Osman Dag [aut, cre], Erdem Karabulut [aut], Reha Alpar [aut], Merve Kasikci [ctb]
Maintainer: Osman Dag <osman.dag@outlook.com>
Diff between GMDH2 versions 1.6 dated 2021-04-28 and 1.7 dated 2022-09-06
DESCRIPTION | 8 ++++---- MD5 | 6 +++--- R/Table.R | 8 ++++---- inst/citation | 12 ++++++------ 4 files changed, 17 insertions(+), 17 deletions(-)
Title: Sum of Single Effects Linear Regression
Description: Implements methods for variable selection in linear
regression based on the "Sum of Single Effects" (SuSiE) model, as
described in Wang et al (2020) <DOI:10.1101/501114> and Zou et al
(2021) <DOI:10.1101/2021.11.03.467167>. These methods provide
simple summaries, called "Credible Sets", for accurately
quantifying uncertainty in which variables should be selected.
The methods are motivated by genetic fine-mapping applications,
and are particularly well-suited to settings where variables are
highly correlated and detectable effects are sparse. The fitting
algorithm, a Bayesian analogue of stepwise selection methods
called "Iterative Bayesian Stepwise Selection" (IBSS), is simple
and fast, allowing the SuSiE model be fit to large data sets
(thousands of samples and hundreds of thousands of variables).
Author: Gao Wang [aut],
Yuxin Zou [aut],
Kaiqian Zhang [aut],
Peter Carbonetto [aut, cre],
Matthew Stephens [aut]
Maintainer: Peter Carbonetto <peter.carbonetto@gmail.com>
Diff between susieR versions 0.12.19 dated 2022-08-20 and 0.12.27 dated 2022-09-06
susieR-0.12.19/susieR/inst/doc/susierss_diagnostic2.R |only susieR-0.12.27/susieR/DESCRIPTION | 8 - susieR-0.12.27/susieR/MD5 | 41 +++++----- susieR-0.12.27/susieR/NAMESPACE | 2 susieR-0.12.27/susieR/R/susie_utils.R | 22 +++-- susieR-0.12.27/susieR/R/zzz.R |only susieR-0.12.27/susieR/build/partial.rdb |binary susieR-0.12.27/susieR/inst/doc/finemapping.html | 8 - susieR-0.12.27/susieR/inst/doc/finemapping_summary_statistics.html | 8 - susieR-0.12.27/susieR/inst/doc/l0_initialization.html | 4 susieR-0.12.27/susieR/inst/doc/mwe.html | 8 - susieR-0.12.27/susieR/inst/doc/sparse_susie_eval.R | 2 susieR-0.12.27/susieR/inst/doc/sparse_susie_eval.Rmd | 2 susieR-0.12.27/susieR/inst/doc/sparse_susie_eval.html | 6 - susieR-0.12.27/susieR/inst/doc/susie_refine.html | 6 - susieR-0.12.27/susieR/inst/doc/susie_rss.html | 4 susieR-0.12.27/susieR/inst/doc/susierss_diagnostic.html | 6 - susieR-0.12.27/susieR/inst/doc/trend_filtering.html | 4 susieR-0.12.27/susieR/inst/doc/trendfiltering_derivations.pdf |binary susieR-0.12.27/susieR/tests/testthat/helper_testthat.R | 17 +++- susieR-0.12.27/susieR/tests/testthat/test_compute_colsds.R |only susieR-0.12.27/susieR/tests/testthat/test_susie_XtX_Xty.R | 2 susieR-0.12.27/susieR/vignettes/sparse_susie_eval.Rmd | 2 23 files changed, 84 insertions(+), 68 deletions(-)
Title: Creates Log Files
Description: Contains functions to help create log files. The
package aims to overcome the difficulty of the base R sink() command. The
log_print() function will print to both the console and the file log,
without interfering in other write operations.
