Title: Interfaces to Various State-of-Art SVD and Eigensolvers
Description: R bindings to SVD and eigensolvers (PROPACK, nuTRLan).
Author: Anton Korobeynikov [aut, cre], Rasmus Munk Larsen [ctb, cph], Lawrence Berkeley National Laboratory [ctb, cph]
Maintainer: Anton Korobeynikov <anton@korobeynikov.info>
Diff between svd versions 0.5.3 dated 2023-01-15 and 0.5.4 dated 2023-03-22
DESCRIPTION | 6 +++--- MD5 | 4 ++-- src/trlan/ztrlan.c | 1 + 3 files changed, 6 insertions(+), 5 deletions(-)
Title: Genetic Analysis of Populations with Mixed Reproduction
Description: Population genetic analyses for hierarchical analysis of partially
clonal populations built upon the architecture of the 'adegenet' package.
Originally described in Kamvar, Tabima, and Grünwald (2014)
<doi:10.7717/peerj.281> with version 2.0 described in Kamvar, Brooks, and
Grünwald (2015) <doi:10.3389/fgene.2015.00208>.
Author: Zhian N. Kamvar [cre, aut] ,
Javier F. Tabima [aut] ,
Sydney E. Everhart [ctb, dtc] ,
Jonah C. Brooks [aut],
Stacy A. Krueger-Hadfield [ctb]
,
Erik Sotka [ctb],
Brian J. Knaus [ctb] ,
Patrick G. Meirmans [ctb] ,
Frederic D. Chevalier [ctb] ,
David Fo [...truncated...]
Maintainer: Zhian N. Kamvar <zkamvar@gmail.com>
Diff between poppr versions 2.9.3 dated 2021-09-07 and 2.9.4 dated 2023-03-22
DESCRIPTION | 13 +- MD5 | 44 ++++----- NEWS.md | 16 +++ R/bootstraping.R | 3 R/data_subset.r | 4 R/distances.r | 2 R/internal.r | 4 R/poppr.R | 2 README.md | 4 build/partial.rdb |binary build/vignette.rds |binary inst/CITATION | 8 - inst/doc/algo.pdf |binary man/bruvo.dist.Rd | 4 man/diversity_boot.Rd | 6 - man/diversity_ci.Rd | 204 +++++++++++++++++++++++----------------------- man/genetic_distance.Rd | 2 man/poppr-package.Rd | 2 man/snpclone-method.Rd | 2 man/unique-methods.Rd | 6 - src/init.c | 2 src/omp_test.c | 4 tests/testthat/test-msn.R | 9 -- 23 files changed, 176 insertions(+), 165 deletions(-)
Title: Groups with Inapplicable Values
Description: The 'groupr' package provides a more powerful version of grouped
tibbles from 'dplyr'. It allows groups to be marked inapplicable,
which is a simple but widely useful way to express structure in a dataset.
It also provides powerful pivoting and other group manipulation functions.
Author: Nicholas Griffiths [aut, cre]
Maintainer: Nicholas Griffiths <ngriffiths21@gmail.com>
Diff between groupr versions 0.1.1 dated 2023-02-09 and 0.1.2 dated 2023-03-22
DESCRIPTION | 6 +++--- MD5 | 8 ++++---- NEWS.md | 6 +++++- R/igroup.R | 3 ++- man/ungroup.igrouped_df.Rd | 4 +++- 5 files changed, 17 insertions(+), 10 deletions(-)
Title: Lasso and Elastic-Net Regularized Generalized Linear Models
Description: Extremely efficient procedures for fitting the entire lasso or elastic-net regularization path for linear regression, logistic and multinomial regression models, Poisson regression, Cox model, multiple-response Gaussian, and the grouped multinomial regression; see <doi:10.18637/jss.v033.i01> and <doi:10.18637/jss.v039.i05>. There are two new and important additions. The family argument can be a GLM family object, which opens the door to any programmed family (<doi:10.18637/jss.v106.i01>). This comes with a modest computational cost, so when the built-in families suffice, they should be used instead. The other novelty is the relax option, which refits each of the active sets in the path unpenalized. The algorithm uses cyclical coordinate descent in a path-wise fashion, as described in the papers cited.
Author: Jerome Friedman [aut],
Trevor Hastie [aut, cre],
Rob Tibshirani [aut],
Balasubramanian Narasimhan [aut],
Kenneth Tay [aut],
Noah Simon [aut],
Junyang Qian [ctb],
James Yang [aut]
Maintainer: Trevor Hastie <hastie@stanford.edu>
Diff between glmnet versions 4.1-6 dated 2022-11-27 and 4.1-7 dated 2023-03-22
DESCRIPTION | 18 ++++----- MD5 | 32 ++++++++--------- NEWS.md | 5 ++ R/cv.glmnet.R | 6 +-- R/glmnet.R | 3 + README.md | 11 +++++ inst/CITATION | 85 +++++++++++++++++++++++----------------------- inst/doc/Coxnet.pdf |binary inst/doc/glmnet.Rmd | 2 - inst/doc/glmnet.pdf |binary inst/doc/glmnetFamily.pdf |binary inst/doc/relax.pdf |binary man/cv.glmnet.Rd | 6 +-- man/glmnet.Rd | 3 + man/glmnet.measures.Rd | 4 +- src/Makevars | 2 - vignettes/glmnet.Rmd | 2 - 17 files changed, 97 insertions(+), 82 deletions(-)
Title: Enhancing the 'parallel' Package
Description: Utility functions that enhance the 'parallel' package and support the built-in parallel backends of the 'future' package. For example, availableCores() gives the number of CPU cores available to your R process as given by the operating system, 'cgroups' and Linux containers, R options, and environment variables, including those set by job schedulers on high-performance compute clusters. If none is set, it will fall back to parallel::detectCores(). Another example is makeClusterPSOCK(), which is backward compatible with parallel::makePSOCKcluster() while doing a better job in setting up remote cluster workers without the need for configuring the firewall to do port-forwarding to your local computer.
Author: Henrik Bengtsson [aut, cre, cph]
Maintainer: Henrik Bengtsson <henrikb@braju.com>
Diff between parallelly versions 1.34.0 dated 2023-01-13 and 1.35.0 dated 2023-03-22
DESCRIPTION | 6 MD5 | 20 +-- NEWS.md | 24 +++ R/availableWorkers.R | 8 - R/makeClusterPSOCK.R | 15 +- R/makeNodePSOCK.R | 22 ++- R/options.R | 2 R/ports.R | 2 man/freePort.Rd | 6 man/makeClusterPSOCK.Rd | 291 ++++++++++++++++++++++++++++------------------ man/parallelly.options.Rd | 2 11 files changed, 255 insertions(+), 143 deletions(-)
Title: Designing Comparative Experiments
Description: A system to facilitate designing comparative experiments using the
grammar of experimental designs <https://emitanaka.org/edibble-book/>.
An experimental design is treated as an intermediate, mutable object that is
built progressively by fundamental experimental components like units, treatments, and their relation.
Author: Emi Tanaka [aut, cre, cph]
Maintainer: Emi Tanaka <dr.emi.tanaka@gmail.com>
Diff between edibble versions 0.1.2 dated 2022-10-04 and 0.1.3 dated 2023-03-22
DESCRIPTION | 8 +-- MD5 | 22 +++++----- NEWS.md | 4 + R/edibble.R | 4 - R/units.R | 4 - README.md | 86 +++++++++++++++++++---------------------- inst/CITATION | 11 ++--- tests/testthat/_snaps/menu.md | 6 -- tests/testthat/_snaps/rcrds.md | 3 - tests/testthat/_snaps/serve.md | 1 tests/testthat/_snaps/trts.md | 4 - tests/testthat/_snaps/units.md | 2 12 files changed, 68 insertions(+), 87 deletions(-)
Title: Multi-Action Conservation Planning
Description: This uses a mixed integer mathematical programming (MIP)
approach for building and solving multi-action planning problems,
where the goal is to find an optimal combination of management actions that
abate threats, in an efficient way while accounting for spatial aspects.
Thus, optimizing the connectivity and conservation effectiveness of
the prioritized units and of the deployed actions. The package is capable of
handling different commercial (gurobi, CPLEX) and non-commercial (symphony) MIP solvers.
Gurobi optimization solver can be installed using comprehensive instructions in
the gurobi installation vignette of the prioritizr package (available in
<https://prioritizr.net/articles/gurobi_installation_guide.html>). Instead, CPLEX
optimization solver can be obtain from IBM CPLEX web page (available here
<https://www.ibm.com/es-es/products/ilog-cplex-optimization-studio>). Methods used in the
package refers to Salgado-Rojas et al. (2020) <doi:10.1016/j.ecolmodel.2019.1089 [...truncated...]
Author: Jose Salgado-Rojas [aut, cre],
Irlanda Ceballos-Fuentealba [aut],
Virgilio Hermoso [aut],
Eduardo Alvarez-Miranda [aut],
Jordi Garcia-Gonzalo [aut]
Maintainer: Jose Salgado-Rojas <jose.salgroj@gmail.com>
Diff between prioriactions versions 0.4.1 dated 2022-08-16 and 0.4.2 dated 2023-03-22
DESCRIPTION | 17 - MD5 | 42 +- NAMESPACE | 4 NEWS.md | 10 R/evalTarget.R | 2 R/inputData.R | 77 +++-- R/internal.R | 3 R/problem.R | 2 R/show.R | 51 +-- build/vignette.rds |binary inst/doc/MitchellRiver.html | 441 ++++++++---------------------- inst/doc/objectives.html | 113 +++---- inst/doc/prioriactions.html | 499 +++++++++-------------------------- inst/doc/sensitivities.html | 144 +++++----- man/inputData.Rd | 14 man/show.Rd | 31 -- src/functions.cpp | 16 - src/rcpp_constraint_benefit.cpp | 8 src/rcpp_stats_benefit.cpp | 8 tests/testthat/test_evalBudget.R | 8 tests/testthat/test_inputData.R | 8 vignettes/figures/sensitivities1.png |binary 22 files changed, 540 insertions(+), 958 deletions(-)
Title: Econometric Analysis of Explosive Time Series
Description: Testing for and dating periods of explosive
dynamics (exuberance) in time series using the univariate and panel
recursive unit root tests proposed by Phillips et al. (2015)
<doi:10.1111/iere.12132> and Pavlidis et al. (2016)
<doi:10.1007/s11146-015-9531-2>.The recursive least-squares
algorithm utilizes the matrix inversion lemma to avoid matrix
inversion which results in significant speed improvements. Simulation
of a variety of periodically-collapsing bubble processes. Details can be
found in Vasilopoulos et al. (2022) <doi:10.18637/jss.v103.i10>.
Author: Kostas Vasilopoulos [cre, aut],
Efthymios Pavlidis [aut],
Enrique Martinez-Garcia [aut],
Simon Spavound [aut]
Maintainer: Kostas Vasilopoulos <k.vasilopoulo@gmail.com>
Diff between exuber versions 1.0.1 dated 2023-02-12 and 1.0.2 dated 2023-03-22
DESCRIPTION | 6 ++-- MD5 | 8 ++--- R/radf-tidiers.R | 77 ++++++++++++++++++++++++++++++++++++++++--------------- R/radf_wb.R | 16 +++++++++-- R/utils.R | 13 --------- 5 files changed, 76 insertions(+), 44 deletions(-)
Title: Connect to an OMOP Common Data Model
Description: Provides tools for working with observational health data in the
Observational Medical Outcomes Partnership (OMOP) Common Data Model format with a pipe friendly syntax.
Common data model database table references are stored in a single compound object along with metadata.
Author: Adam Black [aut, cre] ,
Artem Gorbachev [aut],
Edward Burn [aut],
Marti Catala Sabate [aut]
Maintainer: Adam Black <black@ohdsi.org>
Diff between CDMConnector versions 0.5.0 dated 2023-03-09 and 0.5.1 dated 2023-03-22
CDMConnector-0.5.0/CDMConnector/man/listTables.Rd |only CDMConnector-0.5.0/CDMConnector/man/newGeneratedCohortSet.Rd |only CDMConnector-0.5.0/CDMConnector/man/readCohortSet.Rd |only CDMConnector-0.5.1/CDMConnector/DESCRIPTION | 6 CDMConnector-0.5.1/CDMConnector/MD5 | 98 +++--- CDMConnector-0.5.1/CDMConnector/NAMESPACE | 23 + CDMConnector-0.5.1/CDMConnector/NEWS.md | 9 CDMConnector-0.5.1/CDMConnector/R/Eunomia.R | 42 ++ CDMConnector-0.5.1/CDMConnector/R/cdm.R | 143 +++++----- CDMConnector-0.5.1/CDMConnector/R/cdmSubset.R | 47 +++ CDMConnector-0.5.1/CDMConnector/R/compute.R | 24 + CDMConnector-0.5.1/CDMConnector/R/dateadd.R | 5 CDMConnector-0.5.1/CDMConnector/R/generateCohortSet.R | 131 ++++++--- CDMConnector-0.5.1/CDMConnector/R/listTables.R | 5 CDMConnector-0.5.1/CDMConnector/R/summarise_quantile.R | 19 + CDMConnector-0.5.1/CDMConnector/R/validate.R | 9 CDMConnector-0.5.1/CDMConnector/inst/doc/a01_getting-started.html | 6 CDMConnector-0.5.1/CDMConnector/inst/doc/a05_cdm_reference_backends.html | 8 CDMConnector-0.5.1/CDMConnector/man/appendPermanent.Rd | 3 CDMConnector-0.5.1/CDMConnector/man/asDate.Rd | 3 CDMConnector-0.5.1/CDMConnector/man/assert_tables.Rd | 5 CDMConnector-0.5.1/CDMConnector/man/assert_write_schema.Rd | 5 CDMConnector-0.5.1/CDMConnector/man/cdmFlatten.Rd | 9 CDMConnector-0.5.1/CDMConnector/man/cdmName.Rd | 3 CDMConnector-0.5.1/CDMConnector/man/cdmSample.Rd | 3 CDMConnector-0.5.1/CDMConnector/man/cdmSubset.Rd | 5 CDMConnector-0.5.1/CDMConnector/man/cdmSubsetCohort.Rd | 12 CDMConnector-0.5.1/CDMConnector/man/cdm_from_con.Rd | 41 -- CDMConnector-0.5.1/CDMConnector/man/cdm_from_files.Rd | 10 CDMConnector-0.5.1/CDMConnector/man/cohortAttrition.Rd | 3 CDMConnector-0.5.1/CDMConnector/man/cohortCount.Rd | 3 CDMConnector-0.5.1/CDMConnector/man/cohortSet.Rd | 3 CDMConnector-0.5.1/CDMConnector/man/computePermanent.Rd | 3 CDMConnector-0.5.1/CDMConnector/man/computeQuery.Rd | 10 CDMConnector-0.5.1/CDMConnector/man/downloadEunomiaData.Rd | 20 - CDMConnector-0.5.1/CDMConnector/man/dropTable.Rd | 3 CDMConnector-0.5.1/CDMConnector/man/eunomia_is_available.Rd | 9 CDMConnector-0.5.1/CDMConnector/man/generateCohortSet.Rd | 17 - CDMConnector-0.5.1/CDMConnector/man/list_tables.Rd |only CDMConnector-0.5.1/CDMConnector/man/new_generated_cohort_set.Rd |only CDMConnector-0.5.1/CDMConnector/man/read_cohort_set.Rd |only CDMConnector-0.5.1/CDMConnector/man/snapshot.Rd | 6 CDMConnector-0.5.1/CDMConnector/man/summarise_quantile.Rd | 10 CDMConnector-0.5.1/CDMConnector/man/tbl_group.Rd | 5 CDMConnector-0.5.1/CDMConnector/man/validate_cdm.Rd | 5 CDMConnector-0.5.1/CDMConnector/tests/testthat/setup.R | 2 CDMConnector-0.5.1/CDMConnector/tests/testthat/test-cdm.R | 87 ++++++ CDMConnector-0.5.1/CDMConnector/tests/testthat/test-cdmSubset.R | 48 +++ CDMConnector-0.5.1/CDMConnector/tests/testthat/test-compute.R | 68 ++++ CDMConnector-0.5.1/CDMConnector/tests/testthat/test-dateadd.R | 3 CDMConnector-0.5.1/CDMConnector/tests/testthat/test-generateCohortSet.R | 52 ++- CDMConnector-0.5.1/CDMConnector/tests/testthat/test-listTables.R | 2 CDMConnector-0.5.1/CDMConnector/tests/testthat/test-summarise_quantile.R | 27 + 53 files changed, 770 insertions(+), 290 deletions(-)
Title: VAR Modelling
Description: Estimation, lag selection, diagnostic testing, forecasting, causality analysis, forecast error variance decomposition and impulse response functions of VAR models and estimation of SVAR and SVEC models.
Author: Bernhard Pfaff [aut, cre],
Matthieu Stigler [ctb]
Maintainer: Bernhard Pfaff <bernhard@pfaffikus.de>
Diff between vars versions 1.5-6 dated 2021-09-17 and 1.5-9 dated 2023-03-22
DESCRIPTION | 13 ++++----- MD5 | 72 +++++++++++++++++++++++++------------------------- NAMESPACE | 2 - R/A.R | 2 - R/B.R | 2 - R/BQ.R | 2 - R/Phi.svarest.R | 2 - R/Phi.svecest.R | 2 - R/Phi.varest.R | 2 - R/Phi.vec2var.R | 2 - R/Psi.varest.R | 2 - R/Psi.vec2var.R | 2 - R/SVAR.R | 2 - R/SVEC.R | 2 - R/arch.R | 2 - R/causality.R | 2 - R/fanchart.R | 5 ++- R/fevd.svarest.R | 2 - R/fevd.svecest.R | 2 - R/fevd.varest.R | 2 - R/fevd.vec2var.R | 2 - R/fitted.vec2var.R | 2 - R/internal.R | 10 +++--- R/irf.svarest.R | 2 - R/irf.svecest.R | 2 - R/irf.varest.R | 2 - R/irf.vec2var.R | 2 - R/normality.R | 2 - R/residuals.vec2var.R | 2 - R/restrict.R | 2 - R/roots.R | 2 - R/serial.R | 2 - R/toMlm.R | 8 ++--- R/vec2var.R | 2 - data/Canada.RData |binary inst/CITATION | 8 ++--- man/irf.Rd | 2 - 37 files changed, 89 insertions(+), 87 deletions(-)
Title: Test Shiny Apps
Description: For automated testing of Shiny applications, using
a headless browser, driven through 'WebDriver'.
Author: Winston Chang [aut, cre],
Gabor Csardi [aut],
Hadley Wickham [aut],
RStudio [cph, fnd],
Mango Solutions [cph, ccp]
Maintainer: Winston Chang <winston@rstudio.com>
Diff between shinytest versions 1.5.1 dated 2021-09-13 and 1.5.2 dated 2023-03-22
DESCRIPTION | 8 +- MD5 | 28 +++++----- NEWS.md | 4 + R/expect.R | 2 R/on-load.R | 19 ++++++ README.md | 2 man/expectUpdate.Rd | 2 man/shinytest-package.Rd | 3 - tests/testthat/recorded_tests/041-dynamic-ui/tests/shinytest/mytest-expected/001.json | 9 +-- tests/testthat/recorded_tests/041-dynamic-ui/tests/shinytest/mytest-expected/002.json | 9 +-- tests/testthat/recorded_tests/041-dynamic-ui/tests/shinytest/mytest-expected/005.json | 3 - tests/testthat/recorded_tests/041-dynamic-ui/tests/shinytest/mytest-expected/006.json | 3 - tests/testthat/recorded_tests/app-waitForValue/tests/shinytest/mytest-expected/001.json | 13 +--- tests/testthat/recorded_tests/app-waitForValue/tests/shinytest/mytest-expected/002.json | 13 +--- tests/testthat/test-recorded-tests.R | 1 15 files changed, 62 insertions(+), 57 deletions(-)
Title: Multivariate Cluster Elastic Net
Description: Fits the Multivariate Cluster Elastic Net (MCEN) presented in Price & Sherwood (2018) <arXiv:1707.03530>. The MCEN model simultaneously estimates regression coefficients and a clustering of the responses for a multivariate response model. Currently accommodates the Gaussian and binomial likelihood.
