Title: ASCII Formatting for Values and Tables
Description: We provide a framework for rendering complex tables to ASCII,
and a set of formatters for transforming values or sets of values into
ASCII-ready display strings.
Author: Gabriel Becker [aut] ,
Adrian Waddell [aut],
Davide Garolini [aut] ,
Emily de la Rua [aut] ,
Abinaya Yogasekaram [ctb] ,
Joe Zhu [aut, cre] ,
F. Hoffmann-La Roche AG [cph, fnd]
Maintainer: Joe Zhu <joe.zhu@roche.com>
Diff between formatters versions 0.5.12 dated 2025-12-08 and 0.5.13 dated 2026-09-14
DESCRIPTION | 31 MD5 | 25 NAMESPACE | 366 ++-- NEWS.md | 393 ++-- R/matrix_form.R | 2879 ++++++++++++++++++------------------ README.md | 384 ++-- build/vignette.rds |binary inst/doc/formatters.html | 304 +-- man/font_lcpi.Rd | 98 - man/formatters-package.Rd | 77 man/mpf_accessors.Rd | 242 +-- man/round_fmt.Rd | 159 - tests/testthat/test-listings.R | 285 +-- tests/testthat/test-mpf_accessors.R |only 14 files changed, 2630 insertions(+), 2613 deletions(-)
Title: Tidy Access to Brazilian Federal Highway Police ('PRF') Data
Description: Download and read Brazilian Federal Highway Police ('PRF')
open data on traffic accidents by person, by occurrence, and traffic
violations
<https://www.gov.br/prf/pt-br/acesso-a-informacao/dados-abertos/dados-abertos-da-prf>.
Data are retrieved on demand as 'Parquet' files distributed via 'GitHub'
releases and cached locally for reuse.
Author: Joao Paulo Assis Bonifacio [aut, cre] ,
Geraldo Magela da Cruz Pereira [aut] ,
Pedro Mambelli Fernandes [aut]
Maintainer: Joao Paulo Assis Bonifacio <jpab.27@hotmail.com>
Diff between tidyprf versions 0.1.1 dated 2026-08-03 and 0.2.0 dated 2026-09-14
DESCRIPTION | 6 +- MD5 | 21 +++---- NEWS.md | 8 ++ R/download.R | 55 ++++++++++++++++--- README.md | 13 ++++ inst/WORDLIST | 50 +++++++++-------- inst/doc/tidyprf.R | 3 + inst/doc/tidyprf.Rmd | 10 +++ inst/doc/tidyprf.html | 8 ++ tests/testthat/setup.R |only tests/testthat/test-download.R | 114 ++++++++++++++++++++++++++++++++++++++++- vignettes/tidyprf.Rmd | 10 +++ 12 files changed, 248 insertions(+), 50 deletions(-)
Title: Bayesian Vector Autoregressions with Steady-State Priors
Description: Provides estimation of Bayesian vector autoregression
(BVAR) models with steady-state priors via 'Stan', along with
functions for unconditional and conditional forecasting, as well as impulse
response analysis. For details on the steady-state BVAR model
see Villani (2009) <doi:10.1002/jae.1065>.
Author: Mark Becker [aut, cre, cph]
Maintainer: Mark Becker <mark.jw.becker@gmail.com>
Diff between SteadyStateBVAR versions 0.1.1 dated 2026-07-28 and 0.2.0 dated 2026-09-14
SteadyStateBVAR-0.1.1/SteadyStateBVAR/vignettes/vignettes |only SteadyStateBVAR-0.2.0/SteadyStateBVAR/DESCRIPTION | 6 SteadyStateBVAR-0.2.0/SteadyStateBVAR/MD5 | 127 - SteadyStateBVAR-0.2.0/SteadyStateBVAR/NAMESPACE | 89 SteadyStateBVAR-0.2.0/SteadyStateBVAR/NEWS.md | 31 SteadyStateBVAR-0.2.0/SteadyStateBVAR/R/SteadyStateBVAR-package.R | 35 SteadyStateBVAR-0.2.0/SteadyStateBVAR/R/bvar.R | 33 SteadyStateBVAR-0.2.0/SteadyStateBVAR/R/conditional_forecast.R | 88 SteadyStateBVAR-0.2.0/SteadyStateBVAR/R/fit.R | 78 SteadyStateBVAR-0.2.0/SteadyStateBVAR/R/forecast.R | 256 +- SteadyStateBVAR-0.2.0/SteadyStateBVAR/R/irf.R | 74 SteadyStateBVAR-0.2.0/SteadyStateBVAR/R/ppi.R | 19 SteadyStateBVAR-0.2.0/SteadyStateBVAR/R/priors.R | 105 SteadyStateBVAR-0.2.0/SteadyStateBVAR/R/restrict_beta.R | 21 SteadyStateBVAR-0.2.0/SteadyStateBVAR/R/setup.R | 5 SteadyStateBVAR-0.2.0/SteadyStateBVAR/R/steady_state_priors_plot.R |only SteadyStateBVAR-0.2.0/SteadyStateBVAR/R/stochastic_volatility_plot.R | 25 SteadyStateBVAR-0.2.0/SteadyStateBVAR/R/summary.R | 7 SteadyStateBVAR-0.2.0/SteadyStateBVAR/README.md | 298 -- SteadyStateBVAR-0.2.0/SteadyStateBVAR/build/partial.rdb |binary SteadyStateBVAR-0.2.0/SteadyStateBVAR/build/vignette.rds |binary SteadyStateBVAR-0.2.0/SteadyStateBVAR/inst/doc/AR1-stochastic-volatility-steady-state-BVAR.Rmd | 363 +- SteadyStateBVAR-0.2.0/SteadyStateBVAR/inst/doc/AR1-stochastic-volatility-steady-state-BVAR.html | 527 ++-- SteadyStateBVAR-0.2.0/SteadyStateBVAR/inst/doc/Homoscedastic-steady-state-BVAR.Rmd | 531 ++-- SteadyStateBVAR-0.2.0/SteadyStateBVAR/inst/doc/Homoscedastic-steady-state-BVAR.html | 798 +++--- SteadyStateBVAR-0.2.0/SteadyStateBVAR/inst/doc/RW-stochastic-volatility-steady-state-BVAR.Rmd | 371 +-- SteadyStateBVAR-0.2.0/SteadyStateBVAR/inst/doc/RW-stochastic-volatility-steady-state-BVAR.html | 497 ++-- SteadyStateBVAR-0.2.0/SteadyStateBVAR/inst/doc/SteadyStateBVAR-intro.R |only SteadyStateBVAR-0.2.0/SteadyStateBVAR/inst/doc/SteadyStateBVAR-intro.Rmd |only SteadyStateBVAR-0.2.0/SteadyStateBVAR/inst/doc/SteadyStateBVAR-intro.html |only SteadyStateBVAR-0.2.0/SteadyStateBVAR/inst/stan/steady_state_bvar_AR1_stochastic_volatility.stan | 45 SteadyStateBVAR-0.2.0/SteadyStateBVAR/inst/stan/steady_state_bvar_RW_stochastic_volatility.stan | 53 SteadyStateBVAR-0.2.0/SteadyStateBVAR/inst/stan/steady_state_bvar_homoscedastic_inverse_wishart_prior.stan | 20 SteadyStateBVAR-0.2.0/SteadyStateBVAR/inst/stan/steady_state_bvar_homoscedastic_jeffreys_prior.stan | 21 SteadyStateBVAR-0.2.0/SteadyStateBVAR/man/IRF.Rd | 177 - SteadyStateBVAR-0.2.0/SteadyStateBVAR/man/SteadyStateBVAR-package.Rd | 93 SteadyStateBVAR-0.2.0/SteadyStateBVAR/man/bvar.Rd | 219 - SteadyStateBVAR-0.2.0/SteadyStateBVAR/man/conditional_forecast.Rd | 196 - SteadyStateBVAR-0.2.0/SteadyStateBVAR/man/fit.Rd | 443 +-- SteadyStateBVAR-0.2.0/SteadyStateBVAR/man/forecast.Rd | 177 - SteadyStateBVAR-0.2.0/SteadyStateBVAR/man/ppi.Rd | 96 SteadyStateBVAR-0.2.0/SteadyStateBVAR/man/priors.Rd | 550 ++-- SteadyStateBVAR-0.2.0/SteadyStateBVAR/man/restrict_beta.Rd | 123 - SteadyStateBVAR-0.2.0/SteadyStateBVAR/man/setup.Rd | 80 SteadyStateBVAR-0.2.0/SteadyStateBVAR/man/steady_state_priors_plot.Rd |only SteadyStateBVAR-0.2.0/SteadyStateBVAR/man/stochastic_volatility_plot.Rd | 217 - SteadyStateBVAR-0.2.0/SteadyStateBVAR/man/summary.bvar.Rd | 147 - SteadyStateBVAR-0.2.0/SteadyStateBVAR/src/stanExports_steady_state_bvar_AR1_stochastic_volatility.h | 1198 +++++---- SteadyStateBVAR-0.2.0/SteadyStateBVAR/src/stanExports_steady_state_bvar_RW_stochastic_volatility.h | 1211 ++++++---- SteadyStateBVAR-0.2.0/SteadyStateBVAR/src/stanExports_steady_state_bvar_homoscedastic_inverse_wishart_prior.h | 601 +++- SteadyStateBVAR-0.2.0/SteadyStateBVAR/src/stanExports_steady_state_bvar_homoscedastic_jeffreys_prior.h | 577 +++- SteadyStateBVAR-0.2.0/SteadyStateBVAR/tests/testthat/test-fit.R | 10 SteadyStateBVAR-0.2.0/SteadyStateBVAR/tests/testthat/test-ppi.R | 5 SteadyStateBVAR-0.2.0/SteadyStateBVAR/tests/testthat/test-priors.R | 53 SteadyStateBVAR-0.2.0/SteadyStateBVAR/tests/testthat/test-restrict_beta.R | 13 SteadyStateBVAR-0.2.0/SteadyStateBVAR/tests/testthat/test-summary.R |only SteadyStateBVAR-0.2.0/SteadyStateBVAR/vignettes/AR1-stochastic-volatility-steady-state-BVAR.Rmd | 363 +- SteadyStateBVAR-0.2.0/SteadyStateBVAR/vignettes/AR1-stochastic-volatility-steady-state-BVAR.Rmd.orig | 67 SteadyStateBVAR-0.2.0/SteadyStateBVAR/vignettes/Homoscedastic-steady-state-BVAR.Rmd | 531 ++-- SteadyStateBVAR-0.2.0/SteadyStateBVAR/vignettes/Homoscedastic-steady-state-BVAR.Rmd.orig | 154 - SteadyStateBVAR-0.2.0/SteadyStateBVAR/vignettes/RW-stochastic-volatility-steady-state-BVAR.Rmd | 371 +-- SteadyStateBVAR-0.2.0/SteadyStateBVAR/vignettes/RW-stochastic-volatility-steady-state-BVAR.Rmd.orig | 73 SteadyStateBVAR-0.2.0/SteadyStateBVAR/vignettes/SteadyStateBVAR-intro.Rmd |only SteadyStateBVAR-0.2.0/SteadyStateBVAR/vignettes/precompile.R | 16 64 files changed, 7172 insertions(+), 5112 deletions(-)
More information about SteadyStateBVAR at CRAN
Permanent link
Title: Result Stability Checks for Empirical R Projects
Description: Lightweight helpers for checking whether empirical results remain
substantively unchanged across code revisions, platform differences,
and package updates. The package supports regression-style testing of
derived datasets, statistical model outputs, tables, and plots, helping
researchers detect unintended result drift early and distinguish material
from non-material changes in empirical workflows.
Author: Dianyi Yang [aut, cre, ctb]
Maintainer: Dianyi Yang <dianyi.yang@politics.ox.ac.uk>
Diff between resultcheck versions 0.3.0 dated 2026-09-02 and 0.3.1 dated 2026-09-14
DESCRIPTION | 6 +- MD5 | 18 +++--- NEWS.md | 6 ++ R/snapshot.R | 46 +++++++++++++-- README.md | 17 +++++ inst/doc/resultcheck.Rmd | 12 ++++ inst/doc/resultcheck.html | 24 ++++++-- man/snapshot.Rd | 16 +++++ tests/testthat/test-snapshot.R | 118 +++++++++++++++++++++++++++++++++++++++++ vignettes/resultcheck.Rmd | 12 ++++ 10 files changed, 252 insertions(+), 23 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. 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 0.14.2 dated 2026-03-15 and 0.14.3 dated 2026-09-14
DESCRIPTION | 15 MD5 | 760 +++++++++--------- NAMESPACE | 11 NEWS.md | 17 R/NDxI.R | 6 R/color.of.R | 13 R/copy.attr.R | 50 - R/filter-spct-ratios-fractions.r | 21 R/head-tail.R | 12 R/join.mspct.R | 16 R/make-var-labels.R | 22 R/mspct.sample.R | 80 + R/rbindspct.r | 1 R/reflector-spct-ratios-fractions.r | 21 R/source-spct-fractions.R | 14 R/spct-conversion-qty-unit.R | 60 - R/spct.absorbance.R | 11 R/spct.absorptance.R | 10 R/spct.classes.r | 83 + R/spct.clean.r | 40 R/spct.fscale.r | 42 R/spct.fshift.r | 30 R/spct.illuminance.r | 7 R/spct.integrate.r | 9 R/spct.metadata.r | 109 +- R/spct.new.r | 28 R/spct.normalize.r | 36 R/spct.reflectance.r | 10 R/spct.response.R | 20 R/spct.smooth.spct.r | 16 R/spct.spikes.R | 1221 ++++++++++++++++++++--------- R/spct.summaries.r | 6 R/spct.tag.r | 17 R/spct.transmittance.r | 11 R/spct.trim.r | 22 R/spct.utils.r | 60 - R/waveband.class.r | 69 - R/waveband.new.r | 3 R/zmspct.classes.R | 127 +-- build/partial.rdb |binary build/vignette.rds |binary data/white-led-spct.rda |binary inst/doc/userguide-0-r4p-introduction.html | 2 inst/doc/userguide-1-radiation.R | 34 inst/doc/userguide-1-radiation.Rmd | 59 + inst/doc/userguide-1-radiation.html | 860 +++++++++++--------- man/A.illuminant.spct.Rd | 2 man/A2T.Rd | 31 man/Afr2T.Rd | 35 man/D2.UV653.Rd | 58 - man/D2_spectrum.Rd | 70 - man/D50.illuminant.spct.Rd | 2 man/D65.illuminant.spct.Rd | 2 man/FEL_spectrum.Rd | 68 - man/Ler_leaf.spct.Rd | 2 man/MathFun.Rd | 12 man/Rfr_fraction.Rd | 16 man/Rfr_from_n.Rd | 112 +- man/Rfr_normdiff.Rd | 16 man/Rfr_ratio.Rd | 16 man/T2A.Rd | 31 man/T2Afr.Rd | 35 man/Tfr_fraction.Rd | 16 man/Tfr_normdiff.Rd | 16 man/Tfr_ratio.Rd | 16 man/Trig.Rd | 68 - man/absorbance.Rd | 13 man/absorbance_spct.Rd | 70 - man/absorptance.Rd | 13 man/absorptance_spct.Rd | 70 - man/adaptive_smoothing.Rd | 60 - man/add_attr2tb.Rd | 56 - man/any2T.Rd | 20 man/as.calibration_mspct.Rd | 39 man/as.calibration_spct.Rd | 29 man/as.chroma_mspct.Rd | 37 man/as.chroma_spct.Rd | 29 man/as.cps_mspct.Rd | 39 man/as.cps_spct.Rd | 29 man/as.filter_mspct.Rd | 39 man/as.filter_spct.Rd | 31 man/as.generic_mspct.Rd | 39 man/as.generic_spct.Rd | 29 man/as.matrix-mspct.Rd | 82 - man/as.object_mspct.Rd | 37 man/as.object_spct.Rd | 29 man/as.raw_mspct.Rd | 39 man/as.raw_spct.Rd | 29 man/as.reflector_mspct.Rd | 39 man/as.reflector_spct.Rd | 29 man/as.response_mspct.Rd | 39 man/as.response_spct.Rd | 31 man/as.solute_mspct.Rd | 39 man/as.solute_spct.Rd | 31 man/as.source_mspct.Rd | 39 man/as.source_spct.Rd | 29 man/as_energy.Rd | 48 - man/as_quantum.Rd | 20 man/as_quantum_mol.Rd | 48 - man/auto_hinges.Rd | 44 - man/average_spct.Rd | 52 - man/beesxyzCMF.spct.Rd | 2 man/black_body.spct.Rd | 2 man/c.Rd | 54 - man/calc_multipliers.Rd | 48 - man/calc_source_output.Rd | 118 +- man/ccd.spct.Rd | 2 man/checkMspctVersion.Rd | 46 - man/checkSpctVersion.Rd | 46 - man/checkTimeUnit.Rd | 10 man/check_and_rename_vars.Rd | 76 - man/check_spct.Rd | 35 man/check_spectrum.Rd | 8 man/check_w.length.Rd | 8 man/check_wl_stepsize.Rd | 114 +- man/ciev10.spct.Rd | 2 man/ciev2.spct.Rd | 2 man/ciexyzCC10.spct.Rd | 2 man/ciexyzCC2.spct.Rd | 2 man/ciexyzCMF10.spct.Rd | 2 man/ciexyzCMF2.spct.Rd | 2 man/class_spct.Rd | 56 - man/clean.Rd | 41 man/clean_spct.Rd | 56 - man/clear.spct.Rd | 2 man/clear_photobio.cache.Rd | 32 man/clip_wl.Rd | 21 man/collect2mspct.Rd | 8 man/color_of.Rd | 16 man/compare_spct.Rd | 172 ++-- man/cone_fundamentals10.spct.Rd | 2 man/convertTfrType.Rd | 124 +- man/convertThickness.Rd | 10 man/convertTimeUnit.Rd | 10 man/convolve_each.Rd | 10 man/copy_attributes.Rd | 11 man/cps2irrad.Rd | 92 +- man/defunct.Rd | 108 +- man/denormalize_spct.Rd | 48 - man/despike.Rd | 337 +++++--- man/diffraction_single_slit.Rd | 114 +- man/dim.generic_mspct.Rd | 48 - man/div-.generic_spct.Rd | 12 man/div_spectra.Rd | 48 - man/drop_user_cols.Rd | 37 man/e2q.Rd | 33 man/e2qmol_multipliers.Rd | 20 man/e2quantum_multipliers.Rd | 20 man/e_fluence.Rd | 12 man/e_fraction.Rd | 22 man/e_irrad.Rd | 12 man/e_ratio.Rd | 12 man/e_response.Rd | 16 man/enable_check_spct.Rd | 8 man/energy_as_default.Rd | 76 - man/energy_irradiance.Rd | 48 - man/energy_ratio.Rd | 48 - man/eq_ratio.Rd | 12 man/expanse.Rd | 13 man/extract.Rd | 198 ++-- man/extract_mspct.Rd | 100 +- man/f_dispatcher_spct.Rd | 40 man/filter_cps.mspct.Rd | 2 man/findMultipleWl.Rd | 42 man/find_peaks.Rd | 16 man/find_spikes.Rd | 132 ++- man/find_wls.Rd | 180 ++-- man/fit_peaks.Rd | 170 ++-- man/fluence.Rd | 12 man/formatted_range.Rd | 62 - man/fscale.Rd | 55 - man/fscale_spct.Rd | 70 - man/fshift.Rd | 51 - man/fshift_spct.Rd | 68 - man/generic_mspct.Rd | 23 man/getFilterProperties.Rd | 67 - man/getHowMeasured.Rd | 69 - man/getIdFactor.Rd | 4 man/getInstrDesc.Rd | 56 - man/getInstrSettings.Rd | 56 - man/getKType.Rd | 4 man/getMspctVersion.Rd | 44 - man/getMultipleWl.Rd | 4 man/getNormalized.Rd | 18 man/getScaled.Rd | 18 man/getSensorProperties.Rd | 56 - man/getSoluteProperties.Rd | 67 - man/getSpctVersion.Rd | 44 - man/getTimeUnit.Rd | 10 man/getWhatMeasured.Rd | 69 - man/getWhenMeasured.Rd | 69 - man/getWhereMeasured.Rd | 69 - man/get_attributes.Rd | 73 - man/get_peaks.Rd | 16 man/green_leaf.spct.Rd | 2 man/head_tail.Rd | 15 man/illuminance.Rd | 10 man/insert_hinges.Rd | 48 - man/insert_spct_hinges.Rd | 80 - man/integrate_spct.Rd | 50 - man/integrate_xy.Rd | 48 - man/interpolate_spct.Rd | 200 ++-- man/interpolate_spectrum.Rd | 48 - man/interpolate_wl.Rd | 11 man/irrad.Rd | 12 man/irradiance.Rd | 48 - man/is.generic_mspct.Rd | 126 +- man/is.generic_spct.Rd | 134 +-- man/is.old_spct.Rd | 6 man/is.summary_generic_spct.Rd | 116 +- man/is.waveband.Rd | 36 man/isValidInstrDesc.Rd | 56 - man/isValidInstrSettings.Rd | 56 - man/is_absorbance_based.Rd | 6 man/is_effective.Rd | 24 man/is_mole_based.Rd | 6 man/is_normalized.Rd | 18 man/is_photon_based.Rd | 6 man/is_scaled.Rd | 18 man/is_tagged.Rd | 12 man/join_mspct.Rd | 19 man/julian_day.Rd | 5 man/l_insert_hinges.Rd | 48 - man/labels.Rd | 11 man/log.Rd | 10 man/make_var_labels.Rd | 25 man/make_wl_consistent.Rd | 42 man/max.Rd | 7 man/merge2object_spct.Rd | 96 +- man/merge_attributes.Rd | 7 man/midpoint.Rd | 31 man/min.Rd | 15 man/minus-.generic_spct.Rd | 12 man/mod-.generic_spct.Rd | 12 man/msmsply.Rd | 126 +- man/mspct_classes.Rd | 38 man/na.omit.Rd | 262 +++--- man/normalization.Rd | 19 man/normalize.Rd | 55 - man/normalize_range_arg.Rd | 90 +- man/normalized_diff_ind.Rd | 9 man/oper_spectra.Rd | 48 - man/peaks.Rd | 16 man/phenylalanine.spct.Rd | 2 man/photobiology-package.Rd | 5 man/photodiode.spct.Rd | 2 man/photon_irradiance.Rd | 48 - man/photon_ratio.Rd | 48 - man/photons_energy_ratio.Rd | 48 - man/plus-.generic_spct.Rd | 12 man/pow-.generic_spct.Rd | 10 man/print.generic_spct.Rd | 5 man/print.metadata.Rd | 102 +- man/print.summary_generic_spct.Rd | 5 man/print.waveband.Rd | 32 man/prod_spectra.Rd | 48 - man/pull_sample.Rd | 41 man/q2e.Rd | 33 man/q_fluence.Rd | 12 man/q_fraction.Rd | 22 man/q_irrad.Rd | 12 man/q_ratio.Rd | 12 man/q_response.Rd | 16 man/qe_ratio.Rd | 12 man/r4p_pkgs.Rd | 48 - man/range.Rd | 15 man/range_check_Tfr.Rd | 112 +- man/rbindspct.Rd | 208 ++-- man/reflectance.Rd | 13 man/reflectance_spct.Rd | 78 - man/replace_bad_pixs.Rd | 81 + man/resp_spct.Rd | 128 +-- man/response.Rd | 15 man/restore_normalization.Rd | 70 - man/rgb_spct.Rd | 6 man/rmDerivedMspct.Rd | 4 man/rmDerivedSpct.Rd | 4 man/round.Rd | 10 man/rowwise.Rd | 218 ++--- man/s_e_irrad2rgb.Rd | 48 - man/s_mean.Rd | 188 ++-- man/s_mean_se.Rd | 184 ++-- man/s_mean_se_band.Rd | 184 ++-- man/s_median.Rd | 178 ++-- man/s_prod.Rd | 150 +-- man/s_quantile.Rd | 198 ++-- man/s_range.Rd | 178 ++-- man/s_sd.Rd | 158 +-- man/s_se.Rd | 158 +-- man/s_sum.Rd | 150 +-- man/s_var.Rd | 158 +-- man/se.Rd | 40 man/se.m.Rd | 40 man/se.p.Rd | 40 man/select_spct_attributes.Rd | 56 - man/setBSWFUsed.Rd | 136 +-- man/setFilterProperties.Rd | 56 - man/setGenericSpct.Rd | 27 man/setHowMeasured.Rd | 69 - man/setIdFactor.Rd | 4 man/setInstrDesc.Rd | 56 - man/setInstrSettings.Rd | 56 - man/setKType.Rd | 4 man/setMultipleWl.Rd | 4 man/setNormalized.Rd | 22 man/setResponseType.Rd | 98 +- man/setRfrType.Rd | 154 +-- man/setScaled.Rd | 29 man/setSensorProperties.Rd | 56 - man/setSoluteProperties.Rd | 56 - man/setTfrType.Rd | 232 ++--- man/setTimeUnit.Rd | 10 man/setWhatMeasured.Rd | 69 - man/setWhenMeasured.Rd | 69 - man/setWhereMeasured.Rd | 69 - man/shared_member_class.Rd | 4 man/sign.Rd | 10 man/simul_sensor_response.Rd | 122 +- man/sinc.Rd | 24 man/slash-.generic_spct.Rd | 12 man/smooth_spct.Rd | 19 man/source_spct.Rd | 24 man/spct_attr2tb.Rd | 56 - man/spct_classes.Rd | 36 man/spct_metadata.Rd | 56 - man/spct_wide2long.Rd | 110 +- man/spikes.Rd | 310 ++++--- man/split2mspct.Rd | 26 man/split_bands.Rd | 4 man/split_energy_irradiance.Rd | 48 - man/split_irradiance.Rd | 150 +-- man/split_photon_irradiance.Rd | 48 - man/stepsize.Rd | 19 man/subset.Rd | 80 - man/subset2mspct.Rd | 26 man/subset_attributes.Rd | 64 - man/subt_spectra.Rd | 48 - man/sum_spectra.Rd | 48 - man/summary.generic_spct.Rd | 5 man/summary_spct_classes.Rd | 32 man/sun.spct.Rd | 2 man/sun_daily.spct.Rd | 2 man/sun_evening.spct.Rd | 2 man/tag.Rd | 25 man/thin_wl.Rd | 41 man/times-.generic_spct.Rd | 12 man/transmittance.Rd | 13 man/transmittance_spct.Rd | 86 +- man/trimInstrDesc.Rd | 56 - man/trimInstrSettings.Rd | 56 - man/trim_spct.Rd | 8 man/trim_tails.Rd | 48 - man/trim_waveband.Rd | 8 man/trim_wl.Rd | 21 man/two_filters.spct.Rd | 2 man/two_irrads.Rd | 104 +- man/two_reflectances.Rd | 96 +- man/two_sensors.mspct.Rd | 2 man/two_transmittances.Rd | 104 +- man/uncollect2spct.Rd | 15 man/untag.Rd | 21 man/upgrade_spct.Rd | 6 man/upgrade_spectra.Rd | 6 man/using_Tfr.Rd | 76 - man/v_insert_hinges.Rd | 48 - man/v_replace_hinges.Rd | 73 - man/valleys.Rd | 16 man/verbose_as_default.Rd | 40 man/w_length2rgb.Rd | 6 man/w_length_range2rgb.Rd | 6 man/water.spct.Rd | 2 man/waveband.Rd | 9 man/waveband_ratio.Rd | 174 ++-- man/wb2rect_spct.Rd | 12 man/wb2spct.Rd | 12 man/wb2tagged_spct.Rd | 12 man/wb_trim_as_default.Rd | 40 man/white_led.source_spct.Rd | 2 man/wl2wavenumber.Rd | 136 +-- man/wls_at_target.Rd | 16 vignettes/userguide-1-radiation.Rmd | 59 + 381 files changed, 10182 insertions(+), 10203 deletions(-)
Title: Power and Sample Size Calculation for Non-Proportional Hazards
and Beyond
Description: Performs power and sample size calculation for non-proportional hazards model using the Fleming-Harrington family of weighted log-rank tests. The sequentially calculated log-rank test score statistics are assumed to have independent increments as characterized in Anastasios A. Tsiatis (1982) <doi:10.1080/01621459.1982.10477898>. The mean and variance of log-rank test score statistics are calculated based on Kaifeng Lu (2021) <doi:10.1002/pst.2069>. The boundary crossing probabilities are calculated using the recursive integration algorithm described in Christopher Jennison and Bruce W. Turnbull (2000, ISBN:0849303168). The package can also be used for continuous, binary, and count data. For continuous data, it can handle missing data through mixed-model for repeated measures (MMRM). In crossover designs, it can estimate direct treatment effects while accounting for carryover effects. For binary data, it can design Simon's 2-stage, modified toxicity probability-2 (mTPI-2), a [...truncated...]
Author: Kaifeng Lu [aut, cre]
Maintainer: Kaifeng Lu <kaifenglu@gmail.com>
Diff between lrstat versions 0.3.3 dated 2026-08-25 and 0.3.4 dated 2026-09-14
DESCRIPTION | 14 MD5 | 108 +- NAMESPACE | 2 NEWS.md | 62 + R/RcppExports.R | 105 ++ R/adaptive_two_stage.R | 30 R/getDesignSurvivals.R | 264 ++++--- R/lrsim_bmTrtSel.R | 208 +++-- R/lrsim_seamless.R | 18 R/mvnormr.R | 91 ++ R/prints.R | 720 ++++--------------- R/rdsim_seamless.R | 18 R/seamless_design.R | 137 +-- man/adaptDesign_seamless.Rd | 13 man/exitprob_seamless.Rd | 40 - man/fCERRej.Rd | 168 ++-- man/fPCRej.Rd | 244 +++--- man/fPCStage1.Rd | 124 +-- man/fPCStagewise.Rd | 200 ++--- man/getADCI_seamless.Rd | 11 man/getBound_seamless.Rd | 19 man/getCI_seamless.Rd | 11 man/getCP_seamless.Rd | 13 man/getDesign_seamless.Rd | 18 man/getNFromNeventsAndFollowup.Rd |only man/lrschoenfeld.Rd | 92 +- man/lrsim_bmTrtSel.Rd | 594 +++++++++------- man/lrsim_seamless.Rd | 17 man/pordmvnormr.Rd |only man/print.lrsim_multiarm.Rd | 3 man/print.lrsim_seamless.Rd | 3 man/print.rdsim_multiarm.Rd | 3 man/print.rdsim_seamless.Rd | 6 man/rdsim_seamless.Rd | 17 man/simonBayesSim.Rd | 3 src/RcppExports.cpp | 152 ++-- src/adaptive_two_stage.cpp | 52 - src/adaptive_two_stage.h | 16 src/conditional_power_seamless.cpp | 28 src/confidence_intervals_seamless.cpp | 60 - src/lrsim_bmTrtSel.cpp | 875 ++++++++++++++++++------ src/lrsim_seamless.cpp | 39 - src/lrstat.cpp | 258 +++++++ src/multiplicity.cpp | 2 src/mvnormr.cpp | 267 +++++++ src/mvnormr.h | 8 src/rdsim_seamless.cpp | 39 - src/seamless_design.cpp | 464 ++---------- src/seamless_design.h | 15 src/simon.cpp | 1 src/utilities.cpp | 97 ++ src/utilities.h | 17 tests/testthat/test-adaptive-two-stage.R | 2 tests/testthat/test-lr-nb-rm-power-samplesize.R | 1 tests/testthat/test-lr-simulation.R | 269 +++++++ tests/testthat/test-mvnorm-utils.R | 39 + 56 files changed, 3572 insertions(+), 2505 deletions(-)
Title: Creates Log Files
Description: Contains functions to help create log files. The
package aims to overcome the difficulty of the base R sink() command. The
log_print() function will print to both the console and the file log,
without interfering in other write operations.
