Title: Data Analysis Tools Customized for TNTP
Description: An assortment of functions and templates customized to meet
the needs of data analysts at the non-profit organization TNTP.
Includes functions for branded colors and plots, credentials management,
repository set-up, and other common analytic tasks.
Author: Dustin Pashouwer [aut, cre],
Sam Firke [aut],
Shane Orr [aut],
Sam Talcott [aut]
Maintainer: Dustin Pashouwer <dustin.pashouwer@tntp.org>
Diff between tntpr versions 1.0.2 dated 2024-03-21 and 1.0.3 dated 2024-05-28
DESCRIPTION | 6 +++--- MD5 | 8 ++++---- NEWS.md | 4 ++++ R/tntp_cred.R | 3 +++ inst/doc/visualization-cookbook.html | 12 ++++++------ 5 files changed, 20 insertions(+), 13 deletions(-)
Title: A Method to Download Department of Education College Scorecard
Data
Description: A method to download Department of Education College
Scorecard data using the public API
<https://collegescorecard.ed.gov/data/documentation/>. It is based on
the 'dplyr' model of piped commands to select and filter data in a
single chained function call. An API key from the U.S. Department of
Education is required.
Author: Benjamin Skinner [aut, cre]
Maintainer: Benjamin Skinner <bskinner@neh.gov>
Diff between rscorecard versions 0.26.0 dated 2023-04-28 and 0.28.1 dated 2024-05-28
rscorecard-0.26.0/rscorecard/man/reexports.Rd |only rscorecard-0.28.1/rscorecard/DESCRIPTION | 23 rscorecard-0.28.1/rscorecard/MD5 | 61 - rscorecard-0.28.1/rscorecard/NAMESPACE | 2 rscorecard-0.28.1/rscorecard/NEWS.md | 16 rscorecard-0.28.1/rscorecard/R/api_convert.R | 46 - rscorecard-0.28.1/rscorecard/R/api_key.R | 14 rscorecard-0.28.1/rscorecard/R/dictionary.R | 258 +++--- rscorecard-0.28.1/rscorecard/R/distance.R | 84 - rscorecard-0.28.1/rscorecard/R/filter.R | 152 +-- rscorecard-0.28.1/rscorecard/R/get.R | 357 ++++---- rscorecard-0.28.1/rscorecard/R/init.R | 14 rscorecard-0.28.1/rscorecard/R/rscorecard.R | 20 rscorecard-0.28.1/rscorecard/R/select.R | 150 +-- rscorecard-0.28.1/rscorecard/R/select_year.R | 32 rscorecard-0.28.1/rscorecard/R/sysdata.rda |binary rscorecard-0.28.1/rscorecard/R/utility_functions.R | 147 +-- rscorecard-0.28.1/rscorecard/man/rscorecard.Rd | 26 rscorecard-0.28.1/rscorecard/man/sc_filter.Rd | 10 rscorecard-0.28.1/rscorecard/man/sc_get.Rd | 4 rscorecard-0.28.1/rscorecard/man/sc_select.Rd | 8 rscorecard-0.28.1/rscorecard/man/sc_year.Rd | 2 rscorecard-0.28.1/rscorecard/man/sc_zip.Rd | 8 rscorecard-0.28.1/rscorecard/tests/testthat/test-base-pipe.R | 54 - rscorecard-0.28.1/rscorecard/tests/testthat/test-dictionary.R | 100 +- rscorecard-0.28.1/rscorecard/tests/testthat/test-distance.R | 74 - rscorecard-0.28.1/rscorecard/tests/testthat/test-filter.R | 170 ++-- rscorecard-0.28.1/rscorecard/tests/testthat/test-get.R | 106 +- rscorecard-0.28.1/rscorecard/tests/testthat/test-init.R | 82 - rscorecard-0.28.1/rscorecard/tests/testthat/test-regex.R | 422 +++++----- rscorecard-0.28.1/rscorecard/tests/testthat/test-select.R | 128 +-- rscorecard-0.28.1/rscorecard/tests/testthat/test-year.R | 54 - 32 files changed, 1329 insertions(+), 1295 deletions(-)
Title: Simulating Nonhomogeneous Poisson Point Processes
Description: Simulates events from one dimensional nonhomogeneous Poisson point processes (NHPPPs) as per Trikalinos and Sereda (2024, <doi:10.48550/arXiv.2402.00358>). Functions are based on three algorithms that provably sample from a target NHPPP: the time-transformation of a homogeneous Poisson process (of intensity one) via the inverse of the integrated intensity function (Cinlar E, "Theory of stochastic processes" (1975, ISBN:0486497996)); the generation of a Poisson number of order statistics from a fixed density function; and the thinning of a majorizing NHPPP via an acceptance-rejection scheme (Lewis PAW, Shedler, GS (1979) <doi:10.1002/nav.3800260304>).
Author: Thomas Trikalinos [aut, cre, cph]
,
Yuliia Sereda [aut]
Maintainer: Thomas Trikalinos <thomas_trikalinos@brown.edu>
Diff between nhppp versions 0.1.3 dated 2024-02-02 and 0.1.4 dated 2024-05-28
DESCRIPTION | 21 +- MD5 | 120 +++++++++---- NAMESPACE | 14 + NEWS.md | 11 + R/RcppExports.R |only R/draw_sc_step_regular.R | 2 R/get_step_majorizer.R |only R/matrix_cumsum_columns.R |only R/matrix_cumsum_columns_inplace.R |only R/matrix_diff_columns.R |only R/matrix_diff_columns_inplace.R |only R/nhppp-package.R | 2 R/utils-helper.R | 56 ++++-- R/utils-linear.R | 48 ++--- R/utils-rngstream.R | 20 ++ R/utils-vectorized.R | 81 ++++++++ R/vdraw.R |only R/vdraw_intensity_step_regular.R |only R/vdraw_intensity_step_regular_R.R |only R/vdraw_intensity_step_regular_cpp.R |only R/vdraw_sc_step_regular.R | 90 ++++----- R/vdraw_sc_step_regular_R.R |only R/vdraw_sc_step_regular_cpp.R |only R/vztdraw_intensity_step_regular.R |only R/vztdraw_intensity_step_regular_R.R |only R/vztdraw_sc_step_regular.R |only R/vztdraw_sc_step_regular_R.R |only R/vztdraw_sc_step_regular_cpp.R |only README.md | 17 + man/check_ppp_sample_validity.Rd | 4 man/check_ppp_vector_validity.Rd |only man/figures/logo.png |only man/get_step_majorizer.Rd | 13 - man/make_cumulative_Lambda_matrix.Rd |only man/make_lambda_matrix.Rd |only man/make_range_t_matrix.Rd |only man/mat_diff_columns.Rd |only man/nhppp-package.Rd | 8 man/rztpois.Rd |only man/vdraw.Rd |only man/vdraw_intensity_step_regular.Rd |only man/vdraw_intensity_step_regular_R.Rd |only man/vdraw_intensity_step_regular_cpp.Rd |only man/vdraw_sc_step_regular.Rd | 10 - man/vdraw_sc_step_regular_R.Rd |only man/vdraw_sc_step_regular_cpp.Rd |only man/vztdraw_intensity_step_regular.Rd |only man/vztdraw_intensity_step_regular_R.Rd |only man/vztdraw_sc_step_regular.Rd |only man/vztdraw_sc_step_regular_R.Rd |only man/vztdraw_sc_step_regular_cpp.Rd |only src |only tests/testthat/test-draw.R | 2 tests/testthat/test-draw_cumulative_intensity_orderstats.R | 1 tests/testthat/test-draw_intensity.R | 2 tests/testthat/test-draw_intensity_step.R | 1 tests/testthat/test-draw_sc_step.R | 1 tests/testthat/test-draw_sc_step_regular.R | 30 +-- tests/testthat/test-get_step_majorizer.R |only tests/testthat/test-matrix_cumsum_columns.R |only tests/testthat/test-matrix_diff_columns.R |only tests/testthat/test-ppp_agreement.R | 43 ++++ tests/testthat/test-utils-linear.R | 11 - tests/testthat/test-utils-rng_stream.R | 17 + tests/testthat/test-vdraw_intensity_step_regular_R.R |only tests/testthat/test-vdraw_intensity_step_regular_cpp.R |only tests/testthat/test-vdraw_sc_step_regular.R | 62 ++++-- tests/testthat/test-vdraw_sc_step_regular_cpp.R |only tests/testthat/test-vztdraw_intensity_step_regular_R.R |only tests/testthat/test-vztdraw_sc_step_regular_R.R |only tests/testthat/test-vztdraw_sc_step_regular_cpp.R |only tests/testthat/test-ztdraw_cumulative_intensity.R | 1 tests/testthat/test-ztdraw_intensity.R | 1 tests/testthat/test-ztdraw_intensity_step.R | 1 tests/testthat/test-ztnhppp_agreement.R | 44 ++++ tests/testthat/test-ztppp.R | 7 76 files changed, 547 insertions(+), 194 deletions(-)
Title: Multi- And Mixed-Precision Computations
Description: Designed for multi- and mixed-precision computations, accommodating 64-bit and 32-bit data structures. This flexibility enables fast execution across various applications. The package enhances performance by optimizing operations in both precision levels, which is achieved by integrating with high-speed 'BLAS' and 'LAPACK' libraries like 'MKL' and 'OpenBLAS'. Including a 32-bit option caters to applications where high precision is unnecessary, accelerating computational processes whenever feasible. The package also provides support for tile-based algorithms in three linear algebra operations: CHOL(), TRSM(), and GEMM(). The tile-based algorithm splits the matrix into smaller tiles, facilitating parallelization through a predefined Directed Acyclic Graph (DAG) for each operation. Enabling 'OpenMP' enhances the efficiency of these operations, leveraging multi-core parallelism. In this case, 'MPCR' facilitates mixed-precision execution by permitting varying precision levels for different [...truncated...]