Author: Ben Sherwood [aut, cre], Brad Price [aut]
Maintainer: Ben Sherwood <ben.sherwood@ku.edu>
Diff between mcen versions 1.2 dated 2020-07-23 and 1.2.1 dated 2023-03-22
mcen-1.2.1/mcen/DESCRIPTION | 9 +-- mcen-1.2.1/mcen/MD5 | 5 -- mcen-1.2.1/mcen/src/mcen_init.c | 96 ++++++---------------------------------- mcen-1.2/mcen/NEWS |only 4 files changed, 22 insertions(+), 88 deletions(-)
Title: 'Tweedie' Compound Poisson Model in the Reproducing Kernel
Hilbert Space
Description: Kernel-based 'Tweedie' compound Poisson gamma model using high-dimensional predictors for the analyses of zero-inflated response variables. The package features built-in estimation, prediction and cross-validation tools and supports choice of different kernel functions. For more details, please see Yi Lian, Archer Yi Yang, Boxiang Wang, Peng Shi & Robert William Platt (2023) <doi:10.1080/00401706.2022.2156615>.
Author: Yi Lian [aut, cre],
Archer Yi Yang [aut, cph],
Boxiang Wang [aut],
Peng Shi [aut],
Robert W. Platt [aut]
Maintainer: Yi Lian <yi.lian@mail.mcgill.ca>
Diff between ktweedie versions 1.0.1 dated 2022-11-02 and 1.0.2 dated 2023-03-22
DESCRIPTION | 12 +-- MD5 | 7 +- build/vignette.rds |binary inst/CITATION |only inst/doc/ktweedie-vignette.html | 124 ++++++++++++++++++++-------------------- 5 files changed, 75 insertions(+), 68 deletions(-)
Title: Broken Stick Model for Irregular Longitudinal Data
Description: Data on multiple individuals through time are often sampled at
times that differ between persons. Irregular observation times can severely
complicate the statistical analysis of the data. The broken stick model
approximates each subject’s trajectory by one or more connected line segments.
The times at which segments connect (breakpoints) are identical for all
subjects and under control of the user. A well-fitting broken stick model
effectively transforms individual measurements made at irregular times into
regular trajectories with common observation times. Specification of the
model requires three variables: time, measurement and subject. The
model is a special case of the linear mixed model, with time as a linear
B-spline and subject as the grouping factor. The main assumptions are:
subjects are exchangeable, trajectories between consecutive breakpoints are
straight, random effects follow a multivariate normal distribution, and
unobserved data are missing at random. The package conta [...truncated...]
Author: Stef van Buuren [aut, cre]
Maintainer: Stef van Buuren <stef.vanbuuren@tno.nl>
Diff between brokenstick versions 2.4.0 dated 2022-10-30 and 2.5.0 dated 2023-03-22
DESCRIPTION | 39 ++++++++++---- LICENSE | 2 MD5 | 52 +++++++++--------- NEWS.md | 6 ++ R/EB.R | 2 R/brokenstick-class.R | 5 - R/brokenstick-package.R | 14 +++-- R/internals.R | 4 - R/kr.R | 2 R/plot.R | 2 README.md | 74 ++++++++++++++------------ build/vignette.rds |binary inst/CITATION | 27 ++++----- inst/doc/brokenstick.Rmd | 6 +- inst/doc/brokenstick.html | 29 +++++----- inst/doc/mainfunctions.Rmd | 2 inst/doc/mainfunctions.html | 121 +++++++++++++++++++++----------------------- inst/doc/oldfriends.html | 113 ++++++++++++++++++++--------------------- inst/doc/perfectmodel.html | 111 ++++++++++++++++++++-------------------- man/EB.Rd | 2 man/brokenstick-class.Rd | 5 - man/brokenstick-pkg.Rd | 14 +++-- man/make_basis.Rd | 2 man/parse_formula.Rd | 2 man/plot.brokenstick.Rd | 2 vignettes/brokenstick.Rmd | 6 +- vignettes/mainfunctions.Rmd | 2 27 files changed, 341 insertions(+), 305 deletions(-)
Title: Computing f-Statistics and Building Admixture Graphs Based on
Allele Count or Pool-Seq Read Count Data
Description: Functions for the computation of f- and D-statistics (estimation of 'Fst', Patterson's 'F2', 'F3', 'F3*', 'F4' and D parameters) in population genomics studies from allele count or Pool-Seq read count data and for the fitting, building and visualization of admixture graphs. The package also includes several utilities to manipulate Pool-Seq data stored in standard format (e.g., such as 'vcf' files or 'rsync' files generated by the the 'PoPoolation' software) and perform conversion to alternative format (as used in the 'BayPass' and 'SelEstim' software). As of version 2.0, the package also includes utilities to manipulate standard allele count data (e.g., stored in 'TreeMix', 'BayPass' or 'SelEstim' format).
Author: Mathieu Gautier
Maintainer: Mathieu Gautier <mathieu.gautier@inrae.fr>
Diff between poolfstat versions 2.1.1 dated 2022-05-02 and 2.1.2 dated 2023-03-22
ChangeLog | 7 + DESCRIPTION | 12 +- MD5 | 45 ++++++---- NAMESPACE | 2 R/RcppExports.R | 179 +++++++++++++++++++++++++++++++++++++++++ R/add.leaf.R | 10 +- R/computeFST.R | 4 R/generate.graph.params.R | 7 + R/genobaypass2countdata.R | 3 R/genobaypass2pooldata.R | 3 R/pooldata2genobaypass.R | 20 ++-- R/pooldata2genoselestim.R | 2 R/poolfstat-package.R | 1 build/vignette.rds |binary inst/CITATION | 6 - inst/doc/vignette.pdf |binary man/compute_Ddenom.Rd |only man/compute_Ddenom_bjmeans.Rd |only man/compute_F2_bjmeans.Rd |only man/compute_Q_bjmeans.Rd |only man/extract_allele_names.Rd |only man/extract_nonvscan_counts.Rd |only man/extract_vscan_counts.Rd |only man/find_indelneighbor_idx.Rd |only man/scan_allele_info.Rd |only src/RcppExports.cpp | 5 + src/extract_counts.cpp | 115 +++++++++++++++++++++++++- src/fast_block_averages.cpp | 77 +++++++++++++++++ 28 files changed, 450 insertions(+), 48 deletions(-)
Title: Experimental Statistics and Graphics for Agricultural Sciences
Description: Performs the analysis of completely randomized experimental designs (CRD), randomized blocks (RBD) and Latin square (LSD), experiments in double and triple factorial scheme (in CRD and RBD), experiments in subdivided plot scheme (in CRD and RBD), subdivided and joint analysis of experiments in CRD and RBD, linear regression analysis, test for two samples. The package performs analysis of variance, ANOVA assumptions and multiple comparison test of means or regression, according to Pimentel-Gomes (2009, ISBN: 978-85-7133-055-9), nonparametric test (Conover, 1999, ISBN: 0471160687), test for two samples, joint analysis of experiments according to Ferreira (2018, ISBN: 978-85-7269-566-4) and generalized linear model (glm) for binomial and Poisson family in CRD and RBD (Carvalho, FJ (2019), <doi:10.14393/ufu.te.2019.1244>). It can also be used to obtain descriptive measures and graphics, in addition to correlations and creative graphics used in agricultural sciences (Agronomy, Zootech [...truncated...]
Author: Gabriel Danilo Shimizu [aut, cre]
,
Rodrigo Yudi Palhaci Marubayashi [aut, ctb]
,
Leandro Simoes Azeredo Goncalves [aut, ctb]
Maintainer: Gabriel Danilo Shimizu <shimizu@uel.br>
Diff between AgroR versions 1.3.2 dated 2022-11-17 and 1.3.3 dated 2023-03-22
DESCRIPTION | 13 ++- MD5 | 66 +++++++++---------- NEWS.md | 10 ++ R/FAT2DBC_function.R | 9 +- R/FAT2DBCad_function.R | 9 +- R/FAT2DIC_function.R | 7 +- R/FAT2DICad_function.R | 9 +- R/FAT3DBC_function.R | 36 ++++++---- R/FAT3DBCad_function.R | 12 ++- R/FAT3DIC_function.R | 35 +++++----- R/FAT3DICad_function.R | 12 ++- R/PSUBDBC_function.R | 10 ++ R/PSUBDIC_function.R | 17 ++--- R/conjdbc_function.R | 16 +++- R/conjdic_function.R | 16 +++- R/conjfatdbc_function.R | 15 ++-- R/croqui_function.R | 161 +++++++++++++++++++++++++++++++++++++----------- R/dbc_function.R | 16 ++++ R/dbct_function.R | 5 + R/dic_function.R | 17 ++++- R/dict_function.R | 7 +- R/dql_function.R | 13 +++ R/dqlt_function.R | 11 ++- build/partial.rdb |binary man/AgroR-package.Rd | 3 man/DBC.Rd | 5 + man/DBCT.Rd | 2 man/DIC.Rd | 5 + man/DICT.Rd | 2 man/DQL.Rd | 5 + man/DQLT.Rd | 2 man/conjdbc.Rd | 3 man/conjdic.Rd | 3 man/conjfat2dbc.Rd | 3 34 files changed, 390 insertions(+), 165 deletions(-)
Title: User Friendly Bayesian Data Analysis for Psychology
Description: Contains several Bayesian models for data analysis of psychological tests. A user friendly interface for these models should enable students and researchers to perform professional level Bayesian data analysis without advanced knowledge in programming and Bayesian statistics. This package is based on the Stan platform (Carpenter et el. 2017 <doi:10.18637/jss.v076.i01>).
Author: Jure Demsar [cre, aut],
Grega Repovs [aut],
Erik Strumbelj [aut],
Trustees of Columbia University [cph],
John Kruschke [cph] ,
Rasmus Baath [cph]
Maintainer: Jure Demsar <jure.demsar@fri.uni-lj.si>
Diff between bayes4psy versions 1.2.8 dated 2021-09-27 and 1.2.11 dated 2023-03-22
bayes4psy-1.2.11/bayes4psy/DESCRIPTION | 15 bayes4psy-1.2.11/bayes4psy/MD5 | 74 - bayes4psy-1.2.11/bayes4psy/NAMESPACE | 3 bayes4psy-1.2.11/bayes4psy/NEWS.md | 12 bayes4psy-1.2.11/bayes4psy/R/b_bootstrap.R | 20 bayes4psy-1.2.11/bayes4psy/R/bayes4psy-package.R | 3 bayes4psy-1.2.11/bayes4psy/R/reaction_time_class.R | 12 bayes4psy-1.2.11/bayes4psy/R/stanmodels.R | 62 - bayes4psy-1.2.11/bayes4psy/R/success_rate_class.R | 269 ++--- bayes4psy-1.2.11/bayes4psy/R/ttest_class.R | 395 +++---- bayes4psy-1.2.11/bayes4psy/README.md | 16 bayes4psy-1.2.11/bayes4psy/build/vignette.rds |binary bayes4psy-1.2.11/bayes4psy/configure | 3 bayes4psy-1.2.11/bayes4psy/configure.win | 3 bayes4psy-1.2.11/bayes4psy/inst/doc/adaptation_level.html | 315 +++-- bayes4psy-1.2.11/bayes4psy/inst/doc/afterimages.html | 568 +++++----- bayes4psy-1.2.11/bayes4psy/inst/doc/flanker.html | 579 ++++++----- bayes4psy-1.2.11/bayes4psy/inst/doc/stroop.html | 396 ++++--- bayes4psy-1.2.11/bayes4psy/inst/include/stan_meta_header.hpp |only bayes4psy-1.2.11/bayes4psy/inst/stan |only bayes4psy-1.2.11/bayes4psy/man/b_bootstrap.Rd | 4 bayes4psy-1.2.11/bayes4psy/man/bayes4psy-datasets.Rd | 6 bayes4psy-1.2.11/bayes4psy/man/success_rate_class-class.Rd | 56 - bayes4psy-1.2.11/bayes4psy/man/ttest_class-class.Rd | 76 - bayes4psy-1.2.11/bayes4psy/src/Makevars | 24 bayes4psy-1.2.11/bayes4psy/src/Makevars.win | 24 bayes4psy-1.2.11/bayes4psy/src/RcppExports.cpp |only bayes4psy-1.2.11/bayes4psy/src/stanExports_color.cc |only bayes4psy-1.2.11/bayes4psy/src/stanExports_color.h |only bayes4psy-1.2.11/bayes4psy/src/stanExports_linear.cc |only bayes4psy-1.2.11/bayes4psy/src/stanExports_linear.h |only bayes4psy-1.2.11/bayes4psy/src/stanExports_reaction_time.cc |only bayes4psy-1.2.11/bayes4psy/src/stanExports_reaction_time.h |only bayes4psy-1.2.11/bayes4psy/src/stanExports_success_rate.cc |only bayes4psy-1.2.11/bayes4psy/src/stanExports_success_rate.h |only bayes4psy-1.2.11/bayes4psy/src/stanExports_ttest.cc |only bayes4psy-1.2.11/bayes4psy/src/stanExports_ttest.h |only bayes4psy-1.2.8/bayes4psy/R/zzz.R |only bayes4psy-1.2.8/bayes4psy/inst/include/meta_header.hpp |only bayes4psy-1.2.8/bayes4psy/src/init.cpp |only bayes4psy-1.2.8/bayes4psy/src/stan_files |only bayes4psy-1.2.8/bayes4psy/tools |only 42 files changed, 1603 insertions(+), 1332 deletions(-)
Title: Zhang + Yue-Pilon Trends Package
Description: An efficient implementation of the slope method described by Sen (1968) <doi:10.1080/01621459.1968.10480934> plus implementation of prewhitening approaches to determining trends in climate data described by Zhang, Vincent, Hogg, and Niitsoo (2000) <doi:10.1080/07055900.2000.9649654> and Yue, Pilon, Phinney, and Cavadias (2002) <doi:10.1002/hyp.1095>.
Author: David Bronaugh [aut],
Arelia Schoeneberg [aut],
Lee Zeman [cre]
Maintainer: Lee Zeman <lzeman@uvic.ca>
Diff between zyp versions 0.11 dated 2023-01-26 and 0.11-1 dated 2023-03-22
ChangeLog | 5 +++++ DESCRIPTION | 8 ++++---- MD5 | 4 ++-- 3 files changed, 11 insertions(+), 6 deletions(-)
Title: Computing Weighted Topological Overlaps (wTO) & Consensus wTO
Network
Description: Computes the Weighted Topological Overlap with positive and negative signs (wTO) networks given a data frame containing the mRNA count/ expression/ abundance per sample, and a vector containing the interested nodes of interaction (a subset of the elements of the full data frame). It also computes the cut-off threshold or p-value based on the individuals bootstrap or the values reshuffle per individual. It also allows the construction of a consensus network, based on multiple wTO networks. The package includes a visualization tool for the networks. More about the methodology can be found at <arXiv:1711.04702>.
Author: Deisy Morselli Gysi, Andre Voigt, Tiago Miranda Fragoso, Eivind Almaas and Katja Nowick.
Maintainer: Deisy Morselli Gysi <deisy.ccnr@gmail.com>
Diff between wTO versions 2.0.1 dated 2022-05-24 and 2.0.2 dated 2023-03-22
DESCRIPTION | 8 ++++---- MD5 | 20 ++++++++++---------- R/Correlation.Overlap.R | 12 +++++++++--- R/NetVis.R | 5 ++--- R/wTO.Complete2.R | 4 ++-- R/wTO.R | 13 +++++++------ R/wTO.aux.each.R | 5 ++--- R/wTO.in.line.R | 2 +- R/wTOfast.R | 6 ++++-- man/NetVis.Rd | 5 ++--- man/wTO.Rd | 4 ++-- 11 files changed, 45 insertions(+), 39 deletions(-)
Title: Area Correction Methods
Description: Post-construction fatality monitoring studies at wind facilities are based on data from searches for bird and bat carcasses in plots beneath turbines. Bird and bat carcasses can fall outside of the search plot. Bird and bat carcasses from wind turbines often fall outside of the searched area. To compensate, area correction (AC) estimations are calculated to estimate the percentage of fatalities that fall within the searched area versus those that fall outside of it. This package provides two likelihood based methods and one physics based method (Hull and Muir (2010) <doi:10.1080/14486563.2010.9725253>, Huso and Dalthorp (2014) <doi:10.1002/jwmg.663>) to estimate the carcass fall distribution. There are also functions for calculating the proportion of area searched within one unit annuli, log logistic distribution functions, and truncated distribution functions.
Author: Paul Rabie [aut],
Daniel Riser-Espinoza [aut, cre],
Trent McDonald [ctb]
Maintainer: Daniel Riser-Espinoza <despinoza@west-inc.com>
Diff between windAC versions 1.2.9 dated 2022-09-09 and 1.2.10 dated 2023-03-22
DESCRIPTION | 10 +++++----- MD5 | 10 +++++----- R/geometricRoadPadPropSearchTable.R | 3 --- R/getProportionAreaSearched.R | 27 +++++++++++++++------------ R/weightedLikelihood.R | 12 ++++++------ man/getProportionAreaSearched.Rd | 6 +++--- 6 files changed, 34 insertions(+), 34 deletions(-)
Title: Large-Scale Bayesian Variable Selection Using Variational
Methods
Description: Fast algorithms for fitting Bayesian variable selection
models and computing Bayes factors, in which the outcome (or
response variable) is modeled using a linear regression or a
logistic regression. The algorithms are based on the variational
approximations described in "Scalable variational inference for
Bayesian variable selection in regression, and its accuracy in
genetic association studies" (P. Carbonetto & M. Stephens, 2012,
<DOI:10.1214/12-BA703>). This software has been applied to large
data sets with over a million variables and thousands of samples.
Author: Peter Carbonetto [aut, cre],
Matthew Stephens [aut],
David Gerard [ctb]
Maintainer: Peter Carbonetto <peter.carbonetto@gmail.com>
Diff between varbvs versions 2.5-16 dated 2019-03-07 and 2.6-8 dated 2023-03-22
varbvs-2.5-16/varbvs/README.md |only varbvs-2.6-8/varbvs/DESCRIPTION | 12 varbvs-2.6-8/varbvs/MD5 | 55 - varbvs-2.6-8/varbvs/NAMESPACE | 4 varbvs-2.6-8/varbvs/R/RcppExports.R | 3 varbvs-2.6-8/varbvs/R/misc.R | 7 varbvs-2.6-8/varbvs/R/predict.varbvs.R | 4 varbvs-2.6-8/varbvs/R/predict.varbvsmix.R |only varbvs-2.6-8/varbvs/R/varbvs.R | 6 varbvs-2.6-8/varbvs/R/varbvs.properties.R | 6 varbvs-2.6-8/varbvs/R/varbvsbin.R | 6 varbvs-2.6-8/varbvs/R/varbvsbinz.R | 6 varbvs-2.6-8/varbvs/R/varbvsmix.R | 183 ++-- varbvs-2.6-8/varbvs/R/varbvsnorm.R | 17 varbvs-2.6-8/varbvs/build/vignette.rds |binary varbvs-2.6-8/varbvs/inst/CITATION | 13 varbvs-2.6-8/varbvs/inst/doc/cd.R | 18 varbvs-2.6-8/varbvs/inst/doc/cd.html | 407 +++++++++-- varbvs-2.6-8/varbvs/inst/doc/cfw.R | 20 varbvs-2.6-8/varbvs/inst/doc/cfw.html | 476 ++++++++++-- varbvs-2.6-8/varbvs/inst/doc/cytokine.R | 18 varbvs-2.6-8/varbvs/inst/doc/cytokine.html | 421 +++++++++-- varbvs-2.6-8/varbvs/inst/doc/leukemia.R | 22 varbvs-2.6-8/varbvs/inst/doc/leukemia.html | 812 +++++++++++++++------- varbvs-2.6-8/varbvs/man/predict.varbvsmix.Rd |only varbvs-2.6-8/varbvs/man/varbvs.properties.Rd | 3 varbvs-2.6-8/varbvs/man/varbvsmix.Rd | 39 - varbvs-2.6-8/varbvs/src/RcppExports.cpp | 11 varbvs-2.6-8/varbvs/src/varbvsnormupdate_rcpp.cpp | 3 varbvs-2.6-8/varbvs/tests/testthat/test_varbvs.R | 2 30 files changed, 1886 insertions(+), 688 deletions(-)
Title: Joint Quantile and Expected Shortfall Regression
Description: Simultaneous modeling of the quantile and the expected shortfall of a response variable given
a set of covariates, see Dimitriadis and Bayer (2019) <doi:10.1214/19-EJS1560>.
