Title: Testing Differences Between Families of Trees
Description: Perform test to detect differences in structure between families of
trees. The method is based on cophenetic distances and aggregated
Student's tests.
Author: Nathalie Vialaneix [aut, cre] ,
Gwendaelle Cardenas [aut],
Marie Chavent [aut],
Sylvain Foissac [aut],
Pierre Neuvial [aut],
Nathanael Randriamihamison [aut]
Maintainer: Nathalie Vialaneix <nathalie.vialaneix@inrae.fr>
Diff between treediff versions 0.1 dated 2023-03-01 and 0.2 dated 2023-05-27
DESCRIPTION | 18 ++++++++++-------- MD5 | 26 +++++++++++++++++++++++--- NAMESPACE | 26 ++++++++++++++++++++++++++ NEWS.md |only R/HiC2Tree.R |only R/treediff.R | 2 +- inst |only man/HiC2Tree.Rd |only man/HiCDOCDataSet.Rd |only man/clusterTree.Rd |only man/normalizeCount.Rd |only tests/testthat/test-HiC2Tree.R |only 12 files changed, 60 insertions(+), 12 deletions(-)
Title: Bayesian Psychometric Measurement Using 'Stan'
Description: Estimate diagnostic classification models (also called cognitive
diagnostic models) with 'Stan'. Diagnostic classification models are
confirmatory latent class models, as described by Rupp et al.
(2010, ISBN: 978-1-60623-527-0). Automatically generate 'Stan' code for the
general loglinear cognitive diagnostic diagnostic model proposed by
Henson et al. (2009) <doi:10.1007/s11336-008-9089-5> and other subtypes that
introduce additional model constraints. Using the generated 'Stan' code,
estimate the model evaluate the model's performance using model fit indices,
information criteria, and reliability metrics.
Author: W. Jake Thompson [aut, cre] ,
Nathan Jones [ctb] ,
Matthew Johnson [cph] ),
Paul-Christian Buerkner [cph] ),
University of Kansas [cph],
Institute of Education Sciences [fnd]
Maintainer: W. Jake Thompson <wjakethompson@gmail.com>
Diff between measr versions 0.2.1 dated 2023-04-03 and 0.3.1 dated 2023-05-27
DESCRIPTION | 6 MD5 | 87 NEWS.md |only R/data-checks.R | 28 R/extract.R | 244 -- R/fit-dcm.R | 31 R/m2-methods.R | 6 R/measr-package.R | 7 R/model-evaluation.R | 2 R/ppmc.R | 2 R/priors.R | 31 R/stan-dina.R | 18 R/stan-lcdm.R | 65 R/stan-strc.R |only R/stan-utils.R | 5 R/utils-extract.R |only R/utils-fit.R | 2 R/utils-methods.R | 22 R/utils-model-evaluation.R | 12 R/utils.R | 21 README.md | 102 - inst/WORDLIST | 16 inst/stan/test_dina.stan | 1 man/default_dcm_priors.Rd | 10 man/get_parameters.Rd | 13 man/measr_dcm.Rd | 20 man/measr_extract.Rd | 94 man/measrprior.Rd | 5 man/model_evaluation.Rd | 2 src/stanExports_gqs_loglik.h | 4 src/stanExports_gqs_ppmc.h | 4 src/stanExports_gqs_probs.h | 4 src/stanExports_test_dina.h | 501 ++--- tests/testthat/_snaps/dina-code/param-estimates.md | 1 tests/testthat/_snaps/dino-code/param-estimates.md | 1 tests/testthat/_snaps/lcdm-ecpe-code/ecpe.md | 1 tests/testthat/_snaps/stan-scripts.md | 2022 +++++++++++++++++++-- tests/testthat/test-data-checks.R | 90 tests/testthat/test-ecpe.R | 12 tests/testthat/test-extract.R | 5 tests/testthat/test-m2-methods.R | 47 tests/testthat/test-mcmc.R | 77 tests/testthat/test-priors.R | 44 tests/testthat/test-reliability.R | 34 tests/testthat/test-stan-scripts.R | 12 tests/testthat/test-utils.R | 5 46 files changed, 2992 insertions(+), 724 deletions(-)
Title: Utility Functions for Forest Inventory Estimation and Analysis
Description: A set of tools for data wrangling, spatial data analysis,
statistical modeling (including direct, model-assisted, photo-based, and
small area tools), and USDA Forest Service data base tools. These tools are
aimed to help Foresters, Analysts, and Scientists extract and perform
analyses on USDA Forest Service data.