Author: David Bosak [aut, cre],
Rikard Isaksson [ctb]
Maintainer: David Bosak <dbosak01@gmail.com>
Diff between logr versions 1.3.2 dated 2022-08-05 and 1.3.3 dated 2022-09-06
DESCRIPTION | 6 +- MD5 | 21 ++++---- NEWS.md | 5 + R/logr.R | 8 +-- README.md | 2 inst/doc/logr-example1.Rmd | 14 +++-- inst/doc/logr-example1.html | 14 ++--- man/images/logr_new.png |only tests/testthat/log/test.log | 26 +++++++--- tests/testthat/log/test.msg |only tests/testthat/log/test29.log |only tests/testthat/test-logr.R | 109 ++++++++++++++++++++++++++++++------------ vignettes/logr-example1.Rmd | 14 +++-- 13 files changed, 147 insertions(+), 72 deletions(-)
Title: An R Interface to the NOAA Operational Model Archive and
Distribution System
Description: An interface to the National Oceanic and Atmospheric Administration's Operational Model Archive and Distribution System (NOMADS, see <https://nomads.ncep.noaa.gov/> for more information) that allows R users to quickly and efficiently download global and regional weather model data for processing. rNOMADS currently supports a variety of models ranging from global weather data to an altitude of over 40 km, to high resolution regional weather models, to wave and sea ice models. rNOMADS can retrieve binary data in grib format as well as import ascii data directly into R by interfacing with the GrADS-DODS system.
Author: Daniel C. Bowman [aut, cre]
Maintainer: Daniel C. Bowman <danny.c.bowman@gmail.com>
Diff between rNOMADS versions 2.5.0 dated 2020-09-08 and 2.5.1 dated 2022-09-06
DESCRIPTION | 15 +- MD5 | 16 +-- NEWS | 255 ++++++++++++++++++++++++++++++------------------- R/GetArchiveGrib.R | 6 - R/GetDODS.R | 14 +- R/onAttach.R | 7 - man/DODSGrab.Rd | 2 man/GribGrab.Rd | 4 man/rNOMADS-package.Rd | 6 - 9 files changed, 195 insertions(+), 130 deletions(-)
Title: Power Analyses for Common Designs (Power to the People)
Description: Statistical power analysis for designs including t-tests, correlations,
multiple regression, ANOVA, mediation, and logistic regression. Functions accompany
Aberson (2019) <doi:10.4324/9781315171500>.
Author: Chris Aberson
Maintainer: Chris Aberson <chris.aberson@gmail.com>
Diff between pwr2ppl versions 0.4.0 dated 2022-04-07 and 0.5.0 dated 2022-09-06
pwr2ppl-0.4.0/pwr2ppl/R/modmed15.R |only pwr2ppl-0.4.0/pwr2ppl/R/modmed8.R |only pwr2ppl-0.4.0/pwr2ppl/man/modmed15.Rd |only pwr2ppl-0.4.0/pwr2ppl/man/modmed8.Rd |only pwr2ppl-0.5.0/pwr2ppl/DESCRIPTION | 8 ++++---- pwr2ppl-0.5.0/pwr2ppl/MD5 | 22 +++++++++------------- pwr2ppl-0.5.0/pwr2ppl/NAMESPACE | 2 -- pwr2ppl-0.5.0/pwr2ppl/R/MRC_all.R | 20 ++++++++++---------- pwr2ppl-0.5.0/pwr2ppl/R/MRC_shortcuts.R | 7 ++----- pwr2ppl-0.5.0/pwr2ppl/R/modmed14.R | 13 ++++++------- pwr2ppl-0.5.0/pwr2ppl/R/modmed7.R | 12 ++++++------ pwr2ppl-0.5.0/pwr2ppl/R/tfromd.R | 4 ++-- pwr2ppl-0.5.0/pwr2ppl/man/modmed14.Rd | 7 +++---- pwr2ppl-0.5.0/pwr2ppl/man/modmed7.Rd | 13 +++++++------ 14 files changed, 49 insertions(+), 59 deletions(-)
Title: Analytic Insurance Rating Techniques
Description: Methods for insurance rating. It helps actuaries to implement GLMs within all relevant steps needed to construct
a risk premium from raw data. It provides a data driven strategy for the construction of insurance tariff classes.
This strategy is based on the work by Antonio and Valdez (2012) <doi:10.1007/s10182-011-0152-7>. It also provides recipes
on how to easily perform one-way, or univariate, analyses on an insurance portfolio. In addition it adds functionality
to include reference categories in the levels of the coefficients in the output of a generalized linear regression analysis.