Author: Sebastian Bayer [aut, cre],
Timo Dimitriadis [aut]
Maintainer: Sebastian Bayer <sebastian.bayer@uni-konstanz.de>
Diff between esreg versions 0.6.0 dated 2022-04-09 and 0.6.1 dated 2023-03-22
DESCRIPTION | 10 +++--- MD5 | 10 +++--- NEWS.md | 3 ++ src/covariance_functions.cpp | 12 +++----- src/sandwich_loops.cpp | 64 ++++++++++++++++++------------------------- src/target_functions.cpp | 16 ++++------ 6 files changed, 53 insertions(+), 62 deletions(-)
Title: Causal Inference and Prediction in Cohort-Based Analyses
Description: Numerous functions for cohort-based analyses, either for prediction or causal inference. For causal inference, it includes Inverse Probability Weighting and G-computation for marginal estimation of an exposure effect when confounders are expected. We deal with binary outcomes, times-to-events, competing events, and multi-state data. For multistate data, semi-Markov model with interval censoring may be considered, and we propose the possibility to consider the excess of mortality related to the disease compared to reference lifetime tables. For predictive studies, we propose a set of functions to estimate time-dependent receiver operating characteristic (ROC) curves with the possible consideration of right-censoring times-to-events or the presence of confounders. Finally, several functions are available to assess time-dependent ROC curves or survival curves from aggregated data.
Author: Yohann Foucher [aut, cre] ,
Florent Le Borgne [aut],
Arthur Chatton [aut],
Camille Sabathe [aut]
Maintainer: Yohann Foucher <Yohann.Foucher@univ-poitiers.fr>
Diff between RISCA versions 1.0.3 dated 2022-11-21 and 1.0.4 dated 2023-03-22
RISCA-1.0.3/RISCA/R/gc.sl.time.R |only RISCA-1.0.3/RISCA/R/hr.sl.time.R |only RISCA-1.0.3/RISCA/R/nnet.time.R |only RISCA-1.0.3/RISCA/R/predict.nnet.time.R |only RISCA-1.0.3/RISCA/R/tune.nnet.time.R |only RISCA-1.0.3/RISCA/man/gc.sl.time.Rd |only RISCA-1.0.3/RISCA/man/hr.sl.time.Rd |only RISCA-1.0.3/RISCA/man/nnet.time.Rd |only RISCA-1.0.3/RISCA/man/predict.nnet.time.Rd |only RISCA-1.0.3/RISCA/man/tune.nnet.time.Rd |only RISCA-1.0.4/RISCA/DESCRIPTION | 14 +- RISCA-1.0.4/RISCA/MD5 | 34 +++--- RISCA-1.0.4/RISCA/NAMESPACE | 17 +-- RISCA-1.0.4/RISCA/R/nn.time.R |only RISCA-1.0.4/RISCA/R/plot.sl.time.R | 3 RISCA-1.0.4/RISCA/R/predict.nn.time.R |only RISCA-1.0.4/RISCA/R/predict.sl.time.R | 2 RISCA-1.0.4/RISCA/R/print.sl.time.R |only RISCA-1.0.4/RISCA/R/sl.time.R | 136 +++++++++++++------------- RISCA-1.0.4/RISCA/R/summary.sl.time.R | 2 RISCA-1.0.4/RISCA/R/survival.summary.strata.R | 6 - RISCA-1.0.4/RISCA/R/tune.nn.time.R |only RISCA-1.0.4/RISCA/man/nn.time.Rd |only RISCA-1.0.4/RISCA/man/predict.nn.time.Rd |only RISCA-1.0.4/RISCA/man/print.sl.time.Rd |only RISCA-1.0.4/RISCA/man/sl.time.Rd | 6 - RISCA-1.0.4/RISCA/man/tune.nn.time.Rd |only 27 files changed, 112 insertions(+), 108 deletions(-)
Title: Analyze, Summarize, and Visualize Daily Streamflow Data
Description: The Flow Analysis Summary Statistics Tool for R, 'fasstr', provides various functions to tidy and screen daily stream discharge data, calculate and visualize various summary statistics and metrics, and compute annual trending and volume frequency analyses.
It features useful function arguments for filtering of and handling dates, customizing data and metrics, and the ability to pull daily data directly from the Water Survey of Canada hydrometric database (<https://collaboration.cmc.ec.gc.ca/cmc/hydrometrics/www/>).
Author: Jon Goetz [aut, cre] ,
Carl James Schwarz [aut],
Sam Albers [ctb] ,
Robin Pike [ctb],
Province of British Columbia [cph]
Maintainer: Jon Goetz <jon.goetz@gov.bc.ca>
Diff between fasstr versions 0.5.0 dated 2022-10-21 and 0.5.1 dated 2023-03-22
DESCRIPTION | 11 MD5 | 46 +- NEWS.md | 13 R/add_basin_area.R | 4 R/add_cumulative_volume.R | 3 R/add_cumulative_yield.R | 3 R/add_rolling_means.R | 3 R/add_seasons.R | 5 R/calc_annual_extremes.R | 6 R/calc_annual_highflows.R | 3 R/calc_annual_lowflows.R | 3 R/calc_annual_peaks.R | 6 R/fill_missing_dates.R | 3 R/plot_annual_extremes_year.R | 40 + R/plot_annual_normal_days_year.R | 6 build/vignette.rds |binary inst/doc/fasstr.html | 4 inst/doc/fasstr_frequency_analysis.html | 26 - inst/doc/fasstr_full_analysis.html | 47 +- inst/doc/fasstr_trending_analysis.html | 45 +- inst/doc/fasstr_users_guide.html | 698 ++++++++++++++++---------------- man/fasstr-package.Rd | 1 man/figures/plot1-1.png |binary man/figures/plot3-1.png |binary 24 files changed, 524 insertions(+), 452 deletions(-)
Title: Descriptive Statistics
Description: Weighted frequency and contingency tables of categorical
variables and of the comparison of the mean value of a numerical
variable by the levels of a factor, and methods to produce xtable
objects of the tables and to plot them. There are also functions to
facilitate the character encoding conversion of objects, to quickly
convert fixed width files into csv ones, and to export a data.frame to
a text file with the necessary R and SPSS codes to reread the data.
Author: Jakson Aquino. Includes R source code and/or documentation
written by Dirk Enzmann, Marc Schwartz, Nitin Jain, and Stefan
Kraft
Maintainer: Jakson Aquino <jalvesaq@gmail.com>
Diff between descr versions 1.1.6 dated 2023-03-08 and 1.1.7 dated 2023-03-22
DESCRIPTION | 8 ++++---- MD5 | 12 ++++++------ NAMESPACE | 2 +- NEWS | 4 ++++ R/fwf2csv.R | 5 ++--- man/fwf2csv.Rd | 31 ++++++++++++++++++++++++++----- src/descr.c | 9 +++++++-- 7 files changed, 50 insertions(+), 21 deletions(-)
Title: Multivariate Generalised Gaussian Distribution; Kullback-Leibler
Divergence
Description: Distance between multivariate generalised Gaussian distributions, as presented by N. Bouhlel and A. Dziri (2019) <doi:10.1109/LSP.2019.2915000>. Manipulation of multivariate generalised Gaussian distributions (methods presented by Gomez, Gomez-Villegas and Marin (1998) <doi:10.1080/03610929808832115> and Pascal, Bombrun, Tourneret and Berthoumieu (2013) <doi:10.1109/TSP.2013.2282909>).
Author: Pierre Santagostini [aut, cre],
Nizar Bouhlel [aut]
Maintainer: Pierre Santagostini <pierre.santagostini@agrocampus-ouest.fr>
Diff between mggd versions 1.0.2 dated 2022-06-13 and 1.1.0 dated 2023-03-22
mggd-1.0.2/mggd/R/kldiv.R |only mggd-1.0.2/mggd/man/kldiv.Rd |only mggd-1.0.2/mggd/tests/testthat/test_kldiv.R |only mggd-1.1.0/mggd/DESCRIPTION | 10 ++-- mggd-1.1.0/mggd/MD5 | 49 +++++++++++----------- mggd-1.1.0/mggd/NAMESPACE | 2 mggd-1.1.0/mggd/R/contourmvggd.R | 6 +- mggd-1.1.0/mggd/R/deprecated.R |only mggd-1.1.0/mggd/R/estparmvggd.R | 4 - mggd-1.1.0/mggd/R/kldggd.R |only mggd-1.1.0/mggd/R/lauricella.R | 12 ++--- mggd-1.1.0/mggd/R/mggd.R | 2 mggd-1.1.0/mggd/R/mvdggd.R | 14 ++++-- mggd-1.1.0/mggd/R/mvrggd.R | 19 ++++---- mggd-1.1.0/mggd/R/plotmvggd.R | 4 + mggd-1.1.0/mggd/R/pochhammer.R | 4 - mggd-1.1.0/mggd/build/partial.rdb |binary mggd-1.1.0/mggd/man/contourmvggd.Rd | 4 + mggd-1.1.0/mggd/man/deprecated.Rd |only mggd-1.1.0/mggd/man/estparmvggd.Rd | 4 - mggd-1.1.0/mggd/man/kldggd.Rd |only mggd-1.1.0/mggd/man/lauricella.Rd | 12 ++--- mggd-1.1.0/mggd/man/mggd-package.Rd | 2 mggd-1.1.0/mggd/man/mvdggd.Rd | 8 ++- mggd-1.1.0/mggd/man/mvrggd.Rd | 11 ++-- mggd-1.1.0/mggd/man/plotmvggd.Rd | 4 + mggd-1.1.0/mggd/man/pochhammer.Rd | 4 - mggd-1.1.0/mggd/tests/testthat/test_estparmvggd.R | 4 - mggd-1.1.0/mggd/tests/testthat/test_kldggd.R |only mggd-1.1.0/mggd/tests/testthat/test_lauricella.R |only 30 files changed, 103 insertions(+), 76 deletions(-)
Title: Generalized Linear Mixed Model Trees
Description: Recursive partitioning based on (generalized) linear mixed models
(GLMMs) combining lmer()/glmer() from 'lme4' and lmtree()/glmtree() from
'partykit'. The fitting algorithm is described in more detail in Fokkema,
Smits, Zeileis, Hothorn & Kelderman (2018; <DOI:10.3758/s13428-017-0971-x>).
Author: Marjolein Fokkema [aut, cre],
Achim Zeileis [aut]
Maintainer: Marjolein Fokkema <M.Fokkema@fsw.leidenuniv.nl>
Diff between glmertree versions 0.2-0 dated 2019-11-19 and 0.2-3 dated 2023-03-22
glmertree-0.2-0/glmertree/man/MHservice.Rd |only glmertree-0.2-0/glmertree/tests/tests.R |only glmertree-0.2-3/glmertree/DESCRIPTION | 14 - glmertree-0.2-3/glmertree/MD5 | 32 +- glmertree-0.2-3/glmertree/NAMESPACE | 21 + glmertree-0.2-3/glmertree/NEWS | 29 ++ glmertree-0.2-3/glmertree/R/betamertree.R |only glmertree-0.2-3/glmertree/R/glmertree.R | 162 +++++++++++---- glmertree-0.2-3/glmertree/build/partial.rdb |only glmertree-0.2-3/glmertree/build/vignette.rds |binary glmertree-0.2-3/glmertree/data/DepressionDemo.rda |binary glmertree-0.2-3/glmertree/inst/CITATION | 31 -- glmertree-0.2-3/glmertree/inst/doc/glmertree.pdf |binary glmertree-0.2-3/glmertree/man/MHserviceDemo.Rd |only glmertree-0.2-3/glmertree/man/betamertree.Rd |only glmertree-0.2-3/glmertree/man/coef.glmertree.Rd | 2 glmertree-0.2-3/glmertree/man/glmertree.Rd | 14 - glmertree-0.2-3/glmertree/man/plot.glmertree.Rd | 57 +++-- glmertree-0.2-3/glmertree/tests/test_glmertree.R |only glmertree-0.2-3/glmertree/tests/test_glmertree.Rout.save |only glmertree-0.2-3/glmertree/vignettes/glmertree.bib | 2 21 files changed, 252 insertions(+), 112 deletions(-)
Title: An Algorithm for Reducing Errors-in-Variable Bias in Simple and
Multiple Linear Regression
Description: Performs a compact genetic algorithm search to reduce errors-in-variables bias in linear regression. The algorithm estimates the regression parameters with lower biases and higher variances but mean-square errors (MSEs) are reduced.
Author: Mehmet Hakan Satman , Erkin Diyarbakirlioglu
Maintainer: Mehmet Hakan Satman <mhsatman@istanbul.edu.tr>
Diff between eive versions 3.1.0 dated 2022-08-05 and 3.1.1 dated 2023-03-22
DESCRIPTION | 15 +- MD5 | 38 +++-- NAMESPACE | 5 R/RcppExports.R | 24 +++ R/eive.R | 210 +++++++++++++++++++++++++++++- R/eivem.R | 172 +++++++++++++++++++++++- README.md | 68 +++++++++ inst/CITATION | 30 ++-- man/cga.Rd | 41 ++--- man/cga_generate_chromosome.Rd | 40 ++--- man/eive-package.Rd | 29 +++- man/eive.cga.Rd | 113 +++++++--------- man/eive.cga.formula.Rd |only man/eivem.Rd | 185 ++++++++++++++------------ man/generate.eive.data.Rd | 49 +++---- src/RcppExports.cpp | 11 - src/ccga.cpp | 29 +++- src/registerDynamicSymbol.c | 2 tests/testthat/test-eive-formula-otherx.R |only tests/testthat/test-eive-formula.R |only tests/testthat/test-eive.R | 4 tests/testthat/test-generate-eive-data.R |only 22 files changed, 779 insertions(+), 286 deletions(-)
Title: An Adaptive Lifting Scheme Algorithm
Description: Adaptive wavelet lifting transforms for signal denoising using optimal local neighbourhood regression, from Nunes et al. (2006) <doi:10.1007/s11222-006-6560-y>.
Author: Matt Nunes [aut, cre],
Marina Knight [aut],
Guy Nason [ctb, ths]
Maintainer: Matt Nunes <nunesrpackages@gmail.com>
Diff between adlift versions 1.4-4 dated 2022-11-06 and 1.4-5 dated 2023-03-22
DESCRIPTION | 8 ++++---- MD5 | 16 ++++++++-------- R/Amatdual2.R | 2 +- R/PointsUpdate2.R | 2 +- R/denoise2.R | 2 +- R/denoisehetero2.R | 2 +- R/denoiseheteroprop2.R | 2 +- R/fwtnp2.R | 2 +- R/invtnp2.R | 2 +- 9 files changed, 19 insertions(+), 19 deletions(-)
Title: Variational Bayes Latent Position Cluster Model for Networks
Description: Fit and simulate latent position and cluster models for network data, using a fast Variational Bayes approximation developed in Salter-Townshend and Murphy (2013) <doi:10.1016/j.csda.2012.08.004>.
Author: Michael Salter-Townshend
Maintainer: Michael Salter-Townshend <mike.saltertownshend@gmail.com>
Diff between VBLPCM versions 2.4.8 dated 2021-10-06 and 2.4.9 dated 2023-03-22
VBLPCM-2.4.8/VBLPCM/CHANGELOG |only VBLPCM-2.4.9/VBLPCM/DESCRIPTION | 8 ++++---- VBLPCM-2.4.9/VBLPCM/MD5 | 22 +++++++++++----------- VBLPCM-2.4.9/VBLPCM/NEWS.md |only VBLPCM-2.4.9/VBLPCM/R/KL.R | 2 +- VBLPCM-2.4.9/VBLPCM/R/VBLPCM.R | 2 +- VBLPCM-2.4.9/VBLPCM/R/adjacency_to_edges.R | 8 ++++---- VBLPCM-2.4.9/VBLPCM/R/fruchterman_reingold.R | 2 +- VBLPCM-2.4.9/VBLPCM/R/log_like_forces.R | 2 +- VBLPCM-2.4.9/VBLPCM/R/zzz.R | 26 ++++++++++++++------------ VBLPCM-2.4.9/VBLPCM/inst/CITATION | 4 ++-- VBLPCM-2.4.9/VBLPCM/man/VBLPCM-package.Rd | 4 ++-- VBLPCM-2.4.9/VBLPCM/src/init.c | 2 +- 13 files changed, 42 insertions(+), 40 deletions(-)
Title: Estimating Systems of Simultaneous Equations
Description: Econometric estimation of simultaneous
systems of linear and nonlinear equations using Ordinary Least
Squares (OLS), Weighted Least Squares (WLS), Seemingly Unrelated
Regressions (SUR), Two-Stage Least Squares (2SLS), Weighted
Two-Stage Least Squares (W2SLS), and Three-Stage Least Squares (3SLS)
as suggested, e.g., by Zellner (1962) <doi:10.2307/2281644>,
Zellner and Theil (1962) <doi:10.2307/1911287>, and
Schmidt (1990) <doi:10.1016/0304-4076(90)90127-F>.
Author: Arne Henningsen and Jeff D. Hamann
Maintainer: Arne Henningsen <arne.henningsen@gmail.com>
Diff between systemfit versions 1.1-28 dated 2022-09-04 and 1.1-30 dated 2023-03-22
DESCRIPTION | 10 +++++----- MD5 | 18 +++++++++--------- NEWS | 6 ++++++ R/bread.systemfit.R | 18 +++++++++--------- R/estfun.systemfit.R | 22 +++++++++++----------- build/vignette.rds |binary inst/CITATION | 8 ++++---- inst/doc/systemfit.pdf |binary man/bread.systemfit.Rd | 4 ++-- man/estfun.systemfit.Rd | 4 ++-- 10 files changed, 48 insertions(+), 42 deletions(-)
Title: Interface to 'Python' Package 'StepMix'
Description: This is an interface for the 'Python' package
'StepMix'. It is a 'Python' package following the scikit-learn API for
model-based clustering and generalized mixture modeling (latent class/profile
analysis) of continuous and categorical data. 'StepMix' handles missing values
through Full Information Maximum Likelihood (FIML) and provides multiple stepwise
Expectation-Maximization (EM) estimation methods based on pseudolikelihood
theory. Additional features include support for covariates and distal outcomes,
various simulation utilities, and non-parametric bootstrapping, which allows
inference in semi-supervised and unsupervised settings.