Author: David Bosak [aut, cre],
Rikard Isaksson [ctb]
Maintainer: David Bosak <dbosak01@gmail.com>
Diff between logr versions 1.3.9 dated 2025-03-26 and 1.4.0 dated 2026-09-14
logr-1.3.9/logr/man/images/logr.svg |only logr-1.3.9/logr/man/images/logr2.png |only logr-1.3.9/logr/man/images/logr_blue.png |only logr-1.4.0/logr/DESCRIPTION | 8 logr-1.4.0/logr/MD5 | 47 ++--- logr-1.4.0/logr/NEWS.md | 4 logr-1.4.0/logr/R/logr.R | 13 + logr-1.4.0/logr/README.md | 15 + logr-1.4.0/logr/build/vignette.rds |binary logr-1.4.0/logr/inst/doc/logr-example1.R | 232 ++++++++++++------------- logr-1.4.0/logr/inst/doc/logr-example1.Rmd | 6 logr-1.4.0/logr/inst/doc/logr-example1.html | 11 - logr-1.4.0/logr/inst/doc/logr-globals.R | 78 ++++---- logr-1.4.0/logr/inst/doc/logr-globals.html | 5 logr-1.4.0/logr/inst/doc/logr-integration.R | 28 +-- logr-1.4.0/logr/inst/doc/logr-integration.html | 5 logr-1.4.0/logr/inst/doc/logr-put.R | 50 ++--- logr-1.4.0/logr/inst/doc/logr-put.html | 5 logr-1.4.0/logr/inst/doc/logr-tidylog.R | 126 ++++++------- logr-1.4.0/logr/inst/doc/logr-tidylog.html | 5 logr-1.4.0/logr/inst/doc/logr.R | 46 ++-- logr-1.4.0/logr/inst/doc/logr.html | 5 logr-1.4.0/logr/man/logr.Rd | 5 logr-1.4.0/logr/tests/testthat/log/test13.log | 163 ++++++++--------- logr-1.4.0/logr/tests/testthat/test-logr.R | 40 ++++ logr-1.4.0/logr/vignettes/logr-example1.Rmd | 6 26 files changed, 489 insertions(+), 414 deletions(-)
Title: Kolmogorov-Zurbenko Adaptive Filters
Description: Time Series Analysis including break detection, spectral analysis, KZ Fourier Transforms.
Author: Brian Close [aut, cre],
Igor Zurbenko [aut],
Mingzeng Sun [aut]
Maintainer: Brian Close <brian.close@gmail.com>
Diff between kza versions 4.1.0.1 dated 2020-03-17 and 4.2.0 dated 2026-09-14
DESCRIPTION | 19 +- MD5 | 37 +++-- NEWS.md |only R/kza.R | 385 +++++++++++++++++++++++++++++----------------------- R/kzft.R | 438 ++++++++++++++++++++++++++++++------------------------------ R/rlv.R | 298 +++++++++++++++++++++++++--------------- build |only man/kza.Rd | 235 +++++++++++++++++--------------- man/rlv.Rd | 179 ++++++++++++------------ src/init.c | 18 +- src/kz.h | 6 src/kza.c | 149 +++++++++++++++----- src/kzsv.c | 5 tests |only 14 files changed, 1010 insertions(+), 759 deletions(-)
Title: Cumulative Calibration Assessment for Prediction Models
Description: Tools for visualization of, and inference on, the calibration of prediction models on the cumulative domain. This provides a method for evaluating calibration of risk prediction models without having to group the data or use tuning parameters (e.g., loess bandwidth). This package implements the methodology described in Sadatsafavi and Petkau (2024) <doi:10.1002/sim.10138>. The core of the package is cumulcalib(), which takes in vectors of binary responses and predicted risks. The package also implements non-parametric assessment of the calibration of individualized treatment effect (ITE) models using data from a randomized trial, via cumulcalibITE(), as described in Sadatsafavi et al. (2026) <doi:10.1002/sim.70724>. The plot() and summary() methods are implemented for the results returned by cumulcalib() and cumulcalibITE().
Author: Mohsen Sadatsafavi [aut, cre]
Maintainer: Mohsen Sadatsafavi <mohsen.sadatsafavi@ubc.ca>
Diff between cumulcalib versions 0.1.0 dated 2026-07-25 and 0.2.0 dated 2026-09-14
DESCRIPTION | 9 - MD5 | 26 ++-- NEWS.md | 109 +++++++++++------- R/core.R | 237 ++++++++++++++++++++++++++++++++++------- README.md | 4 inst/WORDLIST | 1 inst/doc/tutorial.html | 10 + inst/doc/tutorialITE.html | 27 ++-- man/cumulcalib-package.Rd | 7 + man/cumulcalib.Rd | 15 ++ man/cumulcalibITE.Rd | 7 - tests/testthat/test-print.R | 2 tests/testthat/test-summary.R | 2 tests/testthat/test-ties-ite.R |only tests/testthat/test-ties.R |only 15 files changed, 337 insertions(+), 119 deletions(-)
Title: Compositional Data Analysis
Description: Regression, classification, contour plots, hypothesis testing and fitting of distributions for compositional data are some of the functions included. We further include functions for percentages (or proportions).
The standard textbook for such data is John Aitchison's (1986) "The statistical analysis of compositional data". Relevant papers include:
a) Tsagris M.T., Preston S. and Wood A.T.A. (2011). "A data--based power transformation for compositional data". Fourth International International Workshop on Compositional Data Analysis. <doi:10.48550/arXiv.1106.1451>.
b) Tsagris M. (2014). "The k--NN algorithm for compositional data: a revised approach with and without zero values present". Journal of Data Science, 12(3): 519--534. <doi:10.6339/JDS.201407_12(3).0008>.
c) Tsagris M. (2015). "A novel, divergence based, regression for compositional data". Proceedings of the 28th Panhellenic Statistics Conference, 15-18 April 2015, Athens, Greece, 430--444. <doi:10.48550/arXiv. [...truncated...]
Author: Michail Tsagris [aut, cre],
Giorgos Athineou [aut],
Abdulaziz Alenazi [ctb],
Christos Adam [ctb]
Maintainer: Michail Tsagris <mtsagris@uoc.gr>
Diff between Compositional versions 8.3 dated 2026-08-21 and 8.4 dated 2026-09-14
Compositional-8.3/Compositional/R/alef.R |only Compositional-8.4/Compositional/DESCRIPTION | 14 Compositional-8.4/Compositional/MD5 | 172 +++++------ Compositional-8.4/Compositional/NAMESPACE | 3 Compositional-8.4/Compositional/R/a.est.R | 2 Compositional-8.4/Compositional/R/a.mle.R | 18 - Compositional-8.4/Compositional/R/akern.reg.R | 89 +++-- Compositional-8.4/Compositional/R/akernreg.tune.R | 8 Compositional-8.4/Compositional/R/alfa.R | 30 + Compositional-8.4/Compositional/R/alfa.lasso.R | 4 Compositional-8.4/Compositional/R/alfa.mix.norm.R | 6 Compositional-8.4/Compositional/R/alfa.profile.R | 31 - Compositional-8.4/Compositional/R/alfa.tune.R | 59 +-- Compositional-8.4/Compositional/R/alfainv.R | 11 Compositional-8.4/Compositional/R/alpha.mle.R | 37 +- Compositional-8.4/Compositional/R/beta.reg.R | 2 Compositional-8.4/Compositional/R/beta.reg.irls.R |only Compositional-8.4/Compositional/R/comp.kerncontour.R | 33 -- Compositional-8.4/Compositional/R/cv.dda.R | 2 Compositional-8.4/Compositional/R/ddiri.R | 4 Compositional-8.4/Compositional/R/dfd.R | 3 Compositional-8.4/Compositional/R/dfolded.R | 31 + Compositional-8.4/Compositional/R/diri.nr.R | 6 Compositional-8.4/Compositional/R/diri.reg.irls.R | 11 Compositional-8.4/Compositional/R/folded.contour.R | 4 Compositional-8.4/Compositional/R/rfolded.R | 26 + Compositional-8.4/Compositional/R/ternary.R | 6 Compositional-8.4/Compositional/man/Compositional-package.Rd | 4 Compositional-8.4/Compositional/man/a.est.Rd | 3 Compositional-8.4/Compositional/man/ait.Rd | 5 Compositional-8.4/Compositional/man/aitdist.Rd | 3 Compositional-8.4/Compositional/man/akern.reg.Rd | 21 - Compositional-8.4/Compositional/man/akernreg.tune.Rd | 26 + Compositional-8.4/Compositional/man/aknnreg.tune.Rd | 6 Compositional-8.4/Compositional/man/alfa.Rd | 23 - Compositional-8.4/Compositional/man/alfa.contour.Rd | 22 - Compositional-8.4/Compositional/man/alfa.mds.Rd | 6 Compositional-8.4/Compositional/man/alfa.mix.norm.Rd | 10 Compositional-8.4/Compositional/man/alfa.pca.Rd | 3 Compositional-8.4/Compositional/man/alfa.profile.Rd | 7 Compositional-8.4/Compositional/man/alfa.rda.Rd | 6 Compositional-8.4/Compositional/man/alfa.tune.Rd | 6 Compositional-8.4/Compositional/man/alfainv.Rd | 10 Compositional-8.4/Compositional/man/alfaknnreg.tune.Rd | 6 Compositional-8.4/Compositional/man/alfarda.tune.Rd | 6 Compositional-8.4/Compositional/man/alfaridge.tune.Rd | 6 Compositional-8.4/Compositional/man/alpha.mle.Rd | 20 - Compositional-8.4/Compositional/man/beta.reg.Rd | 22 + Compositional-8.4/Compositional/man/bic.alfamixnorm.Rd | 3 Compositional-8.4/Compositional/man/bic.mixcompnorm.Rd | 2 Compositional-8.4/Compositional/man/bic.mixdiri.Rd | 1 Compositional-8.4/Compositional/man/bivt.contour.Rd | 2 Compositional-8.4/Compositional/man/comp.den.Rd | 12 Compositional-8.4/Compositional/man/comp.kerncontour.Rd | 2 Compositional-8.4/Compositional/man/comp.reg.Rd | 3 Compositional-8.4/Compositional/man/compnorm.contour.Rd | 1 Compositional-8.4/Compositional/man/cv.comp.reg.Rd | 6 Compositional-8.4/Compositional/man/cv.dda.Rd | 1 Compositional-8.4/Compositional/man/cv.tflr.Rd | 6 Compositional-8.4/Compositional/man/dfolded.Rd | 7 Compositional-8.4/Compositional/man/diri.nr.Rd | 2 Compositional-8.4/Compositional/man/diri.reg.Rd | 3 Compositional-8.4/Compositional/man/diria0.est.Rd | 1 Compositional-8.4/Compositional/man/dirimean.test.Rd | 12 Compositional-8.4/Compositional/man/folded.contour.Rd | 8 Compositional-8.4/Compositional/man/glmpcr.tune.Rd | 2 Compositional-8.4/Compositional/man/kernreg.tune.Rd | 6 Compositional-8.4/Compositional/man/kl.compreg2.Rd | 14 Compositional-8.4/Compositional/man/lasso.compreg.Rd | 27 - Compositional-8.4/Compositional/man/lasso.klcompreg.Rd | 27 - Compositional-8.4/Compositional/man/lassocoef.plot.Rd | 6 Compositional-8.4/Compositional/man/logpca.Rd | 3 Compositional-8.4/Compositional/man/mix.compnorm.Rd | 7 Compositional-8.4/Compositional/man/mix.compnorm.contour.Rd | 4 Compositional-8.4/Compositional/man/mix.diri.Rd | 3 Compositional-8.4/Compositional/man/mixdiri.contour.Rd | 1 Compositional-8.4/Compositional/man/mkde.tune.Rd | 3 Compositional-8.4/Compositional/man/mlr.Rd | 4 Compositional-8.4/Compositional/man/rda.tune.Rd | 6 Compositional-8.4/Compositional/man/ridge.tune.Rd | 6 Compositional-8.4/Compositional/man/rmixdiri.Rd | 3 Compositional-8.4/Compositional/man/skewnorm.contour.Rd | 3 Compositional-8.4/Compositional/man/ternary.Rd | 1 Compositional-8.4/Compositional/man/ternary.coef.Rd | 1 Compositional-8.4/Compositional/man/ternary.mcr.Rd | 1 Compositional-8.4/Compositional/man/ternary.reg.Rd | 1 Compositional-8.4/Compositional/man/zad.est.Rd | 3 Compositional-8.4/Compositional/man/zadr.Rd | 3 88 files changed, 495 insertions(+), 545 deletions(-)
Title: Pharmacometric Modeling
Description: Facilitate Pharmacokinetic (PK) and Pharmacodynamic (PD) modeling
and simulation with powerful tools for Nonlinear Mixed-Effects (NLME)
modeling. The package provides access to the same advanced Maximum Likelihood
algorithms used by the NLME-Engine in the Phoenix platform. These tools support
a range of analyses, from parametric methods to individual and pooled data, and
support integrated use within the Pirana pharmacometric workbench
<doi:10.1002/psp4.70067>. Execution is supported both locally or on
remote machines.
Author: James Craig [aut, cre],
Michael Tomashevskiy [aut],
Vitalii Nazarov [aut],
Shuhua Hu [ctb],
Fred Soltanshahi [aut],
Certara USA, Inc. [cph, fnd]
Maintainer: James Craig <james.craig@certara.com>
Diff between Certara.RsNLME versions 3.1.1 dated 2026-03-18 and 3.2.0 dated 2026-09-14
Certara.RsNLME-3.1.1/Certara.RsNLME/R/readInitialEstimatesParams.R |only Certara.RsNLME-3.1.1/Certara.RsNLME/man/RunProfilePertubation.Rd |only Certara.RsNLME-3.2.0/Certara.RsNLME/DESCRIPTION | 95 Certara.RsNLME-3.2.0/Certara.RsNLME/MD5 | 626 + Certara.RsNLME-3.2.0/Certara.RsNLME/NAMESPACE | 127 Certara.RsNLME-3.2.0/Certara.RsNLME/R/BootNlmeJob.R | 203 Certara.RsNLME-3.2.0/Certara.RsNLME/R/CovariateEffectModel.R | 9 Certara.RsNLME-3.2.0/Certara.RsNLME/R/FitNlmeJob.R |only Certara.RsNLME-3.2.0/Certara.RsNLME/R/GenerateParamsfile.R | 1251 +-- Certara.RsNLME-3.2.0/Certara.RsNLME/R/NlmeColumnMapping.r | 564 - Certara.RsNLME-3.2.0/Certara.RsNLME/R/NlmeCovariateParameter.r | 2542 +++---- Certara.RsNLME-3.2.0/Certara.RsNLME/R/NlmeParallelHost.R | 304 Certara.RsNLME-3.2.0/Certara.RsNLME/R/NlmeParallelMethod.R | 122 Certara.RsNLME-3.2.0/Certara.RsNLME/R/NlmePkParameters.R | 164 Certara.RsNLME-3.2.0/Certara.RsNLME/R/NlmeRemoteExecutor.R | 309 Certara.RsNLME-3.2.0/Certara.RsNLME/R/ProfileNlmeJob.R | 224 Certara.RsNLME-3.2.0/Certara.RsNLME/R/ProfileVar.R | 76 Certara.RsNLME-3.2.0/Certara.RsNLME/R/RandomEffectsMethods.R | 906 -- Certara.RsNLME-3.2.0/Certara.RsNLME/R/ShotgunNlmeJob.R | 146 Certara.RsNLME-3.2.0/Certara.RsNLME/R/SimpleNlmeJob.R | 382 - Certara.RsNLME-3.2.0/Certara.RsNLME/R/SortByNlmeJob.R | 184 Certara.RsNLME-3.2.0/Certara.RsNLME/R/StepwiseNlmeJob.R | 178 Certara.RsNLME-3.2.0/Certara.RsNLME/R/addLabel.R | 177 Certara.RsNLME-3.2.0/Certara.RsNLME/R/add_input_dosingCycles.R | 524 - Certara.RsNLME-3.2.0/Certara.RsNLME/R/bootstrap.r | 202 Certara.RsNLME-3.2.0/Certara.RsNLME/R/bootstrapPrint.R |only Certara.RsNLME-3.2.0/Certara.RsNLME/R/built_in_models.r | 29 Certara.RsNLME-3.2.0/Certara.RsNLME/R/cad_auth.R |only Certara.RsNLME-3.2.0/Certara.RsNLME/R/colMapping.R | 435 - Certara.RsNLME-3.2.0/Certara.RsNLME/R/colMapping_validate.R |only Certara.RsNLME-3.2.0/Certara.RsNLME/R/collectJob.R |only Certara.RsNLME-3.2.0/Certara.RsNLME/R/cov_validators.R |only Certara.RsNLME-3.2.0/Certara.RsNLME/R/covariateModel.R | 37 Certara.RsNLME-3.2.0/Certara.RsNLME/R/createInitialMapping.R | 426 - Certara.RsNLME-3.2.0/Certara.RsNLME/R/create_metamodel_from_model.R |only Certara.RsNLME-3.2.0/Certara.RsNLME/R/create_model_from_metamodel.R | 148 Certara.RsNLME-3.2.0/Certara.RsNLME/R/create_model_info.R | 47 Certara.RsNLME-3.2.0/Certara.RsNLME/R/dosing.r | 1854 ++--- Certara.RsNLME-3.2.0/Certara.RsNLME/R/editModel.R | 120 Certara.RsNLME-3.2.0/Certara.RsNLME/R/engine_params.r | 3314 +++++----- Certara.RsNLME-3.2.0/Certara.RsNLME/R/error_model.r | 994 +- Certara.RsNLME-3.2.0/Certara.RsNLME/R/extract_mmdl.R | 9 Certara.RsNLME-3.2.0/Certara.RsNLME/R/fitmodel.R | 94 Certara.RsNLME-3.2.0/Certara.RsNLME/R/fitmodelHelperFunctions.R | 1144 +-- Certara.RsNLME-3.2.0/Certara.RsNLME/R/fitmodelPrint.R |only Certara.RsNLME-3.2.0/Certara.RsNLME/R/fixedEffect.R | 760 +- 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Certara.RsNLME-3.2.0/Certara.RsNLME/man/update_model_omegas.Rd |only Certara.RsNLME-3.2.0/Certara.RsNLME/man/update_model_sigmas.Rd |only Certara.RsNLME-3.2.0/Certara.RsNLME/man/update_model_thetas.Rd |only Certara.RsNLME-3.2.0/Certara.RsNLME/man/validate_analysis_plan.Rd |only Certara.RsNLME-3.2.0/Certara.RsNLME/man/validate_cov_character_labels_required.Rd |only Certara.RsNLME-3.2.0/Certara.RsNLME/man/validate_cov_data_coverage.Rd |only Certara.RsNLME-3.2.0/Certara.RsNLME/man/validate_cov_labels.Rd |only Certara.RsNLME-3.2.0/Certara.RsNLME/man/validate_cov_levels.Rd |only Certara.RsNLME-3.2.0/Certara.RsNLME/man/validate_cov_numeric_labels_mutex.Rd |only Certara.RsNLME-3.2.0/Certara.RsNLME/man/validate_covariate_search.Rd |only Certara.RsNLME-3.2.0/Certara.RsNLME/man/validate_fit_spec.Rd |only Certara.RsNLME-3.2.0/Certara.RsNLME/man/validate_mmdl.Rd |only Certara.RsNLME-3.2.0/Certara.RsNLME/man/validate_nlme_model.Rd |only Certara.RsNLME-3.2.0/Certara.RsNLME/man/validate_pml.Rd |only Certara.RsNLME-3.2.0/Certara.RsNLME/man/validate_qc_readiness.Rd |only Certara.RsNLME-3.2.0/Certara.RsNLME/man/validate_sequential_lrt.Rd |only Certara.RsNLME-3.2.0/Certara.RsNLME/man/vpcmodel.Rd | 42 Certara.RsNLME-3.2.0/Certara.RsNLME/man/wait_for_nlme_job.Rd |only Certara.RsNLME-3.2.0/Certara.RsNLME/man/wait_for_nlme_jobs.Rd |only Certara.RsNLME-3.2.0/Certara.RsNLME/man/write_mmdl.Rd |only Certara.RsNLME-3.2.0/Certara.RsNLME/tests/testthat/_snaps/add_multi_occ_no_ranef_occ2/covar.md | 2 Certara.RsNLME-3.2.0/Certara.RsNLME/tests/testthat/_snaps/add_multi_occ_no_ranef_occ3/covar.md | 2 Certara.RsNLME-3.2.0/Certara.RsNLME/tests/testthat/_snaps/after_occ2/covar.md | 2 Certara.RsNLME-3.2.0/Certara.RsNLME/tests/testthat/_snaps/after_occ3/covar.md | 2 Certara.RsNLME-3.2.0/Certara.RsNLME/tests/testthat/_snaps/block_option_no/covar.md | 2 Certara.RsNLME-3.2.0/Certara.RsNLME/tests/testthat/_snaps/block_remove_4/covar.md | 2 Certara.RsNLME-3.2.0/Certara.RsNLME/tests/testthat/_snaps/block_remove_cl2/covar.md | 2 Certara.RsNLME-3.2.0/Certara.RsNLME/tests/testthat/_snaps/block_remove_v2/covar.md | 2 Certara.RsNLME-3.2.0/Certara.RsNLME/tests/testthat/_snaps/block_remove_v2_v3/covar.md | 2 Certara.RsNLME-3.2.0/Certara.RsNLME/tests/testthat/_snaps/bootstrap.md |only Certara.RsNLME-3.2.0/Certara.RsNLME/tests/testthat/_snaps/bootstrap/BootOverall.csv | 12 Certara.RsNLME-3.2.0/Certara.RsNLME/tests/testthat/_snaps/bootstrapInit.md |only Certara.RsNLME-3.2.0/Certara.RsNLME/tests/testthat/_snaps/bootstrapInit/BootOverall.csv | 12 Certara.RsNLME-3.2.0/Certara.RsNLME/tests/testthat/_snaps/builtin_mapping.md | 52 Certara.RsNLME-3.2.0/Certara.RsNLME/tests/testthat/_snaps/covModel.md | 3 Certara.RsNLME-3.2.0/Certara.RsNLME/tests/testthat/_snaps/diag_option_no/covar.md | 2 Certara.RsNLME-3.2.0/Certara.RsNLME/tests/testthat/_snaps/diag_remove_4/covar.md | 2 Certara.RsNLME-3.2.0/Certara.RsNLME/tests/testthat/_snaps/diag_remove_single_v2/covar.md | 2 Certara.RsNLME-3.2.0/Certara.RsNLME/tests/testthat/_snaps/diag_remove_v2_v3/covar.md | 2 Certara.RsNLME-3.2.0/Certara.RsNLME/tests/testthat/_snaps/diag_remove_v3_cl3/covar.md | 2 Certara.RsNLME-3.2.0/Certara.RsNLME/tests/testthat/_snaps/extract_mmdl/cols1.txt | 10 Certara.RsNLME-3.2.0/Certara.RsNLME/tests/testthat/_snaps/extract_mmdl/multArgs.txt1 | 22 Certara.RsNLME-3.2.0/Certara.RsNLME/tests/testthat/_snaps/extract_mmdl/multArgs.txt2 | 22 Certara.RsNLME-3.2.0/Certara.RsNLME/tests/testthat/_snaps/extract_mmdl/nlmeargs.txt | 20 Certara.RsNLME-3.2.0/Certara.RsNLME/tests/testthat/_snaps/fitmodelPrint.md |only Certara.RsNLME-3.2.0/Certara.RsNLME/tests/testthat/_snaps/mmdlBlocks.md | 32 Certara.RsNLME-3.2.0/Certara.RsNLME/tests/testthat/_snaps/no_extra_plus_on_no_ranef/covar.md | 2 Certara.RsNLME-3.2.0/Certara.RsNLME/tests/testthat/_snaps/no_orphan_plus_multi_param/covar.md | 2 Certara.RsNLME-3.2.0/Certara.RsNLME/tests/testthat/_snaps/no_orphan_plus_remove_occ1/covar.md | 2 Certara.RsNLME-3.2.0/Certara.RsNLME/tests/testthat/_snaps/no_orphan_plus_remove_occ2/covar.md | 2 Certara.RsNLME-3.2.0/Certara.RsNLME/tests/testthat/_snaps/option_no_block/covar.md | 2 Certara.RsNLME-3.2.0/Certara.RsNLME/tests/testthat/_snaps/option_no_diag/covar.md | 2 Certara.RsNLME-3.2.0/Certara.RsNLME/tests/testthat/_snaps/profile.md |only Certara.RsNLME-3.2.0/Certara.RsNLME/tests/testthat/_snaps/remove_cl_from_block/covar.md | 2 Certara.RsNLME-3.2.0/Certara.RsNLME/tests/testthat/_snaps/remove_consecutive_no_ranef_v2_v3/covar.md | 2 Certara.RsNLME-3.2.0/Certara.RsNLME/tests/testthat/_snaps/remove_consecutive_no_ranef_v_v2/covar.md | 2 Certara.RsNLME-3.2.0/Certara.RsNLME/tests/testthat/_snaps/remove_v2_from_block/covar.md | 2 Certara.RsNLME-3.2.0/Certara.RsNLME/tests/testthat/_snaps/scm_access.md |only Certara.RsNLME-3.2.0/Certara.RsNLME/tests/testthat/_snaps/shotgun.md | 160 Certara.RsNLME-3.2.0/Certara.RsNLME/tests/testthat/_snaps/stepwise.md | 170 Certara.RsNLME-3.2.0/Certara.RsNLME/tests/testthat/_snaps/vpc.md | 20 Certara.RsNLME-3.2.0/Certara.RsNLME/tests/testthat/_snaps/writeColumnMapping.md | 653 - Certara.RsNLME-3.2.0/Certara.RsNLME/tests/testthat/helper-engine.R |only Certara.RsNLME-3.2.0/Certara.RsNLME/tests/testthat/helper-mcp-repro.R |only Certara.RsNLME-3.2.0/Certara.RsNLME/tests/testthat/test_BootNlmeJob.R |only Certara.RsNLME-3.2.0/Certara.RsNLME/tests/testthat/test_NlmeEngineExtraparams.r | 1568 ++-- Certara.RsNLME-3.2.0/Certara.RsNLME/tests/testthat/test_NlmeParallelHost.r | 338 - Certara.RsNLME-3.2.0/Certara.RsNLME/tests/testthat/test_addCovariate_validation.r |only Certara.RsNLME-3.2.0/Certara.RsNLME/tests/testthat/test_add_units.R |only Certara.RsNLME-3.2.0/Certara.RsNLME/tests/testthat/test_bootstrap.r | 135 Certara.RsNLME-3.2.0/Certara.RsNLME/tests/testthat/test_bootstrapInit.r | 120 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More information about Certara.RsNLME at CRAN
Permanent link
Title: High-Performance 'GeoJSON' and 'JSON' Serialization
Description: Converts R objects such as data frames, lists and vectors into
'JSON' strings, and 'sf' spatial objects into 'GeoJSON'. The core encoders
are implemented in 'Rust' using the 'extendr' framework and are designed
to efficiently serialize large tabular and spatial datasets. Returns
serialized 'JSON' text, allowing applications such as 'shiny' or web APIs
to transfer data to client-side 'JavaScript' libraries without additional
encoding overhead.