Author: David Helmy [aut],
Sameh Abdulah [cre],
KAUST King Abdullah University of Science and Technology [fnd, cph]
Maintainer: Sameh Abdulah <sameh.abdulah@kaust.edu.sa>
Diff between MPCR versions 1.1.1 dated 2024-05-21 and 1.1.2 dated 2024-05-28
DESCRIPTION | 8 ++-- MD5 | 18 ++++----- configure | 3 + inst/doc/MCPR.pdf |binary src/cmake/CheckInstall.cmake | 43 ++++++++++++++++++++++- src/cmake/DetectToolchain.cmake | 72 +++++++++++++++++++++++++++++++++++++++ src/cmake/toolchains/clang.cmake | 6 ++- src/cmake/toolchains/gnu.cmake | 7 ++- src/cmake/toolchains/intel.cmake | 5 +- src/symbols.rds |binary 10 files changed, 140 insertions(+), 22 deletions(-)
Title: Fast Pseudo Random Number Generators
Description: Several fast random number generators are provided as C++
header only libraries: The PCG family by O'Neill (2014
<https://www.cs.hmc.edu/tr/hmc-cs-2014-0905.pdf>) as well as
the Xoroshiro / Xoshiro family by Blackman and Vigna (2021
<doi:10.1145/3460772>). In addition fast functions for generating random
numbers according to a uniform, normal and exponential distribution
are included. The latter two use the Ziggurat algorithm originally
proposed by Marsaglia and Tsang (2000, <doi:10.18637/jss.v005.i08>).
The fast sampling methods support unweighted sampling both with and without
replacement. These functions are exported to R and as a C++ interface and are
enabled for use with the default 64 bit generator from the PCG family,
Xoroshiro128+/++/** and Xoshiro256+/++/** as well as the 64 bit version of the
20 rounds Threefry engine (Salmon et al., 2011, <doi:10.1145/2063384.2063405>)
as provided by the package 'sitmo'.
Author: Ralf Stubner [aut, cre] ,
daqana GmbH [cph],
David Blackman [cph] ,
Melissa O'Neill [cph] ,
Sebastiano Vigna [cph] ,
Aaron Lun [ctb],
Kyle Butts [ctb],
Henrik Sloot [ctb],
Philippe Grosjean [ctb]
Maintainer: Ralf Stubner <ralf.stubner@gmail.com>
Diff between dqrng versions 0.4.0 dated 2024-05-15 and 0.4.1 dated 2024-05-28
DESCRIPTION | 12 ++++----- MD5 | 38 ++++++++++++++++--------------- NEWS.md | 6 ++++ R/dqrmv.R | 2 - README.md | 4 ++- inst/doc/cpp-api.html | 6 ++-- inst/doc/dqrng.html | 30 ++++++++++++------------ inst/doc/parallel.html | 6 ++-- inst/doc/sample.html | 6 ++-- inst/include/dqrng_generator.h | 4 ++- inst/include/pcg_random.hpp | 2 - inst/include/xoshiro.h | 7 +++-- man/dqrmv.Rd | 2 + man/dqrng-package.Rd | 2 - src/dqrng.cpp | 6 +++- tests/testthat/helper.R |only tests/testthat/test-convert.R | 9 ------- tests/testthat/test-external-generator.R | 1 tests/testthat/test-generators.R | 4 +++ tests/testthat/test-rmv.R | 2 + vignettes/bibliography.bib |only 21 files changed, 82 insertions(+), 67 deletions(-)
Title: Detection of Multiple Changes in Slope in Univariate Time-Series
Description: Detects multiple changes in slope using the CPOP dynamic programming approach of Fearnhead, Maidstone, and Letchford (2019) <doi:10.1080/10618600.2018.1512868>. This method finds the best continuous piecewise linear fit to data under a criterion that measures fit to data using the residual sum of squares, but penalizes complexity based on an L0 penalty on changes in slope. Further information regarding the use of this package with detailed examples can be found in Fearnhead and Grose (2024) <doi:10.18637/jss.v109.i07>.
Author: Daniel Grose [aut, cre],
Paul Fearnhead [aut]
Maintainer: Daniel Grose <dan.grose@lancaster.ac.uk>
Diff between cpop versions 1.0.6 dated 2022-11-21 and 1.0.7 dated 2024-05-28
cpop-1.0.6/cpop/build/vignette.rds |only cpop-1.0.6/cpop/inst/doc |only cpop-1.0.6/cpop/src/Makevars |only cpop-1.0.6/cpop/src/Makevars.win |only cpop-1.0.6/cpop/vignettes |only cpop-1.0.7/cpop/DESCRIPTION | 15 ++--- cpop-1.0.7/cpop/MD5 | 60 ++++++++--------------- cpop-1.0.7/cpop/NAMESPACE | 1 cpop-1.0.7/cpop/NEWS.md | 7 ++ cpop-1.0.7/cpop/R/cpop.R | 25 ++++++++- cpop-1.0.7/cpop/R/cpop.crops.R | 4 + cpop-1.0.7/cpop/build/cpop.pdf |binary cpop-1.0.7/cpop/build/partial.rdb |binary cpop-1.0.7/cpop/build/stage23.rdb |only cpop-1.0.7/cpop/inst/CITATION |only cpop-1.0.7/cpop/inst/REFERENCES.bib | 12 ++++ cpop-1.0.7/cpop/man/changepoints-methods.Rd | 3 + cpop-1.0.7/cpop/man/cost-methods.Rd | 3 + cpop-1.0.7/cpop/man/cpop.Rd | 2 cpop-1.0.7/cpop/man/cpop.crops-methods.Rd | 2 cpop-1.0.7/cpop/man/cpop.crops.models-methods.Rd | 2 cpop-1.0.7/cpop/man/estimate-methods.Rd | 3 + cpop-1.0.7/cpop/man/fitted-methods.Rd | 4 + cpop-1.0.7/cpop/man/plot-methods.Rd | 3 + cpop-1.0.7/cpop/man/residuals-methods.Rd | 3 + cpop-1.0.7/cpop/man/show-methods.Rd | 3 + cpop-1.0.7/cpop/man/simchangeslope.Rd | 3 + cpop-1.0.7/cpop/man/summary-methods.Rd | 4 + 28 files changed, 109 insertions(+), 50 deletions(-)
Title: Download and Load Various Text Datasets
Description: Provides a framework to download, parse, and store text
datasets on the disk and load them when needed. Includes various
sentiment lexicons and labeled text data sets for classification and
analysis.
Author: Emil Hvitfeldt [aut, cre] ,
Julia Silge [ctb]
Maintainer: Emil Hvitfeldt <emilhhvitfeldt@gmail.com>
Diff between textdata versions 0.4.4 dated 2022-09-02 and 0.4.5 dated 2024-05-28
DESCRIPTION | 11 +-- MD5 | 26 ++++---- NEWS.md | 4 + R/lexicon_afinn.R | 4 - R/lexicon_nrc_vad.R | 10 --- build/vignette.rds |binary inst/doc/How-to-add-a-data-set.R | 2 inst/doc/How-to-add-a-data-set.html | 117 +++++++++++++++++------------------- man/lexicon_afinn.Rd | 8 +- man/lexicon_bing.Rd | 4 - man/lexicon_loughran.Rd | 4 - man/lexicon_nrc_eil.Rd | 4 - man/lexicon_nrc_vad.Rd | 4 - man/textdata-package.Rd | 1 14 files changed, 100 insertions(+), 99 deletions(-)
Title: Nonlinear Mixed Effects Models in Population PK/PD, Estimation
Routines
Description: Fit and compare nonlinear mixed-effects models in
differential equations with flexible dosing information commonly seen
in pharmacokinetics and pharmacodynamics (Almquist, Leander, and
Jirstrand 2015 <doi:10.1007/s10928-015-9409-1>). Differential equation
solving is by compiled C code provided in the 'rxode2' package (Wang,
Hallow, and James 2015 <doi:10.1002/psp4.12052>).
Author: Matthew Fidler [aut, cre] ,
Yuan Xiong [aut],
Rik Schoemaker [aut] ,
Justin Wilkins [aut] ,
Wenping Wang [aut],
Robert Leary [ctb],
Mason McComb [ctb] ,
Vipul Mann [aut],
Mirjam Trame [ctb],
Mahmoud Abdelwahab [ctb],
Teun Post [ctb],
Richard Hooijmai [...truncated...]
