Title: Mediation Analysis Confidence Intervals
Description: We provide functions to compute confidence intervals for a well-defined nonlinear function of the model parameters (e.g., product of k coefficients) in single--level and
multilevel structural equation models. It also computes a chi-square test statistic for a function of indirect effects.
'Tofighi', D. and 'MacKinnon', D. P. (2011). 'RMediation' An R package for mediation analysis confidence intervals. Behavior Research Methods, 43, 692--700. <doi:10.3758/s13428-011-0076-x>.
'Tofighi', D. (2020). Bootstrap Model-Based Constrained Optimization Tests of Indirect Effects. Frontiers in Psychology, 10, 2989. <doi:10.3389/fpsyg.2019.02989>.
Author: Davood Tofighi [aut, cre]
Maintainer: Davood Tofighi <dtofighi@gmail.com>
Diff between RMediation versions 1.2.1 dated 2023-05-03 and 1.2.2 dated 2023-05-11
DESCRIPTION | 8 ++++---- MD5 | 8 ++++---- NEWS.md | 16 +++++++++++----- R/medci.R | 7 +++++-- man/medci.Rd | 6 ++++-- 5 files changed, 28 insertions(+), 17 deletions(-)
Title: Supervised Dimensional Reduction by Guided Partial Least Squares
Description: Guided partial least squares (guided-PLS) is the combination of partial least squares by singular value decomposition (PLS-SVD) and guided principal component analysis (guided-PCA). For the details of the methods, see the reference section of GitHub README.md <https://github.com/rikenbit/guidedPLS>.
Author: Koki Tsuyuzaki [aut, cre]
Maintainer: Koki Tsuyuzaki <k.t.the-answer@hotmail.co.jp>
Diff between guidedPLS versions 0.99.0 dated 2023-03-22 and 1.0.0 dated 2023-05-11
DESCRIPTION | 6 - MD5 | 28 ++--- R/PLSSVD.R | 43 ++++++++ R/sPLSDA.R | 43 ++++++++ build/partial.rdb |binary build/vignette.rds |binary inst/NEWS | 4 inst/doc/guidedPLS-1.html | 203 +++++++++++++++++++++------------------- inst/doc/guidedPLS-2.html | 189 +++++++++++++++++++------------------ man/PLSSVD.Rd | 12 ++ man/sPLSDA.Rd | 11 +- tests/testthat/test_PLSSVD.R | 37 +++++-- tests/testthat/test_guidedPLS.R | 46 +++++---- tests/testthat/test_sPLSDA.R | 29 ++++- tests/testthat/test_toyModel.R | 12 +- 15 files changed, 418 insertions(+), 245 deletions(-)
Title: Thin Wrapper for Mapping Library 'AMap'
Description: Build and control interactive 2D and 3D maps with 'R/Shiny'. Lean set of powerful commands wrapping native calls to 'AMap' <https://lbs.amap.com/api/jsapi-v2/summary/>.
Deliver rich mapping functionality with minimal overhead.
Author: Larry Helgason [aut, cre, cph]
Maintainer: Larry Helgason <larry@helgasoft.com>
Diff between amapro versions 0.1.1 dated 2022-08-23 and 0.1.3 dated 2023-05-11
amapro-0.1.1/amapro/inst/figures/demo1.jpg |only amapro-0.1.1/amapro/inst/figures/logo.png |only amapro-0.1.3/amapro/DESCRIPTION | 20 - amapro-0.1.3/amapro/MD5 | 53 +-- amapro-0.1.3/amapro/NAMESPACE | 31 - amapro-0.1.3/amapro/NEWS.md | 15 amapro-0.1.3/amapro/R/amapro.R | 105 ++++-- amapro-0.1.3/amapro/README.md | 30 + amapro-0.1.3/amapro/build/vignette.rds |binary amapro-0.1.3/amapro/demo/am.shiny.R | 92 +++-- amapro-0.1.3/amapro/inst/doc/info.Rmd | 46 +- amapro-0.1.3/amapro/inst/doc/info.html | 219 +++++++------ amapro-0.1.3/amapro/inst/figures/demo.txt | 2 amapro-0.1.3/amapro/inst/figures/paris3geo.json | 7 amapro-0.1.3/amapro/inst/htmlwidgets/amapro.js | 114 ++++--- amapro-0.1.3/amapro/inst/htmlwidgets/amapro.yaml | 2 amapro-0.1.3/amapro/inst/js/amap.js | 6 amapro-0.1.3/amapro/man/Introduction.Rd | 372 +++++++++++------------ amapro-0.1.3/amapro/man/am.cmd.Rd | 78 ++-- amapro-0.1.3/amapro/man/am.control.Rd | 66 ++-- amapro-0.1.3/amapro/man/am.init.Rd | 80 ++-- amapro-0.1.3/amapro/man/am.inspect.Rd |only amapro-0.1.3/amapro/man/am.item.Rd | 64 +-- amapro-0.1.3/amapro/man/am.output.Rd | 50 +-- amapro-0.1.3/amapro/man/am.proxy.Rd | 46 +- amapro-0.1.3/amapro/man/am.render.Rd | 44 +- amapro-0.1.3/amapro/man/figures |only amapro-0.1.3/amapro/tests |only amapro-0.1.3/amapro/vignettes/info.Rmd | 46 +- 29 files changed, 860 insertions(+), 728 deletions(-)
Title: Tools for Plant Ecophysiology & Modeling
Description: Contains modeling and analytical tools for plant ecophysiology.
MODELING: Simulate C3 photosynthesis using the Farquhar, von Caemmerer,
Berry (1980) <doi:10.1007/BF00386231> model as described in Buckley and
Diaz-Espejo (2015) <doi:10.1111/pce.12459>. It uses units to ensure that
parameters are properly specified and transformed before calculations.