Author: Éric Lacourse [aut],
Roxane de la Sablonniere [aut],
Charles-Édouard Giguere [aut, cre],
Sacha Morin [aut],
Robin Legault [aut],
Zsusza Bakk [ctb]
Maintainer: Charles-Édouard Giguere <ce.giguere@gmail.com>
Diff between stepmixr versions 0.1.0 dated 2022-11-18 and 0.1.1 dated 2023-03-22
DESCRIPTION | 41 +++++++++++++++++++++++++---------------- MD5 | 20 +++++++++++--------- NAMESPACE | 13 +++++++++++++ R/Datasets.R |only R/stepmix.R | 41 +++++++++++++++++++++++++++++++++++++++-- man/Datasets.Rd |only man/fit.Rd | 24 +++++++++++++++++++----- man/install.stepmix.Rd | 9 ++++++--- man/mixed_descriptor.Rd | 9 ++++++--- man/predict.Rd | 9 ++++++--- man/savefit.Rd | 9 ++++++--- man/stepmix.Rd | 9 ++++++--- 12 files changed, 137 insertions(+), 47 deletions(-)
Title: Sparse Multi-Type Regularized Feature Modeling
Description: Implementation of the SMuRF algorithm of Devriendt et al. (2021) <doi:10.1016/j.insmatheco.2020.11.010> to fit generalized linear models (GLMs) with multiple types of predictors via regularized maximum likelihood.
Author: Tom Reynkens [aut, cre] ,
Sander Devriendt [aut],
Katrien Antonio [aut]
Maintainer: Tom Reynkens <tomreynkens@hotmail.com>
Diff between smurf versions 1.1.4 dated 2023-01-30 and 1.1.5 dated 2023-03-22
DESCRIPTION | 11 +++++------ MD5 | 26 +++++++++++++------------- NAMESPACE | 1 - R/Penalty_weights.R | 12 +++++------- R/glmsmurf-class.R | 2 +- R/glmsmurf_control.R | 2 +- R/glmsmurf_fit_internal.R | 20 +++++--------------- R/smurf.R | 2 -- build/partial.rdb |binary build/vignette.rds |binary inst/NEWS.Rd | 6 ++++++ inst/doc/smurf.html | 4 ++-- man/glmsmurf-class.Rd | 2 +- man/glmsmurf.control.Rd | 2 +- 14 files changed, 40 insertions(+), 50 deletions(-)
Title: A Soil Survey Toolkit
Description: Miscellaneous soil data management, summary, visualization, and conversion utilities to support soil survey.
Author: Dylan Beaudette [cre, aut],
Jay Skovlin [aut],
Stephen Roecker [aut],
Andrew Brown [aut],
USDA-NRCS Soil Survey Staff [ctb]
Maintainer: Dylan Beaudette <dylan.beaudette@usda.gov>
Diff between sharpshootR versions 2.0 dated 2023-01-06 and 2.1 dated 2023-03-22
DESCRIPTION | 10 +-- MD5 | 34 ++++++------- NEWS.md | 7 +- R/PCP_plot.R | 38 ++++++++++---- R/SoilTaxonomyDendrogram.R | 9 ++- R/colorMixtureVenn.R | 2 R/huePositionPlot.R | 34 ++++++++----- R/monthlyWB.R | 71 +++++++++++++++++++++++----- R/plotProfileDendrogram.R | 8 ++- R/sampleRasterStackByMU.R | 12 ++++ man/SoilTaxonomyDendrogram.Rd | 3 + man/colorMixtureVenn.Rd | 2 man/geomorphBySoilSeries-SSURGO.Rd | 19 ------- man/huePositionPlot.Rd | 5 + man/monthlyWB.Rd | 4 - man/plotProfileDendrogram.Rd | 3 + tests/testthat/Rplots.pdf |binary tests/testthat/test-plotProfileDendrogram.R | 2 18 files changed, 174 insertions(+), 89 deletions(-)
Title: Tidy Geospatial Networks
Description: Provides a tidy approach to spatial network
analysis, in the form of classes and functions that enable a seamless
interaction between the network analysis package 'tidygraph' and the
spatial analysis package 'sf'.
Author: Lucas van der Meer [aut, cre] ,
Lorena Abad [aut] ,
Andrea Gilardi [aut] ,
Robin Lovelace [aut]
Maintainer: Lucas van der Meer <luukvandermeer@live.nl>
Diff between sfnetworks versions 0.6.2 dated 2023-02-26 and 0.6.3 dated 2023-03-22
DESCRIPTION | 6 - MD5 | 20 ++--- NEWS.md | 8 ++ R/sf.R | 117 ++++++++++------------------------- inst/doc/sfn01_structure.html | 86 +++++-------------------- inst/doc/sfn02_preprocess_clean.html | 92 +++++++++------------------ inst/doc/sfn03_join_filter.html | 81 +++++------------------- inst/doc/sfn04_routing.html | 30 +++----- inst/doc/sfn05_morphers.html | 101 +++++++++--------------------- man/as.linnet.Rd | 2 man/sf.Rd | 19 +++-- 11 files changed, 179 insertions(+), 383 deletions(-)
Title: Interactive Networks, Timelines, Barplots, Galleries with
'D3.js'
Description: Creates interactive analytic graphs with 'R'. It joins the data analysis power of R and the visualization libraries of JavaScript in one package. The package provides interactive networks, timelines, barplots, image galleries and evolving networks. Graphs are represented as 'D3.js' graphs embedded in a web page ready for its interactive analysis and exploration.
Author: Modesto Escobar [aut, cph, cre]
,
Carlos Prieto [aut] ,
David Barrios [aut]
Maintainer: Modesto Escobar <modesto@usal.es>
Diff between rD3plot versions 1.0.25 dated 2021-10-28 and 1.0.68 dated 2023-03-22
DESCRIPTION | 10 MD5 | 70 +- NAMESPACE | 9 R/barplot.R | 4 R/gallery.R | 79 +- R/methods.R | 59 + R/multigraph.R | 243 ++++++ R/network.R | 59 + R/pie.R |only R/timeline.R | 2 R/utils.R | 38 + inst/www/barplot.js | 15 inst/www/bootstrap.scrolling.nav.css |only inst/www/ca.js | 22 inst/www/colorScales.js | 5 inst/www/d3.min.js | 4 inst/www/en.js | 20 inst/www/es.js | 22 inst/www/functions.js | 1094 ++++++++++++++++++++++++++----- inst/www/gallery.js | 633 +++++++++++++----- inst/www/images.js |only inst/www/multigraph.js | 4 inst/www/multipages.css |only inst/www/multipages.js |only inst/www/network.js | 1221 ++++++++++++++++++++++------------- inst/www/pie.js |only inst/www/polygraph.js | 36 - inst/www/styles.css | 343 ++++++++- inst/www/template.html | 1 inst/www/timeline.js | 47 - inst/www/tutorial.css |only inst/www/tutorial.js |only inst/www/tutorial_ca.js |only inst/www/tutorial_en.js |only inst/www/tutorial_es.js |only man/add_tutorial_rd3.Rd |only man/evolNetwork_rd3.Rd | 5 man/gallery_rd3.Rd | 19 man/network_rd3.Rd | 17 man/pie_rd3.Rd |only man/rd3_addDescription.Rd |only man/rd3_addImage.Rd |only man/rd3_multiPages.Rd |only man/rd3_multigraph.Rd | 28 44 files changed, 3106 insertions(+), 1003 deletions(-)
Title: Analysis of MHC Data in Non-Model Species
Description: Fifteen tools for bioinformatics processing and analysis of major
histocompatibility complex (MHC) data. The functions are tailored for amplicon data
sets that have been filtered using the dada2 method (for more information on
dada2, visit <https://benjjneb.github.io/dada2/> ), but even other types of data
sets can be analyzed.
The ReplMatch() function matches replicates in data sets in order to evaluate
genotyping success.
The GetReplTable() and GetReplStats() functions perform such an evaluation.
The CreateFas() function creates a fasta file with all the sequences in the data
set.
The CreateSamplesFas() function creates individual fasta files for each sample in
the data set.
The DistCalc() function calculates Grantham, Sandberg, or p-distances from pairwise
comparisons of all sequences in a data set, and mean distances of all pairwise
comparisons within each sample in a data set. The function additionally outputs five
tables with physico-chemical z-descriptor values (based on S [...truncated...]
Author: Jacob Roved [aut, cre]
Maintainer: Jacob Roved <jacob.roved@biol.lu.se>
Diff between MHCtools versions 1.5.0 dated 2022-10-19 and 1.5.1 dated 2023-03-22
MHCtools-1.5.0/MHCtools/R/CreateFas_func_20170924.R |only MHCtools-1.5.0/MHCtools/R/CreateSamplesFas_func_20170924.R |only MHCtools-1.5.0/MHCtools/R/DistCalc_func_20221007.R |only MHCtools-1.5.0/MHCtools/R/HpltFind_func_20220802.R |only MHCtools-1.5.0/MHCtools/R/HpltMatch_func_20221014.R |only MHCtools-1.5.0/MHCtools/R/PapaDiv_func_20200915.R |only MHCtools-1.5.0/MHCtools/R/ReplMatch_func_20221007.R |only MHCtools-1.5.1/MHCtools/DESCRIPTION | 8 +- MHCtools-1.5.1/MHCtools/LICENSE | 2 MHCtools-1.5.1/MHCtools/MD5 | 48 ++++++------- MHCtools-1.5.1/MHCtools/NEWS.md | 8 ++ MHCtools-1.5.1/MHCtools/R/CreateFas_func_20230321.R |only MHCtools-1.5.1/MHCtools/R/CreateSamplesFas_func_20230321.R |only MHCtools-1.5.1/MHCtools/R/DistCalc_func_20230321.R |only MHCtools-1.5.1/MHCtools/R/HpltFind_func_20230321.R |only MHCtools-1.5.1/MHCtools/R/HpltMatch_func_20230322.R |only MHCtools-1.5.1/MHCtools/R/PapaDiv_func_20230321.R |only MHCtools-1.5.1/MHCtools/R/ReplMatch_func_20230321.R |only MHCtools-1.5.1/MHCtools/data/hplt_occurrence_matrix.rda |binary MHCtools-1.5.1/MHCtools/data/sequence_table_hplt.rda |binary MHCtools-1.5.1/MHCtools/data/z1_matrix.rda |binary MHCtools-1.5.1/MHCtools/data/z2_matrix.rda |binary MHCtools-1.5.1/MHCtools/data/z3_matrix.rda |binary MHCtools-1.5.1/MHCtools/data/z4_matrix.rda |binary MHCtools-1.5.1/MHCtools/data/z5_matrix.rda |binary MHCtools-1.5.1/MHCtools/man/CreateFas.Rd | 2 MHCtools-1.5.1/MHCtools/man/CreateSamplesFas.Rd | 2 MHCtools-1.5.1/MHCtools/man/DistCalc.Rd | 2 MHCtools-1.5.1/MHCtools/man/HpltFind.Rd | 2 MHCtools-1.5.1/MHCtools/man/HpltMatch.Rd | 6 - MHCtools-1.5.1/MHCtools/man/PapaDiv.Rd | 2 MHCtools-1.5.1/MHCtools/man/ReplMatch.Rd | 2 32 files changed, 46 insertions(+), 38 deletions(-)
Title: Causal Inference with Tree-Based Machine Learning Algorithms
Description: Estimating heterogeneous treatment effects with tree-based machine
learning algorithms and visualizing estimated results in flexible and
presentation-ready ways. For more information, see Brand, Xu, Koch,
and Geraldo (2021) <doi:10.1177/0081175021993503>. Our current package
first started as a fork of the 'causalTree' package on 'GitHub' and we
greatly appreciate the authors for their extremely useful and free package.
Author: Jiahui Xu [cre, aut],
Tanvi Shinkre [aut],
Jennie Brand [aut]
Maintainer: Jiahui Xu <jiahuixu@ucla.edu>
Diff between htetree versions 0.1.13 dated 2023-03-21 and 0.1.14 dated 2023-03-22
DESCRIPTION | 6 +-- MD5 | 4 +- src/totD.c | 100 ++++++++++++++++++++++++++++++------------------------------ 3 files changed, 55 insertions(+), 55 deletions(-)
Title: Easy Data Wrangling and Statistical Transformations
Description: A lightweight package to assist in key steps involved in any data
analysis workflow: (1) wrangling the raw data to get it in the needed form,
(2) applying preprocessing steps and statistical transformations, and
(3) compute statistical summaries of data properties and distributions.
It is also the data wrangling backend for packages in 'easystats' ecosystem.
References: Patil et al. (2022) <doi:10.21105/joss.04684>.
Author: Indrajeet Patil [aut] ,
Etienne Bacher [aut, cre] ,
Dominique Makowski [aut] ,
Daniel Luedecke [aut] ,
Mattan S. Ben-Shachar [aut] ,
Brenton M. Wiernik [aut] ,
Remi Theriault [ctb] ,
Thomas J. Faulkenberry [rev],
Robert Garrett [rev]
Maintainer: Etienne Bacher <etienne.bacher@protonmail.com>
Diff between datawizard versions 0.6.5 dated 2022-12-14 and 0.7.0 dated 2023-03-22
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datawizard-0.7.0/datawizard/tests/testthat/test-skewness-kurtosis.R | 10 datawizard-0.7.0/datawizard/tests/testthat/test-smoothness.R | 2 datawizard-0.7.0/datawizard/tests/testthat/test-standardize-data.R | 74 + datawizard-0.7.0/datawizard/tests/testthat/test-standardize_models.R | 52 - datawizard-0.7.0/datawizard/tests/testthat/test-std_center.R | 1 datawizard-0.7.0/datawizard/tests/testthat/test-std_center_scale_args.R | 1 datawizard-0.7.0/datawizard/tests/testthat/test-text_format.R | 16 datawizard-0.7.0/datawizard/tests/testthat/test-unnormalize.R | 6 datawizard-0.7.0/datawizard/tests/testthat/test-utils_data.R | 24 datawizard-0.7.0/datawizard/tests/testthat/test-winsorization.R | 30 datawizard-0.7.0/datawizard/vignettes/selection_syntax.Rmd | 10 datawizard-0.7.0/datawizard/vignettes/standardize_data.Rmd | 2 datawizard-0.7.0/datawizard/vignettes/tidyverse_translation.Rmd | 4 167 files changed, 2685 insertions(+), 2234 deletions(-)
Title: Multi-Model Inference
Description: Tools for performing model selection and model averaging. Automated
model selection through subsetting the maximum model, with optional
constraints for model inclusion. Model parameter and prediction
averaging based on model weights derived from information criteria
(AICc and alike) or custom model weighting schemes.
Author: Kamil Barton
Maintainer: Kamil Barton <kamil.barton@go2.pl>
Diff between MuMIn versions 1.47.1 dated 2022-08-31 and 1.47.5 dated 2023-03-22
DESCRIPTION | 19 - MD5 | 53 +-- NAMESPACE | 8 NEWS | 759 ++++++++++++++++++++++---------------------- R/class-mark.R | 2 R/class-pkg-spatialreg.R |only R/coefTable.R | 6 R/loo.R | 54 +-- R/methods-averaging.R | 2 R/methods-nobs.R | 4 R/model.avg.R | 56 +-- R/plot.model.selection.R | 17 R/r.squaredGLMM2.R | 132 +++---- R/r.squaredLR.R | 15 R/termdeps.R | 42 +- data/Beetle.rda |binary data/Cement.rda |binary data/GPA.rda |binary inst/TODO | 8 man/AICc.Rd | 5 man/MuMIn-package.Rd | 28 - man/dredge.Rd | 35 +- man/manip-formula.Rd | 4 man/pdredge.Rd | 14 man/plot.model.selection.Rd | 6 man/r.squaredGLMM.Rd | 11 man/r.squaredLR.Rd | 4 tests/survival.R | 11 28 files changed, 688 insertions(+), 607 deletions(-)
Title: Forecasting Models for Tidy Time Series
Description: Provides a collection of commonly used univariate and multivariate
time series forecasting models including automatically selected exponential
smoothing (ETS) and autoregressive integrated moving average (ARIMA) models.
These models work within the 'fable' framework provided by the 'fabletools'
package, which provides the tools to evaluate, visualise, and combine models
in a workflow consistent with the tidyverse.
Author: Mitchell O'Hara-Wild [aut, cre],
Rob Hyndman [aut],
Earo Wang [aut],
Gabriel Caceres [ctb] ,
Christoph Bergmeir [ctb] ,
Tim-Gunnar Hensel [ctb],
Timothy Hyndman [ctb]
Maintainer: Mitchell O'Hara-Wild <mail@mitchelloharawild.com>
Diff between fable versions 0.3.2 dated 2022-09-01 and 0.3.3 dated 2023-03-22
DESCRIPTION | 10 +- MD5 | 122 +++++++++++++-------------- NEWS.md | 13 ++ R/ar.R | 2 R/arima.R | 7 - R/lm.R | 44 ++++----- R/mean.R | 3 R/var.R | 2 build/partial.rdb |binary inst/doc/fable.html | 185 ++++++++++++++++++++---------------------- inst/doc/transformations.html | 111 ++++++++++++------------- man/MEAN.Rd | 4 man/fitted.AR.Rd | 4 man/fitted.ARIMA.Rd | 4 man/fitted.ETS.Rd | 4 man/fitted.NNETAR.Rd | 4 man/fitted.RW.Rd | 4 man/fitted.TSLM.Rd | 4 man/fitted.VAR.Rd | 4 man/fitted.croston.Rd | 4 man/fitted.fable_theta.Rd | 4 man/fitted.model_mean.Rd | 4 man/forecast.AR.Rd | 6 - man/forecast.ARIMA.Rd | 6 - man/forecast.ETS.Rd | 6 - man/forecast.NNETAR.Rd | 6 - man/forecast.RW.Rd | 6 - man/forecast.TSLM.Rd | 6 - man/forecast.VAR.Rd | 6 - man/forecast.croston.Rd | 6 - man/forecast.fable_theta.Rd | 6 - man/forecast.model_mean.Rd | 6 - man/generate.AR.Rd | 4 man/generate.ARIMA.Rd | 4 man/generate.ETS.Rd | 4 man/generate.NNETAR.Rd | 4 man/generate.RW.Rd | 4 man/generate.TSLM.Rd | 4 man/generate.model_mean.Rd | 4 man/interpolate.ARIMA.Rd | 6 - man/interpolate.TSLM.Rd | 6 - man/interpolate.model_mean.Rd | 6 - man/refit.AR.Rd | 6 - man/refit.ARIMA.Rd | 6 - man/refit.ETS.Rd | 6 - man/refit.NNETAR.Rd | 6 - man/refit.RW.Rd | 6 - man/refit.TSLM.Rd | 6 - man/refit.model_mean.Rd | 6 - man/residuals.AR.Rd | 4 man/residuals.ARIMA.Rd | 4 man/residuals.ETS.Rd | 4 man/residuals.NNETAR.Rd | 4 man/residuals.RW.Rd | 4 man/residuals.TSLM.Rd | 4 man/residuals.VAR.Rd | 4 man/residuals.croston.Rd | 4 man/residuals.fable_theta.Rd | 4 man/residuals.model_mean.Rd | 4 man/tidy.AR.Rd | 4 man/tidy.VAR.Rd | 4 src/Makevars.win | 3 62 files changed, 374 insertions(+), 368 deletions(-)
Title: Exploratory Graphics for Pharmacometrics
Description: Supports a structured approach
for exploring PKPD data <https://opensource.nibr.com/xgx/>. It also
contains helper functions for enabling the modeler to follow best R
practices (by appending the program name, figure name location, and
draft status to each plot). In addition, it enables the modeler to
follow best graphical practices (by providing a theme that
reduces chart ink, and by providing time-scale, log-scale, and
reverse-log-transform-scale functions for more readable axes).