Author: Tracey Frescino [aut],
Chris Toney [aut],
Grayson White [aut, cre]
Maintainer: Grayson White <graysonwhite13@gmail.com>
Diff between FIESTAutils versions 1.1.6 dated 2023-05-04 and 1.1.7 dated 2023-05-27
FIESTAutils-1.1.6/FIESTAutils/R/CmbTable.R |only FIESTAutils-1.1.6/FIESTAutils/R/RunningStats.R |only FIESTAutils-1.1.6/FIESTAutils/R/save_largeList.R |only FIESTAutils-1.1.6/FIESTAutils/data/DEFAULT_NODATA.rda |only FIESTAutils-1.1.6/FIESTAutils/man/rasterToVRT.Rd |only FIESTAutils-1.1.6/FIESTAutils/src/r_cmb_table.cpp |only FIESTAutils-1.1.6/FIESTAutils/src/r_running_stats.cpp |only FIESTAutils-1.1.7/FIESTAutils/DESCRIPTION | 16 FIESTAutils-1.1.7/FIESTAutils/MD5 | 57 FIESTAutils-1.1.7/FIESTAutils/NAMESPACE | 12 FIESTAutils-1.1.7/FIESTAutils/R/FIESTAutils-package.R | 165 ++ FIESTAutils-1.1.7/FIESTAutils/R/aaa.R | 2 FIESTAutils-1.1.7/FIESTAutils/R/checks.R | 24 FIESTAutils-1.1.7/FIESTAutils/R/cool_functions.R | 86 + FIESTAutils-1.1.7/FIESTAutils/R/pcheck.functions.R | 18 FIESTAutils-1.1.7/FIESTAutils/R/raster_analysis.R | 1270 +++--------------- FIESTAutils-1.1.7/FIESTAutils/R/raster_functions.R | 6 FIESTAutils-1.1.7/FIESTAutils/R/re_exports.R |only FIESTAutils-1.1.7/FIESTAutils/R/spatial_functions.R | 80 - FIESTAutils-1.1.7/FIESTAutils/data/ref_codes.rda |binary FIESTAutils-1.1.7/FIESTAutils/data/ref_cond.rda |only FIESTAutils-1.1.7/FIESTAutils/data/ref_conversion.rda |only FIESTAutils-1.1.7/FIESTAutils/data/ref_estvar.rda |binary FIESTAutils-1.1.7/FIESTAutils/data/ref_plt.rda |only FIESTAutils-1.1.7/FIESTAutils/data/ref_popType.rda |only FIESTAutils-1.1.7/FIESTAutils/data/ref_shp.rda |only FIESTAutils-1.1.7/FIESTAutils/data/ref_species.rda |only FIESTAutils-1.1.7/FIESTAutils/data/ref_titles.rda |only FIESTAutils-1.1.7/FIESTAutils/data/ref_tree.rda |only FIESTAutils-1.1.7/FIESTAutils/man/DEFAULT_NODATA.Rd | 12 FIESTAutils-1.1.7/FIESTAutils/man/internal_desc.Rd | 3 FIESTAutils-1.1.7/FIESTAutils/man/raster_desc.Rd | 74 - FIESTAutils-1.1.7/FIESTAutils/man/reexports.Rd |only FIESTAutils-1.1.7/FIESTAutils/man/ref_cond.Rd |only FIESTAutils-1.1.7/FIESTAutils/man/ref_conversion.Rd |only FIESTAutils-1.1.7/FIESTAutils/man/ref_plt.Rd |only FIESTAutils-1.1.7/FIESTAutils/man/ref_popType.Rd |only FIESTAutils-1.1.7/FIESTAutils/man/ref_shp.Rd |only FIESTAutils-1.1.7/FIESTAutils/man/ref_species.Rd |only FIESTAutils-1.1.7/FIESTAutils/man/ref_titles.Rd |only FIESTAutils-1.1.7/FIESTAutils/man/ref_tree.Rd |only FIESTAutils-1.1.7/FIESTAutils/src/RcppExports.cpp | 5 42 files changed, 643 insertions(+), 1187 deletions(-)
Title: Extended Two-Way Fixed Effects
Description: Convenience functions for implementing extended two-way
fixed effect regressions a la Wooldridge (2021, 2022)
<doi:10.2139/ssrn.3906345>, <doi:10.2139/ssrn.4183726>.
Author: Grant McDermott [aut, cre] ,
Frederic Kluser [ctb]
Maintainer: Grant McDermott <grantmcd@uoregon.edu>
Diff between etwfe versions 0.3.2 dated 2023-05-02 and 0.3.3 dated 2023-05-27
DESCRIPTION | 8 MD5 | 10 NEWS.md | 8 inst/doc/etwfe.html | 566 +++++++++++++++++++++++----------------------- inst/tinytest/test_emfx.R | 5 inst/tinytest/test_xvar.R | 2 6 files changed, 306 insertions(+), 293 deletions(-)
Title: Use 'nlmixr2' to Interact with Open Source and Commercial
Software
Description: Run other estimation and simulation software via the 'nlmixr2' (Fidler et al (2019)
<doi:10.1002/psp4.12445>) interface including 'PKNCA', 'NONMEM' and 'Monolix'. While not required, you can
get/install the 'lixoftConnectors' package in the 'Monolix' installation, as
described at the following url
<https://monolix.lixoft.com/monolix-api/lixoftconnectors_installation/>. When
'lixoftConnectors' is available, 'Monolix' can be run directly instead of setting up
command line usage.