Maintainer: Matthew Fidler <matthew.fidler@gmail.com>
Diff between nlmixr2est versions 2.2.1 dated 2024-01-31 and 2.2.2 dated 2024-05-28
DESCRIPTION | 14 +-- MD5 | 104 ++++++++++++++----------- NAMESPACE | 10 ++ NEWS.md | 49 +++++++++++ R/RcppExports.R | 24 +++++ R/bobyqa.R | 10 +- R/focei.R | 68 ++++++++++------ R/foceiControl.R | 22 ++++- R/lbfgsb3c.R | 8 + R/n1qn1.R | 8 + R/newuoa.R | 8 + R/nlm.R | 12 +- R/nlme.R | 14 +-- R/nlminb.R | 9 +- R/nlmixr2.R | 68 +++++++++++++--- R/nlmixr2Est.R | 93 ++++++++++++++-------- R/nlmixr2_md5.R | 2 R/nlmixr2output.R | 128 +++++++++++++++++++++++++++---- R/nls.R | 12 +- R/optim.R | 8 + R/poped.R |only R/preProcessModel.R | 18 +++- R/rxsolve.R | 62 +++++++++++++-- R/saem.R | 33 +++++-- R/saemControl.R | 12 ++ R/saemRxUiGet.R | 2 R/saem_fit.R | 35 ++++++-- R/sharedControl.R | 7 + R/uninformativeEtas.R |only R/uobyqa.R | 8 + R/utils.R | 2 man/bobyqaControl.Rd | 5 + man/dot-popedFree.Rd |only man/dot-popedSetup.Rd |only man/dot-popedSolveIdME.Rd |only man/dot-popedSolveIdN.Rd |only man/foceiControl.Rd | 15 +++ man/getValidNlmixrControl.Rd | 3 man/lbfgsb3cControl.Rd | 5 + man/n1qn1Control.Rd | 5 + man/newuoaControl.Rd | 5 + man/nlmControl.Rd | 5 + man/nlminbControl.Rd | 5 + man/nlmixr2NlmeControl.Rd | 6 + man/nlsControl.Rd | 5 + man/optimControl.Rd | 5 + man/saemControl.Rd | 10 ++ man/uobyqaControl.Rd | 5 + src/Makevars.in | 2 src/RcppExports.cpp | 84 ++++++++++++++++++++ src/init.c | 21 +++++ src/poped.cpp |only src/saem.cpp | 19 +++- src/uninformativeEtas.cpp |only tests/testthat/test-fix-cov.R | 10 -- tests/testthat/test-inpar-saem.R |only tests/testthat/test-predict.R |only tests/testthat/test-uninformative-etas.R |only tests/testthat/test-warfarin.R |only 59 files changed, 846 insertions(+), 219 deletions(-)
More information about outliers.ts.oga at CRAN
Permanent link
Title: Import, Manipulate and Explore the Results of an 'Antares'
Simulation
Description: Import, manipulate and explore results generated by 'Antares', a
powerful open source software developed by RTE (Réseau de Transport d’Électricité) to simulate and study electric power systems
(more information about 'Antares' here : <https://antares-simulator.org/>).
Author: Tatiana Vargas [aut, cre],
Jalal-Edine ZAWAM [aut],
Frederic Breant [ctb],
Francois Guillem [aut],
Benoit Thieurmel [aut],
Titouan Robert [aut],
Victor Perrier [ctb],
Etienne Sanchez [ctb],
Assil Mansouri [ctb],
Clement Berthet [ctb],
Kamel Kemiha [c [...truncated...]
Maintainer: Tatiana Vargas <tatiana.vargas@rte-france.com>
Diff between antaresRead versions 2.6.1 dated 2024-04-22 and 2.7.0 dated 2024-05-28
antaresRead-2.6.1/antaresRead/inst/test_v8/test_case_study_v86.tar.gz |only antaresRead-2.6.1/antaresRead/tests/testthat/test-bindingConstraints.R |only antaresRead-2.7.0/antaresRead/DESCRIPTION | 8 antaresRead-2.7.0/antaresRead/MD5 | 45 antaresRead-2.7.0/antaresRead/NAMESPACE | 1 antaresRead-2.7.0/antaresRead/NEWS.md | 32 antaresRead-2.7.0/antaresRead/R/API-methods.R | 27 antaresRead-2.7.0/antaresRead/R/antaresRead-package.R |only antaresRead-2.7.0/antaresRead/R/readBindingConstraints.R | 320 +++++- antaresRead-2.7.0/antaresRead/R/readIniFile.R | 13 antaresRead-2.7.0/antaresRead/R/utils_api.R | 8 antaresRead-2.7.0/antaresRead/inst/doc/antaresH5.html | 406 ++++++- antaresRead-2.7.0/antaresRead/inst/doc/antaresRead.html | 511 +++++++--- antaresRead-2.7.0/antaresRead/inst/test_empty_study |only antaresRead-2.7.0/antaresRead/inst/test_v8/test_case_study_v870.tar.gz |only antaresRead-2.7.0/antaresRead/man/API-methods.Rd | 10 antaresRead-2.7.0/antaresRead/man/antaresRead-package.Rd |only antaresRead-2.7.0/antaresRead/man/figures/lifecycle-archived.svg |only antaresRead-2.7.0/antaresRead/man/figures/lifecycle-defunct.svg |only antaresRead-2.7.0/antaresRead/man/figures/lifecycle-deprecated.svg |only antaresRead-2.7.0/antaresRead/man/figures/lifecycle-experimental.svg |only antaresRead-2.7.0/antaresRead/man/figures/lifecycle-maturing.svg |only antaresRead-2.7.0/antaresRead/man/figures/lifecycle-questioning.svg |only antaresRead-2.7.0/antaresRead/man/figures/lifecycle-stable.svg |only antaresRead-2.7.0/antaresRead/man/figures/lifecycle-superseded.svg |only antaresRead-2.7.0/antaresRead/man/readBindingConstraints.Rd | 63 - antaresRead-2.7.0/antaresRead/man/summary.bindingConstraints.Rd |only antaresRead-2.7.0/antaresRead/tests/testthat/helper_init.R | 25 antaresRead-2.7.0/antaresRead/tests/testthat/test-readBindingConstraints.R |only antaresRead-2.7.0/antaresRead/tests/testthat/test-readClusterDesc.R | 28 antaresRead-2.7.0/antaresRead/tests/testthat/test-readIni.R |only antaresRead-2.7.0/antaresRead/tests/testthat/test-readInputTS.R | 10 32 files changed, 1160 insertions(+), 347 deletions(-)
Title: Targeted Maximum Likelihood Estimation
Description: Targeted maximum likelihood estimation of point treatment effects (Targeted Maximum Likelihood Learning, The International Journal of Biostatistics, 2(1), 2006. This version automatically estimates the additive treatment effect among the treated (ATT) and among the controls (ATC). The tmle() function calculates the adjusted marginal difference in mean outcome associated with a binary point treatment, for continuous or binary outcomes. Relative risk and odds ratio estimates are also reported for binary outcomes. Missingness in the outcome is allowed, but not in treatment assignment or baseline covariate values. The population mean is calculated when there is missingness, and no variation in the treatment assignment. The tmleMSM() function estimates the parameters of a marginal structural model for a binary point treatment effect. Effect estimation stratified by a binary mediating variable is also available. An ID argument can be used to identify repeated measures. Default settings c [...truncated...]
Author: Susan Gruber [aut, cre],
Mark van der Laan [aut],
Chris Kennedy [ctr]
Maintainer: Susan Gruber <sgruber@cal.berkeley.edu>
Diff between tmle versions 2.0.1 dated 2024-05-02 and 2.0.1.1 dated 2024-05-28
DESCRIPTION | 8 ++++---- MD5 | 8 ++++---- NEWS | 4 ++++ R/tmle.R | 8 ++++---- R/zzz.R | 2 +- 5 files changed, 17 insertions(+), 13 deletions(-)
Title: Integration Unit Tests for Pharmacoepidemiological Studies
Description: Push a sample population for unit testing on data mapped to the Observational Medical Outcomes Partnership (OMOP) Common Data Model.