Finally, it provides some data checking and summarizing functions for
rapidly exploring pharmacokinetics and pharmacodynamics (PKPD) datasets.
Author: Andrew Stein [aut, cre],
Alison Margolskee [aut],
Fariba Khanshan [aut],
Konstantin Krismer [aut] ,
Matthew Fidler [ctb] ,
Novartis Pharma AG [cph, fnd]
Maintainer: Andrew Stein <andy.stein@gmail.com>
Diff between xgxr versions 1.1.1 dated 2021-04-22 and 1.1.2 dated 2023-03-22
DESCRIPTION | 9 MD5 | 26 NEWS | 122 - R/xgx_stat_smooth.R | 1480 +++++++++++------------ README.md | 4 build/vignette.rds |binary inst/doc/sad_pkpd.R | 434 +++--- inst/doc/sad_pkpd.html | 1460 ++++++++++++---------- inst/doc/theoph.R | 488 +++---- inst/doc/theoph.html | 1927 +++++++++++++++--------------- inst/doc/xgxr_overview.R | 704 +++++------ inst/doc/xgxr_overview.html | 2672 +++++++++++++++++++++--------------------- man/predictdf.polr.Rd | 25 man/xgx_scale_x_time_units.Rd | 6 14 files changed, 4815 insertions(+), 4542 deletions(-)
Title: Small Area Estimation Evaluation
Description: Allows users to produce diagnostic procedures and graphic tools for the evaluation of Small Area estimators.
Author: Andrea Fasulo [aut, cre]
Maintainer: Andrea Fasulo <fasulo@istat.it>
Diff between SAEval versions 0.1.5 dated 2022-05-16 and 1.0.0 dated 2023-03-22
DESCRIPTION | 6 +- MD5 | 20 +++--- NAMESPACE | 4 - R/bias.R | 161 ++++++++++++++++++++++++------------------------------- R/calibration.R | 45 +++++---------- R/cinterval.R | 45 +++++++-------- R/cv_table.R | 49 ++++++++-------- R/map_sae.R | 15 +++-- man/bias.Rd | 2 man/cinterval.Rd | 12 ++-- man/map_sae.Rd | 15 +++-- 11 files changed, 181 insertions(+), 193 deletions(-)
Title: Access to Spanish Meteorological Stations Services
Description: Access to different Spanish meteorological stations data services and APIs (AEMET, SMC, MG,
Meteoclimatic...).
Author: Victor Granda [aut, cre] ,
Miquel de Caceres [ctb] ,
Aitor Ameztegui [ctb] ,
Luis Franco [ctb]
Maintainer: Victor Granda <victorgrandagarcia@gmail.com>
Diff between meteospain versions 0.1.1 dated 2023-02-14 and 0.1.2 dated 2023-03-22
meteospain-0.1.1/meteospain/man/reexports.Rd |only meteospain-0.1.2/meteospain/DESCRIPTION | 12 meteospain-0.1.2/meteospain/MD5 | 87 +-- meteospain-0.1.2/meteospain/NAMESPACE | 3 meteospain-0.1.2/meteospain/NEWS.md | 19 meteospain-0.1.2/meteospain/R/aemet_helpers.R | 244 +++++++--- meteospain-0.1.2/meteospain/R/get_data.R | 7 meteospain-0.1.2/meteospain/R/meteocat_helpers.R | 114 ++-- meteospain-0.1.2/meteospain/R/meteoclimatic_helpers.R | 69 -- meteospain-0.1.2/meteospain/R/meteogalicia_helpers.R | 151 ++---- meteospain-0.1.2/meteospain/R/ria_helpers.R | 132 ++--- meteospain-0.1.2/meteospain/R/services_options.R | 5 meteospain-0.1.2/meteospain/R/utils.R | 51 +- meteospain-0.1.2/meteospain/README.md | 92 ++- meteospain-0.1.2/meteospain/build/vignette.rds |binary meteospain-0.1.2/meteospain/inst/doc/aemet.Rmd | 38 + meteospain-0.1.2/meteospain/inst/doc/aemet.html | 75 ++- meteospain-0.1.2/meteospain/inst/doc/api_limits.Rmd | 27 - meteospain-0.1.2/meteospain/inst/doc/api_limits.html | 32 - meteospain-0.1.2/meteospain/inst/doc/compatibility.Rmd | 16 meteospain-0.1.2/meteospain/inst/doc/compatibility.html | 16 meteospain-0.1.2/meteospain/inst/doc/meteocat.Rmd | 10 meteospain-0.1.2/meteospain/inst/doc/meteocat.html | 12 meteospain-0.1.2/meteospain/inst/doc/meteoclimatic.Rmd | 6 meteospain-0.1.2/meteospain/inst/doc/meteoclimatic.html | 6 meteospain-0.1.2/meteospain/inst/doc/meteogalicia.Rmd | 10 meteospain-0.1.2/meteospain/inst/doc/meteogalicia.html | 10 meteospain-0.1.2/meteospain/inst/doc/ria.Rmd | 10 meteospain-0.1.2/meteospain/inst/doc/ria.html | 10 meteospain-0.1.2/meteospain/man/figures/README-plot_stations-1.png |binary meteospain-0.1.2/meteospain/man/figures/README-plot_stations-2.png |binary meteospain-0.1.2/meteospain/man/services_options.Rd | 5 meteospain-0.1.2/meteospain/tests/testthat/test-aemet.R | 131 +++++ meteospain-0.1.2/meteospain/tests/testthat/test-concordance_between_services.R | 8 meteospain-0.1.2/meteospain/tests/testthat/test-meteocat.R | 16 meteospain-0.1.2/meteospain/tests/testthat/test-meteoclimatic.R | 2 meteospain-0.1.2/meteospain/tests/testthat/test-meteogalicia.R | 24 meteospain-0.1.2/meteospain/tests/testthat/test-riaa.R | 6 meteospain-0.1.2/meteospain/vignettes/aemet.Rmd | 38 + meteospain-0.1.2/meteospain/vignettes/api_limits.Rmd | 27 - meteospain-0.1.2/meteospain/vignettes/compatibility.Rmd | 16 meteospain-0.1.2/meteospain/vignettes/meteocat.Rmd | 10 meteospain-0.1.2/meteospain/vignettes/meteoclimatic.Rmd | 6 meteospain-0.1.2/meteospain/vignettes/meteogalicia.Rmd | 10 meteospain-0.1.2/meteospain/vignettes/ria.Rmd | 10 45 files changed, 967 insertions(+), 606 deletions(-)
Title: Feature Extraction and Statistics for Time Series
Description: Provides a collection of features, decomposition methods,
statistical summaries and graphics functions for the analysing tidy time
series data. The package name 'feasts' is an acronym comprising of its key
features: Feature Extraction And Statistics for Time Series.
Author: Mitchell O'Hara-Wild [aut, cre],
Rob Hyndman [aut],
Earo Wang [aut],
Di Cook [ctb],
Thiyanga Talagala [ctb] ,
Leanne Chhay [ctb]
Maintainer: Mitchell O'Hara-Wild <mail@mitchelloharawild.com>
Diff between feasts versions 0.3.0 dated 2022-09-01 and 0.3.1 dated 2023-03-22
DESCRIPTION | 8 +- MD5 | 8 +- NEWS.md | 4 + R/acf.R | 2 inst/doc/feasts.html | 189 +++++++++++++++++++++++++-------------------------- 5 files changed, 107 insertions(+), 104 deletions(-)
Title: Vectorised Probability Distributions
Description: Vectorised distribution objects with tools for manipulating,
visualising, and using probability distributions. Designed to allow model
prediction outputs to return distributions rather than their parameters,
allowing users to directly interact with predictive distributions in a
data-oriented workflow. In addition to providing generic replacements for
p/d/q/r functions, other useful statistics can be computed including means,
variances, intervals, and highest density regions.
Author: Mitchell O'Hara-Wild [aut, cre]
,
Matthew Kay [aut] ,
Alex Hayes [aut] ,
Earo Wang [ctb]
Maintainer: Mitchell O'Hara-Wild <mail@mitchelloharawild.com>
Diff between distributional versions 0.3.1 dated 2022-09-02 and 0.3.2 dated 2023-03-22
DESCRIPTION | 6 ++--- MD5 | 24 +++++++++++------------ NAMESPACE | 1 NEWS.md | 11 ++++++++++ R/dist_categorical.R | 10 +++++++++ R/dist_sample.R | 8 ++++--- R/distribution.R | 9 ++++++-- R/mixture.R | 11 +++++----- README.md | 34 ++++++++++++++++----------------- tests/testthat/Rplots.pdf |binary tests/testthat/test-dist-sample.R | 12 ++++++++++- tests/testthat/test-dist_categorical.R | 3 ++ tests/testthat/test-mixture.R | 19 ++++++++++++++++++ 13 files changed, 105 insertions(+), 43 deletions(-)
More information about distributional at CRAN
Permanent link
Title: Spatial Analysis of Vectra Immunoflourescent Data
Description: Visualization and analysis of Vectra Immunoflourescent
data. Options for calculating both the univariate and bivariate Ripley's K
are included. Calculations are performed using a permutation-based
approach presented by Wilson et al. <doi:10.1101/2021.04.27.21256104>.
Author: Jordan Creed [aut],
Ram Thapa [aut],
Christopher Wilson [aut],
Alex Soupir [aut],
Oscar Ospina [aut],
Julia Wrobel [aut],
Brooke Fridley [cph],
Fridley Lab [cre]
Maintainer: Fridley Lab <fridley.lab@moffitt.org>
Diff between spatialTIME versions 1.2.2 dated 2022-11-22 and 1.3.3-3 dated 2023-03-22
DESCRIPTION | 24 - MD5 | 46 +-- NAMESPACE | 1 R/bi_ripleys_k.R |only R/global.R | 5 R/merge_mifs.R |only R/nearest_neighbor.R |only R/plot_immunoflo.R | 2 R/ripleys_k.R | 680 +++++++++++++++++++++--------------------------- R/utils-helpers.R | 206 +++++++++++++- R/zzz.R |only inst/CITATION |only inst/doc/intro.R | 115 +++++--- inst/doc/intro.Rmd | 137 ++++++--- inst/doc/intro.html | 565 +++++++++++++++++++++++---------------- man/NN_G.Rd | 36 +- man/bi_NN_G.Rd | 44 +-- man/bi_ripleys_k.Rd | 120 +++----- man/create_mif.Rd | 24 - man/example_clinical.Rd | 12 man/example_spatial.Rd | 12 man/example_summary.Rd | 8 man/merge_mifs.Rd |only man/ripleys_k.Rd | 115 ++++---- man/subset_mif.Rd | 4 tests |only vignettes/intro.Rmd | 137 ++++++--- 27 files changed, 1298 insertions(+), 995 deletions(-)
Title: R Interface to Apache Spark
Description: R interface to Apache Spark, a fast and general
engine for big data processing, see <https://spark.apache.org/>. This
package supports connecting to local and remote Apache Spark clusters,
provides a 'dplyr' compatible back-end, and provides an interface to
Spark's built-in machine learning algorithms.
Author: Javier Luraschi [aut],
Kevin Kuo [aut] ,
Kevin Ushey [aut],
JJ Allaire [aut],
Samuel Macedo [ctb],
Hossein Falaki [aut],
Lu Wang [aut],
Andy Zhang [aut],
Yitao Li [aut] ,
Jozef Hajnala [ctb],
Maciej Szymkiewicz [ctb] ,
Wil Davis [ctb],
Edgar Ruiz [au [...truncated...]
Maintainer: Edgar Ruiz <edgar@rstudio.com>
Diff between sparklyr versions 1.8.0 dated 2023-03-06 and 1.8.1 dated 2023-03-22
DESCRIPTION | 6 +++--- MD5 | 10 +++++----- NEWS.md | 10 ++++++++++ R/dplyr_spark.R | 4 ++-- R/dplyr_spark_table.R | 8 +++++--- build/partial.rdb |binary 6 files changed, 25 insertions(+), 13 deletions(-)
Title: Automated Reporting of Results and Statistical Models
Description: The aim of the 'report' package is to bridge the gap between
R’s output and the formatted results contained in your manuscript.
This package converts statistical models and data frames into textual
reports suited for publication, ensuring standardization and quality
in results reporting.
Author: Dominique Makowski [aut] ,
Daniel Luedecke [aut] ,
Indrajeet Patil [aut] ,
Remi Theriault [aut, cre] ,
Mattan S. Ben-Shachar [aut] ,
Brenton M. Wiernik [aut] ,
Rudolf Siegel [ctb]
Maintainer: Remi Theriault <remi.theriault@mail.mcgill.ca>
Diff between report versions 0.5.6 dated 2023-02-05 and 0.5.7 dated 2023-03-22
DESCRIPTION | 8 MD5 | 48 NEWS.md | 4 R/report.aov.R | 3 R/report.brmsfit.R | 4 R/report.lavaan.R | 3 R/report.stanreg.R | 1 README.md | 125 - inst/CITATION | 2 inst/doc/cite_packages.html | 9 man/report.brmsfit.Rd | 2 tests/testthat/_snaps/windows/report.aov.md | 86 - tests/testthat/_snaps/windows/report.brmsfit.md | 245 +-- tests/testthat/_snaps/windows/report.htest-chi2.md | 252 +-- tests/testthat/_snaps/windows/report.htest-correlation.md | 74 - tests/testthat/_snaps/windows/report.htest-t-test.md | 456 +++--- tests/testthat/_snaps/windows/report.htest-wilcox.md | 164 +- tests/testthat/_snaps/windows/report.ivreg.md | 64 tests/testthat/_snaps/windows/report.lavaan.md | 146 +- tests/testthat/_snaps/windows/report.lmer.md | 96 - tests/testthat/_snaps/windows/report.stanreg.md | 90 - tests/testthat/_snaps/windows/report.survreg.md | 60 tests/testthat/_snaps/windows/report_participants.md | 126 - tests/testthat/_snaps/windows/report_performance.md | 90 - tests/testthat/_snaps/windows/report_sample.md | 990 +++++++------- 25 files changed, 1554 insertions(+), 1594 deletions(-)
Title: Parallelised Estimation of Prediction Error
Description: Designed for prediction error estimation
through resampling techniques, possibly accelerated by parallel
execution on a compute cluster. Newly developed model fitting
routines can be easily incorporated. Methods used in the package are detailed in
Porzelius Ch., Binder H. and Schumacher M. (2009) <doi:10.1093/bioinformatics/btp062>
and were used, for instance, in
Porzelius Ch., Schumacher M.and Binder H. (2011) <doi:10.1007/s00180-011-0236-6>.
Author: Christine Porzelius, Harald Binder
Maintainer: Frederic Bertrand <frederic.bertrand@utt.fr>
Diff between peperr versions 1.4 dated 2022-03-03 and 1.5 dated 2023-03-22
DESCRIPTION | 8 ++++---- MD5 | 10 +++++----- NAMESPACE | 4 ++-- NEWS.md | 4 ++++ R/extract.R | 4 ++-- R/pmpec.R | 2 +- 6 files changed, 18 insertions(+), 14 deletions(-)
Title: Bayesian Network Learning with the PCHC and Related Algorithms
Description: Bayesian network learning using the PCHC algorithm. PCHC stands for PC Hill-Climbing, a new hybrid algorithm that uses PC to construct the skeleton of the BN and then
applies the Hill-Climbing greedy search. More algorithms and variants have been added, such as MMHC, FEDHC, and the Tabu search variants, PCTABU, MMTABU and FEDTABU.
The relevant papers are
a) Tsagris M. (2021). A new scalable Bayesian network learning algorithm with applications to economics. Computational Economics, 57(1): 341-367. <doi:10.1007/s10614-020-10065-7>.
b) Tsagris M. (2022). The FEDHC Bayesian Network Learning Algorithm. Mathematics 2022, 10(15), 2604. <doi:10.3390/math10152604>.
Author: Michail Tsagris [aut, cre]
Maintainer: Michail Tsagris <mtsagris@uoc.gr>
Diff between pchc versions 0.8 dated 2022-06-18 and 0.9 dated 2023-03-22
DESCRIPTION | 13 +++++++------ MD5 | 30 +++++++++++++++--------------- R/big_read.R | 4 ++-- R/bnplot.R | 4 ++-- man/big_cor.Rd | 15 ++++++--------- man/big_read.Rd | 31 +++++++++++++++---------------- man/bnplot.Rd | 14 ++++++++++++-- man/fedhc.Rd | 2 +- man/fedhc.boot.Rd | 2 +- man/fedhc.skel.Rd | 2 +- man/mmpc.Rd | 4 ++-- man/pchc-package.Rd | 6 +++--- man/pchc.Rd | 3 ++- man/pchc.skel.Rd | 2 +- man/pchc.skel.boot.Rd | 6 +++--- man/rbn2.Rd | 9 ++------- 16 files changed, 75 insertions(+), 72 deletions(-)
Title: A Multi-Process 'dplyr' Backend
Description: Partition a data frame across multiple worker processes to
provide simple multicore parallelism.
Author: Hadley Wickham [aut, cre],
Posit Software, PBC [cph, fnd]
Maintainer: Hadley Wickham <hadley@posit.co>
Diff between multidplyr versions 0.1.2 dated 2022-09-26 and 0.1.3 dated 2023-03-22
DESCRIPTION | 16 +++---- MD5 | 14 +++--- NEWS.md | 4 + R/dplyr-single.R | 4 - R/partydf.R | 8 +-- inst/doc/multidplyr.html | 84 ++++++++++++++++++++------------------- man/multidplyr-package.Rd | 4 - tests/testthat/_snaps/partydf.md | 2 8 files changed, 74 insertions(+), 62 deletions(-)
Title: Nonparametric Preprocessing for Parametric Causal Inference
Description: Selects matched samples of the original treated and
control groups with similar covariate distributions -- can be
used to match exactly on covariates, to match on propensity
scores, or perform a variety of other matching procedures. The
package also implements a series of recommendations offered in
Ho, Imai, King, and Stuart (2007) <DOI:10.1093/pan/mpl013>. (The
'gurobi' package, which is not on CRAN, is optional and comes with
an installation of the Gurobi Optimizer, available at
<https://www.gurobi.com>.)
Author: Daniel Ho [aut] ,
Kosuke Imai [aut] ,
Gary King [aut] ,
Elizabeth Stuart [aut] ,
Alex Whitworth [ctb],
Noah Greifer [cre, aut]
Maintainer: Noah Greifer <noah.greifer@gmail.com>
Diff between MatchIt versions 4.5.1 dated 2023-02-23 and 4.5.2 dated 2023-03-22
DESCRIPTION | 8 MD5 | 42 +-- NEWS.md | 6 R/aux_functions.R | 2 R/dist_functions.R | 6 R/input_processing.R | 1 R/matchit2cardinality.R | 5 R/matchit2full.R | 7 R/matchit2nearest.R | 11 R/matchit2optimal.R | 14 - R/matchit2quick.R | 16 - R/plot.matchit.R | 27 +- R/summary.matchit.R | 188 ++++++++------ build/MatchIt.pdf |binary inst/doc/MatchIt.html | 11 inst/doc/assessing-balance.html | 6 inst/doc/estimating-effects.R | 10 inst/doc/estimating-effects.html | 494 +++++++++++++++++++-------------------- inst/doc/matching-methods.Rmd | 2 inst/doc/matching-methods.html | 12 inst/doc/sampling-weights.html | 9 vignettes/matching-methods.Rmd | 2 22 files changed, 464 insertions(+), 415 deletions(-)
Title: A Parallelized General-Purpose Optimization Based on
Marquardt-Levenberg Algorithm
Description: This algorithm provides a numerical solution to the
problem of unconstrained local minimization (or maximization). It is particularly suited for complex problems and more efficient than
the Gauss-Newton-like algorithm when starting from points very
far from the final minimum (or maximum). Each iteration is parallelized and convergence relies on a stringent stopping criterion based on the first and second derivatives. See Philipps et al, 2021 <doi:10.32614/RJ-2021-089>.