Author: Matthew Fidler [aut, cre] ,
Bill Denney [aut] ,
Nook Fulloption [ctb]
Maintainer: Matthew Fidler <matt.fidler@novartis.com>
Diff between babelmixr2 versions 0.1.0 dated 2022-10-28 and 0.1.1 dated 2023-05-27
DESCRIPTION | 26 +-- MD5 | 53 +++--- NAMESPACE | 13 + R/as.nlmixr2.R |only R/as.nlmixr2nonmem2rx.R |only R/convert.R | 5 R/monolixControl.R | 20 -- R/monolixNlmixr2est.R | 2 R/nonmemControl.R | 22 ++ R/nonmemNlmixr2est.R | 8 R/nonmemReadData.R | 259 ++++++++++++++++++++---------- R/nonmemRxUiGet.R | 27 ++- R/nonmemRxUiGetPk.R | 26 --- R/nonmemRxUiGetSub.R | 5 R/nonmemRxUiGetTable.R | 4 R/reexport.R | 27 ++- README.md | 64 +++++-- build/vignette.rds |binary inst/doc/new-estimation.Rmd | 10 - inst/doc/new-estimation.html | 1 man/as.nlmixr2.Rd |only man/nonmemControl.Rd | 9 + man/reexports.Rd | 14 + src/Makevars.in | 3 tests/testthat/bad-nonmem-data-convert.qs |only tests/testthat/test-as-nlmixr2.R |only tests/testthat/test-convert.R | 65 +++++++ tests/testthat/test-nonmem-read.R | 28 +-- tests/testthat/test-nonmem.R | 6 vignettes/new-estimation.Rmd | 10 - 30 files changed, 487 insertions(+), 220 deletions(-)
Title: Photobiological Calculations
Description: Definitions of classes, methods, operators and functions for use
in photobiology and radiation meteorology and climatology. Calculation of
effective (weighted) and not-weighted irradiances/doses, fluence rates,
transmittance, reflectance, absorptance, absorbance and diverse ratios and
other derived quantities from spectral data. Local maxima and minima: peaks,
valleys and spikes. Conversion between energy-and photon-based units.
Wavelength interpolation. Astronomical calculations related solar angles and
day length. Colours and vision. This package is part of the 'r4photobiology'
suite, Aphalo, P. J. (2015) <doi:10.19232/uv4pb.2015.1.14>.
Author: Pedro J. Aphalo [aut, cre] ,
Titta K. Kotilainen [ctb] ,
Glenn Davis [ctb],
Agnese Fazio [ctb]
Maintainer: Pedro J. Aphalo <pedro.aphalo@helsinki.fi>
Diff between photobiology versions 0.10.16 dated 2023-04-02 and 0.10.17 dated 2023-05-27
photobiology-0.10.16/photobiology/R/normalized.diff.idx.r |only photobiology-0.10.16/photobiology/R/spct.ratios.R |only photobiology-0.10.17/photobiology/DESCRIPTION | 8 photobiology-0.10.17/photobiology/MD5 | 68 +- photobiology-0.10.17/photobiology/NAMESPACE | 35 + photobiology-0.10.17/photobiology/NEWS.md | 17 photobiology-0.10.17/photobiology/R/NDxI.R |only photobiology-0.10.17/photobiology/R/filter-spct-ratios-fractions.r |only photobiology-0.10.17/photobiology/R/mspct.methods.R | 1 photobiology-0.10.17/photobiology/R/mspct.sample.R |only photobiology-0.10.17/photobiology/R/reflector-spct-ratios-fractions.r |only photobiology-0.10.17/photobiology/R/source-spct-fractions.R |only photobiology-0.10.17/photobiology/R/source-spct-ratios.R |only photobiology-0.10.17/photobiology/R/spct.fscale.r | 19 photobiology-0.10.17/photobiology/R/spct.normalize.r | 268 +++++++--- photobiology-0.10.17/photobiology/R/spct.operators.r | 167 +++--- photobiology-0.10.17/photobiology/R/spct.smooth.spct.r | 103 +++ photobiology-0.10.17/photobiology/R/zmspct.classes.R | 3 photobiology-0.10.17/photobiology/build/partial.rdb |binary photobiology-0.10.17/photobiology/build/vignette.rds |binary photobiology-0.10.17/photobiology/inst/doc/userguide-0-r4p-introduction.html | 2 photobiology-0.10.17/photobiology/inst/doc/userguide-1-radiation.html | 12 photobiology-0.10.17/photobiology/inst/doc/userguide-2-astronomy.html | 46 - photobiology-0.10.17/photobiology/man/Rfr_fraction.Rd |only photobiology-0.10.17/photobiology/man/Rfr_normdiff.Rd |only photobiology-0.10.17/photobiology/man/Rfr_ratio.Rd |only photobiology-0.10.17/photobiology/man/Tfr_fraction.Rd |only photobiology-0.10.17/photobiology/man/Tfr_normdiff.Rd |only photobiology-0.10.17/photobiology/man/Tfr_ratio.Rd |only photobiology-0.10.17/photobiology/man/e_fraction.Rd |only photobiology-0.10.17/photobiology/man/e_ratio.Rd | 60 +- photobiology-0.10.17/photobiology/man/eq_ratio.Rd | 24 photobiology-0.10.17/photobiology/man/fscale.Rd | 5 photobiology-0.10.17/photobiology/man/getNormalized.Rd | 46 + photobiology-0.10.17/photobiology/man/normalize.Rd | 26 photobiology-0.10.17/photobiology/man/normalized_diff_ind.Rd | 23 photobiology-0.10.17/photobiology/man/q_fraction.Rd |only photobiology-0.10.17/photobiology/man/q_ratio.Rd | 60 +- photobiology-0.10.17/photobiology/man/qe_ratio.Rd | 18 photobiology-0.10.17/photobiology/man/sample_spct.Rd |only photobiology-0.10.17/photobiology/man/setNormalized.Rd | 26 photobiology-0.10.17/photobiology/man/smooth_spct.Rd | 12 photobiology-0.10.17/photobiology/man/two_irrads.Rd |only photobiology-0.10.17/photobiology/man/two_reflectances.Rd |only photobiology-0.10.17/photobiology/man/two_transmittances.Rd |only 45 files changed, 770 insertions(+), 279 deletions(-)
Title: Statistics Norway's Miscellaneous Tools
Description: Functions used by other packages from Statistics Norway are gathered. General data manipulation functions, and functions for hierarchical computations are included (Langsrud, 2020) <doi:10.13140/RG.2.2.27313.61283>. The hierarchy specification functions are useful within statistical disclosure control.