Author: Cesar Barboza [cre, aut] ,
Ger Inberg [aut] ,
Adam Black [aut]
Maintainer: Cesar Barboza <c.barboza@darwin-eu.org>
Diff between TestGenerator versions 0.2.5 dated 2024-02-01 and 0.3.1 dated 2024-05-28
TestGenerator-0.2.5/TestGenerator/build |only TestGenerator-0.2.5/TestGenerator/inst/doc |only TestGenerator-0.2.5/TestGenerator/inst/testCases |only TestGenerator-0.2.5/TestGenerator/vignettes |only TestGenerator-0.3.1/TestGenerator/DESCRIPTION | 21 TestGenerator-0.3.1/TestGenerator/MD5 | 60 + TestGenerator-0.3.1/TestGenerator/NAMESPACE | 14 TestGenerator-0.3.1/TestGenerator/NEWS.md | 14 TestGenerator-0.3.1/TestGenerator/R/download.R |only TestGenerator-0.3.1/TestGenerator/R/globals.R | 6 TestGenerator-0.3.1/TestGenerator/R/patients.R | 324 ++++++++-- TestGenerator-0.3.1/TestGenerator/R/utilsCdm.R | 1 TestGenerator-0.3.1/TestGenerator/R/visualisations.R |only TestGenerator-0.3.1/TestGenerator/README.md | 211 ++++-- TestGenerator-0.3.1/TestGenerator/inst/extdata/icu_sample_population.xlsx |only TestGenerator-0.3.1/TestGenerator/inst/extdata/mimic_sample |only TestGenerator-0.3.1/TestGenerator/inst/extdata/test_cohorts |only TestGenerator-0.3.1/TestGenerator/man/downloadTestData.Rd |only TestGenerator-0.3.1/TestGenerator/man/figures |only TestGenerator-0.3.1/TestGenerator/man/graphCohort.Rd |only TestGenerator-0.3.1/TestGenerator/man/patientsCDM.Rd | 4 TestGenerator-0.3.1/TestGenerator/man/readPatients.Rd | 13 TestGenerator-0.3.1/TestGenerator/man/readPatients.csv.Rd |only TestGenerator-0.3.1/TestGenerator/man/readPatients.xl.Rd |only TestGenerator-0.3.1/TestGenerator/tests/testthat.R | 24 TestGenerator-0.3.1/TestGenerator/tests/testthat/icu_sample_population.xlsx |only TestGenerator-0.3.1/TestGenerator/tests/testthat/mimic_sample |only TestGenerator-0.3.1/TestGenerator/tests/testthat/test-patients.R | 106 +++ TestGenerator-0.3.1/TestGenerator/tests/testthat/test-utilsCdm.R | 1 TestGenerator-0.3.1/TestGenerator/tests/testthat/test-visualisations.R |only TestGenerator-0.3.1/TestGenerator/tests/testthat/testCases |only 31 files changed, 621 insertions(+), 178 deletions(-)
Title: NHDPlus Tools
Description: Tools for traversing and working with National Hydrography Dataset Plus (NHDPlus) data. All methods implemented in 'nhdplusTools' are available in the NHDPlus documentation available from the US Environmental Protection Agency <https://www.epa.gov/waterdata/basic-information>.
Author: David Blodgett [aut, cre] ,
Mike Johnson [aut] ,
Marc Weber [ctb] ,
Josh Erickson [ctb],
Lauren Koenig [ctb]
Maintainer: David Blodgett <dblodgett@usgs.gov>
Diff between nhdplusTools versions 1.1.0 dated 2024-05-14 and 1.2.0 dated 2024-05-28
DESCRIPTION | 6 MD5 | 38 - NAMESPACE | 2 NEWS.md | 9 R/A_nhdplusTools.R | 1008 ++++++++++++++++++------------------ R/arcrest_tools.R | 438 +++++++-------- R/get_geoconnex.R |only R/get_network.R | 836 ++++++++++++++--------------- build/vignette.rds |binary inst/doc/get_3dhp_data.R | 1 inst/doc/get_3dhp_data.Rmd | 1 inst/doc/get_data_overview.R |only inst/doc/get_data_overview.Rmd |only inst/doc/get_data_overview.html |only inst/doc/nhdplushr.html | 32 - inst/doc/plot_nhdplus.R | 1 inst/doc/plot_nhdplus.Rmd | 501 ++++++++--------- man/discover_geoconnex_reference.Rd |only man/get_geoconnex_reference.Rd |only tests/testthat/test_geoconnex.R |only tests/testthat/test_get_3dhp.R | 2 vignettes/get_3dhp_data.Rmd | 1 vignettes/get_data_overview.Rmd |only vignettes/plot_nhdplus.Rmd | 501 ++++++++--------- 24 files changed, 1700 insertions(+), 1677 deletions(-)
Title: Functions for Tidy Analysis and Generation of Random Data
Description: To make it easy to generate random numbers based upon the underlying stats
distribution functions. All data is returned in a tidy and structured
format making working with the data simple and straight forward. Given that the
data is returned in a tidy 'tibble' it lends itself to working with the rest of the
'tidyverse'.
Author: Steven Sanderson [aut, cre, cph]
Maintainer: Steven Sanderson <spsanderson@gmail.com>
Diff between TidyDensity versions 1.4.0 dated 2024-04-26 and 1.5.0 dated 2024-05-28
DESCRIPTION | 6 MD5 | 252 +++++++----- NAMESPACE | 39 + NEWS.md | 57 ++ R/est-param-f.R |only R/est-param-gen-beta.R |only R/est-param-gen-pareto.R |only R/est-param-inv-burr.R |only R/est-param-inv-pareto.R |only R/est-param-inv-weibull.R |only R/est-param-negative-binomial.R | 54 +- R/est-param-paralogistic.R |only R/est-param-pareto1.R |only R/est-param-t.R |only R/est-param-zt-binom.R |only R/est-param-zt-geometric.R |only R/est-param-ztn-binmoial.R |only R/est-param-ztpois.R |only R/random-tidy-paralogistic.R | 4 R/stats-gen-beta-tbl.R |only R/stats-gen-pareto-tbl.R |only R/stats-inv-burr-tbl.R |only R/stats-inv-pareto-tbl.R |only R/stats-inv-weibull-tbl.R |only R/stats-paarlogistic-tbl.R |only R/stats-pareto1-tbl.R |only R/stats-zt-binomial-tbl.R |only R/stats-zt-geometric-tbl.R |only R/stats-ztn-binomial-tbl.R |only R/stats-ztpoisson-tbl.R |only R/utils-aic-f.R |only R/utils-aic-gen-beta.R |only R/utils-aic-gen-pareto.R |only R/utils-aic-inv-burr.R |only R/utils-aic-inv-pareto.R |only R/utils-aic-inv-weibull.R |only R/utils-aic-negative-binomial.R |only R/utils-aic-paralogistic.R |only R/utils-aic-t.R |only R/utils-aic-triangular.R |only R/utils-aic-zt-binom.R |only R/utils-aic-zt-geometric.R |only R/utils-aic-ztn-binomial.R |only R/utils-aic-ztpoisson.R |only R/utils-quantile-normalize.R | 24 - R/utis-aic-pareto1.R |only README.md | 24 - inst/doc/getting-started.html | 38 - man/check_duplicate_rows.Rd | 17 man/convert_to_ts.Rd | 17 man/figures/README-more_than_nine_simulations-1.png |binary man/figures/README-more_than_nine_simulations-2.png |binary man/figures/README-more_than_nine_simulations-3.png |binary man/figures/README-more_than_nine_simulations-4.png |binary man/figures/README-plot_density-1.png |binary man/figures/README-plot_density-2.png |binary man/figures/README-plot_density-3.png |binary man/figures/README-plot_density-4.png |binary man/quantile_normalize.Rd | 21 - man/tidy_binomial.Rd | 6 man/tidy_f.Rd | 1 man/tidy_generalized_pareto.Rd | 3 man/tidy_inverse_pareto.Rd | 3 man/tidy_mcmc_sampling.Rd | 17 man/tidy_negative_binomial.Rd | 6 man/tidy_pareto.Rd | 3 man/tidy_pareto1.Rd | 3 man/tidy_poisson.Rd | 4 man/tidy_zero_truncated_binomial.Rd | 9 man/tidy_zero_truncated_geometric.Rd | 3 man/tidy_zero_truncated_negative_binomial.Rd | 9 man/tidy_zero_truncated_poisson.Rd | 7 man/util_bernoulli_param_estimate.Rd | 15 man/util_bernoulli_stats_tbl.Rd | 13 man/util_beta_aic.Rd | 17 man/util_beta_param_estimate.Rd | 15 man/util_beta_stats_tbl.Rd | 13 man/util_binomial_aic.Rd | 17 man/util_binomial_param_estimate.Rd | 21 - man/util_binomial_stats_tbl.Rd | 19 man/util_burr_param_estimate.Rd | 15 man/util_burr_stats_tbl.Rd | 13 man/util_cauchy_aic.Rd | 17 man/util_cauchy_param_estimate.Rd | 15 man/util_cauchy_stats_tbl.Rd | 13 man/util_chisq_aic.Rd | 17 man/util_chisquare_param_estimate.Rd | 15 man/util_chisquare_stats_tbl.Rd | 13 man/util_exponential_aic.Rd | 17 man/util_exponential_param_estimate.Rd | 15 man/util_exponential_stats_tbl.Rd | 13 man/util_f_aic.Rd |only man/util_f_param_estimate.Rd |only man/util_f_stats_tbl.Rd | 16 man/util_gamma_aic.Rd | 17 man/util_gamma_param_estimate.Rd | 15 man/util_gamma_stats_tbl.Rd | 13 man/util_generalized_beta_aic.Rd |only man/util_generalized_beta_param_estimate.Rd |only man/util_generalized_beta_stats_tbl.Rd |only man/util_generalized_pareto_aic.Rd |only man/util_generalized_pareto_param_estimate.Rd |only man/util_generalized_pareto_stats_tbl.Rd |only man/util_geometric_aic.Rd | 17 man/util_geometric_param_estimate.Rd | 15 man/util_geometric_stats_tbl.Rd | 13 man/util_hypergeometric_aic.Rd | 17 man/util_hypergeometric_param_estimate.Rd | 15 man/util_hypergeometric_stats_tbl.Rd | 13 man/util_inverse_burr_aic.Rd |only man/util_inverse_burr_param_estimate.Rd |only man/util_inverse_burr_stats_tbl.Rd |only man/util_inverse_pareto_aic.Rd |only man/util_inverse_pareto_param_estimate.Rd |only man/util_inverse_pareto_stats_tbl.Rd |only man/util_inverse_weibull_aic.Rd |only man/util_inverse_weibull_param_estimate.Rd |only man/util_inverse_weibull_stats_tbl.Rd |only man/util_logistic_aic.Rd | 17 man/util_logistic_param_estimate.Rd | 15 man/util_logistic_stats_tbl.Rd | 13 man/util_lognormal_aic.Rd | 17 man/util_lognormal_param_estimate.Rd | 15 man/util_lognormal_stats_tbl.Rd | 13 man/util_negative_binomial_aic.Rd |only man/util_negative_binomial_param_estimate.Rd | 32 + man/util_negative_binomial_stats_tbl.Rd | 16 man/util_normal_aic.Rd | 17 man/util_normal_param_estimate.Rd | 15 man/util_normal_stats_tbl.Rd | 13 man/util_paralogistic_aic.Rd |only man/util_paralogistic_param_estimate.Rd |only man/util_paralogistic_stats_tbl.Rd |only man/util_pareto1_aic.Rd |only man/util_pareto1_param_estimate.Rd |only man/util_pareto1_stats_tbl.Rd |only man/util_pareto_aic.Rd | 17 man/util_pareto_param_estimate.Rd | 18 man/util_pareto_stats_tbl.Rd | 16 man/util_poisson_aic.Rd | 17 man/util_poisson_param_estimate.Rd | 19 man/util_poisson_stats_tbl.Rd | 17 man/util_t_aic.Rd |only man/util_t_param_estimate.Rd |only man/util_t_stats_tbl.Rd | 13 man/util_triangular_aic.Rd |only man/util_triangular_param_estimate.Rd | 15 man/util_triangular_stats_tbl.Rd | 13 man/util_uniform_aic.Rd | 17 man/util_uniform_param_estimate.Rd | 15 man/util_uniform_stats_tbl.Rd | 13 man/util_weibull_aic.Rd | 17 man/util_weibull_param_estimate.Rd | 15 man/util_weibull_stats_tbl.Rd | 13 man/util_zero_truncated_binomial_aic.Rd |only man/util_zero_truncated_binomial_param_estimate.Rd |only man/util_zero_truncated_binomial_stats_tbl.Rd |only man/util_zero_truncated_geometric_aic.Rd |only man/util_zero_truncated_geometric_param_estimate.Rd |only man/util_zero_truncated_geometric_stats_tbl.Rd |only man/util_zero_truncated_negative_binomial_aic.Rd |only man/util_zero_truncated_negative_binomial_param_estimate.Rd |only man/util_zero_truncated_negative_binomial_stats_tbl.Rd |only man/util_zero_truncated_poisson_aic.Rd |only man/util_zero_truncated_poisson_param_estimate.Rd |only man/util_zero_truncated_poisson_stats_tbl.Rd |only 166 files changed, 1257 insertions(+), 232 deletions(-)
More information about touRnamentofchampions at CRAN
Permanent link
More information about npDoseResponse at CRAN
Permanent link
Title: Example Data Sets for Use with Discrete Statistical Tests
Description: Provides several data sets for use with discrete statistical tests
and discrete multiple testing procedures. Some of them are also available as a
four-column version, so that each row represents a 2x2 table.
Author: Christina Kihn [aut],
Sebastian Doehler [aut],
Florian Junge [cre, aut]
Maintainer: Florian Junge <diso.fbmn@h-da.de>
Diff between DiscreteDatasets versions 0.1.0 dated 2024-03-05 and 0.1.1 dated 2024-05-28
DESCRIPTION | 8 ++++---- MD5 | 18 +++++++++--------- NEWS.md | 7 ++++++- R/airway.R | 12 ++++++------ R/amnesia.R | 14 +++++++------- R/listerdata.R | 10 +++++----- build/partial.rdb |binary man/airway.Rd | 12 ++++++------ man/amnesia.Rd | 14 +++++++------- man/listerdata.Rd | 10 +++++----- 10 files changed, 55 insertions(+), 50 deletions(-)
More information about DiscreteDatasets at CRAN
Permanent link
Title: An Implementation of Z-Curves
Description: An implementation of z-curves - a method for estimating expected discovery
and replicability rates on the bases of test-statistics of published studies. The package
provides functions for fitting the new density and EM version
(Bartoš & Schimmack, 2020, <doi:10.31234/osf.io/urgtn>), censored observations,
as well as the original density z-curve (Brunner & Schimmack, 2020, <doi:10.15626/MP.2018.874>).
Furthermore, the package provides summarizing and plotting functions for the fitted z-curve objects.
See the aforementioned articles for more information about the z-curves, expected discovery
and replicability rates, validation studies, and limitations.
Author: Frantisek Bartos [aut, cre],
Ulrich Schimmack [aut]
Maintainer: Frantisek Bartos <f.bartos96@gmail.com>
Diff between zcurve versions 2.4.1 dated 2024-05-23 and 2.4.2 dated 2024-05-28
DESCRIPTION | 8 ++-- MD5 | 14 ++++---- R/main.R | 10 ++++- build/partial.rdb |binary man/zcurve-package.Rd | 1 tests/testthat/_snaps/zcurve/z-curve-kd2-ggplot.svg | 4 +- tests/testthat/_snaps/zcurve/z-curve-kd2.svg | 4 +- tests/testthat/test-zcurve.R | 34 ++++++++++---------- 8 files changed, 40 insertions(+), 35 deletions(-)
Title: Pedigree Inference from SNPs
Description: Multi-generational pedigree inference from incomplete data on
hundreds of SNPs, including parentage assignment and sibship clustering.
See Huisman (2017) (<DOI:10.1111/1755-0998.12665>) for more information.
Author: Jisca Huisman [aut, cre]
Maintainer: Jisca Huisman <jisca.huisman@gmail.com>
Diff between sequoia versions 2.11.1 dated 2024-05-27 and 2.11.2 dated 2024-05-28
DESCRIPTION | 10 +++++----- MD5 | 12 ++++++------ inst/doc/quick_start_example1.html | 8 ++++---- inst/doc/vignette-age.pdf |binary inst/doc/vignette-main.pdf |binary inst/doc/vignette_mtDNA.pdf |binary src/Sequoia.f90 | 5 ++--- 7 files changed, 17 insertions(+), 18 deletions(-)
Title: Facilities for Simulating from ODE-Based Models
Description: Facilities for running simulations from ordinary
differential equation ('ODE') models, such as pharmacometrics and other
compartmental models. A compilation manager translates the ODE model
into C, compiles it, and dynamically loads the object code into R for
improved computational efficiency. An event table object facilitates
the specification of complex dosing regimens (optional) and sampling
schedules. NB: The use of this package requires both C and
Fortran compilers, for details on their use with R please see
Section 6.3, Appendix A, and Appendix D in the "R Administration and
Installation" manual. Also the code is mostly released under GPL. The
'VODE' and 'LSODA' are in the public domain. The information is available
in the inst/COPYRIGHTS.
Author: Matthew L. Fidler [aut, cre] ,
Melissa Hallow [aut],
Wenping Wang [aut],
Zufar Mulyukov [ctb],
Alan Hindmarsh [ctb],
Arun Srinivasan [ctb],
Awad H. Al-Mohy [ctb],
Cleve Moler [ctb],
Drew Schmidt [ctb],
Ernst Hairer [ctb],
Gerhard Wanner [ctb],
Gilber [...truncated...]