Author: Alex Jorion [aut, cre],
The authors of the dependency Rust crates [ctb]
Maintainer: Alex Jorion <alex.jorion@firstzeroenergy.com>
Diff between fastgeojson versions 0.1.3 dated 2026-01-23 and 0.3.0 dated 2026-09-14
fastgeojson-0.1.3/fastgeojson/src/Makevars.win |only fastgeojson-0.1.3/fastgeojson/src/rust/rust-toolchain.toml |only fastgeojson-0.1.3/fastgeojson/src/rust/vendor-config.toml |only fastgeojson-0.3.0/fastgeojson/DESCRIPTION | 23 fastgeojson-0.3.0/fastgeojson/LICENSE.note | 236 + fastgeojson-0.3.0/fastgeojson/MD5 | 81 fastgeojson-0.3.0/fastgeojson/NAMESPACE | 10 fastgeojson-0.3.0/fastgeojson/NEWS.md | 87 fastgeojson-0.3.0/fastgeojson/R/extendr-wrappers.R | 44 fastgeojson-0.3.0/fastgeojson/R/fastgeojson.R | 889 ++++++- fastgeojson-0.3.0/fastgeojson/README.md | 470 +-- fastgeojson-0.3.0/fastgeojson/cleanup |only fastgeojson-0.3.0/fastgeojson/cleanup.win |only fastgeojson-0.3.0/fastgeojson/configure | 49 fastgeojson-0.3.0/fastgeojson/configure.win |only fastgeojson-0.3.0/fastgeojson/inst/AUTHORS | 86 fastgeojson-0.3.0/fastgeojson/inst/WORDLIST |only fastgeojson-0.3.0/fastgeojson/inst/json_geojson_benchmarks.R | 118 fastgeojson-0.3.0/fastgeojson/inst/test-jsonlite-parity.R |only fastgeojson-0.3.0/fastgeojson/man/fastgeojson.Rd | 229 + fastgeojson-0.3.0/fastgeojson/man/fastgeojson_threads.Rd |only fastgeojson-0.3.0/fastgeojson/src/Makevars.in | 85 fastgeojson-0.3.0/fastgeojson/src/Makevars.win.in |only fastgeojson-0.3.0/fastgeojson/src/entrypoint.c | 29 fastgeojson-0.3.0/fastgeojson/src/fastgeojson-win.def | 5 fastgeojson-0.3.0/fastgeojson/src/rust/Cargo.lock | 315 +- fastgeojson-0.3.0/fastgeojson/src/rust/Cargo.toml | 44 fastgeojson-0.3.0/fastgeojson/src/rust/src/capi.rs |only fastgeojson-0.3.0/fastgeojson/src/rust/src/columns.rs |only fastgeojson-0.3.0/fastgeojson/src/rust/src/config.rs |only fastgeojson-0.3.0/fastgeojson/src/rust/src/datetime.rs |only fastgeojson-0.3.0/fastgeojson/src/rust/src/decls.rs |only fastgeojson-0.3.0/fastgeojson/src/rust/src/dfwrite.rs |only fastgeojson-0.3.0/fastgeojson/src/rust/src/exports.rs |only fastgeojson-0.3.0/fastgeojson/src/rust/src/geometry.rs |only fastgeojson-0.3.0/fastgeojson/src/rust/src/lib.rs | 1236 ---------- fastgeojson-0.3.0/fastgeojson/src/rust/src/numfmt.rs |only fastgeojson-0.3.0/fastgeojson/src/rust/src/pool.rs |only fastgeojson-0.3.0/fastgeojson/src/rust/src/serialize.rs |only fastgeojson-0.3.0/fastgeojson/src/rust/vendor.tar.xz |binary fastgeojson-0.3.0/fastgeojson/tests/testthat/helper-jsonlite-parity.R |only fastgeojson-0.3.0/fastgeojson/tests/testthat/test-gctorture.R |only fastgeojson-0.3.0/fastgeojson/tests/testthat/test-jsonlite-libjson-escaping.R |only fastgeojson-0.3.0/fastgeojson/tests/testthat/test-jsonlite-libjson-utf8.R |only fastgeojson-0.3.0/fastgeojson/tests/testthat/test-jsonlite-toJSON-AsIs.R |only fastgeojson-0.3.0/fastgeojson/tests/testthat/test-jsonlite-toJSON-Date.R |only fastgeojson-0.3.0/fastgeojson/tests/testthat/test-jsonlite-toJSON-NA-values.R |only fastgeojson-0.3.0/fastgeojson/tests/testthat/test-jsonlite-toJSON-NULL-values.R |only fastgeojson-0.3.0/fastgeojson/tests/testthat/test-jsonlite-toJSON-POSIXt.R |only fastgeojson-0.3.0/fastgeojson/tests/testthat/test-jsonlite-toJSON-complex.R |only fastgeojson-0.3.0/fastgeojson/tests/testthat/test-jsonlite-toJSON-dataframe.R |only fastgeojson-0.3.0/fastgeojson/tests/testthat/test-jsonlite-toJSON-factor.R |only fastgeojson-0.3.0/fastgeojson/tests/testthat/test-jsonlite-toJSON-indent.R |only fastgeojson-0.3.0/fastgeojson/tests/testthat/test-jsonlite-toJSON-keep-vec-names.R |only fastgeojson-0.3.0/fastgeojson/tests/testthat/test-jsonlite-toJSON-logical.R |only fastgeojson-0.3.0/fastgeojson/tests/testthat/test-jsonlite-toJSON-matrix.R |only fastgeojson-0.3.0/fastgeojson/tests/testthat/test-jsonlite-toJSON-numeric.R |only fastgeojson-0.3.0/fastgeojson/tests/testthat/test-jsonlite-toJSON-raw.R |only fastgeojson-0.3.0/fastgeojson/tests/testthat/test-jsonlite-toJSON-sf.R |only fastgeojson-0.3.0/fastgeojson/tests/testthat/test-jsonlite-toJSON-zerovec.R |only fastgeojson-0.3.0/fastgeojson/tests/testthat/test-serialization.R | 167 + fastgeojson-0.3.0/fastgeojson/tools/config.R | 226 - 62 files changed, 2220 insertions(+), 2209 deletions(-)
Title: Testing Equality of Natural Mediation Effects and Their
Randomized Interventional Analogues
Description: Implements the empirical test introduced by Yu, Ge, and Elwert
(2026) for detecting when randomized interventional analogues should not be
interpreted as natural mediation effects. The package estimates natural
effects, their randomized interventional analogues, and TE - TE^R, the
difference between the total effect and its randomized interventional
analogue. Rejecting TE - TE^R = 0 falsifies the composite null that the natural
indirect and direct effects equal their randomized interventional analogues.
The procedure remains valid in settings where the natural effects themselves
are not identified, and |TE - TE^R| provides a lower bound on the total
divergence between the natural and randomized interventional decompositions.
Author: Ang Yu [aut, cre, cph] ,
Nicholas Williams [aut, cph] ,
Richard Liu [ctb] ,
Ivan Diaz [aut, cph]
Maintainer: Ang Yu <ang_yu@outlook.com>
Diff between ria.test versions 0.2.1 dated 2026-07-21 and 0.3.0 dated 2026-09-14
DESCRIPTION | 6 +- MD5 | 43 ++++++++-------- NEWS.md | 23 ++++++++ R/assertions.R | 4 - R/helpers.R | 2 R/params.R | 6 +- R/permutation.R | 100 +++++++++++++++++++++++++++++--------- R/phi.R | 16 +++--- R/ria.test.R | 16 +++--- R/ria.test.control.R | 8 +-- R/ria.test_data.R | 32 ++++++------ R/ria.test_vars.R | 12 ++-- R/shift.R | 4 - R/theta.R | 16 +++--- README.md | 24 ++++----- inst/examples/examples.R | 24 ++++----- man/ria.test.Rd | 30 +++++------ man/ria.test.control.Rd | 5 + man/tidy.ria.test.Rd | 24 ++++----- tests/testthat/helpers.R | 16 +++--- tests/testthat/test-checks.R | 20 ++++++- tests/testthat/test-control.R | 8 +++ tests/testthat/test-permutation.R |only 23 files changed, 273 insertions(+), 166 deletions(-)
Title: Working with the Neotoma Paleoecology Database
Description: Access and manipulation of data using the Neotoma Paleoecology Database.
<https://api.neotomadb.org/api-docs/>.
Examples in functions that require API access are not executed during CRAN checks.
Vignettes do not execute as to avoid API calls during CRAN checks.
Author: Socorro Dominguez Vidana [aut, cre] ,
Simon Goring [aut] ,
Nick Hoffman [aut]
Maintainer: Socorro Dominguez Vidana <dominguezvid@wisc.edu>
Diff between neotoma2 versions 1.0.12 dated 2026-04-23 and 1.1.0 dated 2026-09-14
neotoma2-1.0.12/neotoma2/vignettes/images |only neotoma2-1.1.0/neotoma2/DESCRIPTION | 36 neotoma2-1.1.0/neotoma2/MD5 | 177 +- neotoma2-1.1.0/neotoma2/NAMESPACE | 19 neotoma2-1.1.0/neotoma2/NEWS.md | 25 neotoma2-1.1.0/neotoma2/R/01_classDefinitions.R | 4 neotoma2-1.1.0/neotoma2/R/02_genericDefinitions.R | 16 neotoma2-1.1.0/neotoma2/R/build_chron.R | 69 - neotoma2-1.1.0/neotoma2/R/build_collunit.R | 63 - neotoma2-1.1.0/neotoma2/R/build_dataset.R | 78 - neotoma2-1.1.0/neotoma2/R/build_sample.R | 55 neotoma2-1.1.0/neotoma2/R/build_site.R | 61 neotoma2-1.1.0/neotoma2/R/build_specimen.R | 6 neotoma2-1.1.0/neotoma2/R/build_speleothem.R | 9 neotoma2-1.1.0/neotoma2/R/chroncontrols.R | 98 + neotoma2-1.1.0/neotoma2/R/chronology-methods.R | 77 + neotoma2-1.1.0/neotoma2/R/clean.R | 46 neotoma2-1.1.0/neotoma2/R/collunits-methods.R | 21 neotoma2-1.1.0/neotoma2/R/contact-methods.R | 2 neotoma2-1.1.0/neotoma2/R/dataset-methods.R | 10 neotoma2-1.1.0/neotoma2/R/filter.R | 150 ++ neotoma2-1.1.0/neotoma2/R/get_params.R | 48 neotoma2-1.1.0/neotoma2/R/group_data.R | 226 ++- neotoma2-1.1.0/neotoma2/R/parseLocation.R | 49 neotoma2-1.1.0/neotoma2/R/parseURL.R | 611 +++++++--- neotoma2-1.1.0/neotoma2/R/parse_site.R | 133 -- neotoma2-1.1.0/neotoma2/R/parse_speleothem.R | 63 - neotoma2-1.1.0/neotoma2/R/pick.R |only neotoma2-1.1.0/neotoma2/R/publication-methods.R | 4 neotoma2-1.1.0/neotoma2/R/samples-methods.R | 6 neotoma2-1.1.0/neotoma2/R/samples.R | 65 - neotoma2-1.1.0/neotoma2/R/set_speleothem.R | 6 neotoma2-1.1.0/neotoma2/R/site-methods.R | 157 ++ neotoma2-1.1.0/neotoma2/R/speleothem-methods.R | 16 neotoma2-1.1.0/neotoma2/R/speleothemdetails.R | 2 neotoma2-1.1.0/neotoma2/R/speleothems.R | 4 neotoma2-1.1.0/neotoma2/R/subset-methods.R | 32 neotoma2-1.1.0/neotoma2/R/taxon-methods.R | 10 neotoma2-1.1.0/neotoma2/README.md | 17 neotoma2-1.1.0/neotoma2/inst/CITATION | 18 neotoma2-1.1.0/neotoma2/inst/doc/neotoma2-package.R | 2 neotoma2-1.1.0/neotoma2/inst/doc/neotoma2-package.Rmd | 4 neotoma2-1.1.0/neotoma2/inst/doc/neotoma2-package.html | 8 neotoma2-1.1.0/neotoma2/man/chroncontrols-chronologies-method.Rd |only neotoma2-1.1.0/neotoma2/man/chroncontrols-chronology-method.Rd |only neotoma2-1.1.0/neotoma2/man/count.Rd |only neotoma2-1.1.0/neotoma2/man/filter.Rd | 6 neotoma2-1.1.0/neotoma2/man/plot.Rd | 2 neotoma2-1.1.0/neotoma2/man/samples-sites-method.Rd | 7 neotoma2-1.1.0/neotoma2/man/samples.Rd | 13 neotoma2-1.1.0/neotoma2/man/set_speleothem.Rd | 4 neotoma2-1.1.0/neotoma2/man/show.Rd | 14 neotoma2-1.1.0/neotoma2/man/sub-sub.Rd | 9 neotoma2-1.1.0/neotoma2/man/sub-subset.Rd | 7 neotoma2-1.1.0/neotoma2/man/sub.Rd | 7 neotoma2-1.1.0/neotoma2/man/subset.Rd | 11 neotoma2-1.1.0/neotoma2/tests/testthat/fixtures |only neotoma2-1.1.0/neotoma2/tests/testthat/setup.R |only neotoma2-1.1.0/neotoma2/tests/testthat/test_add_chronology.R | 3 neotoma2-1.1.0/neotoma2/tests/testthat/test_c.R | 5 neotoma2-1.1.0/neotoma2/tests/testthat/test_chroncontrols.R | 16 neotoma2-1.1.0/neotoma2/tests/testthat/test_chronologies.R | 16 neotoma2-1.1.0/neotoma2/tests/testthat/test_cite_data.R | 5 neotoma2-1.1.0/neotoma2/tests/testthat/test_clean.R | 18 neotoma2-1.1.0/neotoma2/tests/testthat/test_collunits.R | 29 neotoma2-1.1.0/neotoma2/tests/testthat/test_coordinates.R | 3 neotoma2-1.1.0/neotoma2/tests/testthat/test_datasets.R | 7 neotoma2-1.1.0/neotoma2/tests/testthat/test_doi.R | 5 neotoma2-1.1.0/neotoma2/tests/testthat/test_filter.R | 150 ++ neotoma2-1.1.0/neotoma2/tests/testthat/test_get_datasets.R | 62 - neotoma2-1.1.0/neotoma2/tests/testthat/test_get_documentation.R | 16 neotoma2-1.1.0/neotoma2/tests/testthat/test_get_downloads.R | 31 neotoma2-1.1.0/neotoma2/tests/testthat/test_get_manual.R | 12 neotoma2-1.1.0/neotoma2/tests/testthat/test_get_sites.R | 85 - neotoma2-1.1.0/neotoma2/tests/testthat/test_get_taxa.R | 5 neotoma2-1.1.0/neotoma2/tests/testthat/test_getids.R | 3 neotoma2-1.1.0/neotoma2/tests/testthat/test_group_data.R |only neotoma2-1.1.0/neotoma2/tests/testthat/test_length.R | 5 neotoma2-1.1.0/neotoma2/tests/testthat/test_parseURL.R |only neotoma2-1.1.0/neotoma2/tests/testthat/test_parse_site.R |only neotoma2-1.1.0/neotoma2/tests/testthat/test_parse_speleothem.R |only neotoma2-1.1.0/neotoma2/tests/testthat/test_plot.R | 4 neotoma2-1.1.0/neotoma2/tests/testthat/test_samples.R | 11 neotoma2-1.1.0/neotoma2/tests/testthat/test_sites.R | 22 neotoma2-1.1.0/neotoma2/tests/testthat/test_summary.R | 31 neotoma2-1.1.0/neotoma2/tests/testthat/test_taxa.R | 3 neotoma2-1.1.0/neotoma2/tests/testthat/test_toWide.R | 3 neotoma2-1.1.0/neotoma2/vignettes/neotoma2-package.Rmd | 4 88 files changed, 2281 insertions(+), 856 deletions(-)
Title: Tools for Obtaining and Cleaning Medicare Public Use Files
Description: Publicly available data from Medicare frequently requires extensive
initial effort to extract desired variables and merge them; this package
formalizes the techniques I've found work best. More information on the
Medicare program, as well as guidance for the publicly available data this package
targets, can be found on CMS's website covering publicly available data. See <https://www.cms.gov/data-research>.
Author: Robert Gambrel [aut, cre]
Maintainer: Robert Gambrel <robert.gambrel@gmail.com>
Diff between medicare versions 0.2.1 dated 2017-04-02 and 0.3.0 dated 2026-09-14
medicare-0.2.1/medicare/R/medicare.R |only medicare-0.2.1/medicare/inst/extdata |only medicare-0.2.1/medicare/man/medicare.Rd |only medicare-0.3.0/medicare/DESCRIPTION | 15 medicare-0.3.0/medicare/LICENSE | 2 medicare-0.3.0/medicare/MD5 | 92 medicare-0.3.0/medicare/NAMESPACE | 18 medicare-0.3.0/medicare/NEWS.md | 8 medicare-0.3.0/medicare/R/cr_alpha_names.R | 36 medicare-0.3.0/medicare/R/cr_extract.R | 144 medicare-0.3.0/medicare/R/cr_nmrc_names.R | 38 medicare-0.3.0/medicare/R/cr_rpt_names.R | 62 medicare-0.3.0/medicare/R/data.R | 164 medicare-0.3.0/medicare/R/medicare-package.R |only medicare-0.3.0/medicare/R/pos_names.R | 3392 +++++----- medicare-0.3.0/medicare/R/pos_names_extract.R | 196 medicare-0.3.0/medicare/R/price_deflate.R | 142 medicare-0.3.0/medicare/R/subset_column.R | 86 medicare-0.3.0/medicare/R/subset_row.R | 88 medicare-0.3.0/medicare/R/subset_worksheet.R | 40 medicare-0.3.0/medicare/README.md | 72 medicare-0.3.0/medicare/build/vignette.rds |binary medicare-0.3.0/medicare/inst/data-raw |only medicare-0.3.0/medicare/inst/doc/cost-report-analysis.R | 204 medicare-0.3.0/medicare/inst/doc/cost-report-analysis.Rmd | 454 - medicare-0.3.0/medicare/inst/doc/cost-report-analysis.html | 909 +- medicare-0.3.0/medicare/inst/doc/provider_of_service_naming.R | 62 medicare-0.3.0/medicare/inst/doc/provider_of_service_naming.Rmd | 174 medicare-0.3.0/medicare/inst/doc/provider_of_service_naming.html | 635 + medicare-0.3.0/medicare/man/cr_alpha_names.Rd | 40 medicare-0.3.0/medicare/man/cr_extract.Rd | 112 medicare-0.3.0/medicare/man/cr_nmrc_names.Rd | 40 medicare-0.3.0/medicare/man/cr_rpt_names.Rd | 40 medicare-0.3.0/medicare/man/hospiceALPHA.Rd | 54 medicare-0.3.0/medicare/man/hospiceNMRC.Rd | 54 medicare-0.3.0/medicare/man/hospiceRPT.Rd | 80 medicare-0.3.0/medicare/man/medicare-package.Rd |only medicare-0.3.0/medicare/man/pos2010.Rd | 38 medicare-0.3.0/medicare/man/pos_names.Rd | 66 medicare-0.3.0/medicare/man/pos_names_extract.Rd | 78 medicare-0.3.0/medicare/man/price_deflate.Rd | 76 medicare-0.3.0/medicare/man/subset_column.Rd | 40 medicare-0.3.0/medicare/man/subset_row.Rd | 40 medicare-0.3.0/medicare/man/subset_worksheet.Rd | 40 medicare-0.3.0/medicare/tests/testthat.R | 8 medicare-0.3.0/medicare/tests/testthat/test-cr_extract.R | 44 medicare-0.3.0/medicare/tests/testthat/test-price_deflate.R | 40 medicare-0.3.0/medicare/tests/testthat/test-subsetting_subfunctions.R | 66 medicare-0.3.0/medicare/vignettes/cost-report-analysis.Rmd | 454 - medicare-0.3.0/medicare/vignettes/provider_of_service_naming.Rmd | 174 50 files changed, 4649 insertions(+), 3968 deletions(-)
Title: Bayesian Averaging for Dynamic Panels
Description: Implements Bayesian model averaging for dynamic panels with weakly
exogenous regressors as described in the paper by
Moral-Benito (2013, <doi:10.1080/07350015.2013.818003>).
The package provides functions to estimate dynamic panel data models
and analyze the results of the estimation.
Author: Krzysztof Beck [aut],
Piotr Cukier [aut],
Marcin Dubel [aut, cre],
Mariusz Szczepanczyk [aut],
Mateusz Wyszynski [aut],
badp authors [cph]
Maintainer: Marcin Dubel <marcindubel@gmail.com>
Diff between badp versions 0.6.1 dated 2026-08-31 and 0.7.0 dated 2026-09-14
badp-0.6.1/badp/man/print.badp_drawable_grob.Rd |only badp-0.7.0/badp/DESCRIPTION | 14 badp-0.7.0/badp/MD5 | 199 ++-- badp-0.7.0/badp/NAMESPACE | 30 badp-0.7.0/badp/NEWS.md | 180 +++ badp-0.7.0/badp/R/SEM_likelihood.R | 10 badp-0.7.0/badp/R/SEM_matrices.R | 6 badp-0.7.0/badp/R/SEM_param_matrices.R | 10 badp-0.7.0/badp/R/accessors.R |only badp-0.7.0/badp/R/badp_plots.R |only badp-0.7.0/badp/R/best_models.R | 694 +++++++++----- badp-0.7.0/badp/R/bma.R | 52 - badp-0.7.0/badp/R/coef_hist.R | 22 badp-0.7.0/badp/R/data.R | 40 badp-0.7.0/badp/R/data_preparation.R | 29 badp-0.7.0/badp/R/extract_names.R | 2 badp-0.7.0/badp/R/jointness.R | 12 badp-0.7.0/badp/R/model_pmp.R | 121 +- badp-0.7.0/badp/R/model_sizes.R | 106 +- badp-0.7.0/badp/R/model_space.R | 66 - badp-0.7.0/badp/R/posterior_dens.R | 14 badp-0.7.0/badp/R/s3_methods_bma.R | 156 ++- badp-0.7.0/badp/R/s3_methods_model_space.R | 8 badp-0.7.0/badp/R/utils_plot.R | 2 badp-0.7.0/badp/README.md | 179 ++- badp-0.7.0/badp/build/vignette.rds |binary badp-0.7.0/badp/data/full_bma_results.rda |binary badp-0.7.0/badp/inst/WORDLIST | 156 +-- badp-0.7.0/badp/inst/doc/badp_vignette.R | 88 + badp-0.7.0/badp/inst/doc/badp_vignette.Rmd | 232 +++- badp-0.7.0/badp/inst/doc/badp_vignette.html | 604 ++++++------ badp-0.7.0/badp/man/best_models.Rd | 97 - 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badp-0.7.0/badp/tests/testthat/test-coef_hist.R | 4 badp-0.7.0/badp/tests/testthat/test-data_preparation.R | 52 + badp-0.7.0/badp/tests/testthat/test-jointness.R | 4 badp-0.7.0/badp/tests/testthat/test-model_pmp.R | 22 badp-0.7.0/badp/tests/testthat/test-model_sizes.R | 22 badp-0.7.0/badp/tests/testthat/test-model_space.R | 8 badp-0.7.0/badp/tests/testthat/test-posterior_dens.R | 2 badp-0.7.0/badp/tests/testthat/test-s3_methods_bma.R | 155 +-- badp-0.7.0/badp/vignettes/badp_vignette.Rmd | 232 +++- 112 files changed, 2804 insertions(+), 1475 deletions(-)
Title: R Package to Implement Automated Covariate Selection for Two
Exposure Cohorts Using High-Dimensional Propensity Score
Algorithm
Description: Contains functions to implement automated covariate selection using methods described in the
high-dimensional propensity score (HDPS) algorithm by Schneeweiss et.al. Covariate adjustment in real-world-observational-data (RWD) is important for
for estimating adjusted outcomes and this can be done by using methods such as, but not limited to, propensity score
matching, propensity score weighting and regression analysis. While these methods strive to statistically adjust for
confounding, the major challenge is in selecting the potential covariates that can bias the outcomes comparison estimates
in observational RWD (Real-World-Data). This is where the utility of automated covariate selection comes in.
The functions in this package help to implement the three major steps of automated covariate selection as described by
Schneeweiss et. al elsewhere. These three functions, in order of the steps required to execute automated covariate
selection are, get_candidate_covariates(), get_recurrence_ [...truncated...]
Author: Dennis Robert [aut, cre]
Maintainer: Dennis Robert <dennis.robert.nm@gmail.com>
Diff between autoCovariateSelection versions 1.0.0 dated 2020-12-14 and 1.0.1 dated 2026-09-14
DESCRIPTION | 17 LICENSE | 5 MD5 | 25 - NAMESPACE | 21 R/acs.R | 804 +++++++++++++++++++------------------- R/data.R | 42 - README.md |only man/get_candidate_covariates.Rd | 188 ++++---- man/get_prioritised_covariates.Rd | 202 ++++----- man/get_recurrence_covariates.Rd | 190 ++++---- man/get_relative_risk.Rd | 60 +- man/rwd.Rd | 62 +- tests/testthat.R | 6 tests/testthat/test-run.R | 54 +- 14 files changed, 842 insertions(+), 834 deletions(-)
More information about autoCovariateSelection at CRAN
Permanent link
Title: Study Strap and Multi-Study Learning Algorithms
Description: Implements multi-study learning algorithms such as
merging, the study-specific ensemble (trained-on-observed-studies ensemble) the study strap,
the covariate-matched study strap, covariate-profile similarity weighting, and stacking weights.
Embedded within the 'caret' framework, this package allows for a wide range of
single-study learners (e.g., neural networks, lasso, random forests).
The package offers over 20 default similarity measures and allows for specification of custom
similarity measures for covariate-profile similarity weighting and an accept/reject step.
This implements methods described in Loewinger, Kishida, Patil, and Parmigiani. (2019)
<doi:10.1101/856385>.
Author: Gabriel Loewinger [aut, cre] ,
Giovanni Parmigiani [ths],
Prasad Patil [sad],
National Science Foundation Grant DMS1810829 [fnd],
National Institutes of Health Grant T32 AI 007358 [fnd]
Maintainer: Gabriel Loewinger <gloewinger@gmail.com>
Diff between studyStrap versions 1.0.0 dated 2020-02-20 and 1.0.1 dated 2026-09-14
DESCRIPTION | 10 MD5 | 12 R/ss.ar.caret.mSSL.R | 2 build/vignette.rds |binary inst/doc/vignette.R | 28 - inst/doc/vignette.html | 933 ++++++++++++++++++++++++++++++++----------------- man/cmss.Rd | 2 7 files changed, 648 insertions(+), 339 deletions(-)
Title: Kuhn-Tucker and Multiple Discrete-Continuous Extreme Value
Models
Description: Estimates and simulates Kuhn-Tucker demand models with individual heterogeneity. The package implements the multiple-discrete continuous extreme value (MDCEV) model and the Kuhn-Tucker specification common in the environmental economics literature on recreation demand. Latent class and random parameters specifications can be implemented and the models are fit using maximum likelihood estimation or Bayesian estimation. All models are implemented in 'Stan' (see Stan Development Team, 2019) <https://mc-stan.org/>. The package also implements demand forecasting (Pinjari and Bhat (2011) <https://repositories.lib.utexas.edu/handle/2152/23880>) and welfare calculation (Lloyd-Smith (2018) <doi:10.1016/j.jocm.2017.12.002>) for policy simulation. 'Stan' models can be estimated using either the 'cmdstanr' (default) or 'rstan' backend. If using 'cmdstanr', then user will need to install 'cmdstanr' manually <https://mc-stan.org/cmdstanr/>.
Author: Patrick Lloyd-Smith [aut, cre],
Trustees of Columbia University [cph]
Maintainer: Patrick Lloyd-Smith <patrick.lloydsmith@usask.ca>
Diff between rmdcev versions 1.3.3 dated 2026-07-20 and 1.3.4 dated 2026-09-14
DESCRIPTION | 6 LICENSE | 2 MD5 | 110 NAMESPACE | 62 NEWS | 10 R/BayesMDCEV.R | 344 - R/CreateParmInfo.R | 330 - R/StanSimulate.R | 86 R/data-recreation.R | 40 R/helperFunctions.R | 1554 ++++---- R/maxLikeMDCEV.R | 626 +-- R/mdcev.R | 566 +-- R/mdcev.data.R | 236 - R/mdcev.datacheck.R | 98 R/mdcev.methods.R | 586 +-- R/mdcev.sim.R | 218 - R/mdcev.sim.methods.R | 178 R/processMDCEVdata.R | 302 - R/rmdcev-package.R | 60 R/zzz.R | 8 inst/CITATION | 24 inst/doc/apollo-benchmark.Rmd | 1436 +++---- inst/stan/SimulationFunctions.stan | 1580 ++++---- inst/stan/common/mdcev_data.stan | 46 inst/stan/include/license.stan | 28 inst/stan/mdcev.hpp | 6544 +++++++++++++++++------------------ man/CreateBlankPolicies.Rd | 92 man/GenerateMDCEVData.Rd | 154 man/PrepareSimulationData.Rd | 88 man/data_rec.Rd | 58 man/mdcev.Rd | 436 +- man/mdcev.data.Rd | 122 man/mdcev.sim.Rd | 230 - man/rmdcev.Rd | 68 man/rmdcev_get_rng.Rd | 34 man/rmdcev_get_stream.Rd | 28 src/rmdcev_types.h | 1 tests/testthat.R | 10 tests/testthat/_snaps/choice.md | 56 tests/testthat/_snaps/gamma1.md | 24 tests/testthat/_snaps/kt_ee.md | 44 tests/testthat/_snaps/lc.md | 32 tests/testthat/_snaps/simulations.md | 8 tests/testthat/test-bayes.R | 436 +- tests/testthat/test-choice.R | 1 tests/testthat/test-data.R | 366 - tests/testthat/test-gamma1.R | 368 - tests/testthat/test-gen_data.R | 164 tests/testthat/test-kt_ee.R | 6 tests/testthat/test-lc.R | 138 tests/testthat/test-psi-random.R | 240 - tests/testthat/test-rp-correlated.R | 322 - tests/testthat/test-rp.R | 270 - tests/testthat/test-simulations.R | 422 +- tests/testthat/test-welfare.R | 1 vignettes/apollo-benchmark.Rmd | 1436 +++---- 56 files changed, 10374 insertions(+), 10361 deletions(-)
Title: Common Public Health Statistics and their Confidence Intervals
Description: Functions to calculate commonly used public health statistics and
their confidence intervals using methods approved for use in the production
of Public Health England indicators such as those presented via Fingertips
(<https://fingertips.phe.org.uk/>). It provides functions for the generation
of proportions, crude rates, means, directly standardised rates, indirectly
standardised rates, standardised mortality ratios, slope and relative index
of inequality and life expectancy.
Statistical methods are referenced in the following publications.
Breslow NE, Day NE (1987) <doi:10.1002/sim.4780080614>.
Dobson et al (1991) <doi:10.1002/sim.4780100317>.
Armitage P, Berry G (2002) <doi:10.1002/9780470773666>.
Wilson EB. (1927) <doi:10.1080/01621459.1927.10502953>.
Altman DG et al (2000, ISBN: 978-0-727-91375-3).
Chiang CL. (1968, ISBN: 978-0-882-75200-6).
Newell C. (1994, ISBN: 978-0-898-62451-9).
Eayres DP, Williams ES (2004) <doi:10.1136/jech.2003.009654>.
S [...truncated...]
Author: Georgina Anderson [aut, cre],
Sebastian Fox [ctb],
Matthew Francis [ctb],
Emma Clegg [ctb],
Annabel Westermann [ctb],
Joshua Woolner [ctb],
Charlotte Fellows [ctb],
Olivia Box Power [ctb],
Paul Fryers [rev],
Department of Health and Social Care [cph]
Maintainer: Georgina Anderson <georgina.anderson@dhsc.gov.uk>
Diff between PHEindicatormethods versions 2.1.1 dated 2025-11-18 and 2.1.2 dated 2026-09-14
DESCRIPTION | 8 MD5 | 48 +-- NAMESPACE | 42 +- NEWS.md | 3 R/LifeExpectancy.R | 10 build/partial.rdb |binary build/vignette.rds |binary inst/doc/DSR-vignette.html | 105 +++--- inst/doc/Introduction_to_PHEindicatormethods.html | 349 +++++++++++----------- inst/doc/WorkedExamples_phe_sii.html | 197 ++++++------ man/PHEindicatormethods-package.Rd | 5 man/assign_funnel_significance.Rd | 26 - man/calculate_ISRate.Rd | 26 - man/calculate_ISRatio.Rd | 26 - man/calculate_dsr.Rd | 26 - man/calculate_funnel_limits.Rd | 26 - man/calculate_funnel_points.Rd | 26 - man/phe_dsr.Rd | 26 - man/phe_life_expectancy.Rd | 26 - man/phe_mean.Rd | 26 - man/phe_proportion.Rd | 26 - man/phe_quantile.Rd | 26 - man/phe_rate.Rd | 26 - man/phe_sii.Rd | 26 - tests/testthat/testLifeExpectancy.R | 12 25 files changed, 574 insertions(+), 543 deletions(-)
More information about PHEindicatormethods at CRAN
Permanent link
Title: Meta-Analysis of Correlated Genetic Association Studies
Description: The main function performs meta-analysis of genetic association study summary statistics that may be correlated due to cryptic relatedness or other confounders, generalizing inverse variance weighted methods. The function that estimates the correlation structure is also provided standalone. Another key innovation, the estimation of the correlation parameter from the median product of correlated standard normal variables, is provided, as well as a complete set of functions for their underlying distribution: density, cumulative, quantile, and random deviates. Described in Tu and Ochoa (2026) <doi:10.1016/j.xhgg.2026.100657>.