Temperature response functions get automatically "baked" into all
parameters based on leaf temperature following Bernacchi et al. (2002)
<doi:10.1104/pp.008250>. The package includes boundary layer, cuticular,
stomatal, and mesophyll conductances to CO2, which each can vary on the
upper and lower portions of the leaf. Use straightforward functions to
simulate photosynthesis over environmental gradients such as Photosynthetic
Photon Flux Density (PPFD) and leaf temperature, or over trait gradients
such as CO2 conductance or photochemistry.
ANALYTICAL TOOLS: Fit ACi (Farquhar et al. (1980) <doi:10.1007/BF00386231>)
and [...truncated...]
Author: Joseph Stinziano [aut] ,
Cassaundra Roback [aut],
Demi Sargent [aut],
Bridget Murphy [aut],
Patrick Hudson [aut, dtc],
Chris Muir [aut, cre]
Maintainer: Chris Muir <cdmuir@hawaii.edu>
Diff between photosynthesis versions 2.1.2 dated 2023-03-31 and 2.1.3 dated 2023-05-11
photosynthesis-2.1.2/photosynthesis/R/read_licors.R |only photosynthesis-2.1.2/photosynthesis/man/read_licors.Rd |only photosynthesis-2.1.3/photosynthesis/DESCRIPTION | 14 +-- photosynthesis-2.1.3/photosynthesis/MD5 | 43 +++++----- photosynthesis-2.1.3/photosynthesis/NAMESPACE | 1 photosynthesis-2.1.3/photosynthesis/NEWS.md | 6 + photosynthesis-2.1.3/photosynthesis/R/fit_many.R | 10 ++ photosynthesis-2.1.3/photosynthesis/R/read_licor.R |only photosynthesis-2.1.3/photosynthesis/R/simulate_error.R | 30 +++--- photosynthesis-2.1.3/photosynthesis/inst/doc/co2-response.html | 13 +-- photosynthesis-2.1.3/photosynthesis/inst/doc/hydraulic-vulnerability.html | 4 photosynthesis-2.1.3/photosynthesis/inst/doc/light-respiration.html | 4 photosynthesis-2.1.3/photosynthesis/inst/doc/light-response.html | 4 photosynthesis-2.1.3/photosynthesis/inst/doc/mesophyll-conductance.html | 4 photosynthesis-2.1.3/photosynthesis/inst/doc/modeling-recommendations.html | 4 photosynthesis-2.1.3/photosynthesis/inst/doc/photosynthesis-introduction.html | 4 photosynthesis-2.1.3/photosynthesis/inst/doc/pressure-volume.html | 4 photosynthesis-2.1.3/photosynthesis/inst/doc/sensitivity-analysis.html | 4 photosynthesis-2.1.3/photosynthesis/inst/doc/stomatal-conductance.html | 4 photosynthesis-2.1.3/photosynthesis/inst/doc/temperature-response.html | 4 photosynthesis-2.1.3/photosynthesis/inst/extdata/li6800_example |only photosynthesis-2.1.3/photosynthesis/man/fit_many.Rd | 5 - photosynthesis-2.1.3/photosynthesis/man/read_li6800.Rd |only photosynthesis-2.1.3/photosynthesis/man/read_licor.Rd |only photosynthesis-2.1.3/photosynthesis/man/simulate_error.Rd | 31 +++---- photosynthesis-2.1.3/photosynthesis/tests/testthat/test-read_licor.R |only 26 files changed, 109 insertions(+), 84 deletions(-)
More information about photosynthesis at CRAN
Permanent link
Title: Weighted Metrics and Performance Measures for Machine Learning
Description: Provides weighted versions of several metrics and performance
measures used in machine learning, including average unit deviances of
the Bernoulli, Tweedie, Poisson, and Gamma distributions, see
Jorgensen B. (1997, ISBN: 978-0412997112). The package also contains
a weighted version of generalized R-squared, see e.g. Cohen, J. et al.
(2002, ISBN: 978-0805822236). Furthermore, 'dplyr' chains are
supported.
Author: Michael Mayer [aut, cre],
Christian Lorentzen [ctb]
Maintainer: Michael Mayer <mayermichael79@gmail.com>
Diff between MetricsWeighted versions 1.0.0 dated 2023-04-16 and 1.0.1 dated 2023-05-11
MetricsWeighted-1.0.0/MetricsWeighted/R/AUC_gini.R |only MetricsWeighted-1.0.0/MetricsWeighted/R/deviance.R |only MetricsWeighted-1.0.0/MetricsWeighted/R/r_squared.R |only MetricsWeighted-1.0.0/MetricsWeighted/man/AUC.Rd |only MetricsWeighted-1.0.0/MetricsWeighted/man/accuracy.Rd |only MetricsWeighted-1.0.0/MetricsWeighted/man/classification_error.Rd |only MetricsWeighted-1.0.0/MetricsWeighted/man/deviance_bernoulli.Rd |only MetricsWeighted-1.0.0/MetricsWeighted/man/deviance_gamma.Rd |only MetricsWeighted-1.0.0/MetricsWeighted/man/deviance_normal.Rd |only MetricsWeighted-1.0.0/MetricsWeighted/man/deviance_poisson.Rd |only MetricsWeighted-1.0.0/MetricsWeighted/man/deviance_tweedie.Rd |only MetricsWeighted-1.0.0/MetricsWeighted/man/f1_score.Rd |only MetricsWeighted-1.0.0/MetricsWeighted/man/gini_coefficient.Rd |only MetricsWeighted-1.0.0/MetricsWeighted/man/logLoss.Rd |only MetricsWeighted-1.0.0/MetricsWeighted/man/mae.Rd |only MetricsWeighted-1.0.0/MetricsWeighted/man/mape.Rd |only MetricsWeighted-1.0.0/MetricsWeighted/man/medae.Rd |only MetricsWeighted-1.0.0/MetricsWeighted/man/mse.Rd |only MetricsWeighted-1.0.0/MetricsWeighted/man/precision.Rd |only MetricsWeighted-1.0.0/MetricsWeighted/man/prop_within.Rd |only