Author: Martin Haringa [aut, cre]
Maintainer: Martin Haringa <mtharinga@gmail.com>
Diff between insurancerating versions 0.7.0 dated 2022-07-08 and 0.7.1 dated 2022-09-06
DESCRIPTION | 6 ++-- MD5 | 17 ++++++----- NAMESPACE | 1 NEWS.md | 5 +++ R/construct_tariff_classes.R |only R/univariate.R | 48 +++++++++++++++++++++++++-------- man/autoplot.constructtariffclasses.Rd | 32 +++++++++++++++++++--- man/autoplot.univariate.Rd | 3 ++ man/construct_tariff_classes.Rd | 46 ++++++++++++++++++++++++++++++- man/univariate.Rd | 8 ++++- 10 files changed, 139 insertions(+), 27 deletions(-)
More information about insurancerating at CRAN
Permanent link
Title: Statistical Tests of Familial Hypotheses
Description: Provides functionality for testing familial hypotheses. Supports testing centers
belonging to the Huber family. Testing is carried out using the Bayesian bootstrap. One- and
two-sample tests are supported, as are directional tests. Methods for visualizing output are
provided.
Author: Ryan Thompson [aut, cre]
Maintainer: Ryan Thompson <ryan.thompson1@unsw.edu.au>
Diff between familial versions 1.0.3 dated 2022-05-04 and 1.0.4 dated 2022-09-06
DESCRIPTION | 12 ++++++------ MD5 | 8 ++++---- NEWS.md | 3 +++ build/vignette.rds |binary inst/doc/vignette.html | 13 ++++++++++--- 5 files changed, 23 insertions(+), 13 deletions(-)
Title: Disaggregation Modelling
Description: Fits disaggregation regression models using 'TMB' ('Template Model
Builder'). When the response data are aggregated to polygon level but
the predictor variables are at a higher resolution, these models can be
useful. Regression models with spatial random fields. A useful reference for disaggregation modelling is
Lucas et al. (2019) <doi:10.1101/548719>.
Author: Anita Nandi [aut] ,
Tim Lucas [aut, cre] ,
Rohan Arambepola [aut],
Andre Python [aut]
Maintainer: Tim Lucas <timcdlucas@gmail.com>
Diff between disaggregation versions 0.1.3 dated 2020-02-19 and 0.1.4 dated 2022-09-06
disaggregation-0.1.3/disaggregation/vignettes/disaggregation_files |only disaggregation-0.1.4/disaggregation/DESCRIPTION | 19 disaggregation-0.1.4/disaggregation/MD5 | 101 +-- disaggregation-0.1.4/disaggregation/NAMESPACE | 6 disaggregation-0.1.4/disaggregation/R/build_mesh.R | 16 disaggregation-0.1.4/disaggregation/R/extract.R | 2 disaggregation-0.1.4/disaggregation/R/fit_model.R | 40 - disaggregation-0.1.4/disaggregation/R/matching.R | 2 disaggregation-0.1.4/disaggregation/R/plotting.R | 8 disaggregation-0.1.4/disaggregation/R/predict.R | 21 disaggregation-0.1.4/disaggregation/R/prepare_data.R | 7 disaggregation-0.1.4/disaggregation/build/vignette.rds |binary disaggregation-0.1.4/disaggregation/inst/doc/disaggregation.R | 9 disaggregation-0.1.4/disaggregation/inst/doc/disaggregation.Rmd | 57 - disaggregation-0.1.4/disaggregation/inst/doc/disaggregation.html | 319 ++++++---- disaggregation-0.1.4/disaggregation/man/as.disag_data.Rd | 114 +-- disaggregation-0.1.4/disaggregation/man/build_mesh.Rd | 102 +-- disaggregation-0.1.4/disaggregation/man/disaggregation-deprecated.Rd | 26 disaggregation-0.1.4/disaggregation/man/dummy.Rd | 20 disaggregation-0.1.4/disaggregation/man/fit_model.Rd | 286 ++++---- disaggregation-0.1.4/disaggregation/man/getCovariateRasters.Rd | 54 - disaggregation-0.1.4/disaggregation/man/getPolygonData.Rd | 102 +-- disaggregation-0.1.4/disaggregation/man/getStartendindex.Rd | 84 +- disaggregation-0.1.4/disaggregation/man/make_model_object.Rd | 234 +++---- disaggregation-0.1.4/disaggregation/man/parallelExtract.Rd | 116 +-- disaggregation-0.1.4/disaggregation/man/plot.disag_data.Rd | 48 - disaggregation-0.1.4/disaggregation/man/plot.disag_model.Rd | 44 - disaggregation-0.1.4/disaggregation/man/plot.disag_prediction.Rd | 44 - disaggregation-0.1.4/disaggregation/man/predict.disag_model.Rd | 114 +-- disaggregation-0.1.4/disaggregation/man/predict_model.Rd | 90 +- disaggregation-0.1.4/disaggregation/man/predict_uncertainty.Rd | 110 +-- disaggregation-0.1.4/disaggregation/man/prepare_data.Rd | 218 +++--- disaggregation-0.1.4/disaggregation/man/print.disag_data.Rd | 38 - disaggregation-0.1.4/disaggregation/man/print.disag_model.Rd | 38 - disaggregation-0.1.4/disaggregation/man/print.disag_prediction.Rd | 38 - disaggregation-0.1.4/disaggregation/man/summary.disag_data.Rd | 44 - disaggregation-0.1.4/disaggregation/man/summary.disag_model.Rd | 44 - disaggregation-0.1.4/disaggregation/man/summary.disag_prediction.Rd | 44 - disaggregation-0.1.4/disaggregation/src/disaggregation.cpp | 2 disaggregation-0.1.4/disaggregation/tests/testthat/test-fit-model.R | 35 - disaggregation-0.1.4/disaggregation/tests/testthat/test-predict-model.R | 28 disaggregation-0.1.4/disaggregation/vignettes/disaggregation.Rmd | 57 - 42 files changed, 1492 insertions(+), 1289 deletions(-)
More information about disaggregation at CRAN
Permanent link
Title: Statistical Functions for the Delaporte Distribution
Description: Provides probability mass, distribution, quantile, random-variate
generation, and method-of-moments parameter-estimation functions for the
Delaporte distribution with parameterization based on Vose (2008)
<isbn:9780470512845>. The Delaporte is a discrete probability distribution
which can be considered the convolution of a negative binomial distribution
with a Poisson distribution. Alternatively, it can be considered a counting
distribution with both Poisson and negative binomial components. It has been
studied in actuarial science as a frequency distribution which has more
variability than the Poisson, but less than the negative binomial.
Author: Avraham Adler [aut, cph, cre]
Maintainer: Avraham Adler <Avraham.Adler@gmail.com>
Diff between Delaporte versions 8.0.2 dated 2022-01-20 and 8.0.3 dated 2022-09-06
DESCRIPTION | 8 ++++---- MD5 | 10 +++++----- README.md | 46 +++++++++++++++++++++++++++++++++++++--------- build/partial.rdb |binary inst/CITATION | 4 ++-- inst/NEWS.Rd | 9 +++++++++ 6 files changed, 57 insertions(+), 20 deletions(-)
Title: A Toolbox for Manipulating Biological Sequences
Description: Classes and functions to work with biological sequences (DNA, RNA and amino acid sequences).
Implements S3 infrastructure to work with biological sequences as described in Keck (2020) <doi:10.1111/2041-210X.13490>.
Provides a collection of functions to perform biological conversion among classes
(transcription, translation) and basic operations on sequences
(detection, selection and replacement based on positions or patterns).
The package also provides functions to import and export sequences from and to other package formats.