Author: Alejandro Ochoa [aut, cre] ,
Tiffany Tu [aut]
Maintainer: Alejandro Ochoa <alejandro.ochoa@duke.edu>
Diff between metalcor versions 1.0.0 dated 2026-05-12 and 1.0.2 dated 2026-09-14
DESCRIPTION | 10 ++--- MD5 | 16 ++++----- NEWS.md | 9 +++++ R/dprodcor.R | 7 ++- README.md | 5 ++ build/partial.rdb |binary build/vignette.rds |binary inst/doc/metalcor.html | 72 ++++++++++++++++++++--------------------- tests/testthat/test-metalcor.R | 25 ++++++++++---- 9 files changed, 85 insertions(+), 59 deletions(-)
Title: Columnar Query Engine for Larger-than-RAM Data
Description: A minimal columnar query engine with lazy execution on datasets
larger than RAM. Provides 'dplyr'-like verbs (filter(), select(), mutate(),
group_by(), summarise(), joins, window functions) and common aggregations
(n(), sum(), mean(), min(), max(), sd(), first(), last()) backed by a
pure C11 pull-based execution engine and a custom on-disk format ('.vtr').
Reads and writes 'GeoTIFF' (including tiled and 'BigTIFF' layouts) and a
tiled raster format ('.vec') with overview pyramids and time cubes for
larger-than-RAM raster data. Streams vector operations (spatial transforms,
point-in-polygon and nearest-feature joins including a two-sided
grid-partitioned join, select-by-location, clip, erase, dissolve,
'rasterization', 'polygonization', and contouring) through 'sf', and runs
raster operations (zonal statistics, focal windows, terrain derivatives,
resample or 'reproject' warp, polygon masking, map algebra, and 'mosaicking')
in native C or over the tiled '.vec' format, one batch or tile at [...truncated...]
Author: Gilles Colling [aut, cre, cph]
Maintainer: Gilles Colling <gilles.colling051@gmail.com>
Diff between vectra versions 0.12.0 dated 2026-09-09 and 0.12.3 dated 2026-09-14
DESCRIPTION | 12 MD5 | 56 - NEWS.md | 42 + build/vignette.rds |binary inst/doc/coverage-topology.html | 4 inst/doc/engine.html | 4 inst/doc/formats.html | 8 inst/doc/geometry-expressions.html | 4 inst/doc/indexing.html | 6 inst/doc/joins.html | 4 inst/doc/large-data.html | 4 inst/doc/networks.html | 4 inst/doc/offload.html | 4 inst/doc/quickstart.html | 4 inst/doc/schema.html | 4 inst/doc/sdm.html | 4 inst/doc/spatial.html | 4 inst/doc/streaming-spatial.html | 4 inst/doc/string-ops.html | 4 src/expr_geom.c | 229 +++--- src/scan.c | 39 - src/tdc/VENDORED_FROM | 2 src/tdc/src/model/dict.c | 9 src/vtr_codec_tdc.c | 16 src/vtr_geos.h | 22 src/vtr_overlay.c | 254 ++++-- src/vtr_spatial.c | 510 ++++++++----- tests/testthat/test-bed-scan.R | 32 tests/testthat/test-index.R | 1374 +++++++++++++++++++------------------ 29 files changed, 1507 insertions(+), 1156 deletions(-)
Title: Read and Modify STICS Input/Output Files
Description: Manipulating input and output files of the 'STICS' crop model
(Beaudouin et al. (2022) <doi:10.35690/978-2-7592-3679-4>). The
package is based on the model software, which is accessible, as well
as resources, on its web site <https://stics.inrae.fr/eng/>. Files
are either 'JavaSTICS' XML files or text files used by the model
'fortran' executable. Most basic functionalities are reading or
writing parameter names and values in both XML or text input files,
and getting data from output files. Advanced functionalities include
XML files generation from XML templates and/or spreadsheets, or text
files generation from XML files by using 'xslt' transformation.
Author: Patrice Lecharpentier [aut, cre] ,
Remi Vezy [aut] ,
Samuel Buis [aut] ,
Michel Giner [aut] ,
Timothee Flutre [aut] ,
Thomas Robine [ctb],
Amine Barkaoui [ctb],
Patrick Chabrier [ctb],
Julie Constantin [rev],
Dominique Ripoche [rev],
Marie Launay [re [...truncated...]
Maintainer: Patrice Lecharpentier <patrice.lecharpentier@inrae.fr>
Diff between SticsRFiles versions 1.6.0 dated 2025-06-03 and 1.7.0 dated 2026-09-14
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Title: R Interface to X-13-ARIMA-SEATS
Description: Easy-to-use interface to X-13-ARIMA-SEATS, the seasonal adjustment
software by the US Census Bureau. It offers full access to almost all
options and outputs of X-13, including X-11 and SEATS, automatic ARIMA model
search, outlier detection and support for user defined holiday variables,
such as Chinese New Year or Indian Diwali. A graphical user interface can be
used through the 'seasonalview' package. Uses the X-13-binaries from the
'x13binary' package.
Author: Christoph Sax [aut, cre] ,
Dirk Eddelbuettel [ctb] ,
Andrea Ranzato [ctb]
Maintainer: Christoph Sax <christoph.sax@gmail.com>
Diff between seasonal versions 1.10.0 dated 2024-10-19 and 1.11.0 dated 2026-09-14
seasonal-1.10.0/seasonal/tests/nocran |only seasonal-1.10.0/seasonal/tests/testthat/test-all.R |only seasonal-1.11.0/seasonal/DESCRIPTION | 24 - seasonal-1.11.0/seasonal/MD5 | 200 +++++----- seasonal-1.11.0/seasonal/NAMESPACE | 7 seasonal-1.11.0/seasonal/NEWS.md | 48 ++ seasonal-1.11.0/seasonal/R/as.data.frame.R | 5 seasonal-1.11.0/seasonal/R/diagnostics.R | 20 - seasonal-1.11.0/seasonal/R/extractors.R | 14 seasonal-1.11.0/seasonal/R/genhol.R | 24 + seasonal-1.11.0/seasonal/R/import.spc.R | 19 seasonal-1.11.0/seasonal/R/out.R | 6 seasonal-1.11.0/seasonal/R/plot.R | 6 seasonal-1.11.0/seasonal/R/seas.R | 8 seasonal-1.11.0/seasonal/R/seas_list.R | 8 seasonal-1.11.0/seasonal/R/seas_multi.R | 4 seasonal-1.11.0/seasonal/R/seasonal-package.R | 4 seasonal-1.11.0/seasonal/R/series.R | 69 ++- seasonal-1.11.0/seasonal/R/spclist.R | 4 seasonal-1.11.0/seasonal/R/static.R | 6 seasonal-1.11.0/seasonal/R/summary.R | 64 ++- seasonal-1.11.0/seasonal/R/tidiers.R |only seasonal-1.11.0/seasonal/R/udg.R | 6 seasonal-1.11.0/seasonal/R/update.R | 11 seasonal-1.11.0/seasonal/R/view.R | 2 seasonal-1.11.0/seasonal/R/x13_prepare.R | 15 seasonal-1.11.0/seasonal/R/x13messages.R | 4 seasonal-1.11.0/seasonal/README.md | 7 seasonal-1.11.0/seasonal/build/partial.rdb |binary seasonal-1.11.0/seasonal/build/vignette.rds |binary seasonal-1.11.0/seasonal/inst/WORDLIST | 3 seasonal-1.11.0/seasonal/inst/doc/multiple.Rmd | 22 + seasonal-1.11.0/seasonal/inst/doc/multiple.html | 54 +- seasonal-1.11.0/seasonal/inst/doc/seas.Rnw | 22 - seasonal-1.11.0/seasonal/inst/doc/seas.pdf |binary seasonal-1.11.0/seasonal/man/SPECS.Rd | 2 seasonal-1.11.0/seasonal/man/as.data.frame.seas.Rd | 5 seasonal-1.11.0/seasonal/man/easter.Rd | 2 seasonal-1.11.0/seasonal/man/final.Rd | 9 seasonal-1.11.0/seasonal/man/fivebestmdl.Rd | 6 seasonal-1.11.0/seasonal/man/genhol.Rd | 24 + seasonal-1.11.0/seasonal/man/import.ts.Rd | 3 seasonal-1.11.0/seasonal/man/out.Rd | 6 seasonal-1.11.0/seasonal/man/plot.seas.Rd | 6 seasonal-1.11.0/seasonal/man/seas.Rd | 6 seasonal-1.11.0/seasonal/man/series.Rd | 13 seasonal-1.11.0/seasonal/man/spc.Rd | 6 seasonal-1.11.0/seasonal/man/static.Rd | 6 seasonal-1.11.0/seasonal/man/summary.seas.Rd | 13 seasonal-1.11.0/seasonal/man/transformfunction.Rd | 6 seasonal-1.11.0/seasonal/man/udg.Rd | 6 seasonal-1.11.0/seasonal/man/view.Rd | 2 seasonal-1.11.0/seasonal/tests/testthat/fixtures |only seasonal-1.11.0/seasonal/tests/testthat/helper-extensive.R |only seasonal-1.11.0/seasonal/tests/testthat/helper-fixtures.R |only seasonal-1.11.0/seasonal/tests/testthat/test-checkX13.R |only seasonal-1.11.0/seasonal/tests/testthat/test-extensive-cases.R |only seasonal-1.11.0/seasonal/tests/testthat/test-extensive-import.R |only seasonal-1.11.0/seasonal/tests/testthat/test-extensive-multi.R |only seasonal-1.11.0/seasonal/tests/testthat/test-import.R |only seasonal-1.11.0/seasonal/tests/testthat/test-import_spc.R |only seasonal-1.11.0/seasonal/tests/testthat/test-internals.R |only seasonal-1.11.0/seasonal/tests/testthat/test-issues.R | 143 +++++++ seasonal-1.11.0/seasonal/tests/testthat/test-methods.R |only seasonal-1.11.0/seasonal/tests/testthat/test-multi-extractors.R |only seasonal-1.11.0/seasonal/tests/testthat/test-parsers.R |only seasonal-1.11.0/seasonal/tests/testthat/test-plot.R |only seasonal-1.11.0/seasonal/tests/testthat/test-reeval_dots.R |only seasonal-1.11.0/seasonal/tests/testthat/test-static.R |only seasonal-1.11.0/seasonal/tests/testthat/test-summary.R |only seasonal-1.11.0/seasonal/tests/testthat/test-tidiers.R |only seasonal-1.11.0/seasonal/tests/testthat/test-validation.R |only seasonal-1.11.0/seasonal/tests/testthat/test-x13messages.R |only seasonal-1.11.0/seasonal/vignettes/jss3006.bib | 16 seasonal-1.11.0/seasonal/vignettes/multiple.Rmd | 22 + seasonal-1.11.0/seasonal/vignettes/seas.Rnw | 22 - 76 files changed, 744 insertions(+), 266 deletions(-)
Title: Perceptual Analysis, Visualization and Organization of Spectral
Colour Data
Description: A cohesive framework for the spectral and spatial analysis of
colour described in Maia, Eliason, Bitton, Doucet & Shawkey (2013)
<doi:10.1111/2041-210X.12069> and Maia, Gruson, Endler & White (2019)
<doi:10.1111/2041-210X.13174>.
Author: Thomas White [aut, cre] ,
Rafael Maia [aut] ,
Hugo Gruson [aut] ,
John Endler [aut],
Chad Eliason [aut],
Pierre-Paul Bitton [aut]
Maintainer: Thomas White <thomas.white026@gmail.com>
Diff between pavo versions 2.9.0 dated 2023-09-24 and 2.10.0 dated 2026-09-14
DESCRIPTION | 28 MD5 | 210 +++---- NAMESPACE | 146 ++--- NEWS.md | 172 ++++++ R/acuityview_pad.R | 73 +- R/adjacent.R | 99 +-- R/aggplot.R | 58 -- R/aggspec.R | 17 R/as.rimg.R | 81 +- R/as.rspec.R | 31 - R/bootcoldist.R | 1021 +++++++++++++++++++++++++++++++++-- R/categorical.R | 118 ---- R/catplot.R | 34 - R/check_data_for_colspace.R |only R/cie.R | 50 - R/cieplot.R | 3 R/classify.R | 90 +-- R/coc.R | 104 --- R/cocplot.R | 33 - R/coldist.R | 279 ++++----- R/colspace.R | 43 - R/diplot.R | 1 R/dispace.R | 97 --- R/explorespec.R | 36 - R/getimg.R | 10 R/getspec.R | 2 R/hexagon.R | 100 --- R/hexplot.R | 25 R/internal.R | 38 - R/jnd2xyz.R | 48 - R/jndplot.R | 70 +- R/jndrot.R | 44 - R/merge.rspec.R | 9 R/overlap3d.R | 19 R/pavo-package.R | 3 R/peakshape.R | 10 R/plot.colspace.R | 20 R/plot.rimg.R | 30 - R/plot.rspec.R | 134 ++-- R/plot.sensmod.R | 3 R/plotsmooth.R | 9 R/points.colspace.R | 1 R/procimg.R | 32 - R/procspec.R | 70 ++ R/projplot.R | 1 R/projpoints.R | 1 R/segplot.R | 34 - R/segspace.R | 99 --- R/sensdata.R | 12 R/sensmodel-templates.R |only R/sensmodel.R | 174 +++--- R/simulate_spec.R | 63 +- R/spec2rgb.R | 2 R/subset.rspec.R | 7 R/summary.colspace.R | 4 R/summary.rimg.R | 3 R/summary.rspec.R | 310 +++++----- R/sysdata.rda |binary R/tcspace.R | 108 --- R/tcsplot.R | 1 R/tcspoints.R | 4 R/tcsvol.R | 2 R/tetraplot.R | 43 - R/triplot.R | 23 R/trispace.R | 100 --- R/utils.R |only R/vismodel.R | 104 +-- R/vol.R | 2 R/voloverlap.R | 2 README.md | 33 - build/partial.rdb |binary build/vignette.rds |binary inst/CITATION | 30 - inst/WORDLIST | 5 inst/doc/pavo.Rmd | 2 inst/doc/pavo.html | 6 man/adjacent.Rd | 15 man/as.rimg.Rd | 13 man/bootcoldist.Rd | 157 +++++ man/classify.Rd | 15 man/explorespec.Rd | 2 man/getspec.Rd | 15 man/img_conversion.Rd | 8 man/jnd2xyz.Rd | 28 man/jndplot.Rd | 2 man/jndrot.Rd | 22 man/pavo-package.Rd | 3 man/plot.colspace.Rd | 2 man/procspec.Rd | 18 man/sensdata.Rd | 4 man/sensmodel.Rd | 47 + man/simulate_spec.Rd | 32 - man/tcsplot.Rd | 2 man/vismodel.Rd | 4 tests/testthat/_snaps/jnd2xyz.md |only tests/testthat/_snaps/sensmodel.md |only tests/testthat/test-S3colspace.R | 3 tests/testthat/test-coldist.R | 1052 ++++++++++++++++++++++++++++++++++++- tests/testthat/test-colspace.R | 38 - tests/testthat/test-images.R | 54 - tests/testthat/test-import.R | 2 tests/testthat/test-jnd2xyz.R |only tests/testthat/test-polymask.R | 7 tests/testthat/test-processing.R | 23 tests/testthat/test-regression.R | 170 +++-- tests/testthat/test-sensmodel.R | 143 ++++- tests/testthat/test-vismodel.R | 1 tests/testthat/test-voloverlap.R | 6 vignettes/pavo.Rmd | 2 109 files changed, 4344 insertions(+), 2222 deletions(-)
Title: Hydrologic Station Catalogs and Time Series from Public APIs
Description: Provides a unified, extensible interface for discovering
hydrological stations and downloading hydrological daily time series (e.g., water
discharge, water level, water temperature) and discrete water-quality observations
from national and regional public APIs. Water-quality observations are retained
at their original sampling timestamps.
Includes a provider registry, S3 generics 'stations' and 'timeseries', licensing
metadata, date-range and 'complete history' modes, rate limiting and
retries, optional authentication via environment variables, tidy
outputs, UTF-8 to ASCII transliteration, and WGS84 coordinates.
Designed for reproducible workflows and straightforward addition of
new providers.
Background and use cases are described in Farber et al. (2025)
<doi:10.5194/essd-17-4613-2025> and Farber et al. (2023)
<doi:10.57757/IUGG23-2838>.
Author: Henning Plessow [aut, cre],
Global Runoff Data Centre [ctb]
Maintainer: Henning Plessow <h.plessow@googlemail.com>
Diff between hydrodownloadR versions 0.1.3 dated 2026-02-25 and 0.1.5 dated 2026-09-14
DESCRIPTION | 26 MD5 | 92 +- NAMESPACE | 22 NEWS.md | 54 + R/00_registry.R | 23 R/adapter_AF_USGS_USAID.R |only R/adapter_AR_INA.R | 6 R/adapter_AT_EHYD.R | 45 - R/adapter_AU_BOM.R | 36 - R/adapter_BA_AVPS.R | 4 R/adapter_BE_HIC.R | 4 R/adapter_BE_WAL.R | 4 R/adapter_BR_ANA.R | 212 ++++-- R/adapter_CA_ECCC.R | 27 R/adapter_CH_BAFU.R | 969 ++++++++++++++-------------- R/adapter_CH_BAFU_NAWA.R |only R/adapter_CL_DGA.R | 1277 ++++++++++++++++++++------------------ R/adapter_CO_IDEAM.R |only R/adapter_CZ_CHMI.R | 4 R/adapter_DK_VANDA.R | 22 R/adapter_EE_EST.R | 2 R/adapter_ES_CEDEX.R | 4 R/adapter_ES_ROAN.R | 1046 +++++++++++++++---------------- R/adapter_FI_SYKE.R | 80 +- R/adapter_FR_HUBEAU.R | 8 R/adapter_IE_OPW.R | 963 ++++++++++++++-------------- R/adapter_IL_IWA.R |only R/adapter_JP_MLIT.R | 1048 +++++++++++++++---------------- R/adapter_LT_LHMT.R | 734 +++++++++++---------- R/adapter_MX_CONAGUA.R |only R/adapter_NL_RWS.R | 719 +++++++++++---------- R/adapter_NO_NVE.R | 11 R/adapter_PE_SENAMHI.R |only R/adapter_PL_IMGW.R | 20 R/adapter_PT_SNIRH.R |only R/adapter_RW_RWB.R | 2 R/adapter_SE_SMHI_SYKE.R | 6 R/adapter_SI_ARSO.R | 946 ++++++++++++++-------------- R/adapter_UK_CEH.R | 834 ++++++++++++------------ R/adapter_UK_NRFA.R | 559 ++++++++-------- R/adapter_US_USGS_NWIS.R | 9 R/adapter_US_USGS_dataRetrieval.R | 6 R/adapter_ZA_DWS.R | 1152 +++++++++++++++++----------------- R/data-jp_mlit_meta.R | 55 + R/globals.R | 26 R/provider_usage.R | 128 ++- R/zzz.R | 13 data/jp_mlit_meta.rda |binary man/bafu_nawa_parameters.Rd |only man/dot-hydro_registry.Rd | 2 man/jp_mlit_meta.Rd | 54 + 51 files changed, 5946 insertions(+), 5308 deletions(-)
More information about hydrodownloadR at CRAN
Permanent link
Title: Spatial Data Framework for ggplot2
Description: Spatial data plus the power of the ggplot2 framework means easier mapping when input
data are already in the form of spatial objects.
Author: Dewey Dunnington [aut, cre] ,
Brent Thorne [ctb] ,
Diego Hernangomez [ctb]
Maintainer: Dewey Dunnington <dewey@fishandwhistle.net>
Diff between ggspatial versions 1.1.10 dated 2025-08-24 and 1.1.11 dated 2026-09-14
DESCRIPTION | 12 +- MD5 | 113 +++++++++++++++++++------ NEWS.md | 5 + R/annotation-map-tile.R | 17 ++- man/annotation_map_tile.Rd | 17 +-- man/annotation_north_arrow.Rd | 5 - man/annotation_scale.Rd | 5 - man/annotation_spatial_hline.Rd | 5 - man/fixed_plot_aspect.Rd | 2 man/geom_spatial_rect.Rd | 11 -- man/geom_spatial_segment.Rd | 9 - man/ggspatial-package.Rd | 5 + man/layer_spatial.Raster.Rd | 13 -- man/layer_spatial.Rd | 2 man/layer_spatial.SpatRaster.Rd | 13 -- man/layer_spatial.bbox.Rd | 4 man/layer_spatial.stars.Rd | 13 -- man/reexports.Rd | 2 man/stat_spatial_identity.Rd | 2 tests/testthat/_snaps |only tests/testthat/rosm.cache/osm/13_1296_2773.png |binary tests/testthat/rosm.cache/osm/13_1296_2774.png |binary tests/testthat/rosm.cache/osm/13_1297_2773.png |binary tests/testthat/rosm.cache/osm/13_1297_2774.png |binary tests/testthat/test-annotation-map-tile.R | 5 + tests/testthat/test-layer-spatial.R | 8 - 26 files changed, 147 insertions(+), 121 deletions(-)
Title: Tool-Box of Chain Ladder Plus Models
Description: Implementation of the age-period-cohort models for the claim development presented in the manuscript 'Replicating and extending chain-ladder via an age-period-cohort structure on the claim development in a run-off triangle' <doi:10.1080/10920277.2025.2496725>.
Author: Gabriele Pittarello [aut, cre, cph] ,
Munir Hiabu [aut, cph] ,
Andres Villegas [aut, cph]
Maintainer: Gabriele Pittarello <gabriele.pittarello@sund.ku.dk>
Diff between clmplus versions 1.1.0 dated 2026-07-24 and 1.1.1 dated 2026-09-14
DESCRIPTION | 6 +++--- MD5 | 10 +++++----- R/predictclmplusmodel.R | 4 ++-- inst/doc/casestudy1.html | 4 ++-- man/predict.clmplusmodel.Rd | 2 +- tests/testthat/test-supported-models.R | 29 ++++++++++++++++++++++++++--- 6 files changed, 39 insertions(+), 16 deletions(-)
Title: 'VigiBase' Pharmacovigilance Database Toolbox
Description: Perform the analysis of the World Health Organization
(WHO) Pharmacovigilance database 'VigiBase' (Extract Case Level version),
<https://who-umc.org/>
e.g., load data, perform data management,
disproportionality analysis, and descriptive statistics. Intended for
pharmacovigilance routine use or studies.
This package is NOT supported nor reflect the opinion of the WHO, or the
Uppsala Monitoring Centre.
Disproportionality methods are described by Norén et
al (2013) <doi:10.1177/0962280211403604>.
Author: Charles Dolladille [aut, cre] ,
Basile Chretien [aut] ,
Universite de Caen Normandie [cph] ,
Unite de pharmaco-epidemiologie [cph]
Maintainer: Charles Dolladille <cdolladille@hotmail.com>
Diff between vigicaen versions 2.0.0 dated 2026-06-24 and 2.1.0 dated 2026-09-14
DESCRIPTION | 6 MD5 | 87 +-- NAMESPACE | 4 NEWS.md | 915 ++++++++++++++++---------------- R/add_outcomes.R |only R/check_data_type.R | 48 + R/get_atc_code.R | 125 +++- R/get_drecno.R | 12 R/get_llt_smq.R | 47 + R/get_llt_soc.R | 22 R/screen_adr.R | 22 R/screen_drug.R | 4 R/tb_meddra.R | 2 R/tb_vigibase.R | 8 build/partial.rdb |binary build/vignette.rds |binary inst/doc/basic_workflow.R | 30 - inst/doc/basic_workflow.Rmd | 33 - inst/doc/basic_workflow.html | 205 +++---- inst/doc/descriptive.R | 28 inst/doc/descriptive.Rmd | 28 inst/doc/descriptive.html | 75 +- inst/doc/routine_pharmacovigilance.html | 30 - inst/doc/template_main.R | 28 inst/doc/template_main.Rmd | 28 inst/doc/template_main.html | 168 ++--- man/add_outcomes.Rd |only man/get_atc_code.Rd | 4 man/get_llt_smq.Rd | 3 man/screen_adr.Rd | 19 tests/testthat/Rplots.pdf |binary tests/testthat/_snaps/add_dose.md | 208 +++---- tests/testthat/_snaps/add_outcomes.md |only tests/testthat/_snaps/check_id_list.md | 432 +++++++-------- tests/testthat/_snaps/get_atc_code.md |only tests/testthat/_snaps/get_drecno.md | 90 +-- tests/testthat/_snaps/get_llt_smq.md | 59 +- tests/testthat/_snaps/get_llt_soc.md | 32 - tests/testthat/_snaps/tb_meddra.md | 4 tests/testthat/_snaps/tb_vigibase.md | 44 + tests/testthat/test-add_outcomes.R |only tests/testthat/test-get_atc_code.R | 167 +++-- tests/testthat/test-get_llt_smq.R | 790 ++++++++++++++------------- tests/testthat/test-get_llt_soc.R | 11 vignettes/basic_workflow.Rmd | 33 - vignettes/descriptive.Rmd | 28 vignettes/template_main.Rmd | 28 47 files changed, 2080 insertions(+), 1827 deletions(-)
Title: Super Learner Prediction
Description: Implements the super learner prediction method and contains a
library of prediction algorithms to be used in the super learner.
Author: Eric Polley [aut, cre],
Erin LeDell [aut],
Chris Kennedy [aut],
Sam Lendle [ctb],
Mark van der Laan [aut, ths]
Maintainer: Eric Polley <epolley@uchicago.edu>
Diff between SuperLearner versions 2.0-41 dated 2026-08-21 and 2.0-42 dated 2026-09-14
SuperLearner-2.0-41/SuperLearner/build |only SuperLearner-2.0-41/SuperLearner/inst/doc |only SuperLearner-2.0-41/SuperLearner/vignettes |only SuperLearner-2.0-42/SuperLearner/DESCRIPTION | 11 ++-- SuperLearner-2.0-42/SuperLearner/MD5 | 47 ++++++++----------- SuperLearner-2.0-42/SuperLearner/R/SL.biglasso.R | 21 -------- SuperLearner-2.0-42/SuperLearner/R/SL.glm.R | 21 -------- SuperLearner-2.0-42/SuperLearner/R/SL.glmnet.R | 20 -------- SuperLearner-2.0-42/SuperLearner/R/SL.kernelKnn.R | 22 -------- SuperLearner-2.0-42/SuperLearner/R/SL.ksvm.R | 18 ------- SuperLearner-2.0-42/SuperLearner/R/SL.lda.R | 24 --------- SuperLearner-2.0-42/SuperLearner/R/SL.lm.R | 19 ------- SuperLearner-2.0-42/SuperLearner/R/SL.qda.R | 23 --------- SuperLearner-2.0-42/SuperLearner/R/SL.ranger.R | 20 -------- SuperLearner-2.0-42/SuperLearner/inst/NEWS | 7 ++ SuperLearner-2.0-42/SuperLearner/man/SL.biglasso.Rd | 22 -------- SuperLearner-2.0-42/SuperLearner/man/SL.glm.Rd | 21 -------- SuperLearner-2.0-42/SuperLearner/man/SL.glmnet.Rd | 22 -------- SuperLearner-2.0-42/SuperLearner/man/SL.kernelKnn.Rd | 22 -------- SuperLearner-2.0-42/SuperLearner/man/SL.ksvm.Rd | 19 ------- SuperLearner-2.0-42/SuperLearner/man/SL.lda.Rd | 24 --------- SuperLearner-2.0-42/SuperLearner/man/SL.lm.Rd | 19 ------- SuperLearner-2.0-42/SuperLearner/man/SL.qda.Rd | 23 --------- SuperLearner-2.0-42/SuperLearner/man/SL.ranger.Rd | 20 -------- 24 files changed, 42 insertions(+), 403 deletions(-)
Title: Generates and Samples Realistic Terrestrial Atmospheres
Description: Generates physically based sky environment maps and radiance
samples using the spectral Hosek-Wilkie and Prague atmosphere models.
Functions write high-dynamic-range 'OpenEXR' domes in latitude-longitude
projections, compute per-direction RGB or 55-channel values, and optionally
composite time-accurate star fields and moon phases. Features include
automatic sun and moon positioning from date, time and location, support for
sea-level and high-altitude observers, wide-spectrum coefficients, and
multithreaded C++ acceleration for fast, high-resolution output. For model
details, see Hosek and Wilkie (2012)
<doi:10.1145/2185520.2185591>, Hosek and Wilkie (2013)
<doi:10.1109/MCG.2013.18>, Wilkie et al. (2021)
<doi:10.1145/3450626.3459758>, and Vevoda et al. (2022)
<doi:10.1111/cgf.14677>.
Author: Tyler Morgan-Wall [aut, cre, cph],
Petr Vevoda [ctb],
Charles University [cph],
Eric Bruneton [ctb, cph],
Lukas Hosek [ctb, cph],
Alexander Wilkie [ctb, cph]
Maintainer: Tyler Morgan-Wall <tylermw@gmail.com>
Diff between skymodelr versions 0.3.2 dated 2026-06-27 and 0.6.4 dated 2026-09-14
DESCRIPTION | 13 - MD5 | 81 +++++-- NAMESPACE | 3 NEWS.md | 31 ++ R/RcppExports.R | 4 R/celestial_disk.R |only R/exr_metadata.R |only R/generate_moon_image_latlong.R | 24 +- R/generate_sky.R | 180 +++++++++++++++-- R/get_prague_sky_metadata.R |only R/moon.R | 139 ++++--------- R/planets.R | 2 R/prague_rgb_correction.R |only R/radiometry.R | 152 +++++++------- R/stars.R | 2 R/stars_radiometry.R | 185 +++++++++-------- R/utils_precision.R | 4 inst/doc |only inst/include |only man/apply_prague_rgb_gain.Rd |only man/as_sky_image.Rd |only man/calculate_sky_values.Rd | 17 + man/filter_supported_exr_metadata.Rd |only man/generate_moon_latlong.Rd | 13 + man/generate_sky.Rd | 51 ++++ man/generate_sky_latlong.Rd | 26 ++ man/generate_sun_disk.Rd |only man/get_prague_sky_metadata.Rd |only man/get_skymodelr_adopted_white.Rd |only man/normalize_prague_rgb_correction.Rd |only man/prepare_prague_rgb_gain.Rd |only man/sky_exr_metadata.Rd |only man/tag_generated_sky_exr_metadata.Rd |only man/tag_skymodelr_exr_metadata.Rd |only man/validate_prague_rgb_gain.Rd |only man/write_sky_image.Rd |only man/xy_to_xyz_y1.Rd |only src/Makevars.in | 4 src/Makevars.win.in | 2 src/PragueSkyModel/PragueSkyModel.cpp | 280 ++++++++++++++++++++++++--- src/PragueSkyModel/PragueSkyModel.h | 39 +++ src/RcppExports.cpp | 11 - src/makesky.cpp | 5 src/prague_api.cpp |only tests/testthat/prague-api-client.cpp |only tests/testthat/test-calculate-sky-radiance.R | 51 ++-- tests/testthat/test-celestial-disk.R |only tests/testthat/test-exr-metadata.R |only tests/testthat/test-moon-horizon.R |only tests/testthat/test-prague-metadata.R |only tests/testthat/test-prague-native-api.R |only tests/testthat/test-prague-rgb-correction.R |only tests/testthat/test-stars-radiometric.R | 98 ++++----- tools/config.R | 277 ++++++++++++++------------ tools/config/configure.R | 143 ++++++++++--- 55 files changed, 1241 insertions(+), 596 deletions(-)
Title: Moment Condition Based Estimation of Linear Dynamic Panel Data
Models
Description: Linear dynamic panel data modeling based on linear and
nonlinear moment conditions as proposed by
Holtz-Eakin, Newey, and Rosen (1988) <doi:10.2307/1913103>,
Ahn and Schmidt (1995) <doi:10.1016/0304-4076(94)01641-C>,
and Arellano and Bover (1995) <doi:10.1016/0304-4076(94)01642-D>.