Author: Oyvind Langsrud [aut, cre],
Daniel Lupp [aut],
Bjoern-Helge Mevik [ctb]
Maintainer: Oyvind Langsrud <oyl@ssb.no>
Diff between SSBtools versions 1.4.4 dated 2023-03-28 and 1.4.6 dated 2023-05-27
SSBtools-1.4.4/SSBtools/R/forEasySdcTable.R |only SSBtools-1.4.4/SSBtools/man/AddMapsInput.Rd |only SSBtools-1.4.4/SSBtools/man/AddNonExistingCode.Rd |only SSBtools-1.4.4/SSBtools/man/CrossDataDummyHierarchies.Rd |only SSBtools-1.4.4/SSBtools/man/CrossDataDummyHierarchy.Rd |only SSBtools-1.4.6/SSBtools/DESCRIPTION | 8 SSBtools-1.4.6/SSBtools/MD5 | 102 ++-- SSBtools-1.4.6/SSBtools/NAMESPACE | 2 SSBtools-1.4.6/SSBtools/R/AutoHierarchies.R | 243 +---------- SSBtools-1.4.6/SSBtools/R/DataDummyHierarchies.R |only SSBtools-1.4.6/SSBtools/R/DataFrameToMatrix.R | 104 ---- SSBtools-1.4.6/SSBtools/R/DimList2Hierarchy.R |only SSBtools-1.4.6/SSBtools/R/Div.R | 203 +++------ SSBtools-1.4.6/SSBtools/R/DummyHierarchies.R |only SSBtools-1.4.6/SSBtools/R/FactorLevCorr.R |only SSBtools-1.4.6/SSBtools/R/FindCommonCells.R |only SSBtools-1.4.6/SSBtools/R/FindDimLists.R |only SSBtools-1.4.6/SSBtools/R/FindHierarchies.R |only SSBtools-1.4.6/SSBtools/R/FindTableGroup.R |only SSBtools-1.4.6/SSBtools/R/GaussSuppression.R | 27 - SSBtools-1.4.6/SSBtools/R/HierarchicalGroups.R |only SSBtools-1.4.6/SSBtools/R/HierarchyCompute.R | 313 +-------------- SSBtools-1.4.6/SSBtools/R/MakeFreq.R |only SSBtools-1.4.6/SSBtools/R/MakeHierFormula.R | 40 - SSBtools-1.4.6/SSBtools/R/Match.R |only SSBtools-1.4.6/SSBtools/R/ModelMatrix.R | 21 - SSBtools-1.4.6/SSBtools/R/RoundWhole.R |only SSBtools-1.4.6/SSBtools/R/RowGroups.R | 162 ------- SSBtools-1.4.6/SSBtools/R/SSBtoolsData.R | 68 +++ SSBtools-1.4.6/SSBtools/R/SortRows.R |only SSBtools-1.4.6/SSBtools/R/UniqueSeq.R |only SSBtools-1.4.6/SSBtools/R/aggregate_multiple_fun.R | 32 + SSBtools-1.4.6/SSBtools/R/inc_default.R |only SSBtools-1.4.6/SSBtools/R/model_aggregate.R | 3 SSBtools-1.4.6/SSBtools/man/AutoHierarchies.Rd | 47 +- SSBtools-1.4.6/SSBtools/man/CharacterDataFrame.Rd | 2 SSBtools-1.4.6/SSBtools/man/CrossCodeFrames.Rd | 2 SSBtools-1.4.6/SSBtools/man/DataDummyHierarchy.Rd | 2 SSBtools-1.4.6/SSBtools/man/DimList2Hierarchy.Rd | 6 SSBtools-1.4.6/SSBtools/man/DimList2Hrc.Rd | 7 SSBtools-1.4.6/SSBtools/man/DummyHierarchy.Rd | 2 SSBtools-1.4.6/SSBtools/man/FactorLevCorr.Rd | 2 SSBtools-1.4.6/SSBtools/man/FindCommonCells.Rd | 2 SSBtools-1.4.6/SSBtools/man/FindDimLists.Rd | 10 SSBtools-1.4.6/SSBtools/man/FindHierarchies.Rd |only SSBtools-1.4.6/SSBtools/man/FindTableGroup.Rd | 2 SSBtools-1.4.6/SSBtools/man/ForceCharacterDataFrame.Rd | 2 SSBtools-1.4.6/SSBtools/man/ForceFactorDataFrame.Rd | 2 SSBtools-1.4.6/SSBtools/man/HierarchicalGroups.Rd | 11 SSBtools-1.4.6/SSBtools/man/HierarchicalGroups2.Rd | 2 SSBtools-1.4.6/SSBtools/man/HierarchicalGroups3.Rd | 2 SSBtools-1.4.6/SSBtools/man/Hierarchy2Formula.Rd | 8 SSBtools-1.4.6/SSBtools/man/HierarchyFix.Rd | 1 SSBtools-1.4.6/SSBtools/man/MakeFreq.Rd | 2 SSBtools-1.4.6/SSBtools/man/Match.Rd | 2 SSBtools-1.4.6/SSBtools/man/ModelMatrix.Rd | 8 SSBtools-1.4.6/SSBtools/man/Model_Matrix.Rd | 9 SSBtools-1.4.6/SSBtools/man/RoundWhole.Rd | 2 SSBtools-1.4.6/SSBtools/man/SSBtoolsData.Rd | 8 SSBtools-1.4.6/SSBtools/man/SortRows.Rd | 21 - SSBtools-1.4.6/SSBtools/man/UniqueSeq.Rd | 2 SSBtools-1.4.6/SSBtools/man/aggregate_multiple_fun.Rd | 7 SSBtools-1.4.6/SSBtools/man/inc_default.Rd |only 63 files changed, 475 insertions(+), 1026 deletions(-)