Author: Viviane Philipps, Cecile Proust-Lima, Melanie Prague, Boris Hejblum, Daniel Commenges, Amadou Diakite
Maintainer: Viviane Philipps <viviane.philipps@u-bordeaux.fr>
Diff between marqLevAlg versions 2.0.7 dated 2022-07-08 and 2.0.8 dated 2023-03-22
DESCRIPTION | 8 ++++---- MD5 | 12 ++++++------ R/func.R | 2 +- R/marqLevAlg.R | 6 ++++-- build/partial.rdb |binary build/vignette.rds |binary inst/doc/mla.html | 13 ++++++++++--- 7 files changed, 25 insertions(+), 16 deletions(-)
Title: An Interface to Google Drive
Description: Manage Google Drive files from R.
Author: Lucy D'Agostino McGowan [aut],
Jennifer Bryan [aut, cre] ,
Posit Software, PBC [cph, fnd]
Maintainer: Jennifer Bryan <jenny@posit.co>
Diff between googledrive versions 2.0.0 dated 2021-07-08 and 2.1.0 dated 2023-03-22
googledrive-2.0.0/googledrive/man/as_id.Rd |only googledrive-2.0.0/googledrive/tests/testthat/test-drive_link.R |only googledrive-2.1.0/googledrive/DESCRIPTION | 43 - googledrive-2.1.0/googledrive/LICENSE | 4 googledrive-2.1.0/googledrive/MD5 | 224 +++++----- googledrive-2.1.0/googledrive/NAMESPACE | 1 googledrive-2.1.0/googledrive/NEWS.md | 32 + googledrive-2.1.0/googledrive/R/camelCase.R | 2 googledrive-2.1.0/googledrive/R/compat-vctrs.R | 2 googledrive-2.1.0/googledrive/R/deprecated.R | 61 ++ googledrive-2.1.0/googledrive/R/dribble.R | 13 googledrive-2.1.0/googledrive/R/drive_auth.R | 111 ++-- googledrive-2.1.0/googledrive/R/drive_browse.R | 4 googledrive-2.1.0/googledrive/R/drive_cp.R | 2 googledrive-2.1.0/googledrive/R/drive_create.R | 5 googledrive-2.1.0/googledrive/R/drive_examples.R | 27 - googledrive-2.1.0/googledrive/R/drive_find.R | 14 googledrive-2.1.0/googledrive/R/drive_get.R | 6 googledrive-2.1.0/googledrive/R/drive_get_path.R | 34 - googledrive-2.1.0/googledrive/R/drive_id-class.R | 109 ++-- googledrive-2.1.0/googledrive/R/drive_ls.R | 15 googledrive-2.1.0/googledrive/R/drive_mkdir.R | 10 googledrive-2.1.0/googledrive/R/drive_mv.R | 13 googledrive-2.1.0/googledrive/R/drive_publish.R | 3 googledrive-2.1.0/googledrive/R/drive_put.R | 2 googledrive-2.1.0/googledrive/R/drive_rename.R | 6 googledrive-2.1.0/googledrive/R/drive_reveal.R | 10 googledrive-2.1.0/googledrive/R/drive_rm.R | 2 googledrive-2.1.0/googledrive/R/drive_upload.R | 12 googledrive-2.1.0/googledrive/R/request_generate.R | 4 googledrive-2.1.0/googledrive/R/request_make.R | 2 googledrive-2.1.0/googledrive/R/shared_drive_create.R | 2 googledrive-2.1.0/googledrive/R/shared_drive_find.R | 4 googledrive-2.1.0/googledrive/R/shared_drive_get.R | 12 googledrive-2.1.0/googledrive/R/shared_drive_update.R | 8 googledrive-2.1.0/googledrive/R/shared_drives.R | 4 googledrive-2.1.0/googledrive/R/shortcut.R | 10 googledrive-2.1.0/googledrive/R/team_drive.R | 4 googledrive-2.1.0/googledrive/R/utils-io.R | 4 googledrive-2.1.0/googledrive/R/utils-paths.R | 16 googledrive-2.1.0/googledrive/R/utils-ui.R | 48 +- googledrive-2.1.0/googledrive/R/zzz.R | 6 googledrive-2.1.0/googledrive/README.md | 43 - googledrive-2.1.0/googledrive/build/vignette.rds |binary googledrive-2.1.0/googledrive/inst/doc/googledrive.html | 217 +++++++++ googledrive-2.1.0/googledrive/inst/extdata/data/client_secret_123.googleusercontent.com.json |only googledrive-2.1.0/googledrive/man/as_dribble.Rd | 4 googledrive-2.1.0/googledrive/man/drive_auth.Rd | 13 googledrive-2.1.0/googledrive/man/drive_auth_configure.Rd | 77 +-- googledrive-2.1.0/googledrive/man/drive_cp.Rd | 2 googledrive-2.1.0/googledrive/man/drive_create.Rd | 2 googledrive-2.1.0/googledrive/man/drive_examples.Rd | 14 googledrive-2.1.0/googledrive/man/drive_find.Rd | 6 googledrive-2.1.0/googledrive/man/drive_get.Rd | 2 googledrive-2.1.0/googledrive/man/drive_id.Rd |only googledrive-2.1.0/googledrive/man/drive_mkdir.Rd | 10 googledrive-2.1.0/googledrive/man/drive_mv.Rd | 6 googledrive-2.1.0/googledrive/man/drive_put.Rd | 8 googledrive-2.1.0/googledrive/man/drive_rename.Rd | 6 googledrive-2.1.0/googledrive/man/drive_reveal.Rd | 6 googledrive-2.1.0/googledrive/man/drive_upload.Rd | 8 googledrive-2.1.0/googledrive/man/figures/lifecycle-archived.svg | 22 googledrive-2.1.0/googledrive/man/figures/lifecycle-defunct.svg | 22 googledrive-2.1.0/googledrive/man/figures/lifecycle-deprecated.svg | 22 googledrive-2.1.0/googledrive/man/figures/lifecycle-experimental.svg | 22 googledrive-2.1.0/googledrive/man/figures/lifecycle-maturing.svg | 22 googledrive-2.1.0/googledrive/man/figures/lifecycle-questioning.svg | 22 googledrive-2.1.0/googledrive/man/figures/lifecycle-soft-deprecated.svg |only googledrive-2.1.0/googledrive/man/figures/lifecycle-stable.svg | 30 + googledrive-2.1.0/googledrive/man/figures/lifecycle-superseded.svg | 22 googledrive-2.1.0/googledrive/man/figures/logo.png |binary googledrive-2.1.0/googledrive/man/googledrive-configuration.Rd | 14 googledrive-2.1.0/googledrive/man/googledrive-deprecated.Rd | 45 +- googledrive-2.1.0/googledrive/man/googledrive-package.Rd | 6 googledrive-2.1.0/googledrive/man/request_generate.Rd | 3 googledrive-2.1.0/googledrive/man/request_make.Rd | 2 googledrive-2.1.0/googledrive/man/shared_drive_create.Rd | 2 googledrive-2.1.0/googledrive/man/shared_drive_update.Rd | 2 googledrive-2.1.0/googledrive/man/shared_drives.Rd | 16 googledrive-2.1.0/googledrive/man/shortcut_resolve.Rd | 2 googledrive-2.1.0/googledrive/tests/spelling.R | 9 googledrive-2.1.0/googledrive/tests/testthat/_snaps/deprecated.md |only googledrive-2.1.0/googledrive/tests/testthat/_snaps/dribble.md | 87 ++- googledrive-2.1.0/googledrive/tests/testthat/_snaps/drive_auth.md | 7 googledrive-2.1.0/googledrive/tests/testthat/_snaps/drive_cp.md | 21 googledrive-2.1.0/googledrive/tests/testthat/_snaps/drive_create.md | 30 - googledrive-2.1.0/googledrive/tests/testthat/_snaps/drive_download.md | 10 googledrive-2.1.0/googledrive/tests/testthat/_snaps/drive_examples.md | 15 googledrive-2.1.0/googledrive/tests/testthat/_snaps/drive_fields.md | 5 googledrive-2.1.0/googledrive/tests/testthat/_snaps/drive_find.md | 15 googledrive-2.1.0/googledrive/tests/testthat/_snaps/drive_get.md | 14 googledrive-2.1.0/googledrive/tests/testthat/_snaps/drive_id-class.md | 106 ++-- googledrive-2.1.0/googledrive/tests/testthat/_snaps/drive_ls.md | 5 googledrive-2.1.0/googledrive/tests/testthat/_snaps/drive_mime_type.md | 30 - googledrive-2.1.0/googledrive/tests/testthat/_snaps/drive_publish.md | 5 googledrive-2.1.0/googledrive/tests/testthat/_snaps/drive_share.md | 10 googledrive-2.1.0/googledrive/tests/testthat/_snaps/drive_update.md | 17 googledrive-2.1.0/googledrive/tests/testthat/_snaps/drive_upload.md | 5 googledrive-2.1.0/googledrive/tests/testthat/_snaps/request_generate.md | 8 googledrive-2.1.0/googledrive/tests/testthat/_snaps/shared_drives.md | 30 - googledrive-2.1.0/googledrive/tests/testthat/_snaps/shortcut.md | 6 googledrive-2.1.0/googledrive/tests/testthat/_snaps/utils-paths.md | 27 - googledrive-2.1.0/googledrive/tests/testthat/_snaps/utils-ui.md | 109 ---- googledrive-2.1.0/googledrive/tests/testthat/helper.R | 4 googledrive-2.1.0/googledrive/tests/testthat/test-compat-dplyr.R | 5 googledrive-2.1.0/googledrive/tests/testthat/test-compat-vctrs.R | 3 googledrive-2.1.0/googledrive/tests/testthat/test-deprecated.R |only googledrive-2.1.0/googledrive/tests/testthat/test-drive_auth.R | 18 googledrive-2.1.0/googledrive/tests/testthat/test-drive_browse.R |only googledrive-2.1.0/googledrive/tests/testthat/test-drive_create.R | 11 googledrive-2.1.0/googledrive/tests/testthat/test-drive_download.R | 2 googledrive-2.1.0/googledrive/tests/testthat/test-drive_get_path.R | 18 googledrive-2.1.0/googledrive/tests/testthat/test-drive_id-class.R | 2 googledrive-2.1.0/googledrive/tests/testthat/test-drive_mv.R | 4 googledrive-2.1.0/googledrive/tests/testthat/test-drive_upload.R | 4 googledrive-2.1.0/googledrive/tests/testthat/test-utils-paths.R | 3 googledrive-2.1.0/googledrive/tests/testthat/test-utils-ui.R | 11 117 files changed, 1376 insertions(+), 871 deletions(-)
Title: Random Variate Generator for the GIG Distribution
Description: Generator and density function for the
Generalized Inverse Gaussian (GIG) distribution.
Author: Josef Leydold and Wolfgang Hormann
Maintainer: Josef Leydold <josef.leydold@wu.ac.at>
Diff between GIGrvg versions 0.7 dated 2022-05-05 and 0.8 dated 2023-03-22
DESCRIPTION | 8 ++++---- MD5 | 13 +++++++------ NEWS | 11 +++++++++-- R/rgig.R | 10 ++++------ man/GIGrvg-package.Rd | 24 ++++++++++++++++++++---- man/rgig.Rd | 2 +- src/GIGrvg_init.c | 1 + src/scripts |only 8 files changed, 46 insertions(+), 23 deletions(-)
Title: Data Table Back-End for 'dplyr'
Description: Provides a data.table backend for 'dplyr'. The goal of
'dtplyr' is to allow you to write 'dplyr' code that is automatically
translated to the equivalent, but usually much faster, data.table
code.
Author: Hadley Wickham [cre, aut],
Maximilian Girlich [aut],
Mark Fairbanks [aut],
Ryan Dickerson [aut],
Posit Software, PBC [cph, fnd]
Maintainer: Hadley Wickham <hadley@posit.co>
Diff between dtplyr versions 1.3.0 dated 2023-02-24 and 1.3.1 dated 2023-03-22
DESCRIPTION | 20 ++++++++++---------- MD5 | 34 +++++++++++++++++----------------- NEWS.md | 8 +++++++- R/count.R | 20 ++++++++++---------- R/step-group.R | 10 +++++----- R/step-modify.R | 12 ++++++------ R/step-subset-slice.R | 8 ++++++-- R/step.R | 16 ++++++++-------- README.md | 19 ++----------------- inst/doc/translation.Rmd | 2 +- inst/doc/translation.html | 10 +++++----- man/count.dtplyr_step.Rd | 4 ++-- man/dtplyr-package.Rd | 4 ++-- man/group_by.dtplyr_step.Rd | 4 +++- man/group_modify.dtplyr_step.Rd | 6 +++--- tests/testthat/test-step-mutate.R | 2 +- tests/testthat/test-tidyeval-across.R | 2 +- vignettes/translation.Rmd | 2 +- 18 files changed, 90 insertions(+), 93 deletions(-)
Title: A Grammar of Data Manipulation
Description: A fast, consistent tool for working with data frame like
objects, both in memory and out of memory.
Author: Hadley Wickham [aut, cre] ,
Romain Francois [aut] ,
Lionel Henry [aut],
Kirill Mueller [aut] ,
Davis Vaughan [aut] ,
Posit Software, PBC [cph, fnd]
Maintainer: Hadley Wickham <hadley@posit.co>
Diff between dplyr versions 1.1.0 dated 2023-01-29 and 1.1.1 dated 2023-03-22
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Title: Crunch.io Data Tools
Description: The Crunch.io service <https://crunch.io/> provides a cloud-based
data store and analytic engine, as well as an intuitive web interface.
Using this package, analysts can interact with and manipulate Crunch
datasets from within R. Importantly, this allows technical researchers to
collaborate naturally with team members, managers, and clients who prefer a
point-and-click interface.
Author: Greg Freedman Ellis [aut, cre],
Jonathan Keane [aut],
Mike Malecki [aut],
Neal Richardson [aut],
Gordon Shotwell [aut],
Aljaz Sluga [aut]
Maintainer: Greg Freedman Ellis <greg@crunch.io>
Diff between crunch versions 1.30.1 dated 2022-11-16 and 1.30.2 dated 2023-03-22
crunch-1.30.1/crunch/tests/testthat/test-aaa-setup.R |only crunch-1.30.2/crunch/DESCRIPTION | 14 crunch-1.30.2/crunch/MD5 | 81 ++-- crunch-1.30.2/crunch/R/AllGenerics.R | 4 crunch-1.30.2/crunch/R/auth.R | 2 crunch-1.30.2/crunch/R/automation.R | 154 +++++--- crunch-1.30.2/crunch/R/folders.R | 7 crunch-1.30.2/crunch/R/hide-variables.R | 11 crunch-1.30.2/crunch/R/misc.R | 2 crunch-1.30.2/crunch/R/shoji.R | 4 crunch-1.30.2/crunch/R/show.R | 5 crunch-1.30.2/crunch/R/variable-folder.R | 11 crunch-1.30.2/crunch/build/vignette.rds |binary crunch-1.30.2/crunch/inst/WORDLIST | 11 crunch-1.30.2/crunch/inst/crunch-test.R | 34 + crunch-1.30.2/crunch/inst/doc/abstract-categories.html | 125 +++--- crunch-1.30.2/crunch/inst/doc/analyze.html | 125 +++--- crunch-1.30.2/crunch/inst/doc/array-variables.html | 125 +++--- crunch-1.30.2/crunch/inst/doc/crunch-internals.html | 15 crunch-1.30.2/crunch/inst/doc/crunch.html | 125 +++--- crunch-1.30.2/crunch/inst/doc/deck-cookbook.Rmd | 2 crunch-1.30.2/crunch/inst/doc/deck-cookbook.html | 192 +++++----- crunch-1.30.2/crunch/inst/doc/derive.html | 125 +++--- crunch-1.30.2/crunch/inst/doc/export.html | 125 +++--- crunch-1.30.2/crunch/inst/doc/filters.html | 125 +++--- crunch-1.30.2/crunch/inst/doc/fork-and-merge.html | 125 +++--- crunch-1.30.2/crunch/inst/doc/projects.html | 125 +++--- crunch-1.30.2/crunch/inst/doc/subtotals.html | 125 +++--- crunch-1.30.2/crunch/inst/doc/variable-order.Rmd | 12 crunch-1.30.2/crunch/inst/doc/variable-order.html | 137 +++---- crunch-1.30.2/crunch/inst/doc/variables.html | 125 +++--- crunch-1.30.2/crunch/inst/mocks.tgz |binary crunch-1.30.2/crunch/man/crunch-api-key.Rd | 2 crunch-1.30.2/crunch/man/describe-catalog.Rd | 3 crunch-1.30.2/crunch/man/envOrOption.Rd | 2 crunch-1.30.2/crunch/man/runCrunchAutomation.Rd | 31 + crunch-1.30.2/crunch/tests/testthat/test-add-variable-definition.R | 2 crunch-1.30.2/crunch/tests/testthat/test-automation.R | 118 ++++++ crunch-1.30.2/crunch/tests/testthat/test-flip-array.R | 6 crunch-1.30.2/crunch/tests/testthat/test-palettes.R | 2 crunch-1.30.2/crunch/vignettes/deck-cookbook.Rmd | 2 crunch-1.30.2/crunch/vignettes/variable-order.Rmd | 12 42 files changed, 1289 insertions(+), 964 deletions(-)
Title: Tools for Analyzing Crossover Interference
Description: Analysis of crossover interference in experimental crosses,
particularly regarding the gamma model. See, for example,
Broman and Weber (2000) <doi:10.1086/302923>.
Author: Karl W Broman [aut, cre] ,
Il-Youp Kwak [ctb]
Maintainer: Karl W Broman <broman@wisc.edu>
Diff between xoi versions 0.70 dated 2022-01-21 and 0.72 dated 2023-03-22
xoi-0.70/xoi/ChangeLog |only xoi-0.72/xoi/DESCRIPTION | 8 ++++---- xoi-0.72/xoi/MD5 | 8 ++++---- xoi-0.72/xoi/NEWS.md |only xoi-0.72/xoi/data/bssbsb.RData |binary xoi-0.72/xoi/src/GammaDensities.c | 6 ++++++ 6 files changed, 14 insertions(+), 8 deletions(-)
Title: Steve's Miscellaneous Functions
Description: These are miscellaneous functions that I find useful for my research and teaching.
The contents include themes for plots, functions for simulating
quantities of interest from regression models, functions for simulating various
forms of fake data for instructional/research purposes, and many more. All told, the functions
provided here are broadly useful for data organization, data presentation, data recoding,
and data simulation.
Author: Steve Miller [aut, cre],
Ben Bolker [ctb],
Dave Armstrong [ctb],
John Fox [ctb],
Winston Chang [ctb],
Brian Ripley [ctb],
Bill Venables [ctb],
Pascal van Kooten [ctb],
Gerko Vink [ctb],
Paul Williamson [ctb],
Andreas Beger [ctb] ,
Vincent Arel-Bundoc [...truncated...]
Maintainer: Steve Miller <steven.v.miller@gmail.com>
Diff between stevemisc versions 1.5.0 dated 2023-02-01 and 1.6.0 dated 2023-03-22
DESCRIPTION | 6 ++--- MD5 | 14 ++++++------- NAMESPACE | 1 NEWS.md | 5 ++++ R/ggplot-themes.R | 53 ++++++++++++++++++++++----------------------------- R/ps_spells.R | 10 +++++---- man/ggplot-themes.Rd | 22 ++++++--------------- man/ps_spells.Rd | 4 +-- 8 files changed, 53 insertions(+), 62 deletions(-)
Title: Rcpp Bindings for Sequential Monte Carlo
Description: R access to the Sequential Monte Carlo Template Classes
by Johansen <doi:10.18637/jss.v030.i06> is provided. At present, four
additional examples have been added, and the first example from the JSS
paper has been extended. Further integration and extensions are planned.