Maintainer: Matthew L. Fidler <matthew.fidler@gmail.com>
Diff between rxode2 versions 2.1.2 dated 2024-01-30 and 2.1.3 dated 2024-05-28
DESCRIPTION | 11 MD5 | 181 +++++++-------- NAMESPACE | 2 NEWS.md | 23 + R/RcppExports.R | 18 + R/rxSymInv.R | 11 R/rxode2_md5.R | 2 R/rxsolve.R | 5 R/ui-fix.R |only R/ui.R | 3 README.md | 173 +++++++------- build/vignette.rds |binary data/rxReservedKeywords.rda |binary data/rxResidualError.rda |binary data/rxSyntaxFunctions.rda |binary inst/doc/rxode2-syntax.html | 392 ++++++++++++++++++--------------- inst/include/rxode2_RcppExports.h | 21 + man/figures/README-intro-central-1.png |binary man/figures/README-intro-effect-1.png |binary man/rxFixPop.Rd |only man/rxSolveSetup.Rd |only man/rxode2.Rd | 12 - src/RcppExports.cpp | 35 ++ src/RxODE_types.h | 4 src/approx.c | 3 src/blas.h | 4 src/boost.cpp | 3 src/box.c | 3 src/call_dvode.c | 3 src/cbindThetaOmega.h | 3 src/cfode.c | 3 src/cfode_static.c | 3 src/cfode_static.h | 263 +++++++++++----------- src/checkmate.h | 9 src/common.c | 3 src/common.h | 4 src/corfailure.c | 4 src/correction.c | 6 src/daxpy.c | 5 src/ddot.c | 5 src/dgefa.c | 3 src/dgesl.c | 3 src/dop853.c | 3 src/dop853.h | 3 src/dscal.c | 3 src/etTran.cpp | 5 src/expandGrid.cpp | 3 src/expm.cpp | 31 +- src/fnorm.c | 4 src/forder.cpp | 25 +- src/handle_evid.c | 3 src/idamax.c | 3 src/init.c | 6 src/intdy.c | 3 src/lsoda.c | 3 src/lsoda.h | 5 src/lsoda_internal.h | 3 src/matexp_HM98.c | 7 src/methodswitch.c | 16 - src/nearPD.cpp | 5 src/nearPD.h | 3 src/needSortDefines.h | 4 src/omegaChol.c | 210 +++++++++-------- src/orderswitch.c | 5 src/par_solve.cpp | 7 src/par_solve.h | 3 src/prja.c | 4 src/rprintf.c | 98 ++++---- src/rxData.cpp | 28 ++ src/rxData.h | 3 src/rxInv.cpp | 3 src/rxOptRep.cpp | 1 src/rxThreadData.h | 5 src/rxode2_df.cpp | 5 src/rxode2_df.h | 3 src/rxode2parse.cpp | 3 src/rxode2random.cpp | 8 src/rxomp.h | 5 src/scaleh.c | 3 src/seed.h | 3 src/solsy.c | 3 src/stoda.c | 3 src/strdup_printf.c | 3 src/strncmp.c | 5 src/strncmp.h | 5 src/utilc.c | 3 src/utilcpp.cpp | 3 src/vmnorm.c | 4 tests/testthat/test-001-sum.R | 1 tests/testthat/test-nmtest.R | 4 tests/testthat/test-random.R | 19 + tests/testthat/test-rxFix.R |only tests/testthat/test-rxode-issue-450.R | 3 tests/testthat/test-sim-err-670.R |only 94 files changed, 1100 insertions(+), 714 deletions(-)
Title: Combining Tree-Boosting with Gaussian Process and Mixed Effects
Models
Description: An R package that allows for combining tree-boosting with Gaussian process and mixed effects models. It also allows for independently doing tree-boosting as well as inference and prediction for Gaussian process and mixed effects models. See <https://github.com/fabsig/GPBoost> for more information on the software and Sigrist (2022, JMLR) <https://www.jmlr.org/papers/v23/20-322.html> and Sigrist (2023, TPAMI) <doi:10.1109/TPAMI.2022.3168152> for more information on the methodology.
Author: Fabio Sigrist [aut, cre],
Tim Gyger [aut],
Pascal Kuendig [aut],
Benoit Jacob [cph],
Gael Guennebaud [cph],
Nicolas Carre [cph],
Pierre Zoppitelli [cph],
Gauthier Brun [cph],
Jean Ceccato [cph],
Jitse Niesen [cph],
Other authors of Eigen for the incl [...truncated...]
Maintainer: Fabio Sigrist <fabiosigrist@gmail.com>
Diff between gpboost versions 1.4.0.1 dated 2024-04-15 and 1.5.0 dated 2024-05-28
DESCRIPTION | 8 MD5 | 22 R/GPModel.R | 2 R/gpb.cv.R | 17 configure.ac | 2 demo/GPBoost_algorithm.R | 16 demo/generalized_linear_Gaussian_process_mixed_effects_models.R | 8 man/gpb.grid.search.tune.parameters.Rd | 7 src/include/GPBoost/cov_fcts.h | 464 +++++++++- src/include/GPBoost/re_model_template.h | 3 tests/testthat/test_GPModel_gaussian_process.R | 128 ++ tests/testthat/test_GPModel_non_Gaussian_data.R | 83 + 12 files changed, 702 insertions(+), 58 deletions(-)
Title: A Computational Tool for Astrochronology
Description: Routines for astrochronologic testing, astronomical time scale construction, and time series analysis <doi:10.1016/j.earscirev.2018.11.015>. Also included are a range of statistical analysis and modeling routines that are relevant to time scale development and paleoclimate analysis.
Author: Stephen Meyers [aut,cre], Alberto Malinverno [ctb], Linda Hinnov [ctb], Christian Zeeden [ctb], Huaran Liu [ctb], Vincent Moron [ctb], Michel Crucifix [ctb]
Maintainer: Stephen Meyers <smeyers@geology.wisc.edu>
Diff between astrochron versions 1.2 dated 2023-08-26 and 1.3 dated 2024-05-28
astrochron-1.2/astrochron/R/FUNCTION-autoPlot_v13.R |only astrochron-1.2/astrochron/R/FUNCTION-idPts_v11.R |only astrochron-1.2/astrochron/R/FUNCTION-insoMap_v3.R |only astrochron-1.2/astrochron/R/FUNCTION-rankSeries_v4.R |only astrochron-1.2/astrochron/R/FUNCTION-strats_v14.R |only astrochron-1.2/astrochron/R/FUNCTION-timeOptMCMC_v2.R |only astrochron-1.2/astrochron/R/FUNCTION-timeOptSimPwrLaw_v4.R |only astrochron-1.2/astrochron/R/FUNCTION-timeOptSim_v9.R |only astrochron-1.2/astrochron/R/FUNCTION-timeOpt_v17.R |only astrochron-1.2/astrochron/R/FUNCTION-zoomIn_v2.R |only astrochron-1.2/astrochron/man/tanerFFT.Rd |only astrochron-1.3/astrochron/DESCRIPTION | 8 - astrochron-1.3/astrochron/MD5 | 62 +++++----- astrochron-1.3/astrochron/NAMESPACE | 43 +++---- astrochron-1.3/astrochron/NEWS | 26 ++++ astrochron-1.3/astrochron/R/FUNCTION-asm_removed.R |only astrochron-1.3/astrochron/R/FUNCTION-autoPlot_v14.R |only astrochron-1.3/astrochron/R/FUNCTION-eAsm_removed.R |only astrochron-1.3/astrochron/R/FUNCTION-idPts_v12.R |only astrochron-1.3/astrochron/R/FUNCTION-insoMap_v4.R |only astrochron-1.3/astrochron/R/FUNCTION-rankSeries_v5.R |only astrochron-1.3/astrochron/R/FUNCTION-stratPCA_v4.R |only astrochron-1.3/astrochron/R/FUNCTION-strats_v15.R |only astrochron-1.3/astrochron/R/FUNCTION-timeOptMCMC_v3.R |only astrochron-1.3/astrochron/R/FUNCTION-timeOptSimPwrLaw_v5.R |only astrochron-1.3/astrochron/R/FUNCTION-timeOptSim_v10.R |only astrochron-1.3/astrochron/R/FUNCTION-timeOpt_v19.R |only astrochron-1.3/astrochron/R/FUNCTION-zoomIn_v3.R |only astrochron-1.3/astrochron/R/startupMessage.R | 4 astrochron-1.3/astrochron/man/astrochron-package.Rd | 75 ++----------- astrochron-1.3/astrochron/man/calcPeriods.Rd | 2 astrochron-1.3/astrochron/man/idPts.Rd | 5 astrochron-1.3/astrochron/man/periodogram.Rd | 2 astrochron-1.3/astrochron/man/rankSeries.Rd | 3 astrochron-1.3/astrochron/man/stratPCA.Rd |only astrochron-1.3/astrochron/man/tanerFC.Rd |only astrochron-1.3/astrochron/man/timeOpt.Rd | 12 +- astrochron-1.3/astrochron/man/timeOptMCMC.Rd | 57 --------- astrochron-1.3/astrochron/man/timeOptPlot.Rd | 2 astrochron-1.3/astrochron/man/timeOptSim.Rd | 3 astrochron-1.3/astrochron/man/timeOptSimPwrLaw.Rd | 3 astrochron-1.3/astrochron/man/timeOptTemplate.Rd | 2 astrochron-1.3/astrochron/man/zoomIn.Rd | 2 astrochron-1.3/astrochron/src/EHA_Rv6e.f | 7 - astrochron-1.3/astrochron/src/asm1.8cR.f | 3 45 files changed, 123 insertions(+), 198 deletions(-)
Title: Harrell Miscellaneous
Description: Contains many functions useful for data
analysis, high-level graphics, utility operations, functions for
computing sample size and power, simulation, importing and annotating datasets,
imputing missing values, advanced table making, variable clustering,
character string manipulation, conversion of R objects to LaTeX and html code,
recoding variables, caching, simplified parallel computing, encrypting and decrypting data using a safe workflow, general moving window statistical estimation, and assistance in interpreting principal component analysis.
Author: Frank E Harrell Jr [aut, cre] ,
Charles Dupont [ctb]
Maintainer: Frank E Harrell Jr <fh@fharrell.com>
Diff between Hmisc versions 5.1-2 dated 2024-03-11 and 5.1-3 dated 2024-05-28
DESCRIPTION | 8 ++-- MD5 | 40 +++++++++++--------- NAMESPACE | 2 - NEWS | 11 +++++ R/movStats.r | 8 +++- R/printL.r |only R/qcrypt.r | 26 +++++++++---- R/r2describe.r |only R/redun.s | 40 ++++++++++++++------ R/runParallel.r | 4 +- R/spower.s | 102 ++++++++++++++++++++++++++++------------------------- R/transace.s | 6 ++- man/movStats.Rd | 3 + man/printL.Rd |only man/prnz.Rd | 2 - man/qcrypt.Rd | 5 ++ man/r2describe.Rd |only man/rcorr.cens.Rd | 2 - man/rcorrp.cens.Rd | 3 + man/redun.Rd | 8 +++- man/runParallel.Rd | 2 - man/somers2.Rd | 2 - man/spower.Rd | 4 +- 23 files changed, 172 insertions(+), 106 deletions(-)
Title: Bayesian Modeling and Causal Inference for Multivariate
Longitudinal Data
Description: Easy-to-use and efficient interface for
Bayesian inference of complex panel (time series) data using dynamic
multivariate panel models by Helske and Tikka (2024)
<doi:10.1016/j.alcr.2024.100617>. The package supports joint modeling of
multiple measurements per individual, time-varying and time-invariant
effects, and a wide range of discrete and continuous distributions.