Title: Mediation using MZIP Model
Description: We implement functions allowing for mediation analysis to be performed in cases where the mediator is a count variable with excess zeroes. First a function is provided allowing users to perform analysis for zero-inflated count variables using the marginalized zero-inflated Poisson (MZIP) model (Long et al. 2014 <DOI:10.1002/sim.6293>). Using the counterfactual approach to mediation and MZIP we can obtain natural direct and indirect effects for the overall population. Using delta method processes variance estimation can be performed instantaneously. Alternatively, bootstrap standard errors can be used. We also provide functions for cases with exposure-mediator interactions with four-way decomposition of total effect.
Author: Andrew Sims [aut, cre] ,
Dustin Long [aut],
Hemant Tiwari [aut],
Leann Long [aut]
Maintainer: Andrew Sims <ams329@uab.edu>
Diff between mzipmed versions 1.3.0 dated 2023-04-16 and 1.3.5 dated 2023-05-27
DESCRIPTION | 6 - MD5 | 20 ++-- R/mzipmed_package.R | 134 ++++++++++++++--------------- inst/doc/mzipmed-vignette.Rmd | 48 ++++++---- inst/doc/mzipmed-vignette.html | 189 +++++++++++++++++++++-------------------- man/mzip.Rd | 4 man/zioutbinmed.Rd | 18 +-- man/zioutbinmedint.Rd | 34 +++---- man/zioutlmmed.Rd | 18 +-- man/zioutlmmedint.Rd | 34 +++---- vignettes/mzipmed-vignette.Rmd | 48 ++++++---- 11 files changed, 295 insertions(+), 258 deletions(-)
Title: Read and Write 'jamovi' Files ('.omv')
Description: The free and open a statistical spreadsheet 'jamovi'
(<https://www.jamovi.org>) aims to make statistical analyses easy and
intuitive. 'jamovi' produces syntax that can directly be used in R (in
connection with the R-package 'jmv'). Having import / export routines for
the data files 'jamovi' produces ('.omv') permits an easy transfer of
analyses between 'jamovi' and R.
Author: Sebastian Jentschke [aut, cre]
Maintainer: Sebastian Jentschke <sebastian.jentschke@uib.no>
Diff between jmvReadWrite versions 0.3.4 dated 2023-05-06 and 0.3.5 dated 2023-05-27
DESCRIPTION | 12 ++++++------ MD5 | 12 +++++++----- NEWS.md | 6 ++++++ R/merge_rows_omv.R | 34 ++++++++++++++++++++++------------ README.md | 14 ++++++++++---- inst/CITATION |only inst/doc/jmvReadWrite.html | 8 ++++---- man/figures |only 8 files changed, 55 insertions(+), 31 deletions(-)
Title: Bayesian Additive Regression Trees for Confounder Selection
Description: Fit Bayesian Regression Additive Trees (BART) models to
select true confounders from a large set of potential confounders and
to estimate average treatment effect. For more information, see Kim et
al. (2023) <doi:10.1111/biom.13833>.