MetricsWeighted-1.0.0/MetricsWeighted/man/r_squared.Rd |only MetricsWeighted-1.0.0/MetricsWeighted/man/r_squared_bernoulli.Rd |only MetricsWeighted-1.0.0/MetricsWeighted/man/r_squared_gamma.Rd |only MetricsWeighted-1.0.0/MetricsWeighted/man/r_squared_poisson.Rd |only MetricsWeighted-1.0.0/MetricsWeighted/man/recall.Rd |only MetricsWeighted-1.0.0/MetricsWeighted/man/rmse.Rd |only MetricsWeighted-1.0.1/MetricsWeighted/DESCRIPTION | 6 MetricsWeighted-1.0.1/MetricsWeighted/MD5 | 70 +-- MetricsWeighted-1.0.1/MetricsWeighted/NEWS.md | 7 MetricsWeighted-1.0.1/MetricsWeighted/R/classification.R | 194 +++++--- MetricsWeighted-1.0.1/MetricsWeighted/R/elementary_score.R | 28 - MetricsWeighted-1.0.1/MetricsWeighted/R/multi_metric.R | 15 MetricsWeighted-1.0.1/MetricsWeighted/R/murphy_diagram.R | 29 - MetricsWeighted-1.0.1/MetricsWeighted/R/performance.R | 42 - MetricsWeighted-1.0.1/MetricsWeighted/R/regression.R | 223 ++++++---- MetricsWeighted-1.0.1/MetricsWeighted/R/rsquared.R |only MetricsWeighted-1.0.1/MetricsWeighted/R/statistics.R | 104 ++-- MetricsWeighted-1.0.1/MetricsWeighted/build/vignette.rds |binary MetricsWeighted-1.0.1/MetricsWeighted/inst/doc/MetricsWeighted.html | 4 MetricsWeighted-1.0.1/MetricsWeighted/man/classification.Rd |only MetricsWeighted-1.0.1/MetricsWeighted/man/elementary_score.Rd | 21 MetricsWeighted-1.0.1/MetricsWeighted/man/multi_metric.Rd | 9 MetricsWeighted-1.0.1/MetricsWeighted/man/murphy_diagram.Rd | 21 MetricsWeighted-1.0.1/MetricsWeighted/man/performance.Rd | 22 MetricsWeighted-1.0.1/MetricsWeighted/man/regression.Rd |only MetricsWeighted-1.0.1/MetricsWeighted/man/rsquared.Rd |only MetricsWeighted-1.0.1/MetricsWeighted/man/weighted_cor.Rd | 11 MetricsWeighted-1.0.1/MetricsWeighted/man/weighted_mean.Rd | 10 MetricsWeighted-1.0.1/MetricsWeighted/man/weighted_median.Rd | 11 MetricsWeighted-1.0.1/MetricsWeighted/man/weighted_quantile.Rd | 17 MetricsWeighted-1.0.1/MetricsWeighted/man/weighted_var.Rd | 13 51 files changed, 478 insertions(+), 379 deletions(-)
More information about MetricsWeighted at CRAN
Permanent link
Title: Estimated Marginal Means, aka Least-Squares Means
Description: Obtain estimated marginal means (EMMs) for many linear, generalized
linear, and mixed models. Compute contrasts or linear functions of EMMs,
trends, and comparisons of slopes. Plots and other displays.
Least-squares means are discussed, and the term "estimated marginal means"
is suggested, in Searle, Speed, and Milliken (1980) Population marginal means
in the linear model: An alternative to least squares means, The American
Statistician 34(4), 216-221 <doi:10.1080/00031305.1980.10483031>.
Author: Russell V. Lenth [aut, cre, cph],
Ben Bolker [ctb],
Paul Buerkner [ctb],
Iago Gine-Vazquez [ctb],
Maxime Herve [ctb],
Maarten Jung [ctb],
Jonathon Love [ctb],
Fernando Miguez [ctb],
Hannes Riebl [ctb],
Henrik Singmann [ctb]
Maintainer: Russell V. Lenth <russell-lenth@uiowa.edu>
Diff between emmeans versions 1.8.5 dated 2023-03-08 and 1.8.6 dated 2023-05-11
DESCRIPTION | 8 +- MD5 | 100 ++++++++++++++++++------------------- NAMESPACE | 79 +++++++++++++++++++++++++++++ NEWS.md | 12 ++++ R/MCMC-support.R | 10 +++ R/betareg.support.R | 2 R/brms-support.R | 2 R/cld-emm.R | 7 +- R/countreg-support.R | 4 + R/emm-list.R | 10 +-- R/emtrends.R | 3 - R/gam-support.R | 9 ++- R/helpers.R | 28 ++++++++-- R/interfacing.R | 28 ++++++++-- R/lqm-support.R | 9 +++ R/multinom-support.R | 9 +++ R/multiple-models.R | 49 +++++++++++------- R/nonlin-support.R | 6 ++ R/ordinal-support.R | 15 ++++- R/qdrg.R | 2 R/ref-grid.R | 3 - R/rms-support.R | 4 + R/sommer-support.R | 2 inst/doc/AQuickStart.Rmd | 4 - inst/doc/AQuickStart.html | 8 +- inst/doc/FAQs.html | 4 - inst/doc/basics.Rmd | 4 - inst/doc/basics.html | 6 +- inst/doc/comparisons.html | 8 +- inst/doc/confidence-intervals.html | 12 ++-- inst/doc/interactions.html | 18 +++--- inst/doc/messy-data.html | 4 - inst/doc/models.Rmd | 6 +- inst/doc/models.html | 33 ++++++++---- inst/doc/predictions.html | 4 - inst/doc/re-engineering-clds.html | 4 - inst/doc/sophisticated.html | 4 - inst/doc/transformations.html | 4 - inst/doc/utilities.html | 4 - inst/doc/vignette-topics.html | 4 - inst/doc/xplanations.html | 4 - inst/doc/xtending.R | 3 - inst/doc/xtending.Rmd | 3 - inst/doc/xtending.html | 13 ++-- man/CLD.emmGrid.Rd | 8 ++ man/emm_list-object.Rd | 4 - man/extending-emmeans.Rd | 7 ++ vignettes/AQuickStart.Rmd | 4 - vignettes/basics.Rmd | 4 - vignettes/models.Rmd | 6 +- vignettes/xtending.Rmd | 3 - 51 files changed, 414 insertions(+), 177 deletions(-)
Title: Stock Assessment Graphs Database Web Services
Description: R interface to access the web services of the ICES Stock Assessment
Graphs database <https://sg.ices.dk>.