Author: Francois Keck [aut, cre, cph]
Maintainer: Francois Keck <francois.keck@gmail.com>
Diff between bioseq versions 0.1.3 dated 2021-09-03 and 0.1.4 dated 2022-09-06
DESCRIPTION | 8 - MD5 | 27 ++-- NEWS.md | 10 + R/checks_validation.R | 15 ++ R/read_write_fasta.R | 36 +++++- README.md | 2 build/partial.rdb |only build/vignette.rds |binary inst/doc/ref_database.Rmd | 2 inst/doc/ref_database.html | 197 ++++++++++++++++----------------- man/bioseq-package.Rd | 9 - man/write_fasta.Rd | 9 + tests/testthat/test-internal-checks.R | 11 + tests/testthat/test-read-write-fasta.R | 39 ++++++ vignettes/ref_database.Rmd | 2 15 files changed, 233 insertions(+), 134 deletions(-)
Title: Decorate a 'ggplot' with Associated Information
Description: For many times, we are not just aligning plots as what 'cowplot' and 'patchwork' did. Users would like to align associated information that requires axes to be exactly matched in subplots, e.g. hierarchical clustering with a heatmap. This package provides utilities to aligns associated subplots to a main plot at different sides (left, right, top and bottom) with axes exactly matched.
Author: Guangchuang Yu [aut, cre] ,
Shuangbin Xu [ctb] ,
Thomas Hackl [ctb]
Maintainer: Guangchuang Yu <guangchuangyu@gmail.com>
Diff between aplot versions 0.1.6 dated 2022-06-03 and 0.1.7 dated 2022-09-06
DESCRIPTION | 21 +++++++++++++-------- MD5 | 14 ++++++++------ NAMESPACE | 5 +++++ NEWS.md | 5 +++++ R/aplot.R | 39 ++++++++++++++++++++++++++++----------- R/insertion.R | 9 ++++++++- R/method-accessor.R |only man/as.patchwork.Rd |only man/plot-insertion.Rd | 9 ++++++++- 9 files changed, 75 insertions(+), 27 deletions(-)
Title: Inferential Statistics
Description: Computation of various confidence intervals (Altman et al. (2000), ISBN:978-0-727-91375-3; Hedderich and Sachs (2018), ISBN:978-3-662-56657-2) including bootstrapped versions (Davison and Hinkley (1997), ISBN:978-0-511-80284-3) as well as Hsu (Hedderich and Sachs (2018), ISBN:978-3-662-56657-2), permutation (Janssen (1997), <doi:10.1016/S0167-7152(97)00043-6>), bootstrap (Davison and Hinkley (1997), ISBN:978-0-511-80284-3) and multiple imputation (Barnard and Rubin (1999), <doi:10.1093/biomet/86.4.948>) t-test. Graphical visualization by volcano plots.
Author: Matthias Kohl [aut, cre]
Maintainer: Matthias Kohl <Matthias.Kohl@stamats.de>
Diff between MKinfer versions 0.6 dated 2020-10-22 and 0.7 dated 2022-09-06
DESCRIPTION | 12 MD5 | 40 - NAMESPACE | 1 NEWS | 14 R/imputeSD.R | 13 R/p2ses.R |only R/volcano.R | 8 build/vignette.rds |binary inst/CITATION | 2 inst/doc/MKinfer.R | 17 inst/doc/MKinfer.Rmd | 26 + inst/doc/MKinfer.html | 1115 ++++++++++++++++++++++++++++-------------------- man/0MKinfer-package.Rd | 10 man/binomCI.Rd | 2 man/imputeSD.Rd | 9 man/mi.t.test.Rd | 2 man/p2ses.Rd |only man/quantileCI.Rd | 2 man/rm.oneway.test.Rd | 6 man/volcano.Rd | 4 vignettes/MKinfer.Rmd | 26 + vignettes/MKinfer.bib | 14 22 files changed, 831 insertions(+), 492 deletions(-)
Title: Publication Quality Descriptive Statistics Tables
Description: Provides functions to create descriptive statistics tables for continuous and categorical variables.
By default, summary statistics such as mean, standard deviation, quantiles, minimum and maximum for continuous
variables and relative and absolute frequencies for categorical variables are calculated. 'DescrTab2' features a sophisticated algorithm to
choose appropriate test statistics for your data and provides p-values. On top of this, confidence intervals for group
differences of appropriated summary measures are automatically produces for two-group comparison.
Tables generated by 'DescrTab2' can be integrated in a variety of document formats, including .html, .tex and .docx documents.
'DescrTab2' also allows printing tables to console and saving table objects for later use.