Author: Yeonghoon Yoo [aut, cre]
Maintainer: Yeonghoon Yoo <yooyh.stat@gmail.com>
Diff between bartcs versions 1.1.0 dated 2023-05-01 and 1.2.0 dated 2023-05-27
DESCRIPTION | 6 +-- MD5 | 32 +++++++++---------- NEWS.md | 4 ++ R/bart.R | 8 +--- R/print.R | 2 - R/separate_bart.R | 36 ++++++++++----------- R/single_bart.R | 36 ++++++++++----------- R/summary.R | 8 ++-- R/trace_plot.R | 82 ++++++++++++++++++++++++-------------------------- inst/doc/bartcs.R | 4 +- inst/doc/bartcs.Rmd | 4 +- inst/doc/bartcs.html | 8 ++-- man/bart.Rd | 8 +--- src/separate_bart.cpp | 17 ++++------ src/single_bart.cpp | 12 +++---- vignettes/article.pdf |binary vignettes/bartcs.Rmd | 4 +- 17 files changed, 131 insertions(+), 140 deletions(-)
Title: Event Prediction
Description: Predicts enrollment and events at the design or analysis stage using specified enrollment and time-to-event models through simulations.
Author: Kaifeng Lu [aut, cre]
Maintainer: Kaifeng Lu <kaifenglu@gmail.com>
Diff between eventPred versions 0.1.3 dated 2023-05-15 and 0.1.4 dated 2023-05-27
DESCRIPTION | 10 MD5 | 50 - NEWS.md | 7 R/data.R | 6 R/eventPred-package.R | 18 R/fitDropout.R | 299 ++++--- R/fitEnrollment.R | 23 R/fitEvent.R | 439 ++++++----- R/getPrediction.R | 842 +++++++++++++--------- R/predictEnrollment.R | 434 ++++++++--- R/predictEvent.R | 1780 +++++++++++++++++++++++++---------------------- R/summarizeObserved.R | 414 ++++++++-- data/finalData.rda |binary data/interimData1.rda |binary data/interimData2.rda |binary man/eventPred-package.Rd | 17 man/finalData.Rd | 2 man/fitDropout.Rd | 16 man/fitEnrollment.Rd | 1 man/fitEvent.Rd | 20 man/getPrediction.Rd | 75 + man/interimData1.Rd | 4 man/interimData2.Rd | 2 man/predictEnrollment.Rd | 26 man/predictEvent.Rd | 60 - man/summarizeObserved.Rd | 18 26 files changed, 2778 insertions(+), 1785 deletions(-)
Title: Package for Community Ecology and Suitability Analysis
Description: Graphical User Interface (via the R-Commander) and utility functions (often based on the vegan package) for statistical analysis of biodiversity and ecological communities, including species accumulation curves, diversity indices, Renyi profiles, GLMs for analysis of species abundance and presence-absence, distance matrices, Mantel tests, and cluster, constrained and unconstrained ordination analysis. A book on biodiversity and community ecology analysis is available for free download from the website. In 2012, methods for (ensemble) suitability modelling and mapping were expanded in the package.
Author: Roeland Kindt [cre, aut]
Maintainer: Roeland Kindt <RoelandCEKindt@gmail.com>
Diff between BiodiversityR versions 2.15-1 dated 2023-01-06 and 2.15-2 dated 2023-05-27
DESCRIPTION | 8 ++++---- MD5 | 20 ++++++++++---------- NAMESPACE | 2 +- R/ensemble.envirem.R | 3 ++- R/ensemble.evaluate.R | 23 +++++++++++++++++++++-- README.md | 2 +- inst/CITATION | 34 +++++++++++++++++----------------- inst/ChangeLog | 14 ++++++++++++++ man/ensemble.concave.Rd | 2 +- man/ensemble.envirem.Rd | 9 +++++---- man/ensemble.evaluate.Rd | 35 +++++++++++++++++++++++++++-------- 11 files changed, 103 insertions(+), 49 deletions(-)
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2023-05-24 1.0
Title: Load US Census Boundary and Attribute Data as 'tidyverse' and
'sf'-Ready Data Frames
Description: An integrated R interface to several United States Census Bureau
APIs (<https://www.census.gov/data/developers/data-sets.html>) and the US Census Bureau's
geographic boundary files. Allows R users to return Census and ACS data as
tidyverse-ready data frames, and optionally returns a list-column with feature geometry for mapping
and spatial analysis.
Author: Kyle Walker [aut, cre],
Matt Herman [aut],
Kris Eberwein [ctb]
Maintainer: Kyle Walker <kyle@walker-data.com>
Diff between tidycensus versions 1.3.4 dated 2023-05-19 and 1.4 dated 2023-05-27
DESCRIPTION | 8 ++--- MD5 | 14 ++++----- NEWS.md | 6 ++++ R/census.R | 73 +++++++++++++++++++++++++++++++++++++++----------- R/helpers.R | 19 +++++++++++-- R/search_variables.R | 6 ++-- man/get_decennial.Rd | 15 ++++------ man/load_variables.Rd | 10 +++--- 8 files changed, 107 insertions(+), 44 deletions(-)
Title: 'Rcpp' Integration for the 'Armadillo' Templated Linear Algebra
Library
Description: 'Armadillo' is a templated C++ linear algebra library (by Conrad
Sanderson) that aims towards a good balance between speed and ease of
use. Integer, floating point and complex numbers are supported, as
well as a subset of trigonometric and statistics functions. Various
matrix decompositions are provided through optional integration with
LAPACK and ATLAS libraries. The 'RcppArmadillo' package includes the
header files from the templated 'Armadillo' library. Thus users do
not need to install 'Armadillo' itself in order to use
'RcppArmadillo'. From release 7.800.0 on, 'Armadillo' is licensed
under Apache License 2; previous releases were under licensed as MPL
2.0 from version 3.800.0 onwards and LGPL-3 prior to that;
'RcppArmadillo' (the 'Rcpp' bindings/bridge to Armadillo) is licensed
under the GNU GPL version 2 or later, as is the rest of 'Rcpp'.