Author: Dirk Eddelbuettel, Adam M. Johansen, Leah F. South and Ilya Zarubin
Maintainer: Dirk Eddelbuettel <edd@debian.org>
Diff between RcppSMC versions 0.2.6 dated 2021-12-18 and 0.2.7 dated 2023-03-22
ChangeLog | 52 +++++++++++ DESCRIPTION | 11 +- MD5 | 31 ++++-- NAMESPACE | 10 +- R/RcppExports.R | 4 R/RcppSMCpackageSkeleton.R |only R/cSMCexamples.R |only R/simGaussianSSM.R |only README.md | 4 build/partial.rdb |binary data/radiata.rda |binary inst/NEWS.Rd | 9 + inst/include/cSMCexamples.h |only inst/include/conditionalSampler.h | 179 +++++++++++++++++++++++--------------- inst/include/history.h | 6 - inst/skeleton |only man/RcppSMCpackageSkeleton.Rd |only man/cSMCexamples.Rd |only src/RcppExports.cpp | 16 +++ src/cSMCexamples.cpp |only 20 files changed, 229 insertions(+), 93 deletions(-)
Title: Modelling Functions that Work with the Pipe
Description: Functions for modelling that help you seamlessly integrate
modelling into a pipeline of data manipulation and visualisation.
Author: Hadley Wickham [aut, cre],
Posit Software, PBC [cph, fnd]
Maintainer: Hadley Wickham <hadley@posit.co>
Diff between modelr versions 0.1.10 dated 2022-11-11 and 0.1.11 dated 2023-03-22
DESCRIPTION | 16 ++++++++-------- MD5 | 14 +++++++------- NEWS.md | 4 ++++ R/bootstrap.R | 2 +- R/cross-validation.R | 2 +- R/permute.R | 2 +- R/response.R | 4 ++-- man/modelr-package.Rd | 4 ++-- 8 files changed, 26 insertions(+), 22 deletions(-)
Title: Less Code, More Results
Description: Each function accomplishes the work of multiple standard R functions. For example, two function calls, Read() and CountAll(), read the data and generate summary statistics for all variables in the data frame, plus histograms and bar charts as appropriate. Other functions provide for comprehensive summary statistics via pivot tables, a comprehensive regression analysis, ANOVA and t-test, visualizations including the Violin/Box/Scatter plot for a numerical variable, bar chart, histogram, box plot, density curves, calibrated power curve, reading multiple data formats with the same function call, variable labels, color themes, and Trellis graphics. Also includes a confirmatory factor analysis of multiple indicator measurement models, pedagogical routines for data simulation such as for the Central Limit Theorem, generation and rendering o regression instructions for interpretative output, and interactive visualizations.
Author: David Gerbing, The School of Business, Portland State University
Maintainer: David W. Gerbing <gerbing@pdx.edu>
Diff between lessR versions 4.2.6 dated 2023-02-12 and 4.2.8 dated 2023-03-22
DESCRIPTION | 10 +++--- MD5 | 30 ++++++++++---------- NEWS.md | 8 ++++- R/Regression.R | 40 ++++++++++++++++----------- R/zzz.R | 10 ++---- inst/doc/BarChart.html | 44 +++++++++++++++--------------- inst/doc/Customize.html | 20 ++++++------- inst/doc/Extract.html | 22 +++++++-------- inst/doc/FactorAnalysis.html | 8 ++--- inst/doc/Histogram.html | 10 +++--- inst/doc/Means.html | 10 +++--- inst/doc/Plot.html | 62 +++++++++++++++++++++---------------------- inst/doc/Proportions.html | 4 +- inst/doc/Regression.html | 24 ++++++++-------- inst/doc/Time.html | 28 +++++++++---------- man/Regression.Rd | 2 - 16 files changed, 172 insertions(+), 160 deletions(-)
Title: Interface to 'ChatGPT' from R
Description: 'OpenAI's 'ChatGPT' <https://chat.openai.com/> coding assistant for 'RStudio'. A set
of functions and 'RStudio' addins that aim to help the R developer in tedious coding tasks.
Author: Juan Cruz Rodriguez [aut, cre]
Maintainer: Juan Cruz Rodriguez <jcrodriguez@unc.edu.ar>
Diff between chatgpt versions 0.2.0 dated 2023-03-03 and 0.2.2 dated 2023-03-22
DESCRIPTION | 8 ++++---- MD5 | 44 +++++++++++++++++++++++--------------------- NAMESPACE | 2 ++ R/addins.R | 2 ++ R/comment_code.R | 8 ++++++-- R/complete_code.R |only R/create_unit_tests.R | 11 ++++++++--- R/create_variable_name.R | 8 ++++++-- R/document_code.R | 8 ++++++-- R/explain_code.R | 8 ++++++-- R/find_issues_in_code.R | 8 ++++++-- R/gpt_get_completions.R | 21 ++++++++++++++++----- R/optimize_code.R | 8 ++++++-- R/refactor_code.R | 8 ++++++-- inst/rstudio/addins.dcf | 5 +++++ man/comment_code.Rd | 5 +++-- man/complete_code.Rd |only man/create_unit_tests.Rd | 5 +++-- man/create_variable_name.Rd | 5 +++-- man/document_code.Rd | 5 +++-- man/explain_code.Rd | 5 +++-- man/find_issues_in_code.Rd | 5 +++-- man/optimize_code.Rd | 5 +++-- man/refactor_code.Rd | 5 +++-- 24 files changed, 126 insertions(+), 63 deletions(-)
Title: Social Contact Matrices for 177 Countries
Description: Data package for the supplementary data in Prem et al. (2017)
<doi:10.1371/journal.pcbi.1005697> and Prem et al.
<doi:10.1371/journal.pcbi.1009098>.
Provides easy access to contact data for 177 countries, for use in
epidemiological, demographic or social sciences research.
Author: Hugo Gruson [cre, aut, cph] ,
Kiesha Prem [dtc] ,
Alex Richard Cook [dtc] ,
Mark Jit [dtc]
Maintainer: Hugo Gruson <hugo.gruson+R@normalesup.org>
Diff between contactdata versions 0.2.0 dated 2021-02-19 and 1.0.0 dated 2023-03-22
contactdata-0.2.0/contactdata/inst/extdata/all.rds |only contactdata-0.2.0/contactdata/inst/extdata/contact_all.rds |only contactdata-0.2.0/contactdata/inst/extdata/contact_home.rds |only contactdata-0.2.0/contactdata/inst/extdata/contact_other.rds |only contactdata-0.2.0/contactdata/inst/extdata/contact_school.rds |only contactdata-0.2.0/contactdata/inst/extdata/contact_work.rds |only contactdata-0.2.0/contactdata/inst/extdata/home.rds |only contactdata-0.2.0/contactdata/inst/extdata/other.rds |only contactdata-0.2.0/contactdata/inst/extdata/school.rds |only contactdata-0.2.0/contactdata/inst/extdata/work.rds |only contactdata-1.0.0/contactdata/DESCRIPTION | 19 contactdata-1.0.0/contactdata/MD5 | 102 +- contactdata-1.0.0/contactdata/NEWS.md | 25 contactdata-1.0.0/contactdata/R/age_countries.R | 4 contactdata-1.0.0/contactdata/R/contact_countries.R | 11 contactdata-1.0.0/contactdata/R/contact_matrix.R | 32 contactdata-1.0.0/contactdata/R/contactdata-package.R |only contactdata-1.0.0/contactdata/R/list_countries.R | 39 contactdata-1.0.0/contactdata/README.md | 22 contactdata-1.0.0/contactdata/build/partial.rdb |binary contactdata-1.0.0/contactdata/build/vignette.rds |binary contactdata-1.0.0/contactdata/inst/CITATION | 14 contactdata-1.0.0/contactdata/inst/doc/countries.R | 14 contactdata-1.0.0/contactdata/inst/doc/countries.Rmd | 36 contactdata-1.0.0/contactdata/inst/doc/countries.html | 474 ++++++++-- contactdata-1.0.0/contactdata/inst/doc/visualise_age.R | 4 contactdata-1.0.0/contactdata/inst/doc/visualise_age.Rmd | 6 contactdata-1.0.0/contactdata/inst/doc/visualise_age.html | 337 +++++-- contactdata-1.0.0/contactdata/inst/doc/visualise_contact.R | 12 contactdata-1.0.0/contactdata/inst/doc/visualise_contact.Rmd | 12 contactdata-1.0.0/contactdata/inst/doc/visualise_contact.html | 360 +++++-- contactdata-1.0.0/contactdata/inst/extdata/contact_2017_all_all.rds |only contactdata-1.0.0/contactdata/inst/extdata/contact_2017_home_all.rds |only contactdata-1.0.0/contactdata/inst/extdata/contact_2017_other_all.rds |only contactdata-1.0.0/contactdata/inst/extdata/contact_2017_school_all.rds |only contactdata-1.0.0/contactdata/inst/extdata/contact_2017_work_all.rds |only contactdata-1.0.0/contactdata/inst/extdata/contact_2020_all_all.rds |only contactdata-1.0.0/contactdata/inst/extdata/contact_2020_all_rural.rds |only contactdata-1.0.0/contactdata/inst/extdata/contact_2020_all_urban.rds |only contactdata-1.0.0/contactdata/inst/extdata/contact_2020_home_all.rds |only contactdata-1.0.0/contactdata/inst/extdata/contact_2020_home_rural.rds |only contactdata-1.0.0/contactdata/inst/extdata/contact_2020_home_urban.rds |only contactdata-1.0.0/contactdata/inst/extdata/contact_2020_other_all.rds |only contactdata-1.0.0/contactdata/inst/extdata/contact_2020_other_rural.rds |only contactdata-1.0.0/contactdata/inst/extdata/contact_2020_other_urban.rds |only contactdata-1.0.0/contactdata/inst/extdata/contact_2020_school_all.rds |only contactdata-1.0.0/contactdata/inst/extdata/contact_2020_school_rural.rds |only contactdata-1.0.0/contactdata/inst/extdata/contact_2020_school_urban.rds |only contactdata-1.0.0/contactdata/inst/extdata/contact_2020_work_all.rds |only contactdata-1.0.0/contactdata/inst/extdata/contact_2020_work_rural.rds |only contactdata-1.0.0/contactdata/inst/extdata/contact_2020_work_urban.rds |only contactdata-1.0.0/contactdata/inst/extdata/population_byage.rds |binary contactdata-1.0.0/contactdata/man/age_df_countries.Rd | 2 contactdata-1.0.0/contactdata/man/contact_df_countries.Rd | 17 contactdata-1.0.0/contactdata/man/contact_matrix.Rd | 24 contactdata-1.0.0/contactdata/man/contactdata-package.Rd |only contactdata-1.0.0/contactdata/man/list_countries.Rd | 20 contactdata-1.0.0/contactdata/tests/spelling.R | 9 contactdata-1.0.0/contactdata/tests/testthat.R | 2 contactdata-1.0.0/contactdata/tests/testthat/_snaps |only contactdata-1.0.0/contactdata/tests/testthat/test-age_df_countries.R | 8 contactdata-1.0.0/contactdata/tests/testthat/test-contact_df_countries.R | 4 contactdata-1.0.0/contactdata/tests/testthat/test-contact_matrix.R | 6 contactdata-1.0.0/contactdata/tests/testthat/test-list_countries.R | 31 contactdata-1.0.0/contactdata/tests/testthat/test-raw.R | 25 contactdata-1.0.0/contactdata/vignettes/countries.Rmd | 36 contactdata-1.0.0/contactdata/vignettes/visualise_age.Rmd | 6 contactdata-1.0.0/contactdata/vignettes/visualise_contact.Rmd | 12 68 files changed, 1337 insertions(+), 388 deletions(-)
Title: A Suite of Packages for Analysis of Big Genomic Data
Description: An umbrella package providing a phenotype/genotype data structure
and scalable and efficient computational methods for large genomic datasets
in combination with several other packages: 'BEDMatrix', 'LinkedMatrix',
and 'symDMatrix'.
Author: Gustavo de los Campos [aut],
Alexander Grueneberg [aut, cre],
Paulino Perez [ctb],
Ana Vazquez [ctb]
Maintainer: Alexander Grueneberg <cran@agrueneberg.info>
Diff between BGData versions 2.4.0 dated 2021-12-08 and 2.4.1 dated 2023-03-22
DESCRIPTION | 6 +++--- MD5 | 10 +++++----- NEWS.md | 7 +++++++ R/FWD.R | 2 +- README.md | 5 +---- inst/CITATION | 6 +++--- 6 files changed, 20 insertions(+), 16 deletions(-)
Title: Bayesian Aggregate Treatment Effects
Description: Running and comparing meta-analyses of data with hierarchical
Bayesian models in Stan, including convenience functions for formatting
data, plotting and pooling measures specific to meta-analysis. This implements many models
from Meager (2019) <doi:10.1257/app.20170299>.
Author: Witold Wiecek [cre, aut],
Rachael Meager [aut],
Brice Green [ctb] ,
Trustees of Columbia University [cph]
Maintainer: Witold Wiecek <witold.wiecek@gmail.com>
Diff between baggr versions 0.7.4 dated 2023-01-06 and 0.7.6 dated 2023-03-22
baggr-0.7.4/baggr/R/predict.R |only baggr-0.7.4/baggr/man/get_n_samples.Rd |only baggr-0.7.4/baggr/man/pp_check.baggr.Rd |only baggr-0.7.4/baggr/man/predict.baggr.Rd |only baggr-0.7.4/baggr/man/predict_mutau.Rd |only baggr-0.7.4/baggr/man/predict_quantiles.Rd |only baggr-0.7.4/baggr/man/predict_rubin.Rd |only baggr-0.7.4/baggr/man/predict_unknown.Rd |only baggr-0.7.4/baggr/man/rubin_data.Rd |only baggr-0.7.4/baggr/man/stop_not_implemented.Rd |only baggr-0.7.6/baggr/DESCRIPTION | 10 baggr-0.7.6/baggr/MD5 | 46 baggr-0.7.6/baggr/NAMESPACE | 4 baggr-0.7.6/baggr/NEWS.md | 6 baggr-0.7.6/baggr/R/baggr.R | 1 baggr-0.7.6/baggr/R/effect_draw.R | 5 baggr-0.7.6/baggr/configure.win | 7 baggr-0.7.6/baggr/inst/doc/baggr.html | 76 baggr-0.7.6/baggr/inst/stan/logit.stan | 6 baggr-0.7.6/baggr/man/baggr.Rd | 1 baggr-0.7.6/baggr/man/effect_draw.Rd | 11 baggr-0.7.6/baggr/src/Makevars.win | 1 baggr-0.7.6/baggr/src/stanExports_logit.h | 2943 ++++++++++++---------- baggr-0.7.6/baggr/src/stanExports_mutau.h | 2628 +++++++++++-------- baggr-0.7.6/baggr/src/stanExports_mutau_full.h | 3331 ++++++++++++++----------- baggr-0.7.6/baggr/src/stanExports_rubin.h | 2069 +++++++++------ baggr-0.7.6/baggr/src/stanExports_rubin_full.h | 3049 +++++++++++++--------- baggr-0.7.6/baggr/tests/testthat/Rplots.pdf |binary baggr-0.7.6/baggr/tests/testthat/test_binary.R | 2 29 files changed, 8312 insertions(+), 5884 deletions(-)
Title: Vector Helpers
Description: Defines new notions of prototype and size that are used to
provide tools for consistent and well-founded type-coercion and
size-recycling, and are in turn connected to ideas of type- and
size-stability useful for analysing function interfaces.
Author: Hadley Wickham [aut],
Lionel Henry [aut],
Davis Vaughan [aut, cre],
data.table team [cph] and
their contribution to R's order),
Posit Software, PBC [cph, fnd]
Maintainer: Davis Vaughan <davis@posit.co>
Diff between vctrs versions 0.6.0 dated 2023-03-15 and 0.6.1 dated 2023-03-22
DESCRIPTION | 46 ++++++++-------------- MD5 | 22 ++++++---- NEWS.md | 4 + R/type-data-table.R |only R/type-misc.R | 49 ------------------------ inst/doc/stability.html | 4 - man/vctrs-package.Rd | 1 src/version.c | 2 tests/testthat/_snaps/type-data-table.md |only tests/testthat/_snaps/type-misc.md | 12 ----- tests/testthat/_snaps/type-sf.md |only tests/testthat/test-type-data-table.R |only tests/testthat/test-type-misc.R | 63 ------------------------------- tests/testthat/test-type-sf.R | 33 +++++++++++----- 14 files changed, 63 insertions(+), 173 deletions(-)
Title: A Raster Where Cells are Generic Objects
Description: A S4 class has been created such that complex operations can be
executed on each cells of a raster map. The raster of objects contains the
traditional raster map with the addition of a list of generic objects: one
object for each raster cells. It allows to write few lines of R code for complex
map algebra. Two environmental applications about frequency analysis of raster
map of precipitation and creation of a raster map of soil water retention curves
have been presented.
Author: Emanuele Cordano [aut, cre]
Maintainer: Emanuele Cordano <emanuele.cordano@gmail.com>
Diff between rasterList versions 0.5.14 dated 2022-11-30 and 0.5.17 dated 2023-03-22
rasterList-0.5.14/rasterList/inst/map/precipitation.grd |only rasterList-0.5.14/rasterList/inst/map/precipitation.gri |only rasterList-0.5.17/rasterList/DESCRIPTION | 12 ++- rasterList-0.5.17/rasterList/MD5 | 28 +++++--- rasterList-0.5.17/rasterList/R/crop.R | 2 rasterList-0.5.17/rasterList/R/rasterList.R | 6 - rasterList-0.5.17/rasterList/R/stack.R | 18 ++++- rasterList-0.5.17/rasterList/build |only rasterList-0.5.17/rasterList/inst/doc |only rasterList-0.5.17/rasterList/inst/map/cajamarca_monthly_precipitation_vL2.grd |only rasterList-0.5.17/rasterList/inst/map/cajamarca_monthly_precipitation_vL2.gri |only rasterList-0.5.17/rasterList/man/crop.Rd | 2 rasterList-0.5.17/rasterList/man/rasterList.Rd | 5 - rasterList-0.5.17/rasterList/tests/Rplots.pdf |binary rasterList-0.5.17/rasterList/tests/rasterList_fitdistr.R | 32 +--------- rasterList-0.5.17/rasterList/tests/test_crop.R | 3 rasterList-0.5.17/rasterList/vignettes |only 17 files changed, 53 insertions(+), 55 deletions(-)
More information about quanteda.textmodels at CRAN
Permanent link
Title: Regression with Multiple Change Points
Description: Flexible and informed regression with Multiple Change Points. 'mcp' can infer change points in means, variances, autocorrelation structure, and any combination of these, as well as the parameters of the segments in between. All parameters are estimated with uncertainty and prediction intervals are supported - also near the change points. 'mcp' supports hypothesis testing via Savage-Dickey density ratio, posterior contrasts, and cross-validation. 'mcp' is described in Lindeløv (submitted) <doi:10.31219/osf.io/fzqxv> and generalizes the approach described in Carlin, Gelfand, & Smith (1992) <doi:10.2307/2347570> and Stephens (1994) <doi:10.2307/2986119>.