Author: Jan Meis [aut, cre] ,
Lukas Baumann [aut] ,
Maximilian Pilz [aut] ,
Lukas Sauer [aut] ,
Lorenz Uhlmann [ctb],
Csilla van Lunteren [ctb]
Maintainer: Jan Meis <meis@imbi.uni-heidelberg.de>
Diff between DescrTab2 versions 2.1.9 dated 2022-01-20 and 2.1.16 dated 2022-09-06
DescrTab2-2.1.16/DescrTab2/DESCRIPTION | 23 DescrTab2-2.1.16/DescrTab2/MD5 | 61 - DescrTab2-2.1.16/DescrTab2/NEWS.md | 29 DescrTab2-2.1.16/DescrTab2/R/descr.R | 190 ++- DescrTab2-2.1.16/DescrTab2/R/farringtonManning.R | 14 DescrTab2-2.1.16/DescrTab2/R/latex.R | 4 DescrTab2-2.1.16/DescrTab2/R/loadData.R | 8 DescrTab2-2.1.16/DescrTab2/R/misc.R | 6 DescrTab2-2.1.16/DescrTab2/R/summaryStats.R | 573 +++++----- DescrTab2-2.1.16/DescrTab2/build/vignette.rds |binary DescrTab2-2.1.16/DescrTab2/inst/doc/a_usage_guide.html | 178 ++- DescrTab2-2.1.16/DescrTab2/inst/doc/b_test_choice_tree_pdf.pdf |binary DescrTab2-2.1.16/DescrTab2/inst/doc/c_other_software_comparison.html | 82 - DescrTab2-2.1.16/DescrTab2/inst/doc/d_validation_statement.html | 50 DescrTab2-2.1.16/DescrTab2/inst/doc/e_maintenance_guide.html | 89 + DescrTab2-2.1.16/DescrTab2/inst/examples/testredcap.r | 2 DescrTab2-2.1.16/DescrTab2/man/can.be.numeric.Rd |only DescrTab2-2.1.16/DescrTab2/man/descr.Rd | 66 - DescrTab2-2.1.16/DescrTab2/tests/console/1_samplepaired_t.test.txt | 4 DescrTab2-2.1.16/DescrTab2/tests/console/2_sample_t.test.txt | 8 DescrTab2-2.1.16/DescrTab2/tests/console/boschloo.txt | 4 DescrTab2-2.1.16/DescrTab2/tests/console/exact_mcnemar.test.txt | 6 DescrTab2-2.1.16/DescrTab2/tests/console/mcnemar.test.txt | 6 DescrTab2-2.1.16/DescrTab2/tests/console/print_console_group.txt | 52 DescrTab2-2.1.16/DescrTab2/tests/console/print_numeric_group.txt | 84 - DescrTab2-2.1.16/DescrTab2/tests/console/wilcox.test_2_sample.txt | 8 DescrTab2-2.1.16/DescrTab2/tests/rmds/tex_doc.log |only DescrTab2-2.1.16/DescrTab2/tests/testthat/test_edge_cases.R | 2 DescrTab2-2.1.16/DescrTab2/tests/testthat/test_numeric_factors.R | 11 DescrTab2-2.1.16/DescrTab2/tests/testthat/test_tests.R | 40 DescrTab2-2.1.16/DescrTab2/vignettes/test_choice_tree.tex | 2 DescrTab2-2.1.9/DescrTab2/tests/rmds/html_doc.html |only DescrTab2-2.1.9/DescrTab2/tests/rmds/tex_doc.pdf |only DescrTab2-2.1.9/DescrTab2/tests/rmds/word_doc.docx |only 34 files changed, 1001 insertions(+), 601 deletions(-)
Title: Interpolate Data for Smooth Animations
Description: In order to create smooth animation between states of data,
tweening is necessary. This package provides a range of functions for
creating tweened data that can be used as basis for animation. Furthermore
it adds a number of vectorized interpolaters for common R data
types such as numeric, date and colour.
Author: Thomas Lin Pedersen [aut, cre]
Maintainer: Thomas Lin Pedersen <thomasp85@gmail.com>
Diff between tweenr versions 2.0.1 dated 2022-08-22 and 2.0.2 dated 2022-09-06
DESCRIPTION | 6 +++--- MD5 | 6 +++--- NEWS.md | 4 ++++ R/tween_state.R | 1 - 4 files changed, 10 insertions(+), 7 deletions(-)
Title: Base Class and Methods for 'gson' Format
Description: Proposes a new file format ('gson') for storing gene set and related information, and provides read, write and other utilities to process this file format.