Author: Colin Millar [aut, cre],
Scott Large [aut],
Arni Magnusson [aut],
Carlos Pinto [aut]
Maintainer: Colin Millar <colin.millar@ices.dk>
Diff between icesSAG versions 1.4.0 dated 2022-02-17 and 1.4.1 dated 2023-05-11
DESCRIPTION | 8 ++-- MD5 | 16 ++++---- NEWS.md | 7 +++ R/SAGxml.R | 21 +++++++---- R/sysdata.rda |binary man/icesSAG-package.Rd | 66 ++++++++++++++++++------------------ man/readCreateSAGxml.Rd | 87 ++++++++++++++++++++++++------------------------ man/stockInfo.Rd | 12 +++--- man/uploadStock.Rd | 60 ++++++++++++++++----------------- 9 files changed, 146 insertions(+), 131 deletions(-)
Title: Achilles Data Source Characterization
Description: Automated Characterization of Health Information at Large-Scale
Longitudinal Evidence Systems. Creates a descriptive statistics summary for
an Observational Medical Outcomes Partnership Common Data Model standardized
data source. This package includes functions for executing summary queries on
the specified data source and exporting reporting content for use across a
variety of Observational Health Data Sciences and Informatics community
applications.
Author: Frank DeFalco [aut, cre],
Patrick Ryan [aut],
Martijn Schuemie [aut],
Vojtech Huser [aut],
Chris Knoll [aut],
Ajit Londhe [aut],
Taha Abdul-Basser [aut],
Anthony Molinaro [aut],
Observational Health Data Science and Informatics [cph]
Maintainer: Frank DeFalco <fdefalco@ohdsi.org>
Diff between Achilles versions 1.7.1 dated 2023-05-03 and 1.7.2 dated 2023-05-11
DESCRIPTION | 8 ++++---- MD5 | 10 +++++----- NEWS.md | 4 ++++ inst/doc/GettingStarted.pdf |binary inst/doc/RunningAchilles.pdf |binary tests/testthat/setup.R | 36 ++++++++++++++++++++---------------- 6 files changed, 33 insertions(+), 25 deletions(-)
Title: Testing and Plotting Procedures for Biostatistics
Description: Contains miscellaneous functions useful in biostatistics, mostly univariate and multivariate testing procedures with a special emphasis on permutation tests. Many functions intend to simplify user's life by shortening existing procedures or by implementing plotting functions that can be used with as many methods from different packages as possible.
Author: Maxime HERVE
Maintainer: Maxime HERVE <maxime.herve@univ-rennes1.fr>
Diff between RVAideMemoire versions 0.9-81-2 dated 2022-02-21 and 0.9-82-2 dated 2023-05-11
DESCRIPTION | 15 +- MD5 | 256 +++++++++++++++++++-------------------- NEWS | 6 R/Anova.clm.R | 2 R/Anova.clmm.R | 20 --- R/MVA.ident.R | 8 + R/fp.test.R | 62 +-------- R/pcor.R | 10 + R/predict.least.rect.R | 6 R/zzz.R | 2 man/Anova.clm.Rd | 2 man/CDA.cv.Rd | 2 man/CDA.test.Rd | 2 man/DIABLO.cv.Rd | 2 man/DIABLO.test.Rd | 2 man/G.bintest.Rd | 2 man/G.multcomp.Rd | 2 man/G.test.Rd | 2 man/G.theo.multcomp.Rd | 2 man/GPA.test.Rd | 2 man/MVA.anova.Rd | 2 man/MVA.biplot.Rd | 2 man/MVA.cmv.Rd | 2 man/MVA.cor.Rd | 2 man/MVA.corplot.Rd | 2 man/MVA.cv.Rd | 2 man/MVA.load.Rd | 2 man/MVA.loadplot.Rd | 2 man/MVA.pairplot.Rd | 2 man/MVA.plot.Rd | 2 man/MVA.scoreplot.Rd | 4 man/MVA.scores.Rd | 4 man/MVA.synt.Rd | 2 man/MVA.test.Rd | 2 man/MVA.trajplot.Rd | 4 man/OR.multinom.Rd | 2 man/PLSDA.VIP.Rd | 2 man/RVAideMemoire-package.Rd | 8 - man/adonis.II.Rd | 2 man/back.emmeans.Rd | 2 man/bootstrap.Rd | 2 man/byf.hist.Rd | 2 man/byf.mqqnorm.Rd | 2 man/byf.mshapiro.Rd | 2 man/byf.qqnorm.Rd | 2 man/byf.shapiro.Rd | 2 man/cdf.discrete.Rd | 2 man/chisq.bin.exp.Rd | 2 man/chisq.bintest.Rd | 2 man/chisq.exp.Rd | 2 man/chisq.multcomp.Rd | 2 man/chisq.theo.bintest.Rd | 2 man/chisq.theo.multcomp.Rd | 2 man/cochran.qtest.Rd | 2 man/cond.multinom.Rd | 2 man/coord.proj.Rd | 2 man/cor.2comp.Rd | 4 man/cor.conf.Rd | 2 man/cor.multcomp.Rd | 4 man/cov.test.Rd | 2 man/cox.resid.Rd | 2 man/cramer.Rd | 4 man/cramer.test.Rd | 6 man/cv.Rd | 2 man/dendro.gp.Rd | 2 man/dummy.Rd | 2 man/elogis.Rd | 2 man/fisher.bintest.Rd | 2 man/fisher.multcomp.Rd | 2 man/fp.test.Rd | 2 man/ind.contrib.Rd | 2 man/least.rect.Rd | 2 man/loc.slp.Rd | 2 man/logis.fit.Rd | 2 man/logis.noise.Rd | 2 man/mod.Rd | 2 