Estimation of these dynamic multivariate panel models is carried out via
'Stan'. For an in-depth tutorial of the package, see
(Tikka and Helske, 2024) <doi:10.48550/arXiv.2302.01607>.
Author: Santtu Tikka [aut, cre] ,
Jouni Helske [aut] ,
Nicholas Clark [rev],
Lucy D'Agostino McGowan [rev]
Maintainer: Santtu Tikka <santtuth@gmail.com>
Diff between dynamite versions 1.4.9 dated 2024-02-02 and 1.5.2 dated 2024-05-28
dynamite-1.4.9/dynamite/inst/doc/dynamite.R |only dynamite-1.4.9/dynamite/inst/doc/dynamite.Rmd |only dynamite-1.4.9/dynamite/inst/doc/dynamite.html |only dynamite-1.4.9/dynamite/man/plot_betas.Rd |only dynamite-1.4.9/dynamite/man/plot_deltas.Rd |only dynamite-1.4.9/dynamite/man/plot_lambdas.Rd |only dynamite-1.4.9/dynamite/man/plot_nus.Rd |only dynamite-1.4.9/dynamite/man/plot_psis.Rd |only dynamite-1.4.9/dynamite/vignettes/dag.png |only dynamite-1.4.9/dynamite/vignettes/dynamite.Rmd |only dynamite-1.4.9/dynamite/vignettes/dynamite.bib |only dynamite-1.5.2/dynamite/DESCRIPTION | 36 dynamite-1.5.2/dynamite/MD5 | 225 dynamite-1.5.2/dynamite/NAMESPACE | 7 dynamite-1.5.2/dynamite/NEWS.md | 423 - dynamite-1.5.2/dynamite/R/as_data_frame.R | 55 dynamite-1.5.2/dynamite/R/as_data_table.R | 270 dynamite-1.5.2/dynamite/R/as_draws.R | 7 dynamite-1.5.2/dynamite/R/ci.R | 8 dynamite-1.5.2/dynamite/R/coef.R | 125 dynamite-1.5.2/dynamite/R/deprecated.R |only dynamite-1.5.2/dynamite/R/deterministic.R | 51 dynamite-1.5.2/dynamite/R/dynamice.R |only dynamite-1.5.2/dynamite/R/dynamite-package.R | 5 dynamite-1.5.2/dynamite/R/dynamite.R | 202 dynamite-1.5.2/dynamite/R/dynamiteformula.R | 317 - dynamite-1.5.2/dynamite/R/families.R | 231 dynamite-1.5.2/dynamite/R/fitted.R | 22 dynamite-1.5.2/dynamite/R/getters.R | 725 +- dynamite-1.5.2/dynamite/R/lags.R | 42 dynamite-1.5.2/dynamite/R/latent_factor.R | 29 dynamite-1.5.2/dynamite/R/lfo.R | 189 dynamite-1.5.2/dynamite/R/loo.R | 39 dynamite-1.5.2/dynamite/R/mcmc_diagnostics.R | 62 dynamite-1.5.2/dynamite/R/model_matrix.R | 4 dynamite-1.5.2/dynamite/R/ndraws.R | 60 dynamite-1.5.2/dynamite/R/nobs.R | 72 dynamite-1.5.2/dynamite/R/plot.R | 942 +-- dynamite-1.5.2/dynamite/R/predict.R | 1302 ++-- dynamite-1.5.2/dynamite/R/predict_helpers.R | 3027 +++++----- dynamite-1.5.2/dynamite/R/prepare_stan_input.R | 2542 ++++---- dynamite-1.5.2/dynamite/R/print.R | 53 dynamite-1.5.2/dynamite/R/priors.R | 114 dynamite-1.5.2/dynamite/R/random.R | 92 dynamite-1.5.2/dynamite/R/specials.R | 649 +- dynamite-1.5.2/dynamite/R/splines.R | 196 dynamite-1.5.2/dynamite/R/stan_utilities.R | 215 dynamite-1.5.2/dynamite/R/stanblocks.R | 228 dynamite-1.5.2/dynamite/R/stanblocks_families.R | 1561 ++--- dynamite-1.5.2/dynamite/R/summary.R | 52 dynamite-1.5.2/dynamite/R/sysdata.rda |binary dynamite-1.5.2/dynamite/R/update.R | 13 dynamite-1.5.2/dynamite/R/utilities.R | 18 dynamite-1.5.2/dynamite/README.md | 97 dynamite-1.5.2/dynamite/build/vignette.rds |binary dynamite-1.5.2/dynamite/data/categorical_example_fit.rda |binary dynamite-1.5.2/dynamite/data/gaussian_example_fit.rda |binary dynamite-1.5.2/dynamite/data/gaussian_simulation_fit.rda |binary dynamite-1.5.2/dynamite/data/multichannel_example_fit.rda |binary dynamite-1.5.2/dynamite/inst/CITATION | 30 dynamite-1.5.2/dynamite/inst/doc/dynamite_custom.R |only dynamite-1.5.2/dynamite/inst/doc/dynamite_custom.Rmd |only dynamite-1.5.2/dynamite/inst/doc/dynamite_custom.html |only dynamite-1.5.2/dynamite/inst/doc/dynamite_priors.R | 2 dynamite-1.5.2/dynamite/inst/doc/dynamite_priors.Rmd | 13 dynamite-1.5.2/dynamite/inst/doc/dynamite_priors.html | 17 dynamite-1.5.2/dynamite/inst/doc/dynamite_simulation.R | 2 dynamite-1.5.2/dynamite/inst/doc/dynamite_simulation.Rmd | 3 dynamite-1.5.2/dynamite/inst/doc/dynamite_simulation.html | 12 dynamite-1.5.2/dynamite/man/as.data.frame.dynamitefit.Rd | 40 dynamite-1.5.2/dynamite/man/as.data.table.dynamitefit.Rd | 26 dynamite-1.5.2/dynamite/man/as_draws-dynamitefit.Rd | 28 dynamite-1.5.2/dynamite/man/categorical_example.Rd | 6 dynamite-1.5.2/dynamite/man/categorical_example_fit.Rd | 6 dynamite-1.5.2/dynamite/man/coef.dynamitefit.Rd | 41 dynamite-1.5.2/dynamite/man/dynamice.Rd |only dynamite-1.5.2/dynamite/man/dynamite-deprecated.Rd |only dynamite-1.5.2/dynamite/man/dynamite-package.Rd | 26 dynamite-1.5.2/dynamite/man/dynamite.Rd | 5 dynamite-1.5.2/dynamite/man/dynamiteformula.Rd | 14 dynamite-1.5.2/dynamite/man/figures/README-unnamed-chunk-10-1.png |binary dynamite-1.5.2/dynamite/man/figures/README-unnamed-chunk-11-1.png |only dynamite-1.5.2/dynamite/man/figures/README-unnamed-chunk-7-1.png |binary dynamite-1.5.2/dynamite/man/figures/README-unnamed-chunk-8-1.png |binary dynamite-1.5.2/dynamite/man/figures/README-unnamed-chunk-9-1.png |binary dynamite-1.5.2/dynamite/man/fitted.dynamitefit.Rd | 18 dynamite-1.5.2/dynamite/man/gaussian_example.Rd | 6 dynamite-1.5.2/dynamite/man/gaussian_example_fit.Rd | 6 dynamite-1.5.2/dynamite/man/gaussian_simulation_fit.Rd | 8 dynamite-1.5.2/dynamite/man/get_priors.Rd | 1 dynamite-1.5.2/dynamite/man/hmc_diagnostics.Rd |only dynamite-1.5.2/dynamite/man/lags.Rd | 2 dynamite-1.5.2/dynamite/man/lfactor.Rd | 21 dynamite-1.5.2/dynamite/man/lfo.Rd | 15 dynamite-1.5.2/dynamite/man/loo.dynamitefit.Rd | 9 dynamite-1.5.2/dynamite/man/mcmc_diagnostics.Rd | 11 dynamite-1.5.2/dynamite/man/mice.impute.lag.Rd |only dynamite-1.5.2/dynamite/man/mice.impute.lead.Rd |only dynamite-1.5.2/dynamite/man/multichannel_example.Rd | 4 dynamite-1.5.2/dynamite/man/multichannel_example_fit.Rd | 4 dynamite-1.5.2/dynamite/man/plot.dynamitefit.Rd | 81 dynamite-1.5.2/dynamite/man/plot.dynamiteformula.Rd |only dynamite-1.5.2/dynamite/man/plot.lfo.Rd | 4 dynamite-1.5.2/dynamite/man/predict.dynamitefit.Rd | 9 dynamite-1.5.2/dynamite/man/print.lfo.Rd | 2 dynamite-1.5.2/dynamite/man/random_spec.Rd | 2 dynamite-1.5.2/dynamite/man/splines.Rd | 2 dynamite-1.5.2/dynamite/man/update.dynamitefit.Rd | 1 dynamite-1.5.2/dynamite/tests/testthat/Rplots.pdf |only dynamite-1.5.2/dynamite/tests/testthat/test-cmdstanr.R | 343 + dynamite-1.5.2/dynamite/tests/testthat/test-edgecases.R | 1171 +-- dynamite-1.5.2/dynamite/tests/testthat/test-errors.R | 285 dynamite-1.5.2/dynamite/tests/testthat/test-extended.R | 634 ++ dynamite-1.5.2/dynamite/tests/testthat/test-grunfeld.R | 166 dynamite-1.5.2/dynamite/tests/testthat/test-internals.R | 43 dynamite-1.5.2/dynamite/tests/testthat/test-lfactor.R | 89 dynamite-1.5.2/dynamite/tests/testthat/test-output.R | 800 +- dynamite-1.5.2/dynamite/tests/testthat/test-predict.R | 131 dynamite-1.5.2/dynamite/tests/testthat/test-priors.R | 82 dynamite-1.5.2/dynamite/tests/testthat/test-random.R | 574 - dynamite-1.5.2/dynamite/tests/testthat/test-recovery.R | 1100 +-- dynamite-1.5.2/dynamite/tests/testthat/test-scaling.R | 348 - dynamite-1.5.2/dynamite/tests/testthat/test-warnings.R | 95 dynamite-1.5.2/dynamite/vignettes/dynamite_custom.Rmd |only dynamite-1.5.2/dynamite/vignettes/dynamite_priors.Rmd | 13 dynamite-1.5.2/dynamite/vignettes/dynamite_simulation.Rmd | 3 126 files changed, 11699 insertions(+), 8962 deletions(-)
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2023-12-21 1.1-17
2023-03-01 1.1-16
Title: Equality of 2 (or k) Continuous Univariate and Multivariate
Distributions
Description: We implement (or re-implements in R) a variety of statistical
tools. They are focused on non-parametric two-sample (or k-sample)
distribution comparisons in the univariate or multivariate case. See
the vignette for more info.