Estimation of the model parameters relies on the Generalized
Method of Moments (GMM) and instrumental variables (IV) estimation,
numerical optimization (when nonlinear moment conditions are
employed) and the computation of closed form solutions (when
estimation is based on linear moment conditions). One-step,
two-step and iterated estimation is available. For inference
and specification
testing, Windmeijer (2005) <doi:10.1016/j.jeconom.2004.02.005>
and doubly corrected standard errors
(Hwang, Kang, Lee, 2021 <doi:10.1016/j.jeconom.2020.09.010>)
are available. Additionally, serial correlation tests, tests for
overidentification, and Wald tests are provided. Functions for
visualiz [...truncated...]
Author: Markus Fritsch [aut, cre],
Joachim Schnurbus [aut],
Andrew Adrian Yu Pua [aut]
Maintainer: Markus Fritsch <Markus.Fritsch@uni-Passau.de>
Diff between pdynmc versions 0.9.12 dated 2025-02-20 and 0.9.13 dated 2026-09-14
pdynmc-0.9.12/pdynmc/inst/doc/pdynmc-introLong.pdf |only pdynmc-0.9.12/pdynmc/inst/doc/pdynmc-introLong.pdf.asis |only pdynmc-0.9.12/pdynmc/man/NLIV.alt.Rd |only pdynmc-0.9.12/pdynmc/vignettes/pdynmc-introLong.pdf.asis |only pdynmc-0.9.13/pdynmc/DESCRIPTION | 12 pdynmc-0.9.13/pdynmc/MD5 | 42 - pdynmc-0.9.13/pdynmc/NAMESPACE | 166 +++--- pdynmc-0.9.13/pdynmc/NEWS.md | 27 pdynmc-0.9.13/pdynmc/R/pdynmc_NLIV.R | 330 +++++++++--- pdynmc-0.9.13/pdynmc/R/pdynmc_estFct.R | 10 pdynmc-0.9.13/pdynmc/R/pdynmc_fitMethods.R | 2 pdynmc-0.9.13/pdynmc/R/pdynmc_furtherHelperFcts.R | 147 +++++ pdynmc-0.9.13/pdynmc/README.md | 2 pdynmc-0.9.13/pdynmc/build/partial.rdb |binary pdynmc-0.9.13/pdynmc/build/vignette.rds |binary pdynmc-0.9.13/pdynmc/inst/CITATION | 8 pdynmc-0.9.13/pdynmc/inst/REFERENCES.bib | 21 pdynmc-0.9.13/pdynmc/inst/doc/pdynmc-intro.pdf |binary pdynmc-0.9.13/pdynmc/inst/doc/pdynmc-pres-in-a-nutshell.pdf |binary pdynmc-0.9.13/pdynmc/man/AH81.Rd |only pdynmc-0.9.13/pdynmc/man/NLIV.Rd | 13 pdynmc-0.9.13/pdynmc/man/NLIV_t.Rd |only pdynmc-0.9.13/pdynmc/man/pdynmc.Rd | 8 pdynmc-0.9.13/pdynmc/man/vcov.pdynmc.Rd | 2 pdynmc-0.9.13/pdynmc/vignettes/REFERENCES.bib | 6 25 files changed, 599 insertions(+), 197 deletions(-)
Title: Bindings to 'OpenCV' Computer Vision Library
Description: Exposes some of the available 'OpenCV' <https://opencv.org/> algorithms,
such as a QR code scanner, and edge, body or face detection. These can either be
applied to analyze static images, or to filter live video footage from a camera device.
Author: Jeroen Ooms [aut, cre] ,
Jan Wijffels [aut]
Maintainer: Jeroen Ooms <jeroenooms@gmail.com>
Diff between opencv versions 0.5.2 dated 2026-02-21 and 0.6.0 dated 2026-09-14
DESCRIPTION | 8 ++++---- MD5 | 22 +++++++++++----------- NEWS | 4 ++++ R/init.R | 2 +- R/xmldata.R | 2 +- configure | 20 ++++---------------- src/areas.cpp | 5 ----- src/effects.cpp | 8 -------- src/face.cpp | 8 -------- src/features.cpp | 7 +------ src/opencv_types.h | 16 +++++++--------- src/qrdetect.cpp | 4 ---- 12 files changed, 33 insertions(+), 73 deletions(-)
Title: Estimate Location-Scale Joint Models
Description: Estimation of mixed models including a subject-specific variance
that can be time- and covariate-dependent or defined for within- and
between-visit variability. In the joint modeling framework, the package
handles left truncation, interval censoring, and multistate models, and
allows a flexible dependence structure between competing events and the
longitudinal marker. Estimation is performed in a frequentist framework
using the Marquardt-Levenberg algorithm. Methods are described in
Courcoul et al. (2025) <doi:10.1002/sim.70244> and in Courcoul et al. (2026)
<doi:10.1002/bimj.70123>.
Author: Leonie Courcoul [aut, cre],
Antoine Barbieri [aut],
Helene Jacqmin-Gadda [aut]
Maintainer: Leonie Courcoul <courcoul.leonie498@gmail.com>
Diff between LSJM versions 0.1.0 dated 2026-08-04 and 0.1.1 dated 2026-09-14
DESCRIPTION | 6 ++-- MD5 | 46 ++++++++++++++++++------------------ NEWS.md | 7 ++++- R/dynpred.R | 4 ++- R/lsjm.R | 4 +-- R/plot.R | 2 - R/predict.R | 4 +-- R/ranef.R | 4 +-- R/surv_marg.R | 30 ++++++++++++++--------- R/surv_marg.lsjm_classicCR.R | 14 ++++++---- R/surv_marg.lsjm_classicIDM.R | 13 +++++----- R/surv_marg.lsjm_classicSingle.R | 8 +++--- R/surv_marg.lsjm_covDepCR.R | 14 ++++++---- R/surv_marg.lsjm_covDepIDM.R | 14 ++++++---- R/surv_marg.lsjm_covDepSingle.R | 9 +++---- R/surv_marg.lsjm_interintraCR.R | 14 ++++++---- R/surv_marg.lsjm_interintraIDM.R | 15 ++++++----- R/surv_marg.lsjm_interintraSingle.R | 7 +++-- man/dynpred.Rd | 4 ++- man/lsjm.Rd | 4 +-- man/plot.lsjm.Rd | 2 - man/predict.lsjm.Rd | 4 +-- man/ranef.Rd | 4 +-- man/survmarg.Rd | 30 ++++++++++++++--------- 24 files changed, 148 insertions(+), 115 deletions(-)
Title: Maps, Data and Methods Related to Guerry (1833) "Moral
Statistics of France"
Description: Contains maps of France in 1830 and multivariate datasets from A.-M. Guerry and others. Statistical and
graphic methods related to Guerry's "Moral Statistics of France" are used to understand Guerry's data and
illustrate methods. The goal is to facilitate the exploration and
development of statistical and graphic methods for multivariate data in a geospatial context of historical interest.
Author: Michael Friendly [aut, cre] ,
Stephane Dray [aut] ,
Roger Bivand [ctb],
Kathryn DuBois [ctb]
Maintainer: Michael Friendly <friendly@yorku.ca>
Diff between Guerry versions 1.8.3 dated 2023-10-24 and 1.8.5 dated 2026-09-14
DESCRIPTION | 35 +- MD5 | 72 +++-- NAMESPACE | 6 NEWS.md | 36 ++ R |only build/partial.rdb |binary build/vignette.rds |binary data/Guerry.RData |binary data/Guerry_ranks.RData |only data/gfrance.RData |binary data/gfrance85.RData |binary inst/WORDLIST | 25 ++ inst/doc/MultiSpat.R | 60 +++- inst/doc/MultiSpat.Rmd | 68 ++++- inst/doc/MultiSpat.html | 227 ++++++++++-------- inst/doc/guerry-multivariate.R | 48 ++- inst/doc/guerry-multivariate.Rmd | 39 ++- inst/doc/guerry-multivariate.html | 365 ++++++++++++++++-------------- inst/doc/guerry-sf-maps.R |only inst/doc/guerry-sf-maps.Rmd |only inst/doc/guerry-sf-maps.html |only man/Angeville.Rd | 211 ++++++++--------- man/Guerry-package.Rd | 194 ++++++++------- man/Guerry.Rd | 304 +++++++++++++----------- man/Guerry_ranks.Rd |only man/figures/Guerry-logo.png |binary man/figures/Guerry1833-instruction.jpg |only man/figures/README-ex-bivar1-1.png |binary man/figures/README-ex-bivar2-1.png |binary man/figures/README-gfrance85-labels-1.png |binary man/figures/corrgram-renderings.png |only man/figures/logo.png |only man/gfrance.Rd | 165 ++++++------- man/gfrance85.Rd | 136 +++++------ man/propensity.Rd | 79 +++--- vignettes/MultiSpat.Rmd | 68 ++++- vignettes/guerry-multivariate.Rmd | 39 ++- vignettes/guerry-sf-maps.Rmd |only vignettes/refs.bib | 23 + 39 files changed, 1292 insertions(+), 908 deletions(-)
Title: Tests for Same-Source of Toolmarks
Description: Implements two tests for same-source of toolmarks. The chumbley_non_random() test follows the paper "An Improved Version of a Tool Mark Comparison Algorithm" by Hadler and Morris (2017) <doi:10.1111/1556-4029.13640>. This is an extension of the Chumbley score as previously described in "Validation of Tool Mark Comparisons Obtained Using a Quantitative, Comparative, Statistical Algorithm" by Chumbley et al (2010) <doi:10.1111/j.1556-4029.2010.01424.x>. fixed_width_no_modeling() is based on correlation measures in a diamond shaped area of the toolmark as described in Hadler (2017).
Author: Jeremy Hadler [aut, cre],
Max Morris [ths],
Heike Hofmann [ctb]
Maintainer: Jeremy Hadler <hadler13@yahoo.com>
Diff between toolmaRk versions 0.0.1 dated 2018-01-16 and 0.0.2 dated 2026-09-14
DESCRIPTION | 12 - MD5 | 12 - R/chumbley-non-random.R | 316 ++++++++++++++-------------- R/data.R | 64 ++--- R/distance-threshold.R | 456 ++++++++++++++++++++--------------------- man/chumbley_non_random.Rd | 10 man/fixed_width_no_modeling.Rd | 30 +- 7 files changed, 451 insertions(+), 449 deletions(-)
Title: Truncated Harmonic Mean Estimator of the Marginal Likelihood for
Mixtures
Description: Implements the truncated harmonic mean estimator (THAMES)
of the reciprocal marginal likelihood for uni- and multivariate mixture
models using posterior samples and unnormalized log posterior values via
reciprocal importance sampling.
Metodiev, Irons, Perrot-Dockès, Latouche & Raftery (2025)
<doi:10.48550/arXiv.2504.21812>.
Author: Martin Metodiev [aut, cre, cph] ,
Nicholas J. Irons [aut] ,
Marie Perrot-Dockes [aut]
Maintainer: Martin Metodiev <m.metodiev@tutanota.com>
Diff between thamesmix versions 0.1.3 dated 2025-07-14 and 0.1.4 dated 2026-09-14
thamesmix-0.1.3/thamesmix/R/unformly_functions.R |only thamesmix-0.1.4/thamesmix/DESCRIPTION | 8 - thamesmix-0.1.4/thamesmix/MD5 | 28 ++-- thamesmix-0.1.4/thamesmix/NAMESPACE | 37 +++--- thamesmix-0.1.4/thamesmix/NEWS.md | 10 - thamesmix-0.1.4/thamesmix/R/compute_W_c_volB.R | 3 thamesmix-0.1.4/thamesmix/R/thames_mixtures.R | 59 ++++++---- thamesmix-0.1.4/thamesmix/R/uniformly_functions.R |only thamesmix-0.1.4/thamesmix/README.md | 2 thamesmix-0.1.4/thamesmix/build/vignette.rds |binary thamesmix-0.1.4/thamesmix/inst/doc/thames_mixtures_vignette.R | 4 thamesmix-0.1.4/thamesmix/inst/doc/thames_mixtures_vignette.Rmd | 8 - thamesmix-0.1.4/thamesmix/inst/doc/thames_mixtures_vignette.html | 31 ++--- thamesmix-0.1.4/thamesmix/man/runif_ellipsoid.Rd | 2 thamesmix-0.1.4/thamesmix/man/runif_sphere.Rd | 2 thamesmix-0.1.4/thamesmix/vignettes/thames_mixtures_vignette.Rmd | 8 - 16 files changed, 113 insertions(+), 89 deletions(-)
Title: Produces Publication-Ready Summary Tables
Description: Produces tables with descriptive statistics for continuous, categorical and dichotomous variables. It is largely based on the package 'gtsummary'; Sjoberg DD et al. (2021) <doi:10.32614/RJ-2021-053>.
Author: Saemi Schaer [aut],
Charlotte Micheloud [cre, aut]
Maintainer: Charlotte Micheloud <Charlotte.Micheloud@swisscancerinstitute.ch>
Diff between summarySCI versions 0.1.1 dated 2025-10-15 and 0.1.2 dated 2026-09-14
DESCRIPTION | 12 MD5 | 35 - NEWS.md | 7 R/define_globalvariables.R | 44 - R/helpers.R | 209 +++--- R/summaryByVisit.R | 54 - R/summaryLevels.R | 559 ++++++++-------- R/summaryTable.r | 1432 +++++++++++++++++++++++-------------------- build/vignette.rds |binary inst/doc/summaryByVisit.html | 15 inst/doc/summaryLevels.html | 17 inst/doc/summaryTable.Rmd | 600 +++++++++--------- inst/doc/summaryTable.html | 49 + man/geom_mean.Rd | 36 - man/get_labels.Rd | 40 - man/se.Rd | 36 - tests |only vignettes/summaryTable.Rmd | 600 +++++++++--------- 18 files changed, 1974 insertions(+), 1771 deletions(-)
Title: Learning Causal or Non-Causal Graphical Models Using Information
Theory
Description: Multivariate Information-based Inductive Causation, better known
by its acronym MIIC, is a causal discovery method, based on information
theory principles, which learns a large class of causal or non-causal
graphical models from purely observational data, while including the effects
of unobserved latent variables. Starting from a complete graph, the method
iteratively removes dispensable edges, by uncovering significant information
contributions from indirect paths, and assesses edge-specific confidences
from randomization of available data. The remaining edges are then oriented
based on the signature of causality in observational data. The recent more
interpretable MIIC extension (iMIIC) further distinguishes genuine causes
from putative and latent causal effects, while scaling to very large
datasets (hundreds of thousands of samples). Since the version 2.0, MIIC
also includes a temporal mode (tMIIC) to learn temporal causal graphs from
stationary time series data. MIIC has been appli [...truncated...]
Author: Franck Simon [aut, cre],
Ali Chemkhi [aut],
Tiziana Tocci [aut],
Nikita Lagrange [aut],
Orianne Debeaupuis [aut],
Louise Dupuis [aut],
Vincent Cabeli [aut],
Honghao Li [aut],
Marcel Ribeiro Dantas [aut],
Nadir Sella [aut],
Louis Verny [aut],
Severine [...truncated...]
Maintainer: Franck Simon <franck.simon@curie.fr>
Diff between miic versions 2.0.3 dated 2024-09-17 and 2.0.4 dated 2026-09-14
DESCRIPTION | 13 +++++-- MD5 | 17 +++++---- R/data.R | 6 +-- build |only man/cosmicCancer.Rd | 2 - man/cosmicCancer_stateOrder.Rd | 2 - man/hematoData.Rd | 2 - src/biconnected_component.cpp | 7 ++- src/biconnected_component.h | 1 src/computation_cache.h | 72 +++++++++++++++++++++++++++++++++++++---- 10 files changed, 95 insertions(+), 27 deletions(-)
Title: Vectorised Computation of P-Values and Their Supports for
Several Discrete Statistical Tests
Description: Provides vectorised functions for computing p-values of various
common discrete statistical tests, as described e.g. in Agresti (2002)
<doi:10.1002/0471249688>, including their distributions. Exact and
approximate computation methods are provided. For exact ones, several
procedures of determining two-sided p-values are included, which are
outlined in more detail in Hirji (2006) <doi:10.1201/9781420036190>.
Author: Florian Junge [cre, aut] ,
Christina Kihn [aut],
Sebastian Doehler [ctb] ,
Guillermo Durand [ctb]
Maintainer: Florian Junge <diso.fbmn@h-da.de>
Diff between DiscreteTests versions 0.5.1 dated 2026-09-02 and 0.5.2 dated 2026-09-14
DESCRIPTION | 8 ++++---- MD5 | 10 +++++----- NEWS.md | 7 +++++++ R/permutation.r | 6 +++--- R/wilcoxon.R | 7 ++++--- man/perm_test_pv.Rd | 6 +++--- 6 files changed, 26 insertions(+), 18 deletions(-)
Title: Scalable Statistical Computing with HDF5-Backed Matrices
Description: A framework for 'scalable' statistical computing on large on-disk
matrices stored in 'HDF5' files. It provides efficient block-wise
implementations of core linear-algebra operations (matrix multiplication,
SVD, PCA, and QR decomposition) written in C++ and R, along with building
blocks from which higher-level multivariate methods such as canonical
correlation analysis can be constructed. These building blocks are designed
not only for direct use, but also as foundational components for developing
new statistical methods that must operate on datasets too large to fit in
memory. The package supports data provided either as 'HDF5' files or
standard R objects, and is intended for high-dimensional applications such
as 'omics' and precision-medicine research.
Author: Dolors Pelegri-Siso [aut, cre] ,
Juan R. Gonzalez [aut]
Maintainer: Dolors Pelegri-Siso <dolors.pelegri@isglobal.org>
Diff between BigDataStatMeth versions 2.0.4 dated 2026-07-19 and 2.0.5 dated 2026-09-14
DESCRIPTION | 8 MD5 | 131 ++++++------- NAMESPACE | 2 NEWS.md | 42 ++++ R/HDF5Matrix_core.R | 42 ++++ R/HDF5Matrix_create.R | 8 R/HDF5Matrix_multiply.R | 2 R/HDF5Matrix_op_decompositions.R | 165 ++++++++++++++++ R/HDF5Matrix_op_omics.R | 197 +++++++++++++++++--- R/RcppExports.R | 50 +++++ R/S3_bind.R | 4 R/S3_correlation.R | 2 R/S3_decompositions.R | 149 ++++++++++++++- R/S3_factorizations.R | 6 R/S3_normalize.R | 2 R/S3_omics.R | 82 +++++--- R/S3_standalone.R | 76 +++++++ inst/doc/BigDataStatMeth.R | 12 + inst/doc/BigDataStatMeth.Rmd | 72 ++++++- inst/doc/BigDataStatMeth.html | 150 ++++++++++++--- inst/include/BigDataStatMeth.hpp | 28 ++ inst/include/Utilities/SystemInfo.hpp | 15 + inst/include/Utilities/performance |only inst/include/Utilities/system-utils.hpp | 107 +++++++++- inst/include/hdf5Algebra/crossprod.hpp | 9 inst/include/hdf5Algebra/matrixCorrelation.hpp | 38 ++- inst/include/hdf5Algebra/matrixNormalization.hpp | 17 + inst/include/hdf5Algebra/matrixPCA.hpp | 7 inst/include/hdf5Algebra/matrixSdMean.hpp | 134 +++++++++++++ inst/include/hdf5Algebra/matrixSubstract.hpp | 106 +++++----- inst/include/hdf5Algebra/matrixSum.hpp | 106 +++++----- inst/include/hdf5Algebra/matrixSvd.hpp | 77 +++++++ inst/include/hdf5Algebra/matrixSvdBlock.hpp | 11 + inst/include/hdf5Algebra/tcrossprod.hpp | 13 + inst/include/hdf5Omics/hdf5RemoveMAF.hpp | 50 ++++- inst/include/hdf5Utilities/hdf5Datasets.hpp | 108 ++++++++-- inst/include/hdf5Utilities/hdf5DatasetsInternal.hpp | 22 +- inst/include/hdf5Utilities/hdf5Diagonal.hpp | 4 inst/include/hdf5Utilities/hdf5Dims.hpp | 54 ++++- inst/include/hdf5Utilities/hdf5Files.hpp | 19 + inst/include/hdf5Utilities/hdf5ImputeData.hpp | 14 - inst/include/hdf5Utilities/hdf5RemoveLowData.hpp | 59 ++++- man/cbind.HDF5Matrix.Rd | 2 man/chol.HDF5Matrix.Rd | 2 man/cor.HDF5Matrix.Rd | 2 man/filter_low_coverage.Rd | 34 ++- man/filter_maf.Rd | 21 +- man/hdf5_remove.Rd |only man/impute_snps.Rd | 16 + man/prcomp.HDF5Matrix.Rd | 33 +++ man/qr.HDF5Matrix.Rd | 2 man/rbind.HDF5Matrix.Rd | 2 man/rcpp_hdf5_remove_dataset.Rd |only man/scale.Rd | 2 man/solve.HDF5Matrix.Rd | 2 man/svd.HDF5Matrix.Rd | 101 ++++++++++ man/svd_auto_threshold.Rd |only src/RcppExports.cpp | 82 ++++++++ src/hdf5_applyFunction.cpp | 18 + src/hdf5_r6_minimal.cpp | 59 +++++ src/hdf5_r6_multiply.cpp | 49 +++- src/hdf5_r6_normalize.cpp | 4 src/hdf5_r6_omics.cpp | 77 +++++-- src/hdf5_r6_pca.cpp | 13 + src/hdf5_r6_svd.cpp | 41 +++- src/hdf5_r6_write.cpp | 2 src/hdf5_systemInfo.cpp | 74 +++++++ vignettes/BigDataStatMeth.Rmd | 72 ++++++- 68 files changed, 2435 insertions(+), 475 deletions(-)
More information about BigDataStatMeth at CRAN
Permanent link
Title: Genome-Wide Nucleic Acid Melting Temperature Profiling and
Multi-Omics Integration
Description: Accurate calculation of nucleic acid melting temperature (Tm) is fundamental to many molecular biology applications, and this software scales Tm analysis from individual sequences to genome‑wide thermodynamic profiling. This package extends Tm analysis from simple sequence level computation to comprehensive genome-wide thermodynamic profiling. It takes multiple input formats including sequence strings, FASTA files, genomic coordinates. The implementation provides three Tm calculation methods: the Wallace rule (Thein & Wallace, 1986), empirical GC‑content formulas (Marmur, 1962; Schildkraut, 2010; Wetmur, 1991; Untergasser, 2012; von Ahsen, 2001), and nearest‑neighbor thermodynamics (Breslauer, 1986; Sugimoto, 1996; Allawi, 1998; SantaLucia, 2004; Freier, 1986; Xia, 1998; Chen, 2012; Bommarito, 2000; Turner, 2010; Sugimoto, 1995; Allawi, 1997; SantaLucia, 2005; Zuber, 2022; Ghosh, 2020, 2023). Nearest-neighbor parameter sets are provided for DNA, RNA and RNA/DNA hybrid duplexes. The [...truncated...]
Author: Junhui Li [cre, aut] ,
Lihua Julie Zhu [aut]
Maintainer: Junhui Li <ljh.biostat@gmail.com>
Diff between TmCalculator versions 1.0.9 dated 2026-08-28 and 1.1.0 dated 2026-09-14
TmCalculator-1.0.9/TmCalculator/man/c2s.Rd |only TmCalculator-1.0.9/TmCalculator/man/gc.Rd |only TmCalculator-1.1.0/TmCalculator/DESCRIPTION | 23 TmCalculator-1.1.0/TmCalculator/MD5 | 128 + TmCalculator-1.1.0/TmCalculator/NAMESPACE | 10 TmCalculator-1.1.0/TmCalculator/NEWS.md | 244 ++- TmCalculator-1.1.0/TmCalculator/R/GC.R | 153 +- TmCalculator-1.1.0/TmCalculator/R/RcppExports.R |only TmCalculator-1.1.0/TmCalculator/R/TmCalculator-package.R | 2 TmCalculator-1.1.0/TmCalculator/R/chem_correct.R | 41 TmCalculator-1.1.0/TmCalculator/R/coor_to_genomic_ranges.R | 54 TmCalculator-1.1.0/TmCalculator/R/generate_complement.R | 52 TmCalculator-1.1.0/TmCalculator/R/integrate_granges.R | 225 +++ TmCalculator-1.1.0/TmCalculator/R/make_genomiccoord.R | 91 - TmCalculator-1.1.0/TmCalculator/R/plot_genome_track.R | 48 TmCalculator-1.1.0/TmCalculator/R/print.TmCalculator.R | 23 TmCalculator-1.1.0/TmCalculator/R/salt_correction.R | 70 - TmCalculator-1.1.0/TmCalculator/R/sysdata.rda |binary TmCalculator-1.1.0/TmCalculator/R/tm_calculate.R | 64 TmCalculator-1.1.0/TmCalculator/R/tm_gc.R | 152 +- TmCalculator-1.1.0/TmCalculator/R/tm_nn.R | 684 +++++++-- TmCalculator-1.1.0/TmCalculator/R/tm_wallace.R | 96 + TmCalculator-1.1.0/TmCalculator/R/to_genomic_ranges.R | 173 +- TmCalculator-1.1.0/TmCalculator/R/utils.R | 22 TmCalculator-1.1.0/TmCalculator/R/zzz.R | 187 ++ TmCalculator-1.1.0/TmCalculator/README.md | 2 TmCalculator-1.1.0/TmCalculator/build/vignette.rds |binary TmCalculator-1.1.0/TmCalculator/inst/doc/genome_wide_tm_ecoli.R | 208 ++- TmCalculator-1.1.0/TmCalculator/inst/doc/genome_wide_tm_ecoli.Rmd | 298 +++- TmCalculator-1.1.0/TmCalculator/inst/doc/genome_wide_tm_ecoli.html | 685 ++++++---- TmCalculator-1.1.0/TmCalculator/inst/doc/hg38_performance_parallel.R |only TmCalculator-1.1.0/TmCalculator/inst/doc/hg38_performance_parallel.Rmd |only TmCalculator-1.1.0/TmCalculator/inst/doc/hg38_performance_parallel.html |only TmCalculator-1.1.0/TmCalculator/inst/doc/tool_comparison.R |only TmCalculator-1.1.0/TmCalculator/inst/doc/tool_comparison.Rmd |only TmCalculator-1.1.0/TmCalculator/inst/doc/tool_comparison.html |only TmCalculator-1.1.0/TmCalculator/inst/doc/window_size_sensitivity.R |only TmCalculator-1.1.0/TmCalculator/inst/doc/window_size_sensitivity.Rmd |only TmCalculator-1.1.0/TmCalculator/inst/doc/window_size_sensitivity.html |only TmCalculator-1.1.0/TmCalculator/inst/extdata/bench_parallel_cluster.csv |only TmCalculator-1.1.0/TmCalculator/inst/extdata/bench_parallel_strategy.csv |only TmCalculator-1.1.0/TmCalculator/inst/extdata/bench_parallel_strategy_tasks.csv.gz |only TmCalculator-1.1.0/TmCalculator/inst/extdata/crosstool_bench.csv |only TmCalculator-1.1.0/TmCalculator/inst/extdata/crosstool_consistency.csv |only TmCalculator-1.1.0/TmCalculator/inst/extdata/nn_params_provenance_v1.1.0.md |only TmCalculator-1.1.0/TmCalculator/inst/scripts/bench_crosstool.R |only TmCalculator-1.1.0/TmCalculator/inst/scripts/bench_methods.R |only TmCalculator-1.1.0/TmCalculator/inst/scripts/bench_parallel_cluster.R |only TmCalculator-1.1.0/TmCalculator/inst/scripts/bench_parallel_cluster.lsf |only TmCalculator-1.1.0/TmCalculator/inst/scripts/bench_parallel_strategy.R |only TmCalculator-1.1.0/TmCalculator/inst/scripts/bench_worker.R |only TmCalculator-1.1.0/TmCalculator/inst/scripts/bench_worker.py |only TmCalculator-1.1.0/TmCalculator/inst/scripts/benchmark_hg38.R |only TmCalculator-1.1.0/TmCalculator/inst/scripts/benchmark_tools.R |only TmCalculator-1.1.0/TmCalculator/inst/scripts/find_isoGC_pairs.R |only TmCalculator-1.1.0/TmCalculator/inst/scripts/make_figure2.R |only TmCalculator-1.1.0/TmCalculator/inst/scripts/make_figure3.R |only TmCalculator-1.1.0/TmCalculator/inst/scripts/make_figure4.R |only TmCalculator-1.1.0/TmCalculator/inst/scripts/make_figure5.R |only TmCalculator-1.1.0/TmCalculator/inst/scripts/make_figure5_two_env.R |only TmCalculator-1.1.0/TmCalculator/inst/scripts/make_table6.R |only TmCalculator-1.1.0/TmCalculator/inst/scripts/plot_crosstool.R |only TmCalculator-1.1.0/TmCalculator/inst/scripts/setup_cluster_env.sh |only TmCalculator-1.1.0/TmCalculator/inst/vignette-source/genome_wide_tm_ecoli.Rmd | 438 +++++- TmCalculator-1.1.0/TmCalculator/inst/vignette-source/hg38_performance_parallel.Rmd |only TmCalculator-1.1.0/TmCalculator/inst/vignette-source/tool_comparison.Rmd |only TmCalculator-1.1.0/TmCalculator/inst/vignette-source/window_size_sensitivity.Rmd |only TmCalculator-1.1.0/TmCalculator/man/TmCalculator-package.Rd | 2 TmCalculator-1.1.0/TmCalculator/man/cash-.TmCalculator.Rd |only TmCalculator-1.1.0/TmCalculator/man/coor_to_genomic_ranges.Rd | 13 TmCalculator-1.1.0/TmCalculator/man/dot-chem_correct_vec.Rd |only TmCalculator-1.1.0/TmCalculator/man/dot-gc_vec.Rd |only TmCalculator-1.1.0/TmCalculator/man/dot-salt_correct_vec.Rd |only TmCalculator-1.1.0/TmCalculator/man/gc_content.Rd |only TmCalculator-1.1.0/TmCalculator/man/integrate_granges.Rd | 123 + TmCalculator-1.1.0/TmCalculator/man/make_genomiccoord.Rd | 8 TmCalculator-1.1.0/TmCalculator/man/plot_genome_track.Rd | 22 TmCalculator-1.1.0/TmCalculator/man/tm_calculate.Rd | 68 TmCalculator-1.1.0/TmCalculator/man/tm_nn.Rd | 156 +- TmCalculator-1.1.0/TmCalculator/man/tm_wallace.Rd | 17 TmCalculator-1.1.0/TmCalculator/src |only TmCalculator-1.1.0/TmCalculator/tests/testthat/test_gc_vec.R |only TmCalculator-1.1.0/TmCalculator/tests/testthat/test_integrate_weight.R |only TmCalculator-1.1.0/TmCalculator/tests/testthat/test_nn_rc_completion.R |only TmCalculator-1.1.0/TmCalculator/tests/testthat/test_tm_nn_rcpp.R |only TmCalculator-1.1.0/TmCalculator/tests/testthat/test_user_nn_table.R |only TmCalculator-1.1.0/TmCalculator/tests/testthat/test_wallace_length.R |only TmCalculator-1.1.0/TmCalculator/vignettes/genome_wide_tm_ecoli.Rmd | 298 +++- TmCalculator-1.1.0/TmCalculator/vignettes/hg38_performance_parallel.Rmd |only TmCalculator-1.1.0/TmCalculator/vignettes/tool_comparison.Rmd |only TmCalculator-1.1.0/TmCalculator/vignettes/window_size_sensitivity.Rmd |only 91 files changed, 3760 insertions(+), 1120 deletions(-)
More information about SensoryDataSets at CRAN
Permanent link
Title: Translates an R Function to a C++ Function
Description: Enable translation of a tiny subset of R to C++. The user has to define a R function which gets translated. For a full list of possible functions check the documentation. After translation an R function is returned which is a shallow wrapper around the C++ code. Alternatively an external pointer to the C++ function is returned to the user. The intention of the package is to generate fast functions which can be used as ode-system or during optimization.