man/mood.medtest.Rd | 2 man/mqqnorm.Rd | 2 man/mshapiro.test.Rd | 2 man/multinomial.multcomp.Rd | 2 man/multinomial.test.Rd | 2 man/multinomial.theo.multcomp.Rd | 2 man/multtest.cor.Rd | 2 man/multtest.gp.Rd | 2 man/multtest.gp.bin.Rd | 2 man/ord.rw.Rd | 2 man/p.beta.Rd | 2 man/pairwise.CDA.test.Rd | 2 man/pairwise.MVA.test.Rd | 2 man/pairwise.factorfit.Rd | 2 man/pairwise.mood.medtest.Rd | 2 man/pairwise.perm.manova.Rd | 2 man/pairwise.perm.t.test.Rd | 2 man/pairwise.perm.var.test.Rd | 2 man/pairwise.var.test.Rd | 2 man/pcor.Rd | 4 man/pcor.test.Rd | 2 man/perm.anova.Rd | 2 man/perm.bartlett.test.Rd | 2 man/perm.cor.test.Rd | 2 man/perm.t.test.Rd | 2 man/perm.var.test.Rd | 2 man/plotresid.Rd | 2 man/plotsurvivors.Rd | 2 man/predict.CDA.cv.Rd | 2 man/predict.MVA.cv.Rd | 2 man/predict.coadisc.Rd | 2 man/prop.bin.multcomp.Rd | 2 man/prop.multcomp.Rd | 2 man/prop.multinom.Rd | 2 man/prop.multinom.test.Rd | 2 man/rating.emmeans.Rd | 2 man/rating.prob.Rd | 2 man/reg.ci.Rd | 2 man/scat.cr.Rd | 2 man/se.Rd | 2 man/seq2.Rd | 2 man/spearman.ci.Rd | 2 man/spearman.cor.multcomp.Rd | 2 man/splitf.Rd | 2 man/stand.Rd | 2 man/test.multinom.Rd | 2 man/to.dudi.Rd | 2 man/user.cont.Rd | 2 man/wald.ptheo.multinom.test.Rd | 2 man/wald.ptheo.test.Rd | 2 man/wilcox.paired.multcomp.Rd | 2 man/wilcox.signtest.Rd | 2 man/wmean.Rd | 2 129 files changed, 306 insertions(+), 343 deletions(-)
Title: Bio-Logging Toolbox
Description: An R-shiny application to plot datalogger time series at a microsecond precision as Acceleration, Temperature,
Pressure, Light intensity from CATS, AXY-TREK LUL and WACU bio-loggers. It is possible to link behavioral labels extracted
from 'BORIS' software <http://www.boris.unito.it> or manually written in a csv file.
CATS bio-logger are manufactured by <https://cats.is/>, AXY-TREK are manufactured by <https://www.technosmart.eu> and
LUL and WACU are manufactured by <https://www.iphc.cnrs.fr/-MIBE-.html>.
Author: Sebastien Geiger [aut, cre]
Maintainer: Sebastien Geiger <sebastien.geiger@iphc.cnrs.fr>
Diff between rblt versions 0.2.4.5 dated 2019-12-05 and 0.2.4.6 dated 2023-05-11
DESCRIPTION | 11 MD5 | 65 +- NAMESPACE | 86 +-- R/default.R | 836 ++++++++++++++--------------- R/logger.R | 1274 ++++++++++++++++++++++----------------------- R/loggerui.R | 903 +++++++++++++++---------------- README.md |only build/vignette.rds |binary inst/doc/rblt.R | 12 inst/doc/rblt.Rmd | 618 ++++++++++----------- inst/doc/rblt.html | 924 ++++++++++++++++++++------------ man/Logger-class.Rd | 92 +-- man/LoggerAxytrek-class.Rd | 42 - man/LoggerCats-class.Rd | 42 - man/LoggerData-class.Rd | 42 - man/LoggerList-class.Rd | 38 - man/LoggerLul-class.Rd | 42 - man/LoggerUI-class.Rd | 60 +- man/LoggerWacu-class.Rd | 42 - man/Metric-class.Rd | 58 +- man/MetricList-class.Rd | 78 +- man/OldLoggerUI-class.Rd | 22 man/ZoomHistory-class.Rd | 42 - man/axytrek2h5.Rd | 36 - man/cats2h5.Rd | 36 - man/demo_gui.Rd | 22 man/demoaxytrek2h5.Rd | 32 - man/democats2h5.Rd | 32 - man/democatsmkbe.Rd | 36 - man/demolul2h5.Rd | 32 - man/demowacu2h5.Rd | 32 - man/lul2h5.Rd | 36 - man/wacu2h5.Rd | 46 - vignettes/rblt.Rmd | 618 ++++++++++----------- 34 files changed, 3271 insertions(+), 3016 deletions(-)
Title: Multi-Purpose Core Subset Selection
Description: Core Hunter is a tool to sample diverse, representative subsets from large germplasm
collections, with minimum redundancy. Such so-called core collections have applications in plant
breeding and genetic resource management in general. Core Hunter can construct cores based on
genetic marker data, phenotypic traits or precomputed distance matrices, optimizing one of many
provided evaluation measures depending on the precise purpose of the core (e.g. high diversity,
representativeness, or allelic richness). In addition, multiple measures can be simultaneously
optimized as part of a weighted index to bring the different perspectives closer together.
The Core Hunter library is implemented in Java 8 as an open source project (see
<http://www.corehunter.org>).