Author: Guangchuang Yu [aut, cre, cph]
Maintainer: Guangchuang Yu <guangchuangyu@gmail.com>
Diff between gson versions 0.0.8 dated 2022-08-20 and 0.0.9 dated 2022-09-06
DESCRIPTION | 6 +++--- MD5 | 10 ++++++---- NAMESPACE | 2 ++ NEWS.md | 4 ++++ R/gsonList.R |only R/print.R | 10 ++++++++++ man/gsonList.Rd |only 7 files changed, 25 insertions(+), 7 deletions(-)
Title: Doubly Robust Inverse Probability Weighted Augmented GEE
Estimator
Description: Implements a semi-parametric GEE estimator accounting for missing data with Inverse-probability weighting (IPW) and for imbalance in covariates with augmentation (AUG). The estimator IPW-AUG-GEE is Doubly robust (DR).
Author: Melanie Prague [aut, cre],
Paul Gilbert [ctb] ,
Ravi Varadhan [ctb] ,
Ming Wang [ctb] ,
Lee McDaniel [ctb] ,
Nick Henderson [ctb]
Maintainer: Melanie Prague <mprague@hsph.harvard.edu>
Diff between CRTgeeDR versions 2.0 dated 2017-07-09 and 2.0.1 dated 2022-09-06
CRTgeeDR-2.0.1/CRTgeeDR/DESCRIPTION | 9 +++++---- CRTgeeDR-2.0.1/CRTgeeDR/MD5 | 6 +++--- CRTgeeDR-2.0.1/CRTgeeDR/data/data.sim.txt.xz |only CRTgeeDR-2.0.1/CRTgeeDR/man/geeDREstimation.Rd | 6 +++--- CRTgeeDR-2.0/CRTgeeDR/data/data.sim.txt |only 5 files changed, 11 insertions(+), 10 deletions(-)
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2022-06-15 1.1.0
2022-04-09 1.0.3
2021-10-21 1.0.2
2021-09-14 1.0.1
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2016-05-22 0.1.0
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2022-02-14 1.0-0
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2021-08-04 3.9-1
2021-04-23 3.8-2
2020-03-05 3.8-1
2019-10-09 3.7-2
2019-06-26 3.7-1
2019-03-17 3.6-1
2019-02-03 3.5-1
2018-11-20 3.0-1
2018-07-04 2.2-2
2018-06-04 2.2-1
2017-04-29 2.1-1
2017-03-12 2.0-1
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2022-08-08 2.0
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2017-06-08 1.0
Title: Formulations of the International Association for the Properties
of Water and Steam
Description: Implementation of some of the formulations for the thermodynamic
and transport properties of ordinary water and steam released by the
International Association for the Properties of Water and Steam (IAPWS).
More specifically, the releases referenced R1-76(2014), R6-95(2018),
R7-97(2012), R8-97, R12-08 and R15-11 at <http://iapws.org>.