Author: Kraemer Konrad [aut, cre]
Maintainer: Kraemer Konrad <konrad_kraemer@yahoo.de>
This is a re-admission after prior archival of version 0.3.2 dated 2023-12-09
Diff between ast2ast versions 0.3.2 dated 2023-12-09 and 1.0 dated 2026-09-14
ast2ast-0.3.2/ast2ast/R/codelinesclass.R |only ast2ast-0.3.2/ast2ast/R/compiling.R |only ast2ast-0.3.2/ast2ast/R/jacobian.R |only ast2ast-0.3.2/ast2ast/R/masterclass.R |only ast2ast-0.3.2/ast2ast/R/node_classes.R |only ast2ast-0.3.2/ast2ast/R/translate.R |only ast2ast-0.3.2/ast2ast/inst/include/etr_bits/add.hpp |only ast2ast-0.3.2/ast2ast/inst/include/etr_bits/allocation.hpp |only ast2ast-0.3.2/ast2ast/inst/include/etr_bits/checks_na_inf.hpp |only ast2ast-0.3.2/ast2ast/inst/include/etr_bits/colon.hpp |only ast2ast-0.3.2/ast2ast/inst/include/etr_bits/comparison.hpp |only ast2ast-0.3.2/ast2ast/inst/include/etr_bits/concatenate.hpp |only ast2ast-0.3.2/ast2ast/inst/include/etr_bits/conversion.hpp |only ast2ast-0.3.2/ast2ast/inst/include/etr_bits/distri.hpp |only ast2ast-0.3.2/ast2ast/inst/include/etr_bits/divide.hpp |only ast2ast-0.3.2/ast2ast/inst/include/etr_bits/exponent.hpp |only ast2ast-0.3.2/ast2ast/inst/include/etr_bits/header.hpp |only ast2ast-0.3.2/ast2ast/inst/include/etr_bits/interpolation.hpp |only ast2ast-0.3.2/ast2ast/inst/include/etr_bits/mul.hpp |only ast2ast-0.3.2/ast2ast/inst/include/etr_bits/pointer_storage.hpp |only ast2ast-0.3.2/ast2ast/inst/include/etr_bits/print.hpp |only ast2ast-0.3.2/ast2ast/inst/include/etr_bits/subset.hpp |only ast2ast-0.3.2/ast2ast/inst/include/etr_bits/subsetassign.hpp |only ast2ast-0.3.2/ast2ast/inst/include/etr_bits/subtract.hpp |only ast2ast-0.3.2/ast2ast/inst/include/etr_bits/trigo.hpp |only ast2ast-0.3.2/ast2ast/inst/include/etr_bits/util.hpp |only ast2ast-0.3.2/ast2ast/inst/include/etr_bits/vec.hpp |only ast2ast-0.3.2/ast2ast/inst/include/type_ast2ast.hpp |only ast2ast-0.3.2/ast2ast/inst/tinytest/test_all.R |only ast2ast-0.3.2/ast2ast/man/J.rd |only ast2ast-1.0/ast2ast/DESCRIPTION | 29 ast2ast-1.0/ast2ast/MD5 | 185 + ast2ast-1.0/ast2ast/NAMESPACE | 16 ast2ast-1.0/ast2ast/NEWS | 20 ast2ast-1.0/ast2ast/R/CreateNodeAST.R |only ast2ast-1.0/ast2ast/R/FunctionRegistry.R |only ast2ast-1.0/ast2ast/R/HandleLiterals.R |only ast2ast-1.0/ast2ast/R/Nodes.R |only ast2ast-1.0/ast2ast/R/RcppExports.R |only ast2ast-1.0/ast2ast/R/Translate.R |only ast2ast-1.0/ast2ast/R/TraverseNodeAST.R |only ast2ast-1.0/ast2ast/R/TypeInference.R |only ast2ast-1.0/ast2ast/R/TypeInferenceReturn.R |only ast2ast-1.0/ast2ast/R/TypeParser.R |only ast2ast-1.0/ast2ast/R/Utils.R |only ast2ast-1.0/ast2ast/build/vignette.rds |binary ast2ast-1.0/ast2ast/inst/doc/DetailedDocumentation.R | 520 +--- ast2ast-1.0/ast2ast/inst/doc/DetailedDocumentation.Rmd | 879 +++----- ast2ast-1.0/ast2ast/inst/doc/DetailedDocumentation.html | 1071 ++++------ ast2ast-1.0/ast2ast/inst/doc/InformationForPackageAuthors.R | 61 ast2ast-1.0/ast2ast/inst/doc/InformationForPackageAuthors.Rmd | 441 ---- ast2ast-1.0/ast2ast/inst/doc/InformationForPackageAuthors.html | 609 +---- ast2ast-1.0/ast2ast/inst/doc/InnerFunctionsAndTypes.R |only ast2ast-1.0/ast2ast/inst/doc/InnerFunctionsAndTypes.Rmd |only ast2ast-1.0/ast2ast/inst/doc/InnerFunctionsAndTypes.html |only ast2ast-1.0/ast2ast/inst/include/ast2ast_types.h |only ast2ast-1.0/ast2ast/inst/include/etr.hpp | 49 ast2ast-1.0/ast2ast/inst/include/etr_bits/Allocation.hpp |only ast2ast-1.0/ast2ast/inst/include/etr_bits/Calculations |only ast2ast-1.0/ast2ast/inst/include/etr_bits/Calculations.hpp |only ast2ast-1.0/ast2ast/inst/include/etr_bits/Collection.hpp |only ast2ast-1.0/ast2ast/inst/include/etr_bits/Core |only ast2ast-1.0/ast2ast/inst/include/etr_bits/Core.hpp |only ast2ast-1.0/ast2ast/inst/include/etr_bits/Derivatives.hpp |only ast2ast-1.0/ast2ast/inst/include/etr_bits/Functionals.hpp |only ast2ast-1.0/ast2ast/inst/include/etr_bits/Interpolation.hpp |only ast2ast-1.0/ast2ast/inst/include/etr_bits/Optimization |only ast2ast-1.0/ast2ast/inst/include/etr_bits/Optimization.hpp |only ast2ast-1.0/ast2ast/inst/include/etr_bits/Subsetting |only ast2ast-1.0/ast2ast/inst/include/etr_bits/Subsetting.hpp |only 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ast2ast-1.0/ast2ast/inst/tinytest/test_infer_errors.R |only ast2ast-1.0/ast2ast/inst/tinytest/test_infer_return.R |only ast2ast-1.0/ast2ast/inst/tinytest/test_infer_types.R |only ast2ast-1.0/ast2ast/inst/tinytest/test_inner_functions.R |only ast2ast-1.0/ast2ast/inst/tinytest/test_iterators.R |only ast2ast-1.0/ast2ast/inst/tinytest/test_jacobian_dsl.R |only ast2ast-1.0/ast2ast/inst/tinytest/test_lbfgsb_dsl.R |only ast2ast-1.0/ast2ast/inst/tinytest/test_map.R |only ast2ast-1.0/ast2ast/inst/tinytest/test_new_math_fns.R |only ast2ast-1.0/ast2ast/inst/tinytest/test_new_type.R |only ast2ast-1.0/ast2ast/inst/tinytest/test_numeric_methods.R |only ast2ast-1.0/ast2ast/inst/tinytest/test_pso_dsl.R |only ast2ast-1.0/ast2ast/inst/tinytest/test_reduce_filter.R |only ast2ast-1.0/ast2ast/inst/tinytest/test_sort_args.R |only ast2ast-1.0/ast2ast/inst/tinytest/test_subsetting.R |only ast2ast-1.0/ast2ast/inst/tinytest/test_translate.R |only ast2ast-1.0/ast2ast/inst/tools |only ast2ast-1.0/ast2ast/man/translate.Rd | 586 +++-- ast2ast-1.0/ast2ast/src |only ast2ast-1.0/ast2ast/tests/tinytest.R | 4 ast2ast-1.0/ast2ast/vignettes/CppCode.png |only ast2ast-1.0/ast2ast/vignettes/DetailedDocumentation.Rmd | 879 +++----- ast2ast-1.0/ast2ast/vignettes/InformationForPackageAuthors.Rmd | 441 ---- ast2ast-1.0/ast2ast/vignettes/InnerFunctionsAndTypes.Rmd |only 110 files changed, 2447 insertions(+), 3343 deletions(-)
Title: Longitudinal Sports Analytics Asset and Workload Feature
Processing
Description: A synthetic, longitudinal athletic dataset generated through a
transparent, rule-based simulation engine. Captures individual activity
sessions across multiple athletes, environmental conditions, and physiological
responses. Specifically designed as an alternative to legacy teaching
datasets by introducing realistic hierarchical repeated measures, complex
two-way covariate interactions, and a deliberate Missing Not At Random
(MNAR) tracking mechanism suitable for advanced imputation workflows. Methodologies
implemented are based on van Buuren (2018) <doi:10.1201/9780429492259>
and Bates et al. (2015) <doi:10.18637/jss.v067.i01>.
Author: Mohammad Abbas [aut, cre]
Maintainer: Mohammad Abbas <ma.abbas3107@gmail.com>
Diff between sportsfeatures versions 0.1.0 dated 2026-06-30 and 0.2.0 dated 2026-09-14
DESCRIPTION | 6 +++--- MD5 | 14 +++++++------- R/data.R | 23 ++++++++++++++++++++--- build/partial.rdb |binary data/sports_features.rda |binary data/sports_features_missing.rda |binary man/sports_features.Rd | 19 ++++++++++++++++++- man/sports_features_missing.Rd | 2 +- 8 files changed, 49 insertions(+), 15 deletions(-)
More information about sportsfeatures at CRAN
Permanent link
Title: Drawing Chinese National and Historical Flags with 'ggplot2'
Description: Provides programmatic implementations for drawing
Chinese national and historical flags using analytic geometry and
'ggplot2'-based vector graphics. Flag designs are constructed
entirely from geometric primitives such as polygons and rectangles,
without relying on external image files. The package is intended
for educational demonstration, reproducible visualization, and
procedural graphics in R.
Author: Zhaoshuo Liu [aut, cre]
Maintainer: Zhaoshuo Liu <liuzhaoshuo1997@outlook.com>
Diff between ggChinaFlag versions 0.3.0 dated 2026-07-14 and 0.4.0 dated 2026-09-14
DESCRIPTION | 6 - MD5 | 25 ++++-- NAMESPACE | 2 NEWS.md | 14 +++ R/flag_interface.R | 155 +++++++++++++++++++++++++++++-------------- R/package_logo.R |only R/plot_military.R |only R/plot_organization.R |only man/FlagStorage.Rd | 15 ++-- man/plotCNFlag.Rd | 17 +++- man/plot_CYLC.Rd |only man/plot_Han18Star.Rd | 37 +++++++++- man/plot_P.R.CHINA_flag.Rd | 30 ++++++++ man/plot_PLA.Rd |only man/plot_ROC_Beiyang_flag.Rd | 30 ++++++++ man/plot_ROC_KMT_flag.Rd | 31 ++++++++ 16 files changed, 284 insertions(+), 78 deletions(-)
Title: Read and Process 'FPOD' and 'CPOD' Data
Description: Read 'FPOD' and 'CPOD' data into 'R' directly from the
'FPOD' data files (i.e. .CP1, .CP3, .FP1 and .FP3 files). The 'FPOD' data
files contain binary data, so they can't trivially be read into 'R' using the
usual approach, e.g. fread() or read.csv(). This package decodes the binary
data and imports all the data in one go (i.e. header/metadata, clicks,
'KERNO' classifications, environmental data and pseudo-WAV data). It is then
trivial to aggregate data as you please, e.g. detection-positive-minutes per
time block. The advantage of handling data processing in 'R' is a long topic,
but suffice it to say that it 1) simplifies things (many fewer steps, as
different vars have to be exported in multiple goes in the official 'FPOD'
app), and more importantly, 2) makes data processing transparent and
reproducible.
References: Pirotta et al. 2014 <doi:10.1111/1365-2435.12146>.
Author: Andre Moan [aut, cre, cph]
Maintainer: Andre Moan <andre.moan@hi.no>
Diff between fpod versions 1.0.1 dated 2026-05-12 and 1.0.2 dated 2026-09-14
DESCRIPTION | 8 ++-- MD5 | 10 ++--- NEWS.md | 6 ++- R/fp_read.R | 4 +- inst/doc/advanced-usage.html | 77 +++++++++++++++++++++---------------------- inst/doc/fpod.html | 8 ++-- 6 files changed, 59 insertions(+), 54 deletions(-)
Title: Extended RC Models for Contingency Tables
Description: Maximum likelihood estimation of an extended class of row-column (RC) association models for two-dimensional contingency tables, which are formulated by a condition of reduced rank on a matrix of extended association parameters; see Forcina (2019) <doi:10.48550/arXiv.1910.13848>. These parameters are defined by choosing the logit type for the row and column variables among four different options and a transformation derived from suitable divergence measures.
Author: Francesco Bartolucci [aut, cre],
Antonio Forcina [aut]
Maintainer: Francesco Bartolucci <francesco.bartolucci@unipg.it>
Diff between extRC versions 1.2 dated 2020-10-10 and 1.3 dated 2026-09-14
DESCRIPTION | 22 +++++++++++++++------- MD5 | 10 +++++----- man/MatIn.Rd | 2 +- man/plot.Rd | 2 +- man/print.Rd | 2 +- man/summary.Rd | 2 +- 6 files changed, 24 insertions(+), 16 deletions(-)
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2019-08-27 2019.08.26
Title: Analyzing Revisions in Real-Time Time Series Vintages
Description: Analyzes revisions in real-time time series vintages. The
package converts between wide revision triangles and tidy long
vintages, extracts selected releases, computes revision series,
visualizes vintage paths, and summarizes revision properties such as
bias, dispersion, autocorrelation, and news-noise diagnostics. It
also identifies efficient releases and estimates state-space models
for revision nowcasting. Methods are based on Howrey (1978)
<doi:10.2307/1924972>, Jacobs and Van Norden (2011)
<doi:10.1016/j.jeconom.2010.04.010>, and Kishor and Koenig (2012)
<doi:10.1198/jbes.2010.08169>.
Author: Marc Burri [aut, cre, cph] ,
Philipp Wegmueller [aut, cph]
Maintainer: Marc Burri <marc.burri91@gmail.com>
Diff between reviser versions 0.3.0 dated 2026-09-02 and 0.3.1 dated 2026-09-14
DESCRIPTION | 10 +-- MD5 | 12 ++-- NAMESPACE | 4 - NEWS.md | 14 +++++ R/kk.R | 131 +++++++++++++++++++++++++++++++++++++++++++++-- R/reviser-package.R | 1 tests/testthat/test-kk.R | 107 ++++++++++++++++++++++++++++++++++++++ 7 files changed, 258 insertions(+), 21 deletions(-)
Title: Arc-Length Statistics: Goodness of Fit, Distributions and a
Bayesian Test
Description: Inference from the arc length of statistical functions. Three tools share one pure-C
back-end: a goodness-of-fit test based on the arc length of the probability plot, with an analytic
saddlepoint null and sensitivity to local density structure that the empirical-distribution tests
miss; two constructions that build a distribution from the arc length of its defining curve, the
arc-length generator and the quantile arc-length family estimated by L-moments; and a Bayesian
nonparametric arc-length goodness-of-fit test on the Dirichlet-process posterior. The same C sources
back the 'Python' package 'arcstat'.
Author: M. Theodor Loots [aut, cre]
Maintainer: M. Theodor Loots <theo.loots@gmail.com>
Diff between arcstat versions 0.2.0 dated 2026-09-11 and 0.3.0 dated 2026-09-14
DESCRIPTION | 6 +- MD5 | 19 ++++--- NAMESPACE | 2 NEWS.md | 27 ++++++++++ R/arcstat.R | 41 +++++++++++++++ man/al_band_model_star.Rd |only man/al_scale.Rd | 7 ++ man/al_scale_raw.Rd |only src/arcdistc.c | 115 ++++++++++++++++++++++++++++++++++++++++++- src/arcdistc.h | 3 + src/init.c | 2 tests/testthat/test-arclen.R |only 12 files changed, 210 insertions(+), 12 deletions(-)
Title: Facilities for Simulating from ODE-Based Models
Description: Facilities for running simulations from ordinary
differential equation ('ODE') models, such as pharmacometrics and other
compartmental models. A compilation manager translates the ODE model
into C, compiles it, and dynamically loads the object code into R for
improved computational efficiency. An event table object facilitates
the specification of complex dosing regimens (optional) and sampling
schedules. NB: The use of this package requires both C and
Fortran compilers, for details on their use with R please see
Section 6.3, Appendix A, and Appendix D in the "R Administration and
Installation" manual. Also the code is mostly released under GPL. The
'VODE' and 'LSODA' are in the public domain. The vendored 'SUNDIALS'
'CVODE' sources and headers are released under the BSD-3-Clause license.
The information is available in the inst/COPYRIGHTS.
Author: Matthew L. Fidler [aut, cre] ,
Wenping Wang [aut],
Aaron Collier [ctb] ,
Alan Hindmarsh [ctb],
Arun Srinivasan [ctb],
Ashley Crawford [ctb] ,
Awad H. Al-Mohy [ctb],
Bill Denney [ctb] ,
Cleve Moler [ctb],
Cody J. Balos [ctb] ,
Dan Shumaker [ctb] ,
Dan [...truncated...]
Maintainer: Matthew L. Fidler <matthew.fidler@gmail.com>
Diff between rxode2 versions 5.1.6 dated 2026-08-04 and 5.1.7 dated 2026-09-14
DESCRIPTION | 20 MD5 | 723 - NAMESPACE | 152 NEWS.md | 2485 +++ R/RcppExports.R | 130 R/adjoint.R | 32 R/adjointDiscrete.R | 21 R/assert.R | 308 R/build.R | 41 R/confint.R | 296 R/confintSummary.R |only R/d.R | 174 R/dde.R | 171 R/dsl.R | 24 R/err-foceiBase.R | 2 R/err-sim.R | 26 R/err.R | 193 R/etNew.R | 25 R/eventSens.R | 328 R/evidPush.R | 11 R/forder.R | 18 R/indLin.R | 500 R/intern.R | 53 R/linMod.R | 4 R/lotriCompat.R |only R/mix.R | 2 R/mu-cov-downgrade.R | 7 R/mu.R | 51 R/odeToLin.R | 307 R/parseFuns.R | 45 R/piping-ini.R | 199 R/piping-model.R | 143 R/piping.R | 79 R/plot.R | 19 R/prior-sim.R |only R/priorDensity.R |only R/rudf.R | 52 R/rxCbindStudyIndividual.R | 2 R/rxIndLin.R | 156 R/rxJacobian.R | 59 R/rxLinCmt.R | 48 R/rxMemoryEstimate.R | 204 R/rxOom.R | 457 R/rxOptExpr.R | 414 R/rxPrune.R | 28 R/rxSymInv.R | 146 R/rxUiBlessed.R | 4 R/rxUiGet.R | 29 R/rxode-options.R | 44 R/rxode2.R | 596 R/rxode2_md5.R | 2 R/rxsolve.R | 1229 + R/symengine.R | 1024 + R/tran.R | 1 R/ui-assign-parts.R | 2 R/ui-modelName.R |only R/ui-rename.R | 49 R/ui.R | 67 R/utils.R | 45 data/rxSyntaxFunctions.rda |binary inst/doc/rxode2-syntax.html | 474 inst/include/rxMemoryCalc.h | 83 inst/include/rxode2.h | 31 inst/include/rxode2EventTranslate.h | 459 inst/include/rxode2_RcppExports.h | 71 inst/include/rxode2_control.h | 13 inst/include/rxode2_model_shared.c | 2 inst/include/rxode2_model_shared.h | 31 inst/include/rxode2dataErr.h | 3 inst/include/rxode2parseGetTime.h | 14 inst/include/rxode2parseHandleEvid.h | 354 inst/include/rxode2parseStruct.h | 161 inst/include/rxode2parseVer.h | 4 inst/include/rxode2parse_control.h | 14 inst/include/rxode2prior.h |only inst/include/rxode2ptr.h | 45 inst/rxCse.g |only inst/rxToSE.g |only inst/seFromSE.g |only inst/tools/dparserReentrancy.c |only inst/tools/fflags.R |only inst/tools/genOptExprFixture.R |only inst/tools/genSymengineFixture.R |only inst/tools/optExprFixtureCorpus.R |only inst/tools/symengineFixtureCapture.R |only inst/tools/symengineFixtureCorpus.R |only inst/tools/workaround.R | 39 inst/tran.g | 13 man/assertCompartmentExists.Rd | 4 man/assertCompartmentName.Rd | 4 man/assertCompartmentNew.Rd | 4 man/assertRxUi.Rd | 44 man/assertVariableExists.Rd | 4 man/assertVariableNew.Rd | 4 man/confint.rxSolve.Rd |only man/dot-udfEnvSet.Rd | 4 man/evid_.Rd | 11 man/getRxThreads.Rd | 9 man/linCmtCarryFastStats.Rd |only man/linCmtCarrySentinelMax.Rd |only man/linCmtCarrySetFast.Rd |only man/linCmtDeltaMemo.Rd |only man/linCmtSeqStats.Rd |only man/mix.Rd | 2 man/odeMethodToInt.Rd | 7 man/odeToLin.Rd | 8 man/rmdhunks/rxode2-syntax-hunk.Rmd | 383 man/rxCbindStudyIndividual.Rd | 2 man/rxCombineErrorLines.Rd | 4 man/rxD.Rd | 2 man/rxExpandIfElse.Rd | 2 man/rxForcedPars.Rd |only man/rxIndLinExpStats.Rd |only man/rxIndLinState.Rd | 6 man/rxIndLinStrategy.Rd | 7 man/rxInjectedPars.Rd |only man/rxLastCompile.Rd | 7 man/rxMemoryEstimate.Rd | 37 man/rxModelName.Rd |only man/rxModelNameFromExpr.Rd |only man/rxModelNameLhs.Rd |only man/rxOptExpr.Rd | 72 man/rxParLoader.Rd |only man/rxPriorBuildSpec.Rd |only man/rxPriorLogDensity.Rd |only man/rxPriorOmegaToCholOmegaInvGrad.Rd |only man/rxRegisterUiAssembled.Rd |only man/rxRegisterUiPrep.Rd |only man/rxSensMatExp.Rd | 9 man/rxSetActiveParLoader.Rd |only man/rxSimThetaOmega.Rd | 13 man/rxSolve.Rd | 328 man/rxSymInvChol.Rd | 2 man/rxSymInvCholCreate.Rd | 9 man/rxUiGet.Rd | 8 man/rxUiPriors.Rd |only man/rxode2-set.Rd | 2 man/rxode2.Rd | 402 man/testIniDf.Rd | 4 man/testRxUnbounded.Rd | 4 src/Makevars.in | 7 src/RcppExports.cpp | 240 src/ab.cpp | 11 src/ab_adjoint.cpp | 8 src/abm.cpp | 11 src/bs.cpp | 11 src/ck54.cpp | 11 src/codegen.c | 83 src/codegen2.h | 4 src/cvPost.cpp | 11 src/cvode.cpp | 11 src/cvode_dense.cpp | 11 src/cvodes_adjoint.cpp | 13 src/dop5.cpp | 11 src/dop54.cpp | 11 src/dop853.c | 139 src/dop853.h | 30 src/dop87.cpp | 11 src/dverk65.cpp | 11 src/dverk78.cpp | 11 src/em.cpp | 11 src/etTran.cpp | 773 - src/euler.cpp | 11 src/expandGrid.cpp | 13 src/expm.cpp | 2643 ++++ src/genModelVars.c | 12 src/genModelVars.h | 192 src/grk4a.cpp | 11 src/handle_evid.cpp | 123 src/heun.cpp | 11 src/iem.cpp | 28 src/implicit_solvers.cpp | 9 src/init.c | 131 src/linCmt.cpp | 2933 ++++ src/linCmt.h | 396 src/linCmtDualN.h |only src/linCmtSensType.h | 56 src/lsoda_adjoint.cpp | 8 src/matexp.f | 9 src/matexp_HM98.c | 196 src/midpoint.cpp | 11 src/mm.cpp | 11 src/nearPD.h | 5 src/ode_implicit_bridge.h | 13 src/par_solve.cpp | 1346 +- src/par_solve.h | 74 src/parseCmtProperties.h | 37 src/parseFuns.h | 197 src/parseFunsLinCmt.h | 49 src/parseIdentifier.h | 75 src/parseLinCmtApplyCmts.h | 31 src/parseLogical.h | 17 src/parseParamMerge.h |only src/parseStatements.h | 8 src/parseSyntaxErrors.h | 80 src/parseVars.h | 17 src/print_node.c | 3 src/print_node.h | 23 src/priorDensity.cpp |only src/rk3.cpp | 11 src/rk4.cpp | 11 src/rk43.cpp | 11 src/rk4s.cpp | 28 src/rk5.cpp | 11 src/rk7.cpp | 11 src/rk8_10.cpp | 11 src/rk8_12.cpp | 11 src/rkb109.cpp | 11 src/rkb6.cpp | 11 src/rkbs32.cpp | 11 src/rkbs54.cpp | 11 src/rkc108.cpp | 11 src/rkc5.cpp | 11 src/rkc65.cpp | 11 src/rkcv8.cpp | 11 src/rkdp65.cpp | 11 src/rkdp85.cpp | 11 src/rkev87.cpp | 11 src/rkf108.cpp | 11 src/rkf1210.cpp | 11 src/rkf1412.cpp | 11 src/rkf32.cpp | 11 src/rkf45.cpp | 11 src/rkf78.cpp | 11 src/rkf89.cpp | 11 src/rkh10.cpp | 11 src/rkk87.cpp | 11 src/rkl5.cpp | 11 src/rklk5a.cpp | 11 src/rklk5b.cpp | 11 src/rkls44.cpp | 11 src/rkls54.cpp | 11 src/rko10.cpp | 11 src/rko129.cpp | 11 src/rkpp54.cpp | 11 src/rkpp54b.cpp | 11 src/rkr4.cpp | 11 src/rks10.cpp | 11 src/rks1110a.cpp | 11 src/rks4.cpp | 11 src/rks5.cpp | 11 src/rks54.cpp | 11 src/rks98.cpp | 11 src/rkss54.cpp | 11 src/rkss76.cpp | 11 src/rkssp22.cpp | 11 src/rkssp43.cpp | 11 src/rkssp53.cpp | 11 src/rkssp54.cpp | 11 src/rkt54.cpp | 11 src/rkt98a.cpp | 11 src/rktf65.cpp | 11 src/rktmy7.cpp | 11 src/rktmy7s.cpp | 11 src/rktp64.cpp | 11 src/rktp75.cpp | 11 src/rktp86.cpp | 11 src/rkv65.cpp | 11 src/rkv65r.cpp | 11 src/rkv76r.cpp | 11 src/rkv78.cpp | 11 src/rkv87e.cpp | 11 src/rkv87r.cpp | 11 src/rkv89.cpp | 11 src/rkv98r.cpp | 11 src/rkz10.cpp | 11 src/ros4.cpp | 11 src/rx2api.c | 112 src/rx2api.h | 24 src/rxCse.cpp |only src/rxCse.g.d_parser.h |only src/rxCseA.h |only src/rxCseB.h |only src/rxCseCtx.h |only src/rxCseIndex.h |only src/rxCseLhs.h |only src/rxCseNode.h |only src/rxCseNum.h |only src/rxCseRun.h |only src/rxCseSel.h |only src/rxCseStmt.h |only src/rxData.cpp | 1090 + src/rxGlobals.h | 8 src/rxInv.cpp | 2 src/rxMemoryComponents.cpp | 224 src/rxSerialize.cpp | 155 src/rxToSE.cpp |only src/rxToSE.g.d_parser.h |only src/rxToSEemit.h |only src/rxToSEnode.h |only src/rxode2_df.cpp | 31 src/rxode2_sundials_stan_compat.h | 16 src/rxomp.h | 16 src/sb3a.cpp | 11 src/sb3am4.cpp | 11 src/seBatch.h |only src/seFromSE.cpp |only src/seFromSE.g.d_parser.h |only src/seFromSEarena.h |only src/seFromSEcalls.h |only src/seFromSEemit.h |only src/seFromSEfold.h |only src/seFromSEnames.h |only src/seFromSEnode.h |only src/seParse.h |only src/seParseNode.h |only src/sem.cpp | 11 src/solveWarn.cpp | 21 src/ssp3.cpp | 11 src/tran.c | 153 src/tran.g.d_parser.h |12304 +++++++++---------- src/tran.h | 64 src/trapz.cpp | 11 src/vern65.cpp | 11 src/vern76.cpp | 11 src/vern98.cpp | 11 src/vv.cpp | 11 tests/testthat/Rplots.pdf |binary tests/testthat/helper-etTrans-golden.R |only tests/testthat/helper-lincmt-origin.R |only tests/testthat/helper-lotri.R |only tests/testthat/helper-methods.R | 34 tests/testthat/opt-expr-fixture.rds |only tests/testthat/symengine-translate-fixture.rds |only tests/testthat/test-000-modelVars.R | 4 tests/testthat/test-abi-subject-stride.R |only tests/testthat/test-adaptive-dosing-arg-vars.R |only tests/testthat/test-ar.R | 32 tests/testthat/test-assert-priors.R |only tests/testthat/test-autoswitch-jacobian.R | 55 tests/testthat/test-autoswitch-switching.R |only tests/testthat/test-block-same.R |only tests/testthat/test-build-lock.R |only tests/testthat/test-ceiling.R |only tests/testthat/test-compile-env.R |only tests/testthat/test-compile-error.R |only tests/testthat/test-compile-olevel.R |only tests/testthat/test-confint.R |only tests/testthat/test-cov.R | 184 tests/testthat/test-cvpost-separation-bound.R |only tests/testthat/test-dde-past.R | 110 tests/testthat/test-dde.R | 10 tests/testthat/test-dfdy.R | 21 tests/testthat/test-dsl.R | 67 tests/testthat/test-etTrans-golden.R |only tests/testthat/test-etTrans-translator.R |only tests/testthat/test-etTrans.R | 85 tests/testthat/test-event-sensitivities.R | 349 tests/testthat/test-evid-push-infusion.R |only tests/testthat/test-evid-push.R | 323 tests/testthat/test-forced-pars.R |only tests/testthat/test-getdur-1322.R |only tests/testthat/test-iCov.R | 25 tests/testthat/test-ifelse.R | 6 tests/testthat/test-ind-lin-1298-expand.R |only tests/testthat/test-ind-lin-1298.R |only tests/testthat/test-ind-lin-block.R |only tests/testthat/test-ind-lin.R | 1807 ++ tests/testthat/test-ind-solve-subject-id.R |only tests/testthat/test-infusion-duration-1322.R |only tests/testthat/test-ini-prior-column.R |only tests/testthat/test-ini-prior-piping.R |only tests/testthat/test-lincmt-carry-live.R |only tests/testthat/test-lincmt-carry-sentinel-guards.R |only tests/testthat/test-lincmt-delta-memo.R |only tests/testthat/test-lincmt-dose-time-sens-guard.R |only tests/testthat/test-lincmt-dose-time-sens.R |only tests/testthat/test-lincmt-dual.R |only tests/testthat/test-lincmt-modeldouble-senstype.R |only tests/testthat/test-lincmt-modelvars.R |only tests/testthat/test-lincmt-neg-depot-1275.R |only tests/testthat/test-lincmt-origin-limits.R |only tests/testthat/test-lincmt-origin-sens.R |only tests/testthat/test-lincmt-parse-3cmt-oral-dka.R |only tests/testthat/test-lincmt-partial-mask-ss.R |only tests/testthat/test-lincmt-phi-analytic.R |only tests/testthat/test-lincmt-phi-engage.R |only tests/testthat/test-lincmt-sens-adr-threads.R |only tests/testthat/test-lincmt-sens-auto.R |only tests/testthat/test-lincmt-sensH-1276.R |only tests/testthat/test-lincmt-seq-tail.R |only tests/testthat/test-lincmt-state-read.R |only tests/testthat/test-lincmt-value-memo.R |only tests/testthat/test-locally-constant-se.R |only tests/testthat/test-memory-growth.R |only tests/testthat/test-mexp-nonmem.R | 629 tests/testthat/test-mix.R | 90 tests/testthat/test-mu.R | 325 tests/testthat/test-nested-sim-iov-cor.R |only tests/testthat/test-nsim-ind-alloc-412.R |only tests/testthat/test-occ.R | 5 tests/testthat/test-odeToLin.R | 394 tests/testthat/test-oom.R | 650 + tests/testthat/test-opt-expr.R | 414 tests/testthat/test-optexpr-cse-c.R |only tests/testthat/test-optexpr-fixture.R |only tests/testthat/test-par-loader.R |only tests/testthat/test-param-order.R | 133 tests/testthat/test-parse-empty-statement.R |only tests/testthat/test-parsefuns-compile.R |only tests/testthat/test-piping-ini.R | 499 tests/testthat/test-piping-reserved-vars.R |only tests/testthat/test-pkg-exported-funs.R | 38 tests/testthat/test-prior-density.R |only tests/testthat/test-prior-sim-nested.R |only tests/testthat/test-prior-sim-nwpri.R |only tests/testthat/test-prior-sim-spec.R |only tests/testthat/test-prior-sim-tnpri-general.R |only tests/testthat/test-prior-sim-tnpri.R |only tests/testthat/test-recompile-model.R |only tests/testthat/test-rx2api-parallel-error.R |only tests/testthat/test-rxMemoryEstimate.R | 395 tests/testthat/test-rxode-issue-1211.R |only tests/testthat/test-rxode-issue-1229.R |only tests/testthat/test-rxs-function-cache.R |only tests/testthat/test-rxsolve-ui-dispatch.R |only tests/testthat/test-safeZero.R | 32 tests/testthat/test-serialize.R | 79 tests/testthat/test-sigma-hom-et-1341.R |only tests/testthat/test-sim-zeros.R | 104 tests/testthat/test-solve-warn-id.R |only tests/testthat/test-sortids-throttle.R |only tests/testthat/test-ss-extra-dose-duration.R |only tests/testthat/test-symengine-arity-guards.R |only tests/testthat/test-symengine-constants-downstream.R |only tests/testthat/test-symengine-constants.R |only tests/testthat/test-symengine-rxq-string.R |only tests/testthat/test-symengine-simplify.R |only tests/testthat/test-symengine-translate-fixture.R |only tests/testthat/test-tad-infusion-after-bolus.R |only tests/testthat/test-tied-modeled-rate-dur.R |only tests/testthat/test-tolFactor.R | 16 tests/testthat/test-ui-assembled.R |only tests/testthat/test-ui-modelName.R | 252 tests/testthat/test-ui-multiple-endpoint.R | 418 tests/testthat/test-ui-piping.R | 29 tests/testthat/test-ui-simulation.R | 174 tests/testthat/test-ui.R | 208 438 files changed, 37680 insertions(+), 10085 deletions(-)
Title: Public Suffix List Engine
Description: A focused implementation of the Public Suffix List (PSL). Bundles a
reproducible, pinned PSL snapshot and implements the official prevailing-rule
algorithm to answer public-suffix (eTLD) and registrable-domain (eTLD+1)
queries. Distinguishes ICANN and PRIVATE rule sections, accepts Unicode and
ASCII hostnames via 'punycoder' canonicalization, and supports an explicit,
validated offline refresh path. The matcher is compiled with 'cpp11' and
requires no external system library. Used as the PSL engine by the 'rurl'
package.