Author: Herman De Beukelaer [aut, cre],
Guy Davenport [aut],
Veerle Fack [ths]
Maintainer: Herman De Beukelaer <herman.debeukelaer@gmail.com>
Diff between corehunter versions 3.2.1 dated 2018-04-16 and 3.2.2 dated 2023-05-11
DESCRIPTION | 13 LICENSE | 4 MD5 | 86 NAMESPACE | 56 NEWS.md | 77 R/analysis.R | 148 - R/corehunter.R | 122 - R/data.R | 2438 +++++++++++++-------------- R/execution.R | 1248 ++++++------- R/java.R | 186 +- R/zzz.R | 28 README.md | 135 - inst/extdata/distances.csv | 438 ++-- inst/extdata/genotypes-biparental.csv | 438 ++-- inst/extdata/genotypes-frequency.csv | 438 ++-- inst/extdata/genotypes.csv | 438 ++-- inst/extdata/phenotypes.csv | 440 ++-- inst/java/LICENSE | 402 ++-- inst/java/NOTICE | 100 - man/coreHunterData.Rd | 102 - man/corehunter.Rd | 131 - man/distances.Rd | 98 - man/evaluateCore.Rd | 82 man/exampleData.Rd | 66 man/genotypes.Rd | 278 +-- man/getAlleleFrequencies.Rd | 34 man/getNormalizationRanges.Rd | 233 +- man/objective.Rd | 238 +- man/phenotypes.Rd | 220 +- man/read.autodelim.Rd | 142 - man/sampleCore.Rd | 313 +-- man/setRange.Rd | 46 man/wrapData.Rd | 36 tests/test.R | 10 tests/testthat/data/distances-small.txt | 10 tests/testthat/data/genotypes-bi-small.csv | 10 tests/testthat/data/genotypes-freq-small.csv | 14 tests/testthat/data/genotypes-small.csv | 10 tests/testthat/data/phenotypes-single.csv | 22 tests/testthat/testAnalysis.R | 52 tests/testthat/testData.R | 1516 ++++++++-------- tests/testthat/testExecution.R | 522 ++--- tests/testthat/testJava.R | 106 - tests/testthat/testUtils.R | 312 +-- 44 files changed, 5940 insertions(+), 5898 deletions(-)
Title: Tools for Cleaning Rectangular Data
Description: A dependency-free collection of simple functions for cleaning
rectangular data. This package allows to detect, count and replace values
or discard rows/columns using a predicate function. In addition, it
provides tools to check conditions and return informative error messages.
Author: Nicolas Frerebeau [aut, cre] ,
Brice Lebrun [ctb]
Maintainer: Nicolas Frerebeau
<nicolas.frerebeau@u-bordeaux-montaigne.fr>
Diff between arkhe versions 1.1.0 dated 2023-01-18 and 1.2.0 dated 2023-05-11
arkhe-1.1.0/arkhe/tests/testthat/helper.R |only arkhe-1.2.0/arkhe/DESCRIPTION | 12 +- arkhe-1.2.0/arkhe/MD5 | 47 +++++--- arkhe-1.2.0/arkhe/NAMESPACE | 4 arkhe-1.2.0/arkhe/NEWS.md | 11 ++ arkhe-1.2.0/arkhe/R/AllGenerics.R | 97 ++++++++++++++++-- arkhe-1.2.0/arkhe/R/arkhe-package.R | 2 arkhe-1.2.0/arkhe/R/mathematics.R |only arkhe-1.2.0/arkhe/R/statistics.R | 85 ++++++++++++++- arkhe-1.2.0/arkhe/R/utilities.R | 38 +++++++ arkhe-1.2.0/arkhe/README.md | 46 ++++---- arkhe-1.2.0/arkhe/build/partial.rdb |binary arkhe-1.2.0/arkhe/inst/CITATION | 24 +--- arkhe-1.2.0/arkhe/inst/examples/ex-interval.R |only arkhe-1.2.0/arkhe/inst/examples/ex-resample.R | 6 + arkhe-1.2.0/arkhe/man/arkhe-package.Rd | 2 arkhe-1.2.0/arkhe/man/bootstrap.Rd | 16 ++ arkhe-1.2.0/arkhe/man/confidence_binomial.Rd | 4 arkhe-1.2.0/arkhe/man/confidence_mean.Rd | 4 arkhe-1.2.0/arkhe/man/confidence_multinomial.Rd | 4 arkhe-1.2.0/arkhe/man/interval_credible.Rd |only arkhe-1.2.0/arkhe/man/interval_hdr.Rd |only arkhe-1.2.0/arkhe/man/jackknife.Rd | 17 ++- arkhe-1.2.0/arkhe/man/math_gcd.Rd |only arkhe-1.2.0/arkhe/man/math_lcm.Rd |only arkhe-1.2.0/arkhe/man/with_seed.Rd |only arkhe-1.2.0/arkhe/tests/testthat/_snaps/statistics.md | 71 +++++++++++++ arkhe-1.2.0/arkhe/tests/testthat/test-mathematics.R |only arkhe-1.2.0/arkhe/tests/testthat/test-statistics.R | 22 ++++ 29 files changed, 422 insertions(+), 90 deletions(-)
Title: Analysis of Music and Speech
Description: Analyze music and speech, extract features like MFCCs, handle wave files and their representation in various ways, read mp3, read midi, perform steps of a transcription, ...
Also contains functions ported from the 'rastamat' 'Matlab' package.
Author: Uwe Ligges [aut, cre, cph] ,
Sebastian Krey [aut, cph],
Olaf Mersmann [aut, cph],
Sarah Schnackenberg [aut, cph],
Guillaume Guenard [aut, cph] ,
Daniel P. W. Ellis [aut, cph] ,
Underbit Technologies [aut, cph] ,
Andrea Preusser [ctb],
Anita Thieler [ [...truncated...]
Maintainer: Uwe Ligges <ligges@statistik.tu-dortmund.de>
Diff between tuneR versions 1.4.3 dated 2023-03-14 and 1.4.4 dated 2023-05-11
DESCRIPTION | 8 ++++---- MD5 | 8 ++++---- R/plot-Wave.R | 12 ++++++------ R/readWave.R | 2 +- man/plot-Wave.Rd | 6 +++--- 5 files changed, 18 insertions(+), 18 deletions(-)
Title: Accessing the Flipside Crypto ShroomDK API
Description: Programmatic access to Flipside Crypto data via the Compass RPC API: <https://api-docs.flipsidecrypto.xyz/>. As simple as auto_paginate_query() but with core functions as needed for troubleshooting. Note, 0.1.1 support deprecated 2023-05-31.