Author: Dirk Eddelbuettel, Romain Francois, Doug Bates, Binxiang Ni, and Conrad Sanderson
Maintainer: Dirk Eddelbuettel <edd@debian.org>
Diff between RcppArmadillo versions 0.12.2.0.0 dated 2023-04-05 and 0.12.4.0.0 dated 2023-05-27
ChangeLog | 16 + DESCRIPTION | 8 MD5 | 75 ++-- README.md | 2 build/partial.rdb |binary build/vignette.rds |binary configure | 18 - configure.ac | 2 inst/NEWS.Rd | 14 inst/doc/RcppArmadillo-intro.pdf |binary inst/doc/RcppArmadillo-sparseMatrix.pdf |binary inst/include/armadillo | 7 inst/include/armadillo_bits/Cube_meat.hpp | 20 - inst/include/armadillo_bits/Mat_meat.hpp | 20 - inst/include/armadillo_bits/SpMat_meat.hpp | 12 inst/include/armadillo_bits/arma_str.hpp | 315 +++++++------------- inst/include/armadillo_bits/arma_version.hpp | 4 inst/include/armadillo_bits/diskio_meat.hpp | 6 inst/include/armadillo_bits/fft_engine_fftw3.hpp | 2 inst/include/armadillo_bits/field_meat.hpp | 20 - inst/include/armadillo_bits/fn_conv_to.hpp | 20 - inst/include/armadillo_bits/fn_norm.hpp | 46 ++ inst/include/armadillo_bits/fn_stddev.hpp | 6 inst/include/armadillo_bits/fn_var.hpp | 12 inst/include/armadillo_bits/fn_vecnorm.hpp |only inst/include/armadillo_bits/op_norm2est_bones.hpp |only inst/include/armadillo_bits/op_norm2est_meat.hpp |only inst/include/armadillo_bits/op_normalise_meat.hpp | 6 inst/include/armadillo_bits/op_stddev_bones.hpp | 8 inst/include/armadillo_bits/op_stddev_meat.hpp | 42 +- inst/include/armadillo_bits/op_var_bones.hpp | 5 inst/include/armadillo_bits/op_var_meat.hpp | 42 +- inst/include/armadillo_bits/op_vecnorm_bones.hpp |only inst/include/armadillo_bits/op_vecnorm_meat.hpp |only inst/include/armadillo_bits/sp_auxlib_meat.hpp | 10 inst/include/armadillo_bits/spop_norm_meat.hpp | 2 inst/include/armadillo_bits/spop_normalise_meat.hpp | 4 inst/include/armadillo_bits/spop_vecnorm_bones.hpp |only inst/include/armadillo_bits/spop_vecnorm_meat.hpp |only inst/include/armadillo_bits/subview_cube_meat.hpp | 2 inst/include/armadillo_bits/subview_field_meat.hpp | 2 inst/include/armadillo_bits/subview_meat.hpp | 2 42 files changed, 399 insertions(+), 351 deletions(-)
Title: Mixture of Markov Chains with Support of Higher Orders and
Multiple Sequences
Description: Fit mixture of Markov chains of higher orders from multiple
sequences. It is also compatible with ordinary 1-component, 1-order or
single-sequence Markov chains. Various utility functions are provided
to derive transition patterns, transition probabilities per component
and component priors. In addition, print(), predict() and component
extracting/replacing methods are also defined as a convention of
mixture models.
Author: Xiurui Zhu [aut, cre]
Maintainer: Xiurui Zhu <zxr6@163.com>
Diff between markovmix versions 0.1.1 dated 2023-04-25 and 0.1.2 dated 2023-05-27
DESCRIPTION | 6 - MD5 | 45 +++++++------ NAMESPACE | 4 + NEWS.md | 23 ++++++ R/RcppExports.R | 49 ++++++++++++++ R/data.R | 6 - R/markov_mix.R | 12 ++- R/markov_mix_utils.R | 112 ++++++++++++++++++++++++++++----- R/markovmix-package.R | 11 ++- README.md | 9 +- inst |only man/Extract.MarkovMix.Rd | 21 +++++- man/get_counts.Rd |only man/get_order.Rd |only man/get_prior.Rd | 17 ++++- man/get_prob.Rd | 17 ++++- man/get_states.Rd |only man/get_states_mat.Rd | 17 ++++- man/markovmix-package.Rd | 11 ++- man/predict.MarkovMix.Rd | 4 - man/restate.Rd | 7 +- src/RcppExports.cpp | 80 +++++++++++++++++++++-- src/fit_markov.cpp | 47 +++++++++++++ tests/testthat/test-markov_mix.R | 8 +- tests/testthat/test-markov_mix_utils.R | 26 +++++-- 25 files changed, 450 insertions(+), 82 deletions(-)
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2023-04-02 0.1.6
2021-07-22 0.1.5
2021-05-28 0.1.4
2021-05-07 0.1.3
2021-04-14 0.1.2
2021-03-11 0.1.1
2021-02-10 0.1.0
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2021-04-10 1.0.0
Title: Calibrates and Reweights Units in Samples
Description: Provides user-friendly tools for calibration in survey sampling.