Author: Jonathan Debove [aut, cre]
Maintainer: Jonathan Debove <jondebove@gmail.com>
Diff between iapws versions 0.10 dated 2022-08-30 and 0.11 dated 2022-09-06
iapws-0.10/iapws/man/if97_psat.Rd |only iapws-0.11/iapws/DESCRIPTION | 12 ++--- iapws-0.11/iapws/MD5 | 47 ++++++++++++--------- iapws-0.11/iapws/R/checkArgs.R | 2 iapws-0.11/iapws/R/iapws95.R | 19 ++++---- iapws-0.11/iapws/R/if97.R | 19 ++++---- iapws-0.11/iapws/R/nroot.R |only iapws-0.11/iapws/man/iapws95.Rd | 33 +++++++++++++- iapws-0.11/iapws/man/iapws95_sat.Rd | 9 ++-- iapws-0.11/iapws/man/if97.Rd | 7 +-- iapws-0.11/iapws/man/if97_sat.Rd |only iapws-0.11/iapws/src/R_interface.c | 61 ++++++++++++++++++++------- iapws-0.11/iapws/src/cond.c | 2 iapws-0.11/iapws/src/dielec.c |only iapws-0.11/iapws/src/dielec.h |only iapws-0.11/iapws/src/iapws.c | 9 ---- iapws-0.11/iapws/src/iapws.h | 10 +--- iapws-0.11/iapws/src/iapws95.c | 56 +++++++++++++------------ iapws-0.11/iapws/src/iapws95.h | 1 iapws-0.11/iapws/src/if97.c | 19 ++++---- iapws-0.11/iapws/src/if97.h | 1 iapws-0.11/iapws/src/melt.c |only iapws-0.11/iapws/src/melt.h |only iapws-0.11/iapws/src/nroot.c | 80 +++++++++++++++++++++++++++--------- iapws-0.11/iapws/src/nroot.h | 16 +++++-- iapws-0.11/iapws/src/sat.c | 57 +++++-------------------- iapws-0.11/iapws/src/surf.c |only iapws-0.11/iapws/src/surf.h |only iapws-0.11/iapws/src/visc.c | 4 - 29 files changed, 272 insertions(+), 192 deletions(-)
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>). 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 mixed-model-equations-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 in sommer.
Author: Giovanny Covarrubias-Pazaran
Maintainer: Giovanny Covarrubias-Pazaran <cova_ruber@live.com.mx>
Diff between sommer versions 4.1.7 dated 2022-06-16 and 4.1.8 dated 2022-09-06
CHANGELOG | 3 DESCRIPTION | 10 - MD5 | 96 ++++++++-------- NAMESPACE | 2 R/FUN_algorithms.R | 10 - R/FUN_markers.R | 8 - R/FUN_relationships.R | 2 R/FUN_spatial_c.R | 4 R/FUN_special.R | 12 +- R/FUN_utils.R | 4 R/FUN_vsc.R | 18 +-- R/RcppExports.R | 4 R/mmec.R | 43 +++++-- R/mmer.R | 6 - R/predict_mmec.R | 78 ++++++++----- inst/doc/v1.sommer.quick.start.R | 2 inst/doc/v1.sommer.quick.start.Rmd | 2 inst/doc/v1.sommer.quick.start.pdf |binary inst/doc/v2.sommer.changes.and.faqs.Rmd | 2 inst/doc/v2.sommer.changes.and.faqs.pdf |binary inst/doc/v3.sommer.qg.Rmd | 2 inst/doc/v3.sommer.qg.pdf |binary inst/doc/v4.sommer.gxe.R | 88 +++++++++++++++ inst/doc/v4.sommer.gxe.Rmd | 99 +++++++++++++++++ inst/doc/v4.sommer.gxe.pdf |binary inst/doc/v5.sommer.vs.lme4.Rmd | 2 inst/doc/v5.sommer.vs.lme4.pdf |binary inst/doc/v6.sommer.spatial.Rmd | 2 inst/doc/v6.sommer.spatial.pdf |binary man/DT_h2.Rd | 1 man/mmec.Rd | 34 +++--- man/mmer.Rd | 23 ++-- man/predict_mmec.Rd | 27 ++-- man/sommer-package.Rd | 18 ++- man/vsc.Rd | 4 src/MNR.cpp | 34 +++--- src/RcppExports.cpp | 8 - vignettes/v1.sommer.quick.start.Rmd | 2 vignettes/v1.sommer.quick.start.html | 60 +++++----- vignettes/v2.sommer.changes.and.faqs.Rmd | 2 vignettes/v2.sommer.changes.and.faqs.html | 4 vignettes/v3.sommer.qg.Rmd | 2 vignettes/v3.sommer.qg.html | 40 +++---- vignettes/v4.sommer.gxe.Rmd | 99 +++++++++++++++++ vignettes/v4.sommer.gxe.html | 170 ++++++++++++++++++++++++------ vignettes/v5.sommer.vs.lme4.Rmd | 2 vignettes/v5.sommer.vs.lme4.html | 4 vignettes/v6.sommer.spatial.Rmd | 2 vignettes/v6.sommer.spatial.html | 4 49 files changed, 742 insertions(+), 297 deletions(-)