Author: Carlos Mercado
Maintainer: Carlos Mercado <carlos.mercado@flipsidecrypto.com>
Diff between shroomDK versions 0.1.1 dated 2022-10-28 and 0.2.0 dated 2023-05-11
DESCRIPTION | 10 +-- MD5 | 24 +++++--- NAMESPACE | 2 R/auto_paginate_query.R | 82 ++++++++++++++--------------- R/cancel_query.R |only R/clean_query.R | 17 +++--- R/create_query_token.R | 54 ++++++++++++++----- R/get_query_from_token.R | 122 +++++++++++++++++++++++++------------------- R/get_query_status.R |only man/auto_paginate_query.Rd | 23 ++++++-- man/cancel_query.Rd |only man/clean_query.Rd | 9 +-- man/create_query_token.Rd | 18 ++++-- man/get_query_from_token.Rd | 34 +++++++----- man/get_query_status.Rd |only 15 files changed, 238 insertions(+), 157 deletions(-)
Title: Resampling Algorithms for Multi-Label Datasets
Description: Collection of the state of the art multi-label resampling algorithms. The objective of these algorithms is to achieve balance in multi-label datasets.
Author: Miguel Ángel Davila [cre],
Francisco Charte [aut] ,
Maria Jose Del Jesus [aut]
Maintainer: Miguel Ángel Davila <madr0008@red.ujaen.es>
Diff between mldr.resampling versions 0.2 dated 2023-04-21 and 0.2.1 dated 2023-05-11
DESCRIPTION | 6 +++--- MD5 | 8 ++++---- NEWS.md | 5 +++++ R/utils.R | 6 +++--- README.md | 8 +++++--- 5 files changed, 20 insertions(+), 13 deletions(-)
More information about mldr.resampling at CRAN
Permanent link
Title: Cyclic Redundancy Check with CPU-Specific Acceleration
Description: Hardware-based support for 'CRC32C' cyclic redundancy checksum function
is made available for 'x86_64' systems with 'SSE2' support as well as for 'arm64',
and detected at build-time via 'cmake' with a software-based fallback. This
functionality is exported at the 'C'-language level for use by other packages.
'CRC32C' is described in 'RFC 3270' at <https://datatracker.ietf.org/doc/html/rfc3720>
and is based on 'Castagnoli et al' <doi:10.1109/26.231911>.
Author: Dirk Eddelbuettel [aut, cre] ,
The CRC32C Authors [aut]
Maintainer: Dirk Eddelbuettel <edd@debian.org>
Diff between crc32c versions 0.0.1 dated 2023-05-08 and 0.0.2 dated 2023-05-11
crc32c-0.0.1/crc32c/src/Makevars |only crc32c-0.0.2/crc32c/ChangeLog | 23 +++++++++++++++++++++++ crc32c-0.0.2/crc32c/DESCRIPTION | 12 +++++++----- crc32c-0.0.2/crc32c/MD5 | 18 ++++++++++-------- crc32c-0.0.2/crc32c/README.md | 7 +++---- crc32c-0.0.2/crc32c/build/partial.rdb |binary crc32c-0.0.2/crc32c/cleanup | 3 ++- crc32c-0.0.2/crc32c/configure |only crc32c-0.0.2/crc32c/inst/NEWS.Rd | 10 ++++++++++ crc32c-0.0.2/crc32c/src/Makevars.in |only crc32c-0.0.2/crc32c/src/Makevars.win |only crc32c-0.0.2/crc32c/src/crc32c/CMakeLists.txt | 10 ++++++---- 12 files changed, 61 insertions(+), 22 deletions(-)
Title: General Unified Threshold Model of Survival for Bees using
Bayesian Inference
Description: Tools to calibrate, validate, and make predictions with the
General Unified Threshold model of Survival adapted for Bee species. The
model is presented in the publication from Baas, J., Goussen, B., Miles, M.,
Preuss, T.G., Roessing, I. (2022) <doi:10.1002/etc.5423> and is based on the GUTS framework
Jager, T., Albert, C., Preuss, T.G. and Ashauer, R. (2011) <doi:10.1021/es103092a>.
The authors are grateful to Bayer A.G. for its financial support.
Author: Benoit Goussen [aut, cre] ,
Liubov Zakharova [ctb],
Romoli Carlo [ctb],
Bayer AG [cph]
Maintainer: Benoit Goussen <benoit.goussen@ibacon.com>
Diff between BeeGUTS versions 1.0.0 dated 2022-08-09 and 1.1.2 dated 2023-05-11
DESCRIPTION | 18 - MD5 | 78 ++-- NAMESPACE | 1 NEWS.md | 26 + R/BeeGUTS-Internal.R | 2 R/BeeGUTS-package.R | 2 R/LCx.R | 8 R/fitBeeGUTS.R | 3 R/plotBeeGUTS.R | 4 R/readData.R | 139 +++++++- R/summaryBeeGUTS.R | 17 - R/validateBeeGUTS.R | 5 README.md | 41 -- build/partial.rdb |binary build/vignette.rds |binary data/betacyfluthrinChronic.rda |binary data/fitBetacyfluthrin_Chronic.rda |binary inst/doc/Tutorial.R | 18 - inst/doc/Tutorial.Rmd | 43 ++ inst/doc/Tutorial.html | 446 ++++++++++++++++++++++----- inst/stan/GUTS_IT.stan | 4 inst/stan/GUTS_SD.stan | 2 inst/stan/include/common_stan_functions.stan | 6 man/LCX.Rd | 4 man/LCx.beeSurvFit.Rd | 6 man/betacyfluthrinChronic.Rd | 2 man/dataGUTS.Rd | 13 man/figures/README-example-1.png |binary man/figures/README-example-2.png |binary man/figures/README-example-3.png |binary man/figures/README-example-4.png |binary man/figures/README-example-5.png |binary man/plot.beeSurvValidation.Rd | 4 man/summary.LCx.Rd |only man/summary.beeSurvFit.Rd | 14 src/stanExports_GUTS_IT.h | 54 +-- src/stanExports_GUTS_SD.h | 50 +-- vignettes/Tutorial.Rmd | 43 ++ vignettes/man |only 39 files changed, 791 insertions(+), 262 deletions(-)
Title: Continuous and Dichotomized Index Predictors Based on
Distribution Quantiles
Description: Select optimal functional regression or dichotomized
quantile predictors for survival/logistic/numeric outcome
and perform optimistic bias correction for any optimally
dichotomized numeric predictor(s), as in Yi, et. al. (2023)
<doi:10.1016/j.labinv.2023.100158>.