The package is production-oriented, and its interface is inspired by the famous
popular macro 'Calmar' for SAS, so that 'Calmar' users can quickly get used to
'icarus'. In addition to calibration (with linear, raking and logit methods),
'icarus' features functions for calibration on tight bounds and penalized
calibration.
Author: Antoine Rebecq [aut, cre]
Maintainer: Antoine Rebecq <antoine.rebecq@m4x.org>
Diff between icarus versions 0.3.1 dated 2019-08-20 and 0.3.2 dated 2023-05-27
icarus-0.3.1/icarus/data/datalist |only icarus-0.3.2/icarus/DESCRIPTION | 9 +- icarus-0.3.2/icarus/MD5 | 35 +++++------ icarus-0.3.2/icarus/R/calibration.R | 10 +-- icarus-0.3.2/icarus/R/calmarFunctions.R | 50 ++++++++++++---- icarus-0.3.2/icarus/README.md | 2 icarus-0.3.2/icarus/inst/CITATION | 17 ++--- icarus-0.3.2/icarus/man/addMargin.Rd | 9 ++ icarus-0.3.2/icarus/man/calWeights_movies.Rd | 6 + icarus-0.3.2/icarus/man/calibration.Rd | 36 ++++++++--- icarus-0.3.2/icarus/man/calibrationMarginStats.Rd | 12 ++- icarus-0.3.2/icarus/man/dataPop.Rd | 6 + icarus-0.3.2/icarus/man/data_employees.Rd | 6 + icarus-0.3.2/icarus/man/marginStats.Rd | 11 ++- icarus-0.3.2/icarus/man/poptest_calmar.Rd | 6 + icarus-0.3.2/icarus/man/poptest_calmar_nr.Rd | 6 + icarus-0.3.2/icarus/man/regroupCalibrationModalities.Rd | 9 ++ icarus-0.3.2/icarus/man/table_margins_1.Rd | 4 - icarus-0.3.2/icarus/man/table_margins_2.Rd | 4 - 19 files changed, 159 insertions(+), 79 deletions(-)
Title: Check User-Supplied Function Arguments
Description: For developers to check user-supplied function arguments. It
is designed to be simple, fast and customizable. Error messages
follow the tidyverse style guide.
Author: Joe Thorley [aut, cre] ,
Kirill Mueller [aut] ,
Ayla Pearson [aut] ,
Nadine Hussein [ctb] ,
Evan Amies-Galonski [ctb] ,
Poisson Consulting [cph, fnd]
Maintainer: Joe Thorley <joe@poissonconsulting.ca>
Diff between chk versions 0.8.1 dated 2022-08-26 and 0.9.0 dated 2023-05-27
DESCRIPTION | 14 +-- MD5 | 83 +++++++++--------- NAMESPACE | 2 NEWS.md | 11 ++ R/check-dim.R | 2 R/chk-compatible-lengths.R |only R/chk-count.R | 3 R/chk-equal.R | 6 - R/chk-equivalent.R | 6 - R/chk-identical.R | 6 - R/chk-join.R | 2 R/chk-length.R | 16 +-- R/chk-missing.R | 8 + R/chk-not-missing.R | 8 + R/chk-null-or.R | 10 +- R/chk-range.R | 26 ++++- R/chk-sorted.R | 4 R/chkor-vld.R | 3 R/err.R | 24 +++-- R/internal.R | 2 R/template.R | 2 R/utils.R | 2 README.md | 12 +- build/vignette.rds |binary inst/doc/chk-families.html | 14 +-- inst/doc/chk.html | 124 ++++++++++++++------------- man/chk-package.Rd | 2 man/chk_compatible_lengths.Rd |only man/chk_length.Rd | 10 +- man/chk_missing.Rd | 8 + man/chk_not_missing.Rd | 8 + man/chk_range.Rd | 12 ++ man/chk_sorted.Rd | 2 man/err.Rd | 15 ++- man/expect_chk_error.Rd | 19 +++- man/params.Rd | 4 tests/testthat/test-check-dim.R | 3 tests/testthat/test-chk-compatible-lengths.R |only tests/testthat/test-chk-length.R | 3 tests/testthat/test-chk-null-or.R | 1 tests/testthat/test-chk-range.R | 6 + tests/testthat/test-chk-sorted.R | 2 tests/testthat/test-chk-valid-name.R | 2 tests/testthat/test-err.R | 15 +++ 44 files changed, 318 insertions(+), 184 deletions(-)