Author: Bart Turczynski [aut, cre]
Maintainer: Bart Turczynski <bartek@turczynski.pl>
Diff between pslr versions 1.1.1 dated 2026-07-19 and 1.2.1 dated 2026-09-14
pslr-1.1.1/pslr/man/psl_outdated.Rd |only pslr-1.2.1/pslr/DESCRIPTION | 18 pslr-1.2.1/pslr/MD5 | 106 + pslr-1.2.1/pslr/NAMESPACE | 15 pslr-1.2.1/pslr/NEWS.md | 98 + pslr-1.2.1/pslr/R/canonicalize.R | 59 + pslr-1.2.1/pslr/R/diff.R |only pslr-1.2.1/pslr/R/freshness-schema.R |only pslr-1.2.1/pslr/R/generation-store.R |only pslr-1.2.1/pslr/R/http-transport.R |only pslr-1.2.1/pslr/R/locking.R |only pslr-1.2.1/pslr/R/matcher.R | 13 pslr-1.2.1/pslr/R/metadata.R | 55 - pslr-1.2.1/pslr/R/migration.R |only pslr-1.2.1/pslr/R/parser.R | 37 pslr-1.2.1/pslr/R/prune.R |only pslr-1.2.1/pslr/R/pslr-package.R | 28 pslr-1.2.1/pslr/R/publication.R |only pslr-1.2.1/pslr/R/refresh-conditions.R |only pslr-1.2.1/pslr/R/refresh-machine.R |only pslr-1.2.1/pslr/R/refresh.R | 652 ++++++------ pslr-1.2.1/pslr/R/reminder.R |only pslr-1.2.1/pslr/R/snapshots.R |only pslr-1.2.1/pslr/R/status.R |only pslr-1.2.1/pslr/R/sysdata.rda |binary pslr-1.2.1/pslr/R/url-policy.R |only pslr-1.2.1/pslr/R/validator-policy.R |only pslr-1.2.1/pslr/README.md | 71 - pslr-1.2.1/pslr/inst/NOTICE | 6 pslr-1.2.1/pslr/inst/doc/introduction.R | 70 + pslr-1.2.1/pslr/inst/doc/introduction.Rmd | 280 ++++- pslr-1.2.1/pslr/inst/doc/introduction.html | 417 ++++++- pslr-1.2.1/pslr/inst/extdata/public_suffix_list.dat | 261 +++- pslr-1.2.1/pslr/man/psl_cache_prune.Rd | 86 + pslr-1.2.1/pslr/man/psl_diff.Rd |only pslr-1.2.1/pslr/man/psl_refresh.Rd | 74 - pslr-1.2.1/pslr/man/psl_reminder.Rd |only pslr-1.2.1/pslr/man/psl_rules.Rd | 2 pslr-1.2.1/pslr/man/psl_snapshots.Rd |only pslr-1.2.1/pslr/man/psl_status.Rd |only pslr-1.2.1/pslr/man/pslr-package.Rd | 20 pslr-1.2.1/pslr/tests/testthat/fixtures/oracle-baseline.rds |binary pslr-1.2.1/pslr/tests/testthat/freshness.feature |only pslr-1.2.1/pslr/tests/testthat/helper-active.R | 130 ++ pslr-1.2.1/pslr/tests/testthat/setup-steps.R | 99 + pslr-1.2.1/pslr/tests/testthat/test-acceptance.R |only pslr-1.2.1/pslr/tests/testthat/test-bundled-data.R | 17 pslr-1.2.1/pslr/tests/testthat/test-cache-prune.R | 360 +++++- pslr-1.2.1/pslr/tests/testthat/test-canonicalize.R | 67 + pslr-1.2.1/pslr/tests/testthat/test-dedup.R | 9 pslr-1.2.1/pslr/tests/testthat/test-diff.R |only pslr-1.2.1/pslr/tests/testthat/test-freshness-schema.R |only pslr-1.2.1/pslr/tests/testthat/test-generation-store.R |only pslr-1.2.1/pslr/tests/testthat/test-http-transport.R |only pslr-1.2.1/pslr/tests/testthat/test-locking.R |only pslr-1.2.1/pslr/tests/testthat/test-migration.R |only pslr-1.2.1/pslr/tests/testthat/test-parser.R | 23 pslr-1.2.1/pslr/tests/testthat/test-profile-rebuild.R | 18 pslr-1.2.1/pslr/tests/testthat/test-publication.R |only pslr-1.2.1/pslr/tests/testthat/test-refresh-conditions.R |only pslr-1.2.1/pslr/tests/testthat/test-refresh-integration.R |only pslr-1.2.1/pslr/tests/testthat/test-refresh-machine.R |only pslr-1.2.1/pslr/tests/testthat/test-refresh.R | 465 ++------ pslr-1.2.1/pslr/tests/testthat/test-reminder.R |only pslr-1.2.1/pslr/tests/testthat/test-security.R | 59 - pslr-1.2.1/pslr/tests/testthat/test-snapshots.R |only pslr-1.2.1/pslr/tests/testthat/test-status.R |only pslr-1.2.1/pslr/tests/testthat/test-url-policy.R |only pslr-1.2.1/pslr/tests/testthat/test-use.R | 18 pslr-1.2.1/pslr/tests/testthat/test-validator-policy.R |only pslr-1.2.1/pslr/tests/testthat/test-version-rules.R | 49 pslr-1.2.1/pslr/tools |only pslr-1.2.1/pslr/vignettes/introduction.Rmd | 280 ++++- 73 files changed, 2795 insertions(+), 1167 deletions(-)
Title: Some Utilities for Developing Data Science Software
Description: A collection of general-purpose helper functions that I (and maybe
others) find useful when developing data science software. Includes tools
for simulation, data transformation, input validation, and more.
Author: Lennart Oelschlaeger [aut, cre]
Maintainer: Lennart Oelschlaeger <oelschlaeger.lennart@gmail.com>
Diff between oeli versions 0.7.7 dated 2026-09-04 and 0.7.8 dated 2026-09-14
oeli-0.7.7/oeli/inst/include/oeli_RcppExports.h |only oeli-0.7.7/oeli/src/dirichlet.cpp |only oeli-0.7.7/oeli/src/mixnorm.cpp |only oeli-0.7.7/oeli/src/mvnorm.cpp |only oeli-0.7.7/oeli/src/tnorm.cpp |only oeli-0.7.7/oeli/src/wishart.cpp |only oeli-0.7.8/oeli/DESCRIPTION | 6 oeli-0.7.8/oeli/MD5 | 145 +-- oeli-0.7.8/oeli/NEWS.md | 11 oeli-0.7.8/oeli/R/RcppExports.R | 16 oeli-0.7.8/oeli/R/check_correlation_matrix.R | 2 oeli-0.7.8/oeli/R/check_covariance_matrix.R | 2 oeli-0.7.8/oeli/R/check_list_of_lists.R | 2 oeli-0.7.8/oeli/R/check_probability_vector.R | 2 oeli-0.7.8/oeli/R/check_transition_probability_matrix.R | 5 oeli-0.7.8/oeli/R/chunk_vector.R | 4 oeli-0.7.8/oeli/R/correlated_regressors.R | 32 oeli-0.7.8/oeli/R/dictionary.R | 26 oeli-0.7.8/oeli/R/dirichlet.R | 34 oeli-0.7.8/oeli/R/find_namespace_calls.R | 6 oeli-0.7.8/oeli/R/function_arguments.R | 8 oeli-0.7.8/oeli/R/function_body.R | 2 oeli-0.7.8/oeli/R/function_defaults.R | 5 oeli-0.7.8/oeli/R/gaussian_tv.R | 1 oeli-0.7.8/oeli/R/insert_vector_entry.R | 2 oeli-0.7.8/oeli/R/match_numerics.R | 35 oeli-0.7.8/oeli/R/mixnorm.R | 73 + oeli-0.7.8/oeli/R/mvnorm.R | 13 oeli-0.7.8/oeli/R/occurrence_info.R | 6 oeli-0.7.8/oeli/R/print_matrix.R | 3 oeli-0.7.8/oeli/R/sample_correlation_matrix.R | 2 oeli-0.7.8/oeli/R/sample_covariance_matrix.R | 2 oeli-0.7.8/oeli/R/simulate_markov_chain.R | 2 oeli-0.7.8/oeli/R/simulator.R | 3 oeli-0.7.8/oeli/R/split_vector_at.R | 2 oeli-0.7.8/oeli/R/storage.R | 16 oeli-0.7.8/oeli/R/subsets.R | 4 oeli-0.7.8/oeli/R/system_information.R | 2 oeli-0.7.8/oeli/R/tnorm.R | 95 +- oeli-0.7.8/oeli/R/unexpected_error.R | 2 oeli-0.7.8/oeli/R/wishart.R | 40 oeli-0.7.8/oeli/README.md | 30 oeli-0.7.8/oeli/inst/include/dirichlet.h | 28 oeli-0.7.8/oeli/inst/include/mixnorm.h | 79 + oeli-0.7.8/oeli/inst/include/mvnorm.h | 483 +++++++++- oeli-0.7.8/oeli/inst/include/oeli.h | 15 oeli-0.7.8/oeli/inst/include/tnorm.h | 89 + oeli-0.7.8/oeli/inst/include/wishart.h | 44 oeli-0.7.8/oeli/man/Storage.Rd | 10 oeli-0.7.8/oeli/man/check_probability_vector.Rd | 2 oeli-0.7.8/oeli/man/chunk_vector.Rd | 4 oeli-0.7.8/oeli/man/ddirichlet.Rd | 6 oeli-0.7.8/oeli/man/dmixnorm.Rd | 73 + oeli-0.7.8/oeli/man/dmvnorm.Rd | 11 oeli-0.7.8/oeli/man/dtnorm.Rd | 36 oeli-0.7.8/oeli/man/dwishart.Rd | 20 oeli-0.7.8/oeli/man/function_body.Rd | 2 oeli-0.7.8/oeli/man/match_numerics.Rd | 4 oeli-0.7.8/oeli/man/occurrence_info.Rd | 6 oeli-0.7.8/oeli/man/sample_correlation_matrix.Rd | 2 oeli-0.7.8/oeli/man/sample_covariance_matrix.Rd | 2 oeli-0.7.8/oeli/man/split_vector_at.Rd | 2 oeli-0.7.8/oeli/man/subsets.Rd | 4 oeli-0.7.8/oeli/man/system_information.Rd | 2 oeli-0.7.8/oeli/src/RcppExports.cpp | 614 ------------- oeli-0.7.8/oeli/src/internal.cpp | 52 - oeli-0.7.8/oeli/src/internal.h | 19 oeli-0.7.8/oeli/src/test-tnorm.cpp | 8 oeli-0.7.8/oeli/tests/testthat/test-cpp.R | 4 oeli-0.7.8/oeli/tests/testthat/test-dirichlet.R | 5 oeli-0.7.8/oeli/tests/testthat/test-find_namespace_calls.R |only oeli-0.7.8/oeli/tests/testthat/test-match_numerics.R | 9 oeli-0.7.8/oeli/tests/testthat/test-mixnorm.R | 12 oeli-0.7.8/oeli/tests/testthat/test-package_logo.R | 4 oeli-0.7.8/oeli/tests/testthat/test-simulator.R | 3 oeli-0.7.8/oeli/tests/testthat/test-tnorm.R | 33 oeli-0.7.8/oeli/tests/testthat/test-wishart.R | 7 77 files changed, 1298 insertions(+), 1037 deletions(-)
Title: Information Criterion and Scan Statistic Approach for Detecting
Multiple Disease Clusters
Description: Detecting multiple disease clusters using the
information criterion and scan statistic approach developed by
Takahashi and Shimadzu (2020) <doi:10.1186/s12942-020-00228-y>.
Author: Takahiro Otani [aut, cre] ,
Kunihiko Takahashi [aut]
Maintainer: Takahiro Otani <t.otani@aichi-cc.jp>
Diff between multiflexscan versions 0.1.0 dated 2026-07-24 and 0.2.0 dated 2026-09-14
DESCRIPTION | 12 ++-- MD5 | 25 +++++++--- NAMESPACE | 15 +++++- NEWS.md | 29 ++++++++++++ R/accessors.R |only R/multiflexscan.R | 89 +++++++++++++++++++++++-------------- man/AIC.multiflexscan.Rd |only man/as.data.frame.multiflexscan.Rd |only man/choropleth.Rd | 2 man/clusters.Rd |only man/coef.multiflexscan.Rd |only man/get_setting.Rd |only man/multiflexscan.Rd | 16 +++++- man/nclusters.Rd |only man/nobs.multiflexscan.Rd |only man/plot.multiflexscan.Rd | 2 man/pvalue.Rd |only tests |only 18 files changed, 139 insertions(+), 51 deletions(-)
Title: Multivariate Analysis for Neuroimaging Data
Description: Provides functions for multivariate analysis and visualization of neuroimaging data. The package contains the functions and example data used in the book 'Multivariate Analysis for Neuroimaging Data' by Kawaguchi (2021, ISBN:
978-0367255329). It includes utilities for image visualization, image data matrix construction, basis reconstruction, multicomponent visualization, predictive modeling, simulation, and multiblock analysis. Version
3.0 preserves the public interfaces used in the accompanying package vignettes.
Author: Atsushi Kawaguchi [aut, cre]
Maintainer: Atsushi Kawaguchi <kawa_a24@yahoo.co.jp>
Diff between mand versions 2.0 dated 2023-09-12 and 3.0 dated 2026-09-14
mand-2.0/mand/R/src.r |only mand-3.0/mand/DESCRIPTION | 24 mand-3.0/mand/MD5 | 94 - mand-3.0/mand/NAMESPACE | 79 - mand-3.0/mand/NEWS.md |only mand-3.0/mand/R/compat-color-helpers.R |only mand-3.0/mand/R/compat-public-api-helpers.R |only mand-3.0/mand/R/public-api-legacy.R |only mand-3.0/mand/README.md |only mand-3.0/mand/build/vignette.rds |binary mand-3.0/mand/inst/WORDLIST |only mand-3.0/mand/inst/config |only mand-3.0/mand/inst/doc/a_overview.R | 9 mand-3.0/mand/inst/doc/a_overview.Rmd | 1 mand-3.0/mand/inst/doc/a_overview.html | 642 +++++++++- mand-3.0/mand/inst/doc/b_Introduction.R | 68 - mand-3.0/mand/inst/doc/b_Introduction.html | 4 mand-3.0/mand/inst/doc/c_Brain_Imaging_Data.R | 284 ++-- mand-3.0/mand/inst/doc/c_Brain_Imaging_Data.html | 4 mand-3.0/mand/inst/doc/d_Common_Statistical_Approach.R | 400 +++--- mand-3.0/mand/inst/doc/d_Common_Statistical_Approach.html | 4 mand-3.0/mand/inst/doc/e_Multivariate_Approach_Matrix_Decomposition.R | 358 ++--- mand-3.0/mand/inst/doc/e_Multivariate_Approach_Matrix_Decomposition.html | 4 mand-3.0/mand/inst/doc/f_Multivariate_Approach_Prediction_Model.R | 348 ++--- mand-3.0/mand/inst/doc/f_Multivariate_Approach_Prediction_Model.html | 4 mand-3.0/mand/inst/doc/g_Multi-block_Approach.R | 146 +- mand-3.0/mand/inst/doc/g_Multi-block_Approach.html | 4 mand-3.0/mand/man/atlas.Rd | 33 mand-3.0/mand/man/atlasdatasets.Rd | 33 mand-3.0/mand/man/atlastable.Rd | 8 mand-3.0/mand/man/baseimg.Rd | 33 mand-3.0/mand/man/basisprod.Rd | 2 mand-3.0/mand/man/coat.Rd | 4 mand-3.0/mand/man/diffimg.Rd | 33 mand-3.0/mand/man/exbrain.Rd | 33 mand-3.0/mand/man/imgdatamat.Rd | 4 mand-3.0/mand/man/mand-package.Rd | 33 mand-3.0/mand/man/mask.Rd | 33 mand-3.0/mand/man/multicoat.Rd | 6 mand-3.0/mand/man/multicompplot.Rd | 8 mand-3.0/mand/man/multirec.Rd | 8 mand-3.0/mand/man/ptest.Rd | 6 mand-3.0/mand/man/rbfunc.Rd | 2 mand-3.0/mand/man/rec.Rd | 2 mand-3.0/mand/man/sdevimg.Rd | 33 mand-3.0/mand/man/simbrain.Rd | 2 mand-3.0/mand/man/sizechange.Rd | 2 mand-3.0/mand/man/template.Rd | 33 mand-3.0/mand/tests |only mand-3.0/mand/vignettes/a_overview.Rmd | 1 50 files changed, 1679 insertions(+), 1150 deletions(-)
Title: High-Dimensional Methods for Elliptically Symmetric
Distributions
Description: Fast, documented implementations of robust estimation, testing,
dimension reduction, classification, and clustering methods for
high-dimensional elliptically symmetric data. Computational kernels use
'Rcpp' and 'RcppArmadillo'. The package follows methods reviewed in Feng
(2026), "High-Dimensional Data Analysis for Elliptically Symmetric
Distributions" <https://github.com/flnankai/HDElliptical/releases>.
Author: Long Feng [aut, cre, cph] ,
Dan Zhuang [ctb]
Maintainer: Long Feng <flnankai@nankai.edu.cn>
Diff between HDElliptical versions 0.1.2 dated 2026-09-09 and 0.1.3 dated 2026-09-14
DESCRIPTION | 6 LICENSE | 4 MD5 | 692 +- NAMESPACE | 368 - NEWS.md | 8 R/HDElliptical-package.R | 26 R/chapter1-foundations.R | 1274 +-- R/chapter2-adaptive-rank.R | 1138 +-- R/chapter2-aspu.R | 1628 ++-- R/chapter2-classical-rank.R | 632 - R/chapter2-clx-test.R | 828 +- R/chapter2-composite-bf.R | 554 - R/chapter2-erht.R | 1492 ++-- R/chapter2-feng-sun.R | 460 - R/chapter2-fzw-sign.R | 868 +- R/chapter2-fzwz-bf.R | 400 - R/chapter2-generic-weighted.R | 1124 +-- R/chapter2-hd-spatial-rank.R | 846 +- R/chapter2-hotelling.R | 608 - R/chapter2-inst.R | 648 - R/chapter2-leaveout-tests.R | 482 - R/chapter2-lwz-sign.R | 762 +- R/chapter2-normal-reference-one-sample.R | 1262 +-- R/chapter2-normal-reference-scale.R | 794 +- R/chapter2-pdq-sign.R | 1056 +-- R/chapter2-quadratic-tests.R | 486 - R/chapter2-skk-test.R | 354 - R/chapter2-spatial-sign-maxsum.R | 1330 ++-- R/chapter2-strongcorr-sign.R | 880 +- R/chapter2-tinst.R | 566 - R/chapter2-wang-xu-randomization.R | 778 +- R/chapter2-weighted-maxsum.R | 1632 ++-- R/chapter2-wpl-sign.R | 300 R/chapter3-elliptical-factor.R | 1472 ++-- R/chapter3-elliptical-sphericity.R | 1578 ++-- R/chapter3-gaussian-classical.R | 1088 +-- R/chapter3-gaussian-estimators.R | 994 +-- R/chapter3-gaussian-highdim.R | 1012 +-- R/chapter3-gaussian-precision.R | 1162 +-- R/chapter3-hdhr.R | 1048 +-- R/chapter3-ollila-shrinkage.R | 2790 ++++---- R/chapter3-tensor-elliptical-graph.R | 1226 +-- R/chapter4-alpha-fdr-conditional.R | 3318 +++++----- R/chapter4-alpha.R | 2214 +++--- R/chapter4-change-point.R | 4256 ++++++------- R/chapter4-completion.R | 1522 ++-- R/chapter4-independence.R | 1614 ++-- R/chapter4-radial-directional.R | 1202 +-- R/chapter4-white-noise.R | 1268 +-- R/chapter5-classical.R | 3570 +++++----- R/chapter5-gqda.R | 1772 ++--- R/chapter5-linear.R | 2004 +++--- R/chapter5-sparse-qda.R | 2234 +++--- R/chapter6-classical-factor.R | 2248 +++--- R/chapter6-robust-spectral.R | 1530 ++-- R/chapter6-sparse-pca-cca.R | 2138 +++--- R/chapter6-sscca.R | 1360 ++-- R/chapter7-chime-ifpca.R | 1588 ++-- R/chapter7-classical-sparse.R | 1762 ++--- R/chapter7-spatial-clustering.R | 2506 +++---- R/utils.R | 344 - build/partial.rdb |binary build/vignette.rds |binary inst/CITATION | 58 inst/benchmarks/README.md | 38 inst/benchmarks/run-benchmarks.R | 400 - inst/doc/chapter-1-foundations.Rmd | 190 inst/doc/chapter-2-location-tests.Rmd | 374 - man/acg_loglik.Rd | 64 man/bai_saranadasa_two_sample_test.Rd | 106 man/basic_shape.Rd | 144 man/basics_shape.Rd | 128 man/bickel_levina_covariance_threshold.Rd | 104 man/book_gaussian_alpha_cauchy_test.Rd | 94 man/cai_liu_adaptive_covariance_threshold.Rd | 118 man/cai_liu_xia_two_sample_test.Rd | 198 man/cca_bartlett_test.Rd | 78 man/ch4_cp_cusum_cpp.Rd | 40 man/ch4_cp_dms_moments_cpp.Rd | 40 man/ch4_cp_erht_moments_cpp.Rd | 42 man/ch4_cp_ordered_pair_square_sum_cpp.Rd | 36 man/ch4_cp_scaled_hr_cpp.Rd | 54 man/ch4_cp_spatial_median_cpp.Rd | 50 man/chen_qin_two_sample_test.Rd | 106 man/chen_song_feng_rank_white_noise_test.Rd | 86 man/chen_zhang_zhong_covariance_test.Rd | 76 man/cheng_sscm_equality_test.Rd | 164 man/chime_clustering.Rd | 176 man/classical_cca.Rd | 110 man/classical_cusum_test.Rd | 132 man/classical_lda_classifier.Rd | 72 man/classical_pca.Rd | 110 man/classical_qda_classifier.Rd | 76 man/classical_spatial_tests.Rd | 178 man/clime_precision.Rd | 134 man/composite_t2_two_sample_test.Rd | 212 man/conditional_alpha_sieve_design.Rd | 114 man/conditional_alpha_sieve_fit.Rd | 80 man/conditional_factor_wald_test.Rd | 66 man/cpp_aspu_power_moments.Rd | 44 man/cpp_aspu_standardize.Rd | 70 man/cpp_bai_saranadasa_two_sample.Rd | 36 man/cpp_ch2_generic_weighted_geometry.Rd | 48 man/cpp_ch2_generic_weighted_initial.Rd | 36 man/cpp_ch2_generic_weighted_quadratic.Rd | 40 man/cpp_ch2_generic_weighted_step.Rd | 52 man/cpp_ch4_afc_css_components.Rd | 46 man/cpp_ch4_afc_light_components.Rd | 68 man/cpp_ch4_afc_project.Rd | 42 man/cpp_ch4_afc_spatial_kendall.Rd | 36 man/cpp_ch4_alpha_ols.Rd | 40 man/cpp_ch4_completion_standardized_radii.Rd | 40 man/cpp_ch4_completion_vector_u_core.Rd | 76 man/cpp_ch4_completion_weighted_alpha_q.Rd | 44 man/cpp_ch4_lfm_spatial_sign_core.Rd | 70 man/cpp_ch7sc_assign_euclidean.Rd | 48 man/cpp_ch7sc_assign_metric.Rd | 48 man/cpp_ch7sc_feature_scores.Rd | 36 man/cpp_ch7sc_geometry.Rd | 52 man/cpp_ch7sc_sscm_metric.Rd | 56 man/cpp_chen_qin_two_sample.Rd | 36 man/cpp_clx_adaptive_precision.Rd | 50 man/cpp_clx_two_sample.Rd | 44 man/cpp_composite_t2_two_sample.Rd | 44 man/cpp_feng_sun_one_sample.Rd | 48 man/cpp_feng_wang_pdq_two_sample.Rd | 86 man/cpp_feng_zou_wang_two_sample_sign.Rd | 48 man/cpp_fzwz_bf_two_sample.Rd | 36 man/cpp_inst_one_sample.Rd | 54 man/cpp_li_wang_zou_two_sample_sign.Rd | 52 man/cpp_park_ayyala_one_sample.Rd | 40 man/cpp_scaled_spatial_median.Rd | 58 man/cpp_skk_two_sample.Rd | 36 man/cpp_srivastava_du_one_sample.Rd | 40 man/cpp_tinst_two_sample.Rd | 48 man/cpp_wang_peng_li_one_sample.Rd | 40 man/cpp_wang_xu_approx_randomization.Rd | 74 man/cpp_weighted_scaled_spatial_median.Rd | 54 man/cpp_yzf_weighted_max.Rd | 56 man/cpp_yzf_weighted_maxsum.Rd | 58 man/cpp_zhang_feng_one_sample_scores.Rd | 40 man/cpp_zhang_feng_parzen_tau.Rd | 40 man/cpp_zhang_feng_two_sample_scores.Rd | 40 man/cpp_zhang_zhou_guo_one_sample.Rd | 42 man/dsda_classifier.Rd | 132 man/ec2_covariance.Rd | 156 man/elliptical_factor_number.Rd | 108 man/elliptical_factor_precision.Rd | 110 man/elliptical_oracle_classifier.Rd | 124 man/elliptical_regularized_hotelling_cauchy_test.Rd | 158 man/elliptical_regularized_hotelling_test.Rd | 182 man/erht_change_point_test.Rd | 210 man/erht_wbs.Rd | 204 man/fair_classifier.Rd | 138 man/fantope_pca.Rd | 134 man/feng_jiang_liu_xiong_panel_independence_test.Rd | 108 man/feng_lan_liu_ma_alpha_max_test.Rd | 68 man/feng_liu_ma_white_noise_test.Rd | 96 man/feng_liu_rank_sphericity_test.Rd | 114 man/feng_spatial_rank_proportionality_test.Rd | 132 man/feng_sun_one_sample_test.Rd | 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man/kendall_factor_number.Rd | 114 man/kendall_pca.Rd | 118 man/li_chen_covariance_test.Rd | 78 man/li_shao_sparse_qda.Rd | 128 man/li_wang_zou_two_sample_sign_test.Rd | 254 man/linear_pool_covariance.Rd | 186 man/liu_feng_ma_spatial_sign_alpha_test.Rd | 192 man/lloyd_kmeans.Rd | 158 man/lpd_classifier.Rd | 142 man/ma_feng_wang_bao_conditional_alpha_test.Rd | 116 man/ma_lan_su_tsai_conditional_alpha_sum_test.Rd | 114 man/mauchly_sphericity_test.Rd | 70 man/nagao_identity_test.Rd | 66 man/normalize_shape.Rd | 56 man/ollila_raninen_shrinkage_covariance.Rd | 158 man/oracle_weighted_sign_sum_test.Rd | 158 man/park_ayyala_one_sample_test.Rd | 104 man/pesaran_cd_test.Rd | 68 man/pesaran_yamagata_alpha_test.Rd | 96 man/pmd_sparse_cca.Rd | 148 man/pmd_sparse_pca.Rd | 128 man/poet_covariance.Rd | 122 man/poet_tme.Rd | 146 man/predict.hd_classifier_fit.Rd | 50 man/predict.semc_fit.Rd | 46 man/regularized_spatial_sign_covariance.Rd | 112 man/relliptical.Rd | 72 man/robust_factor_subspace.Rd | 132 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man/spatial_sign_precision_lda.Rd | 146 man/spatial_sign_sphericity_test.Rd | 84 man/srivastava_du_one_sample_test.Rd | 102 man/srivastava_katayama_kano_two_sample_test.Rd | 152 man/sscca.Rd | 188 man/sscm.Rd | 70 man/sslda.Rd | 150 man/ssqda.Rd | 152 man/tensor_spatial_sign_precision.Rd | 224 man/threshold_spatial_sign_precision.Rd | 74 man/threshold_tensor_spatial_sign_precision.Rd | 78 man/tinst_two_sample_test.Rd | 180 man/truncated_power_pca.Rd | 122 man/tyler_shape.Rd | 106 man/wang_feng_dms_test.Rd | 138 man/wang_liu_feng_ma_serial_panel_test.Rd | 136 man/wang_liu_feng_vector_independence_test.Rd | 144 man/wang_liu_feng_vector_u_independence_test.Rd | 160 man/wang_peng_li_one_sample_test.Rd | 142 man/wang_xu_approx_randomization_test.Rd | 222 man/wang_yao_corrected_john_test.Rd | 68 man/wang_yao_corrected_lrt.Rd | 88 man/wang_zhao_feng_wang_mutual_fund_fdr.Rd | 220 man/weighted_scaled_spatial_median.Rd | 130 man/weighted_spatial_sign_alpha_oracle_test.Rd | 124 man/white_noise_portmanteau_test.Rd | 86 man/xu_lin_wei_pan_aspu_test.Rd | 246 man/yan_zhao_feng_weighted_max_test.Rd | 132 man/yan_zhao_feng_weighted_maxsum_test.Rd | 162 man/zhang_feng_radial_directional_test.Rd | 280 man/zhang_feng_rank_tests.Rd | 286 man/zhang_zhou_guo_tests.Rd | 276 man/zhang_zhu_zhang_two_sample_test.Rd | 244 man/zhao_chen_wang_spatial_sign_white_noise_test.Rd | 90 man/zhao_chen_zi_inst_alpha_test.Rd | 126 man/zhao_conditional_spatial_sign_sum_test.Rd | 124 man/zhao_feng_strongcorr_sign_test.Rd | 224 man/zhao_feng_wang_wang_robust_alpha_test.Rd | 184 man/zhao_wang_conditional_spatial_sign_test.Rd | 140 man/zhao_yang_zhang_feng_wang_adaptive_sphericity_test.Rd | 126 man/zhao_yang_zhang_feng_wang_sign_max_test.Rd | 116 man/zou_peng_feng_wang_sphericity_test.Rd | 132 tests/testthat.R | 8 tests/testthat/test-chapter1-foundations.R | 768 +- tests/testthat/test-chapter2-adaptive-rank.R | 954 +- tests/testthat/test-chapter2-aspu.R | 1248 +-- 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tests/testthat/test-chapter4-change-point.R | 1564 ++-- tests/testthat/test-chapter4-completion.R | 992 +-- tests/testthat/test-chapter4-independence.R | 1674 ++--- tests/testthat/test-chapter4-radial-directional.R | 738 +- tests/testthat/test-chapter4-white-noise.R | 952 +- tests/testthat/test-chapter5-classical.R | 1112 +-- tests/testthat/test-chapter5-gqda.R | 526 - tests/testthat/test-chapter5-linear.R | 1284 +-- tests/testthat/test-chapter5-sparse-qda.R | 1050 +-- tests/testthat/test-chapter6-classical-factor.R | 1336 ++-- tests/testthat/test-chapter6-robust-spectral.R | 1230 +-- tests/testthat/test-chapter6-sparse-pca-cca.R | 914 +- tests/testthat/test-chapter6-sscca.R | 620 - tests/testthat/test-chapter7-chime-ifpca.R | 1460 ++-- tests/testthat/test-chapter7-classical-sparse.R | 1196 +-- tests/testthat/test-chapter7-spatial-clustering.R | 1240 +-- vignettes/chapter-1-foundations.Rmd | 190 vignettes/chapter-2-location-tests.Rmd | 374 - 347 files changed, 78347 insertions(+), 78337 deletions(-)
Title: Managing and Visualizing Brain Surface Data
Description: Provides high-level access to neuroimaging data from standard software packages like 'FreeSurfer' <https://freesurfer.net/> on the level of subjects and groups. Load morphometry data, surfaces and brain parcellations based on atlases. Mask data using labels, load data for specific atlas regions only, and visualize data and statistical results directly in 'R'.