Author: Hector Roux de Bezieux [aut, cre]
Maintainer: Hector Roux de Bezieux <hector.rouxdebezieux@berkeley.edu>
Diff between Ecume versions 0.9.1 dated 2021-03-15 and 0.9.2 dated 2024-05-28
DESCRIPTION | 30 ++--- MD5 | 18 +-- NAMESPACE | 3 NEWS | 8 - R/ks_test.R | 6 - README.md | 5 build/vignette.rds |binary inst/doc/Ecume.Rmd | 2 inst/doc/Ecume.html | 294 ++++++++++++++++++++++++++++++++-------------------- vignettes/Ecume.Rmd | 2 10 files changed, 220 insertions(+), 148 deletions(-)
Title: Exploring Water Quality Monitoring Data
Description: Functions to assist in the processing and
exploration of data from environmental monitoring programs.
The package name stands for "water quality" and reflects the
original focus on time series data for physical and chemical
properties of water, as well as the biota. Intended for
programs that sample approximately monthly, quarterly or
annually at discrete stations, a feature of many legacy data
sets. Most of the functions should be useful for analysis of
similar-frequency time series regardless of the subject
matter.
Author: Alan Jassby [aut],
James Cloern [ctb],
Jemma Stachelek [ctb, cre]
Maintainer: Jemma Stachelek <jemma.stachelek@gmail.com>
Diff between wql versions 1.0.0 dated 2022-08-10 and 1.0.1 dated 2024-05-28
wql-1.0.0/wql/build/wql.pdf |only wql-1.0.1/wql/DESCRIPTION | 9 wql-1.0.1/wql/MD5 | 20 wql-1.0.1/wql/NEWS.md | 4 wql-1.0.1/wql/R/mannKen.R | 2 wql-1.0.1/wql/R/wql-package.R | 16 wql-1.0.1/wql/build/partial.rdb |only wql-1.0.1/wql/build/vignette.rds |binary wql-1.0.1/wql/inst/doc/wql-package.R | 28 wql-1.0.1/wql/inst/doc/wql-package.html | 1969 ++++++++++++++++++++++++++++---- wql-1.0.1/wql/man/mannKen.Rd | 2 wql-1.0.1/wql/man/wql-package.Rd | 40 12 files changed, 1828 insertions(+), 262 deletions(-)
Title: Sound Synthesis and Acoustic Analysis
Description: Performs parametric synthesis of sounds with harmonic and noise
components such as animal vocalizations or human voice. Also offers tools
for audio manipulation and acoustic analysis, including pitch tracking,
spectral analysis, audio segmentation, pitch and formant shifting, etc.
Includes four interactive web apps for synthesizing and annotating audio,
manually correcting pitch contours, and measuring formant frequencies.
Reference: Anikin (2019) <doi:10.3758/s13428-018-1095-7>.
Author: Andrey Anikin [aut, cre]
Maintainer: Andrey Anikin <andrey.anikin@cogsci.se>
Diff between soundgen versions 2.6.2 dated 2023-12-03 and 2.6.3 dated 2024-05-28
DESCRIPTION | 14 +-- MD5 | 68 +++++++------- NAMESPACE | 1 NEWS | 15 +++ R/analyze.R | 18 ++- R/analyze_utilities.R | 11 +- R/defaults.R | 1 R/formants.R | 172 ++++++++++++++++++++++++++----------- R/math.R | 6 - R/noiseRemoval.R |only R/pitchTrackers.R | 6 - R/rolloff.R | 2 R/segment.R | 18 ++- R/soundgen.R | 30 +++++- R/source.R | 2 R/spectrogram.R | 10 +- data/defaults_analyze.rda |binary inst/shiny/annotation_app/server.R | 81 +++++++++-------- inst/shiny/annotation_app/ui.R | 7 + inst/shiny/formant_app/server.R | 165 +++++++++++++++++++++-------------- inst/shiny/formant_app/ui.R | 37 ++++--- inst/shiny/pitch_app/server.R | 9 + inst/shiny/pitch_app/ui.R | 7 + man/addFormants.Rd | 16 ++- man/analyze.Rd | 16 ++- man/dot-addFormants.Rd | 17 ++- man/dot-analyze.Rd | 2 man/dot-segment.Rd | 4 man/dot-spectrogram.Rd | 2 man/filled.contour.mod.Rd | 5 + man/noiseRemoval.Rd |only man/segment.Rd | 4 man/soundgen.Rd | 18 +++ man/spectrogram.Rd | 2 man/transplantFormants.Rd | 49 +++++++--- man/zeroOne.Rd | 2 36 files changed, 544 insertions(+), 273 deletions(-)
Title: Miscellaneous Functions for 'ggplot2'
Description: Useful functions and utilities for 'ggplot' object (e.g., geometric layers, themes, and utilities to edit the object).
Author: Guangchuang Yu [aut, cre, cph]
,
Shuangbin Xu [aut]
Maintainer: Guangchuang Yu <guangchuangyu@gmail.com>
Diff between ggfun versions 0.1.4 dated 2024-01-19 and 0.1.5 dated 2024-05-28
DESCRIPTION | 10 +++++----- MD5 | 14 +++++++++----- NAMESPACE | 7 +++++++ NEWS.md | 5 +++++ R/ggfun-package.R |only R/operator.R |only build/vignette.rds |binary inst/doc/ggfun.html | 23 ++++++++++------------- man/attacher.Rd |only man/ggfun-package.Rd |only 10 files changed, 36 insertions(+), 23 deletions(-)
Title: Variable-Lag Time Series Causality Inference Framework
Description: A framework to infer causality on a pair of time series of real numbers based on variable-lag Granger causality and transfer entropy. Typically, Granger causality and transfer entropy have an assumption of a fixed and constant time delay between the cause and effect. However, for a non-stationary time series, this assumption is not true. For example, considering two time series of velocity of person A and person B where B follows A. At some time, B stops tying his shoes, then running to catch up A. The fixed-lag assumption is not true in this case. We propose a framework that allows variable-lags between cause and effect in Granger causality and transfer entropy to allow them to deal with variable-lag non-stationary time series. Please see Chainarong Amornbunchornvej, Elena Zheleva, and Tanya Berger-Wolf (2021) <doi:10.1145/3441452> when referring to this package in publications.
Author: Chainarong Amornbunchornvej [aut, cre]
Maintainer: Chainarong Amornbunchornvej <grandca@gmail.com>
Diff between VLTimeCausality versions 0.1.4 dated 2022-01-24 and 0.1.5 dated 2024-05-28
DESCRIPTION | 9 MD5 | 16 - NEWS.md | 3 R/followingRelation.R | 5 README.md | 1 build/vignette.rds |binary inst/CITATION | 14 - inst/doc/VLTimeCausality_demo.html | 378 ++++++++++++--------------------- man/TSNANNearestNeighborPropagation.Rd | 54 ++-- 9 files changed, 201 insertions(+), 279 deletions(-)
More information about VLTimeCausality at CRAN
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