Author: Jonas Kristoffer Lindeloev [aut, cre]
Maintainer: Jonas Kristoffer Lindeloev <jonas@lindeloev.dk>
Diff between mcp versions 0.3.2 dated 2022-02-18 and 0.3.3 dated 2023-03-22
DESCRIPTION | 24 ++++++------ MD5 | 51 +++++++++++++------------- NAMESPACE | 1 NEWS.md | 13 ++++++ R/get_segment_table.R | 4 +- R/mcp.R | 23 ++++++----- R/mcpfit_methods.R | 23 ++++++----- R/misc.R | 2 - R/plot.R | 6 +-- R/run_jags.R | 2 - inst/WORDLIST |only man/criterion.Rd | 8 ++-- man/fitted.mcpfit.Rd | 2 - man/mcp.Rd | 4 +- man/pp_check.Rd | 2 - man/pp_eval.Rd | 2 - man/predict.mcpfit.Rd | 4 +- man/residuals.mcpfit.Rd | 2 - man/summary.mcpfit.Rd | 8 ++-- man/tidy_samples.Rd | 2 - tests/testthat/helper-fits.R | 4 +- tests/testthat/helper-runs.R | 16 +++++++- tests/testthat/test-runs-bernoulli-binomial.R | 28 ++++++++------ tests/testthat/test-runs-formulas-gauss.R | 45 +++++++++++++--------- tests/testthat/test-runs-poisson.R | 16 +++++--- tests/testthat/test-runs-prior.R | 27 ++++++++++--- tests/testthat/test-runs-sigma-arma.R | 38 +++++++++++-------- 27 files changed, 211 insertions(+), 146 deletions(-)
Title: A BSA Software for Detecting All Types of QTLs in BC, DH, RIL
and F2
Description: The new (dQTG.seq1 and dQTG.seq2) and existing (SmoothLOD, G', deltaSNP and ED) bulked segregant analysis methods are used to identify various types of quantitative trait loci for complex traits via extreme phenotype individuals in bi-parental segregation populations (F2, backcross, doubled haploid and recombinant inbred line). The numbers of marker alleles in extreme low and high pools are used in existing methods to identify trait-related genes, while the numbers of marker alleles and genotypes in extreme low and high pools are used in the new methods to construct a new statistic Gw for identifying trait-related genes. dQTG-seq2 is feasible to identify extremely over-dominant and small-effect genes in F2. Li P, Li G, Zhang YW, Zuo JF, Liu JY, Zhang YM (2022, <doi: 10.1016/j.xplc.2022.100319>).
Author: Pei Li [aut],
Yuan-Ming Zhang [aut, cre]
Maintainer: Yuan-Ming Zhang <soyzhang@mail.hzau.edu.cn>
Diff between dQTG.seq versions 1.0.1 dated 2022-04-28 and 1.0.2 dated 2023-03-22
DESCRIPTION | 8 ++++---- MD5 | 4 ++-- R/Dodata.R | 2 +- 3 files changed, 7 insertions(+), 7 deletions(-)
Title: Coroutines: Generators / Yield, Async / Await, and Streams
Description: Write sequential-looking code that pauses and resumes.
gen() creates a generator, an iterator that returns a
value and pauses each time it reaches a yield() call.
async() creates a promise, which runs until it reaches
a call to await(), then resumes when information is available.
These work similarly to generator and async constructs
from 'Python' or 'JavaScript'. Objects produced are
compatible with the 'iterators' and 'promises' packages.
Version 0.3 supports on.exit, single-step debugging,
stream() for making asynchronous iterators, and
delimited goto() in switch() calls.
Author: Peter Meilstrup [aut, cre]
Maintainer: Peter Meilstrup <peter.meilstrup@gmail.com>
Diff between async versions 0.3 dated 2023-02-20 and 0.3.1 dated 2023-03-22
DESCRIPTION | 10 +- MD5 | 62 +++++++-------- NAMESPACE | 25 ------ NEWS.md | 8 + R/async-package.R | 4 R/async.R | 80 ++++++++++--------- R/collect.R | 2 R/coroutine.R | 114 ++++++++++++---------------- R/cps.R | 105 ++++++++++--------------- R/gen.R | 70 +++++------------ R/iteror.R | 64 --------------- R/munge.R | 3 R/pump.R | 74 +++++++++--------- R/run.R | 9 +- R/signals.R | 67 +++++----------- R/stream.R | 58 ++++++-------- R/walk.R | 4 README.md | 5 + build/vignette.rds |binary inst/doc/README.html | 22 ++++- inst/doc/clapping.html | 13 ++- inst/doc/language.html | 17 ++-- man/async.Rd | 24 +++-- man/collect.Rd | 2 man/debugAsync.Rd | 15 ++- man/format.Rd | 85 ++++++++------------ man/gen.Rd | 3 man/run.Rd | 8 - man/stream.Rd | 10 +- tests/testthat/test-03-gen.R | 10 -- tests/testthat/test-085-debugging.R |only tests/testthat/test-11-gen-level-1.R | 10 -- tests/testthat/test-145-debugging-level-1.R |only 33 files changed, 421 insertions(+), 562 deletions(-)
Title: Tools for Spell Checking in R
Description: Spell checking common document formats including latex, markdown, manual pages,
and description files. Includes utilities to automate checking of documentation and
vignettes as a unit test during 'R CMD check'. Both British and American English are
supported out of the box and other languages can be added. In addition, packages may
define a 'wordlist' to allow custom terminology without having to abuse punctuation.
Author: Jeroen Ooms [cre, aut] ,
Jim Hester [aut]
Maintainer: Jeroen Ooms <jeroen@berkeley.edu>
Diff between spelling versions 2.2 dated 2020-10-18 and 2.2.1 dated 2023-03-22
DESCRIPTION | 9 ++++----- MD5 | 10 +++++----- NEWS | 3 +++ R/parse-markdown.R | 11 +++++++++++ R/spell-check.R | 11 ++++++++--- man/spell_check_package.Rd | 2 +- 6 files changed, 32 insertions(+), 14 deletions(-)
Title: Simplified Fetching and Processing of Microarray and RNA-Seq
Data
Description: Wrapper around various existing tools and command-line interfaces,
providing a standard interface, simple parallelization, and detailed logging.
For microarray data, maps probe sets to standard gene IDs, building on
'GEOquery' Davis and Meltzer (2007) <doi:10.1093/bioinformatics/btm254>,
'ArrayExpress' Kauffmann et al. (2009) <doi:10.1093/bioinformatics/btp354>,
Robust multi-array average 'RMA' Irizarry et al. (2003) <doi:10.1093/biostatistics/4.2.249>,
and 'BrainArray' Dai et al. (2005) <doi:10.1093/nar/gni179>.
For RNA-seq data, fetches metadata and raw reads from National Center for Biotechnology
Information (NCBI) Sequence Read Archive (SRA), performs standard adapter and
quality trimming using 'TrimGalore' Krueger <https://github.com/FelixKrueger/TrimGalore>,
performs quality control checks using 'FastQC' Andrews <https://github.com/s-andrews/FastQC>,
quantifies transcript abundances using 'salmon' Patro et al. (2017) <doi:10.1038/nmeth.4197& [...truncated...]
Author: Jake Hughey [aut, cre],
Josh Schoenbachler [aut]
Maintainer: Jake Hughey <jakejhughey@gmail.com>
Diff between seeker versions 1.0.13 dated 2022-10-20 and 1.1.0 dated 2023-03-22
DESCRIPTION | 26 ++++---- MD5 | 20 +++--- R/array.R | 14 +++- R/install_sys_deps.R | 11 +-- build/vignette.rds |binary inst/doc/introduction.html | 115 ++++++++++++++++++------------------- inst/doc/reproducibility.html | 115 ++++++++++++++++++------------------- tests/testthat/data/GPL6887.qs |binary tests/testthat/data/GPL7202.qs |binary tests/testthat/data/map_pkg_ver.qs |binary tests/testthat/test-array.R | 12 ++- 11 files changed, 161 insertions(+), 152 deletions(-)
Title: Robust Effect Size Index (RESI) Estimation
Description: Summarize model output using a robust effect size index. The index is introduced in Vandekar, Rao, & Blume (2020) <doi:10.1007/s11336-020-09698-2>.
Author: Megan Jones [aut, cre],
Kaidi Kang [aut],
Simon Vandekar [aut]
Maintainer: Megan Jones <megan.n.taylor@vanderbilt.edu>
Diff between RESI versions 1.1.0 dated 2023-02-10 and 1.1.1 dated 2023-03-22
DESCRIPTION | 6 +++--- MD5 | 8 ++++---- NEWS.md | 4 ++++ R/Anova.resi.R | 26 +++++++++++++------------- R/resi_pe.R | 3 ++- 5 files changed, 26 insertions(+), 21 deletions(-)
Title: Coloured Formatting for Columns
Description: Provides 'pillar' and 'colonnade' generics designed
for formatting columns of data using the full range of colours
provided by modern terminals.
Author: Kirill Mueller [aut, cre] ,
Hadley Wickham [aut],
RStudio [cph]
Maintainer: Kirill Mueller <kirill@cynkra.com>
Diff between pillar versions 1.8.1 dated 2022-08-19 and 1.9.0 dated 2023-03-22
pillar-1.8.1/pillar/tests/testthat/test-format_multi.R |only pillar-1.8.1/pillar/tests/testthat/test-format_multi_fuzz.R |only pillar-1.8.1/pillar/tests/testthat/test-format_multi_fuzz_2.R |only pillar-1.8.1/pillar/tests/testthat/test-zzx-format_character.R |only pillar-1.9.0/pillar/DESCRIPTION | 13 pillar-1.9.0/pillar/MD5 | 88 pillar-1.9.0/pillar/NEWS.md | 41 pillar-1.9.0/pillar/R/char.R | 4 pillar-1.9.0/pillar/R/multi.R | 6 pillar-1.9.0/pillar/R/num.R | 19 pillar-1.9.0/pillar/R/options.R | 65 pillar-1.9.0/pillar/R/shaft-.R | 9 pillar-1.9.0/pillar/R/sigfig.R | 2 pillar-1.9.0/pillar/R/tbl-format-footer.R | 79 pillar-1.9.0/pillar/R/tbl-format.R | 10 pillar-1.9.0/pillar/README.md | 118 pillar-1.9.0/pillar/build/vignette.rds |binary pillar-1.9.0/pillar/inst/doc/debugme.html | 125 pillar-1.9.0/pillar/inst/doc/digits.Rmd | 2 pillar-1.9.0/pillar/inst/doc/digits.html | 17 pillar-1.9.0/pillar/inst/doc/extending.html | 129 pillar-1.9.0/pillar/inst/doc/numbers.R | 42 pillar-1.9.0/pillar/inst/doc/numbers.html | 15 pillar-1.9.0/pillar/inst/doc/printing.R | 12 pillar-1.9.0/pillar/inst/doc/printing.Rmd | 6 pillar-1.9.0/pillar/inst/doc/printing.html | 281 +- pillar-1.9.0/pillar/man/pillar_options.Rd | 65 pillar-1.9.0/pillar/man/scale_x_num.Rd | 1 pillar-1.9.0/pillar/tests/testthat/_snaps/ansi/ctl_colonnade.md | 49 pillar-1.9.0/pillar/tests/testthat/_snaps/ctl_new_pillar.md | 25 pillar-1.9.0/pillar/tests/testthat/_snaps/format_list.md | 15 pillar-1.9.0/pillar/tests/testthat/_snaps/format_multi.md | 386 +- pillar-1.9.0/pillar/tests/testthat/_snaps/format_multi_fuzz.md | 30 pillar-1.9.0/pillar/tests/testthat/_snaps/format_multi_fuzz_2.md | 30 pillar-1.9.0/pillar/tests/testthat/_snaps/shaft-.md |only pillar-1.9.0/pillar/tests/testthat/_snaps/tbl-format-footer.md | 131 - pillar-1.9.0/pillar/tests/testthat/_snaps/tbl-format-setup.md | 1303 ++++------ pillar-1.9.0/pillar/tests/testthat/_snaps/tbl-format.md | 48 pillar-1.9.0/pillar/tests/testthat/_snaps/title.md | 13 pillar-1.9.0/pillar/tests/testthat/_snaps/unicode/ctl_colonnade.md | 37 pillar-1.9.0/pillar/tests/testthat/_snaps/unicode/format_multi.md | 4 pillar-1.9.0/pillar/tests/testthat/_snaps/zzx-format_character.md | 2 pillar-1.9.0/pillar/tests/testthat/test-format_list.R | 7 pillar-1.9.0/pillar/tests/testthat/test-shaft-.R |only pillar-1.9.0/pillar/tests/testthat/test-tbl-format-footer.R | 8 pillar-1.9.0/pillar/tests/testthat/test-tbl-format.R | 2 pillar-1.9.0/pillar/vignettes/digits.Rmd | 2 pillar-1.9.0/pillar/vignettes/printing.Rmd | 6 48 files changed, 1576 insertions(+), 1671 deletions(-)
Title: Markov Models for Health Economic Evaluations
Description: An implementation of the modelling and reporting features described
in reference textbook and guidelines (Briggs, Andrew, et al. Decision
Modelling for Health Economic Evaluation. Oxford Univ. Press, 2011;
Siebert, U. et al. State-Transition Modeling. Medical Decision Making
32, 690-700 (2012).): deterministic and probabilistic sensitivity analysis,
heterogeneity analysis, time dependency on state-time and model-time
(semi-Markov and non-homogeneous Markov models), etc.
Author: Kevin Zarca [aut, cre],
Antoine Filipovic-Pierucci [aut],
Matthew Wiener [ctb],
Zdenek Kabat [ctb],
Vojtech Filipec [ctb],
Jordan Amdahl [ctb],
Yonatan Carranza Alarcon [ctb],
Vince Daniels [ctb]
Maintainer: Kevin Zarca <kevin.zarca@gmail.com>
Diff between heemod versions 0.15.0 dated 2023-02-14 and 0.15.1 dated 2023-03-22
DESCRIPTION | 6 MD5 | 32 +-- NEWS.md | 3 R/expand.R | 6 build/vignette.rds |binary inst/doc/a_introduction.html | 340 ++++++++++++++++++++++++++++++---- inst/doc/b_time_dependency.html | 251 +++++++++++++++++++++++-- inst/doc/c_homogeneous.html | 275 +++++++++++++++++++++++++-- inst/doc/d_non_homogeneous.html | 310 ++++++++++++++++++++++++++++--- inst/doc/e_probabilistic.html | 295 +++++++++++++++++++++++++++-- inst/doc/f_sensitivity.html | 253 +++++++++++++++++++++++-- inst/doc/g_heterogeneity.html | 395 +++++++++++++++++++++++++++++++--------- inst/doc/h_tabular.html | 350 +++++++++++++++++++++++++++++++---- inst/doc/i_reproduction.html | 225 +++++++++++++++++++++- inst/doc/j_survival.html | 254 +++++++++++++++++++++++-- inst/doc/k_calibration.html | 288 ++++++++++++++++++++++++++--- man/expand_state.Rd | 6 17 files changed, 2934 insertions(+), 355 deletions(-)
Title: Group Iterative Multiple Model Estimation
Description: Data-driven approach for arriving at person-specific time series models. The method first identifies which relations replicate across the majority of individuals to detect signal from noise. These group-level relations are then used as a foundation for starting the search for person-specific (or individual-level) relations. See Gates & Molenaar (2012) <doi:10.1016/j.neuroimage.2012.06.026>.
Author: Stephanie Lane [aut, trl],
Kathleen Gates [aut, cre, ccp],
Zachary Fisher [aut],
Cara Arizmendi [aut],
Peter Molenaar [aut, ccp],
Edgar Merkle [ctb],
Michael Hallquist [ctb],
Hallie Pike [ctb],
Teague Henry [ctb],
Kelly Duffy [ctb],
Lan Luo [ctb],
Ad [...truncated...]
Maintainer: Kathleen M Gates <gateskm@email.unc.edu>
Diff between gimme versions 0.7-12 dated 2023-03-16 and 0.7-13 dated 2023-03-22
DESCRIPTION | 8 ++++---- MD5 | 20 ++++++++++---------- R/final.org.R | 13 ++++--------- R/summaryPathsCounts.R | 13 +++++++++++-- build/vignette.rds |binary data/HRFsim.rda |binary data/ms.fit.rda |binary data/simData.rda |binary data/simDataLV.rda |binary data/ts.rda |binary inst/doc/gimme_vignette.html | 4 ++-- 11 files changed, 31 insertions(+), 27 deletions(-)
Title: Easy Plotting of Periodic Data with 'ggplot2'
Description: Implements methods to plot periodic data in any arbitrary range on the fly.
Author: Elio Campitelli [cre, aut]
Maintainer: Elio Campitelli <elio.campitelli@cima.fcen.uba.ar>
Diff between ggperiodic versions 1.0.2 dated 2022-08-12 and 1.0.3 dated 2023-03-22
DESCRIPTION | 8 +- MD5 | 20 ++--- NEWS.md | 6 + R/dplyr-methods-auto.R | 4 - R/fortify.R | 19 ++-- R/utils.R | 15 +++ README.md | 7 + build/vignette.rds |binary inst/doc/wraping-around-ggplot2.html | 122 ++++++++++++++++--------------- man/figures/README-unnamed-chunk-2-1.png |binary man/figures/README-unnamed-chunk-3-1.png |binary 11 files changed, 117 insertions(+), 84 deletions(-)
Title: Segmentation and Classification of Accelerometer Data
Description: Segmentation and classification procedures for data from the 'Activinsights GENEActiv' <https://activinsights.com/technology/geneactiv/> accelerometer that provides the user with a model to guess behaviour from test data where behaviour is missing.
Includes a step counting algorithm, a function to create segmented data with custom features and a function to use recursive partitioning provided in the function rpart() of the 'rpart' package to create classification models.
Author: Chris Campbell [aut],
Aimee Gott [aut],
Joss Langford [aut],
Charles Sweetland [aut],
Penny Sweetland [aut, cre],
Activinsights Ltd [cph]
Maintainer: Penny Sweetland <penny@springhead-data.com>
Diff between GENEAclassify versions 1.5.3 dated 2022-09-25 and 1.5.4 dated 2023-03-22
DESCRIPTION | 18 - MD5 | 46 +-- R/changeTimes.R | 1 R/classifyGENEA.R | 2 R/dataImport.R | 200 ++++++++------- R/getGENEAsegments.R | 27 +- R/segmentation.R | 112 ++++---- R/statistics.R | 22 - R/stepCounter.R | 38 +- build/vignette.rds |binary inst/doc/GENEAclassifyDemo.html | 521 ++++++---------------------------------- inst/doc/GENEAclassifyDemo.rmd | 6 inst/vignettes |only man/GENEAskew.Rd | 17 - man/classifyGENEA.Rd | 2 man/dataImport.Rd | 7 man/degrees.Rd | 4 man/getGENEAsegments.Rd | 13 man/radians.Rd | 4 man/segmentation.Rd | 6 man/stepCounter.Rd | 4 man/sumdiff.Rd | 1 man/updown.Rd | 4 vignettes/GENEAclassifyDemo.rmd | 6 24 files changed, 362 insertions(+), 699 deletions(-)
Title: Covariate Balance Tables and Plots
Description: Generate balance tables and plots for covariates of groups preprocessed through
matching, weighting or subclassification, for example, using propensity scores. Includes
integration with 'MatchIt', 'twang', 'Matching', 'optmatch', 'CBPS', 'ebal', 'WeightIt',
'cem', 'sbw', and 'designmatch' for assessing balance on the output of their preprocessing
functions. Users can also specify data for balance assessment not generated through
the above packages. Also included are methods for assessing balance in clustered or
multiply imputed data sets or data sets with multi-category, continuous, or longitudinal treatments.
Author: Noah Greifer [aut, cre]
Maintainer: Noah Greifer <noah.greifer@gmail.com>
Diff between cobalt versions 4.4.1 dated 2022-11-03 and 4.5.0 dated 2023-03-22
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