Author: Tim Schaefer [aut, cre] ,
The General Hospital Corporation [cph] ,
Van Essen Lab [cph] ,
Alexander Schaefer [cph] ,
Ru Kong [cph] ,
Lingzhong Fan [cph] ,
Edmund T. Rolls [cph] ,
Matthew F. Glasser [cph] ,
Kathryn Mills [cph]
Maintainer: Tim Schaefer <ts+code@rcmd.org>
Diff between fsbrain versions 0.7.0 dated 2026-08-23 and 0.8.0 dated 2026-09-14
DESCRIPTION | 48 +++- MD5 | 136 +++++++----- NAMESPACE | 6 R/cbar.R | 7 R/coloredmesh.R | 34 +++ R/helpers.R | 11 - R/morph_atlas_agg.R | 63 +++++ R/optdata.R | 60 +++++ R/scimesh_bridge.R | 26 ++ R/spherical.R | 22 +- R/view_framing.R |only R/vis_meshes.R | 65 ++++++ R/vis_multiview.R | 161 ++++++++------- R/vis_volume.R | 101 ++++++++- inst/COPYRIGHTS |only inst/doc/fsbrain_with_scimesh.R | 4 inst/doc/fsbrain_with_scimesh.Rmd | 10 inst/doc/fsbrain_with_scimesh.html | 10 inst/extdata/attribution |only inst/extdata/pkgfilecache_manifest_fs_LR_32_atlases.csv |only inst/extdata/pkgfilecache_manifest_fs_LR_32_meshes.csv |only inst/extdata/pkgfilecache_manifest_fsaverage_atlases.csv |only man/Triangles3D.to.coloredmesh.Rd |only man/agg.res.long.to.wide.Rd |only man/bounding_sphere.Rd |only man/coloredmesh.from.annot.Rd | 1 man/coloredmesh.from.label.Rd | 1 man/coloredmesh.from.mask.Rd | 1 man/coloredmesh.from.morph.native.Rd | 1 man/coloredmesh.from.morph.standard.Rd | 1 man/coloredmesh.from.morphdata.Rd | 1 man/coloredmeshes.from.color.Rd | 1 man/compute.surface.contour.slices.Rd | 3 man/download_fs_LR_32_atlases.Rd |only man/download_fs_LR_32_meshes.Rd |only man/download_fsaverage_atlases.Rd |only man/draw.segments.on.image.Rd | 5 man/handle.rglactions.highlight.points.Rd | 16 - man/sph2fs.Rd | 12 - man/view_label3d.Rd |only man/vis.view.Rd |only man/volvis.lb.with.surface.Rd | 7 man/volvis.lightbox.Rd | 5 man/volvis.slices.with.surface.Rd | 8 tests/testthat/fsbrain_issue50_export.png |binary tests/testthat/helper-functions.R | 77 +++++++ tests/testthat/test-brainview_magic.R | 1 tests/testthat/test-camera_unification.R |only tests/testthat/test-curvature.R | 2 tests/testthat/test-fsdir_abstraction_subject.R | 1 tests/testthat/test-geodesic.R | 4 tests/testthat/test-highlight.R | 5 tests/testthat/test-issue50.R | 2 tests/testthat/test-mesh_helpers.R | 121 +++++++++++ tests/testthat/test-morph_atlas_agg.R | 53 ++++ tests/testthat/test-r_vis_volume.R | 3 tests/testthat/test-r_vis_volume_scale.R |only tests/testthat/test-rglactions.R | 2 tests/testthat/test-scimesh_bridge.R | 29 ++ tests/testthat/test-spherical.R | 47 ++++ tests/testthat/test-u_vis_volume_3d.R | 9 tests/testthat/test-vis-volume-on-surface.R | 5 tests/testthat/test-vis.R | 12 + tests/testthat/test-volume.R | 1 tests/testthat/test-w_vis_group.R | 2 tests/testthat/test-x_vis_meshes.R | 2 tests/testthat/test-y_vis_multiview.R | 11 + tests/testthat/test-z_vis_surface_background.R | 3 vignettes/fsbrain_with_scimesh.Rmd | 10 69 files changed, 1024 insertions(+), 205 deletions(-)
Title: Exploratory Factor Analysis Functions for Assessing
Dimensionality
Description: Functions for an assortment of factor analysis-related
procedures, including eleven procedures for determining the number of
factors; for factor analysis with multiple options for methods of extraction
and rotation; for bi-factor analysis; for extension factor analysis;
options for running the analyses using either raw data
or correlation matrices as input and with options
for conducting the analyses using Pearson correlations,
Kendall correlations, Spearman correlations, gamma correlations, or polychoric
correlations; wrapper 'lavaan'-based functions for factorial invariance
and exploratory structural equation modeling;
functions for the factor-ability of a correlation matrix,
for the congruence between factors from different datasets, for the
assessment of local independence, for the assessment of factor solution
complexity, for internal consistency, and for correcting Pearson correlation
coefficients for attenuation due to unreliability.
Auerswald & Moshagen (2019, <doi:10.10 [...truncated...]
Author: Brian P. O'Connor [aut, cre]
Maintainer: Brian P. O'Connor <brian.oconnor@ubc.ca>
This is a re-admission after prior archival of version 0.1.8.8 dated 2026-07-21
Diff between EFA.dimensions versions 0.1.8.8 dated 2026-07-21 and 0.1.9.1 dated 2026-09-14
DESCRIPTION | 19 MD5 | 94 +-- NAMESPACE | 24 R/BIFACTOR.R | 320 +++++++----- R/DIMTESTS.R | 8 R/EFA.R | 125 +--- R/EFA_SCORES.R | 3 R/EMPKC.R | 3 R/ESEM.R | 475 +++++++++++------ R/EXTENSION_FA.R | 3 R/FACTORABILITY.R | 3 R/Factorial_Invariance.R | 306 ++++++++++- R/INTERNAL.CONSISTENCY.R | 19 R/LOCALDEP.R | 3 R/MAP.R | 3 R/NEVALSGT1.R | 3 R/OMEGA.R | 229 ++++---- R/PARALLEL.R | 3 R/PCA.R | 158 ++--- R/PLOT_Invariance.R |only R/RAWPAR.R | 3 R/ROOTFIT.R | 3 R/SALIENT.R | 3 R/SCREE_PLOT.R | 3 R/SESCREE.R | 3 R/SMT.R | 3 R/utilities_bifactor.R | 578 +++++++++++++++------ R/utilities_boc.R | 613 +++++++++++++++++++++++ build/vignette.rds |binary data/data_HS_1939.rda |only data/data_SDT.rda |only inst/doc/Coefficient_descriptions_vignettes.Rmd | 24 inst/doc/Coefficient_descriptions_vignettes.html | 31 - inst/doc/EFA_BIFACTOR_vignettes.Rmd | 4 inst/doc/EFA_BIFACTOR_vignettes.html | 47 - inst/doc/EXAMPLES_vignettes.R |only inst/doc/EXAMPLES_vignettes.Rmd |only inst/doc/EXAMPLES_vignettes.html |only inst/doc/Number_of_factors_tests_vignettes.html | 4 man/BIFACTOR.Rd | 229 ++++++-- man/EFA.Rd | 66 +- man/EFA.dimensions-package.Rd | 8 man/ESEM.Rd | 96 ++- man/Factorial_Invariance.Rd | 165 +++++- man/INTERNAL_CONSISTENCY.Rd | 9 man/OMEGA.Rd | 227 ++++++-- man/PCA.Rd | 62 +- man/PLOT_Invariance.Rd |only man/data_HS_1939.Rd |only man/data_SDT.Rd |only vignettes/Coefficient_descriptions_vignettes.Rmd | 24 vignettes/EFA_BIFACTOR_vignettes.Rmd | 4 vignettes/EXAMPLES_vignettes.Rmd |only 53 files changed, 2928 insertions(+), 1082 deletions(-)
More information about EFA.dimensions at CRAN
Permanent link
Title: Create and Evaluate Probability Distributions
Description: Create and evaluate probability distribution objects from a
variety of families or define custom distributions. Automatically compute
distributional properties, even when they have not been specified.
This package supports statistical modeling and simulations, and forms
the core of the probaverse suite of R packages.
Author: Vincenzo Coia [aut, cre, cph],
Amogh Joshi [ctb],
Shuyi Tan [ctb],
Zhipeng Zhu [ctb],
olivroy [ctb]
Maintainer: Vincenzo Coia <vincenzo.coia@gmail.com>
Diff between distionary versions 0.1.1 dated 2026-04-27 and 0.2.0 dated 2026-09-14
distionary-0.1.1/distionary/R/eval_from_network-range.R |only distionary-0.2.0/distionary/DESCRIPTION | 11 distionary-0.2.0/distionary/MD5 | 183 ++- distionary-0.2.0/distionary/NAMESPACE | 43 distionary-0.2.0/distionary/NEWS.md | 80 + distionary-0.2.0/distionary/R/distionary-package.R | 2 distionary-0.2.0/distionary/R/distribution.R | 114 +- distionary-0.2.0/distionary/R/dst_beta.R | 3 distionary-0.2.0/distionary/R/dst_binom.R | 3 distionary-0.2.0/distionary/R/dst_cauchy.R | 3 distionary-0.2.0/distionary/R/dst_chisq.R | 3 distionary-0.2.0/distionary/R/dst_degenerate.R | 2 distionary-0.2.0/distionary/R/dst_exp.R | 3 distionary-0.2.0/distionary/R/dst_f.R | 3 distionary-0.2.0/distionary/R/dst_finite.R | 3 distionary-0.2.0/distionary/R/dst_geom.R | 3 distionary-0.2.0/distionary/R/dst_gev.R | 6 distionary-0.2.0/distionary/R/dst_gp.R | 3 distionary-0.2.0/distionary/R/dst_gumbel.R |only distionary-0.2.0/distionary/R/dst_hyper.R | 3 distionary-0.2.0/distionary/R/dst_lnorm.R | 3 distionary-0.2.0/distionary/R/dst_lp3.R | 42 distionary-0.2.0/distionary/R/dst_nbinom.R | 3 distionary-0.2.0/distionary/R/dst_norm.R | 3 distionary-0.2.0/distionary/R/dst_null.R | 90 + distionary-0.2.0/distionary/R/dst_pearson3.R | 42 distionary-0.2.0/distionary/R/dst_pois.R | 3 distionary-0.2.0/distionary/R/dst_t.R | 3 distionary-0.2.0/distionary/R/dst_unif.R | 3 distionary-0.2.0/distionary/R/dst_weibull.R | 3 distionary-0.2.0/distionary/R/eval_from_network-kurtosis.R | 17 distionary-0.2.0/distionary/R/eval_from_network-mean.R | 11 distionary-0.2.0/distionary/R/eval_from_network-quantile.R | 499 ++++++---- distionary-0.2.0/distionary/R/eval_from_network-skewness.R | 15 distionary-0.2.0/distionary/R/eval_from_network-variance.R | 11 distionary-0.2.0/distionary/R/eval_property.R | 2 distionary-0.2.0/distionary/R/eval_quantile.R | 53 - 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Title: Combinatorics Utilities
Description: Provides routines for combinatorial enumeration including generation of all combinations, permutations,
and lattice points on hypercuboids and simplex lattices. Includes utilities for
multinomial distributions: the multinomial probability mass function, random sampling with varying parameters,
and encoding conversions between simplex representations. Also supplies exact and
log-scale factorial computation and the generalized binomial coefficient for real-valued n. Package
functions include procedures described in Reingold, Nievergelt and Deo (1977) Combinatorial Algorithms:
Theory and Practice (dl.acm.org/citation.cfm?id=1096489), Feller volume 1, and
Nijenhuis and Wilf (1978) Combinatorial Algorithms for Computers and Calculators (ISBN 0125192606 / 9780125192606).
Author: Scott Chasalow [aut],
Vince Carey [cre]
Maintainer: Vince Carey <stvjc@channing.harvard.edu>
Diff between combinat versions 0.0-8 dated 2010-08-05 and 0.0-9 dated 2026-09-14
combinat-0.0-8/combinat/INDEX |only combinat-0.0-9/combinat/DESCRIPTION | 30 +++++++++++++++++++++++------- combinat-0.0-9/combinat/MD5 |only combinat-0.0-9/combinat/NAMESPACE |only combinat-0.0-9/combinat/man/xsimplex.Rd | 2 +- 5 files changed, 24 insertions(+), 8 deletions(-)
Title: 'Arrow' Database Connectivity ('ADBC') Driver Manager
Description: Provides a developer-facing interface to 'Arrow' Database
Connectivity ('ADBC') for the purposes of driver development, driver
testing, and building high-level database interfaces for users. 'ADBC'
<https://arrow.apache.org/adbc/> is an API standard for database access
libraries that uses 'Arrow' for result sets and query parameters.
Author: Dewey Dunnington [aut, cre] ,
Apache Arrow [aut, cph],
Apache Software Foundation [cph]
Maintainer: Dewey Dunnington <dewey@dunnington.ca>
This is a re-admission after prior archival of version 0.24.0-2 dated 2026-08-23
Diff between adbcdrivermanager versions 0.24.0-2 dated 2026-08-23 and 0.24.0-3 dated 2026-09-14
DESCRIPTION | 6 - MD5 | 8 +- src/c/driver_manager/adbc_driver_manager.cc | 3 src/c/driver_manager/adbc_driver_manager_internal.h | 6 + src/c/driver_manager/adbc_driver_manager_profiles.cc | 58 ++++++++++++------- 5 files changed, 49 insertions(+), 32 deletions(-)
More information about adbcdrivermanager at CRAN
Permanent link
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2024-02-01 0.1.1
2023-11-21 0.1.0
Title: Genetic Algorithm for Wind Farm Layout Optimization
Description: The genetic algorithm is designed to optimize wind farms of any shape. Each layout is encoded as n unique grid-cell identifiers. It requires a predefined amount of turbines, a unified rotor radius and an average wind speed value for each incoming wind direction. A terrain effect model can be included that downloads an 'SRTM' elevation model and loads a Corine Land Cover raster to approximate surface roughness.
Author: Sebastian Gatscha [aut, cre, cph]
Maintainer: Sebastian Gatscha <sebastian_gatscha@gmx.at>
This is a re-admission after prior archival of version 4.0.0 dated 2025-01-18
Diff between windfarmGA versions 4.0.0 dated 2025-01-18 and 5.0.0 dated 2026-09-14
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Title: Exact Sequential Analysis for Poisson and Binomial Data
Description: Functions to calculate exact critical values, statistical power, expected time to signal, and required sample sizes for performing exact sequential analysis. All these calculations can be done for either Poisson or binomial data, for continuous or group sequential analyses, and for different types of rejection boundaries. In case of group sequential analyses, the group sizes do not have to be specified in advance and the alpha spending can be arbitrarily settled. For regression versions of the methods, Monte Carlo and asymptotic methods are used.
Author: Ivair Ramos Silva [aut, cre],
Martin Kulldorff [aut]
Maintainer: Ivair Ramos Silva <ivair@ufop.edu.br>
Diff between Sequential versions 4.6.2 dated 2026-09-08 and 4.6.3 dated 2026-09-14
DESCRIPTION | 10 +++++----- MD5 | 8 ++++---- NAMESPACE | 1 - R/Analyze.Multinomial.R | 8 +++++++- man/Sequential-package.Rd | 7 +++++-- 5 files changed, 21 insertions(+), 13 deletions(-)
Title: Robustified t-Test
Description: Performs one-sample t-test based on robustified statistics using median/MAD (TA) and Hodges-Lehmann/Shamos (TB). For more details, see Park, Wang and Hwang (2022) <doi:10.7232/iems.2022.21.3.432>. This work was partially supported by the National Research Foundation of Korea (NRF) grant funded by the Korea government (No. 2022R1A2C1091319).
Author: Chanseok Park [aut, cre] ,
Min Wang [ctb]
Maintainer: Chanseok Park <statpnu@gmail.com>
Diff between rt.test versions 1.18.7.9 dated 2018-07-10 and 1.26.9 dated 2026-09-14
DESCRIPTION | 33 +++++++++++++++++++++------------ MD5 | 23 +++++++++++++++-------- R/rt-test-Rprogram.R | 7 ++++--- build |only inst/CITATION | 37 ++++++++++++++++++++++++++----------- inst/NEWS.Rd |only inst/doc |only man/HL.estimate.Rd | 7 +++---- man/Quantiles.TA.Rd | 9 ++++----- man/Quantiles.TB.Rd | 13 +++++-------- man/q.robustified.t.Rd | 12 +++++++++--- man/rt.test.Rd | 20 +++++++++++--------- vignettes |only 13 files changed, 98 insertions(+), 63 deletions(-)
Title: Decision-Oriented Analysis Core for APSIM Next Generation
Outputs
Description: Provides a low-level interface for analysing Agricultural Production Systems sIMulator ('APSIM') Next Generation simulation outputs to support structured decision-making workflows.
Author: Bangyou Zheng [aut, cre]
Maintainer: Bangyou Zheng <zheng.bangyou@gmail.com>
Diff between rapsimng.decide.core versions 0.1.0 dated 2026-08-09 and 0.1.1 dated 2026-09-14
DESCRIPTION | 16 ++++++++-------- MD5 | 4 ++-- README.md | 7 +++++++ 3 files changed, 17 insertions(+), 10 deletions(-)
More information about rapsimng.decide.core at CRAN
Permanent link
Title: Model Selection and Tuning Utilities
Description: Provides a lightweight framework for model selection
and hyperparameter tuning in R. The package offers intuitive tools for
grid search, cross-validation, and combined grid search with cross-validation
that work seamlessly with virtually any modeling package. Designed for
flexibility and ease of use, it standardizes tuning workflows while
remaining fully compatible with a wide range of model interfaces and
estimation functions.
Author: Daniel Molitor [aut, cre]
Maintainer: Daniel Molitor <molitdj97@gmail.com>
This is a re-admission after prior archival of version 0.1.3 dated 2025-12-06
Diff between modeltuning versions 0.1.3 dated 2025-12-06 and 0.1.4 dated 2026-09-14
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Title: Sparse Partial Correlation Estimation for Matrix-Variate Data
Description: Fits sparse partial correlation networks for matrix-variate
data by extending the SPACE joint partial correlation estimation
framework to a Kronecker-product covariance structure. All partial
correlations are estimated simultaneously via an L1-penalized
(lasso) shooting algorithm within a single optimization framework,
which preserves symmetry of the estimated network and avoids the
tuning-parameter selection difficulties of separate node-wise
regressions. Optional features include column reweighting, residual
variance re-estimation across outer iterations, and automatic
generation of a lasso penalty sequence for tuning.
Author: Hyewon Kim [aut, cre],
Seongoh Park [aut]
Maintainer: Hyewon Kim <kimhw4126@gmail.com>
Diff between matSPACE versions 0.1.0 dated 2026-09-12 and 0.2.1 dated 2026-09-14
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Title: Publication-Ready Forest Plots with 'ggplot2'
Description: Transform model coefficients into flexible forest
plots using 'ggplot2'. Provides helpers to standardize
coefficient data from a range of modelling workflows and render
publication-ready forest plots with a consistent interface.
Author: Carson Richardson [aut, cre, cph]
Maintainer: Carson Richardson <carson.richardson@outlook.com>
Diff between ggforestplotR versions 0.3.1 dated 2026-08-04 and 0.5.0 dated 2026-09-14
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Title: Force-Directed Euclidean Embedding of Dissimilarity Data
Description: A robust implementation of Topolow algorithm. It embeds objects into a low-dimensional Euclidean space from a matrix of pairwise dissimilarities, even when the data do not satisfy metric or Euclidean axioms. The package is particularly well-suited for sparse, incomplete, and censored (thresholded) datasets such as antigenic relationships. The core is a physics-inspired, gradient-free optimization framework that models objects as particles in a physical system, where observed dissimilarities define spring rest lengths and unobserved pairs exert repulsive forces. The package also provides functions specific to antigenic mapping to transform cross-reactivity and binding affinity measurements into accurate spatial representations in a phenotype space.
Key features include:
* Robust Embedding from Sparse Data: Effectively creates complete and consistent maps (in optimal dimensions) even with high proportions of missing data (e.g., >95%).
* Physics-Inspired Optimization: Models objects (e [...truncated...]
Author: Omid Arhami [aut, cre, cph]
Maintainer: Omid Arhami <omid.arhami@uga.edu>
Diff between topolow versions 2.0.1 dated 2025-08-30 and 2.1.0 dated 2026-09-14
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Title: Ordinal Outcomes: Generalized Linear Models with the Log Link
Description: An implementation of the Log Cumulative Probability Model (LCPM)
and Proportional Probability Model (PPM) for which the Maximum Likelihood Estimates are determined using constrained optimization.
This implementation accounts for the implicit constraints on the parameter space. Other
features such as standard errors, z tests and p-values use standard methods adapted from the results based on constrained optimization.
Author: Gurbakhshash Singh [aut, cre],
Gordon Hilton Fick [aut]
Maintainer: Gurbakhshash Singh <gsingh@ccsu.edu>
Diff between lcpm versions 0.1.1 dated 2020-01-09 and 0.1.2 dated 2026-09-14
DESCRIPTION | 23 ++++++++++++++++------- MD5 | 13 +++++++------ NAMESPACE | 2 +- R/lcpm.R | 4 ++-- R/ppm.R | 10 +++++++--- build |only man/lcpm.Rd | 2 +- man/ppm.Rd | 8 ++++++-- 8 files changed, 40 insertions(+), 22 deletions(-)
Title: Extend 'ggplot2' with Layers and Scales for Spatial Uncertainty
Visualization
Description: Provide specialized 'ggplot2' layers and scales for spatial
uncertainty visualization, including bivariate choropleth maps, pixel maps,
glyph maps, and exceedance probability maps.
Author: Xueqi Ma [aut, cre, cph],
Emi Tanaka [aut, ths] ,
Weihao Li [ths] ,
Quan Vu [ths],
Francis Hui [ths]
Maintainer: Xueqi Ma <maggiexma07@gmail.com>
Diff between ggincerta versions 0.2.0 dated 2026-05-25 and 0.2.1 dated 2026-09-14
DESCRIPTION | 12 MD5 | 90 NEWS.md | 6 R/bivar-palette.R | 25 R/data.R | 22 R/geom-sf-chernoff.R | 17 R/geom-sf-pixel.R | 2 R/guide-bivariate.R | 603 +++- R/guide-vsup.R | 144 - R/scale-bivariate-manual.R | 28 R/scale-bivariate.R | 408 ++- R/scale-vsup.R | 39 R/vsup-quantize.R | 50 README.md | 282 +- build/partial.rdb |binary data/nc_sim.rda |only man/bivar_fade_palette.Rd | 9 man/bivar_palette.Rd | 9 man/bivariate_scale.Rd | 91 man/figures/README-unnamed-chunk-10-1.png |binary man/figures/README-unnamed-chunk-11-1.png |only man/figures/README-unnamed-chunk-12-1.png |only man/figures/README-unnamed-chunk-13-1.png |only man/figures/README-unnamed-chunk-14-1.png |only man/figures/README-unnamed-chunk-3-1.png |binary man/figures/README-unnamed-chunk-4-1.png |binary man/figures/README-unnamed-chunk-5-1.png |binary man/figures/README-unnamed-chunk-6-1.png |binary man/figures/README-unnamed-chunk-7-1.png |binary man/figures/README-unnamed-chunk-8-1.png |binary man/figures/README-unnamed-chunk-9-1.png |binary man/geom_sf_dualmap.Rd | 4 man/geom_sf_glyph.Rd | 2 man/geom_sf_pixel.Rd | 7 man/ggincerta-package.Rd | 1 man/guide_bivariate.Rd | 5 man/guide_glyph.Rd | 5 man/guide_vsup.Rd | 5 man/manual_bivariate_scale.Rd | 55 man/nc_sim.Rd |only man/vsup_palette.Rd | 11 man/vsup_quantize.Rd | 79 man/vsup_scale.Rd | 68 tests/testthat/_snaps/geom-sf-glyph/glyph-map-chernoff.svg | 1218 ++++------ tests/testthat/_snaps/geom-sf-glyph/glyph-map-regular.svg | 374 +-- tests/testthat/_snaps/scale-bivariate/bivariate-map-with-left-guide.svg | 410 +-- tests/testthat/_snaps/scale-bivariate/bivariate-map.svg | 390 +-- tests/testthat/_snaps/scale-vsup/vsup-map.svg | 248 +- tests/testthat/test-scale-bivariate.R | 459 +++ 49 files changed, 3131 insertions(+), 2047 deletions(-)