Author: Tingting Zhan [aut, cre, cph] ,
Misung Yi [aut, cph] ,
Inna Chervoneva [aut, cph]
Maintainer: Tingting Zhan <tingtingzhan@gmail.com>
Diff between Qindex versions 0.1.2 dated 2023-03-16 and 0.1.3 dated 2023-05-11
Qindex-0.1.2/Qindex/R/0info.R |only Qindex-0.1.2/Qindex/R/optQp.R |only Qindex-0.1.2/Qindex/R/pkg_data_doc.R |only Qindex-0.1.2/Qindex/R/sampleQp.R |only Qindex-0.1.2/Qindex/man/dichotom_int.Rd |only Qindex-0.1.2/Qindex/man/eval_dichotom.Rd |only Qindex-0.1.2/Qindex/man/model_dichotom.Rd |only Qindex-0.1.2/Qindex/man/optQp.Rd |only Qindex-0.1.2/Qindex/man/print.eval_dichotom.Rd |only Qindex-0.1.2/Qindex/man/sampleQp.Rd |only Qindex-0.1.2/Qindex/man/summary.eval_dichotom.Rd |only Qindex-0.1.3/Qindex/DESCRIPTION | 48 +- Qindex-0.1.3/Qindex/MD5 | 57 +- Qindex-0.1.3/Qindex/NAMESPACE | 40 + Qindex-0.1.3/Qindex/R/0_info.R |only Qindex-0.1.3/Qindex/R/0bootIDX.R |only Qindex-0.1.3/Qindex/R/0coef_dichotom.R |only Qindex-0.1.3/Qindex/R/0gam_ext.R |only Qindex-0.1.3/Qindex/R/0rpartD.R |only Qindex-0.1.3/Qindex/R/0splitSample_dichotom.R |only Qindex-0.1.3/Qindex/R/0std_.R |only Qindex-0.1.3/Qindex/R/0stratifiedSplitSample.R |only Qindex-0.1.3/Qindex/R/BBC_dichotom.R | 288 +++++-------- Qindex-0.1.3/Qindex/R/FRindex.R | 366 ++++++++--------- Qindex-0.1.3/Qindex/R/clusterQp.R |only Qindex-0.1.3/Qindex/R/optim_splitSample_dichotom.R |only Qindex-0.1.3/Qindex/build/partial.rdb |binary Qindex-0.1.3/Qindex/data/pkg_data.rda |binary Qindex-0.1.3/Qindex/man/BBC_dichotom.Rd | 55 +- Qindex-0.1.3/Qindex/man/FR_gam.Rd |only Qindex-0.1.3/Qindex/man/FRindex-class.Rd |only Qindex-0.1.3/Qindex/man/FRindex.Rd | 154 ++----- Qindex-0.1.3/Qindex/man/Qindex-package.Rd | 90 ++-- Qindex-0.1.3/Qindex/man/bootIDX.Rd |only Qindex-0.1.3/Qindex/man/boot_optim_dichotom.Rd |only Qindex-0.1.3/Qindex/man/celldata.Rd | 8 Qindex-0.1.3/Qindex/man/clusterQp.Rd |only Qindex-0.1.3/Qindex/man/coef_dichotom.Rd |only Qindex-0.1.3/Qindex/man/gam2beta.Rd |only Qindex-0.1.3/Qindex/man/m_rpartD.Rd |only Qindex-0.1.3/Qindex/man/median_splitSample_dichotom.Rd |only Qindex-0.1.3/Qindex/man/optim_splitSample_dichotom.Rd |only Qindex-0.1.3/Qindex/man/predict.FRindex.Rd |only Qindex-0.1.3/Qindex/man/rpartD.Rd |only Qindex-0.1.3/Qindex/man/splitSample_dichotom.Rd |only Qindex-0.1.3/Qindex/man/std_IQR.Rd |only Qindex-0.1.3/Qindex/man/std_mad.Rd |only Qindex-0.1.3/Qindex/man/stratifiedSplitSample.Rd |only 48 files changed, 509 insertions(+), 597 deletions(-)
Title: Fasano-Franceschini Test: A Multidimensional Kolmogorov-Smirnov
Two-Sample Test
Description: An implementation of the two-sample multidimensional
Kolmogorov-Smirnov test described by Fasano and Franceschini (1987)
<doi:10.1093/mnras/225.1.155>. This test evaluates the null hypothesis
that two i.i.d. random samples were drawn from the same underlying
probability distribution. The data can be of any dimension, and can be
of any type (continuous, discrete, or mixed).
Author: Connor Puritz [aut, cre] ,
Elan Ness-Cohn [aut] ,
Rosemary Braun [ctb, ths] ,
Luca Weihs [cph]
Maintainer: Connor Puritz <connorpuritz2025@u.northwestern.edu>
Diff between fasano.franceschini.test versions 2.2.0 dated 2023-05-08 and 2.2.1 dated 2023-05-11
DESCRIPTION | 6 +++--- MD5 | 8 ++++---- NEWS.md | 3 +++ README.md | 6 +++--- src/ff_internal_functions.cpp | 6 +++--- 5 files changed, 16 insertions(+), 13 deletions(-)
More information about fasano.franceschini.test at CRAN
Permanent link
Title: Analysis of Binding Events + l
Description: A free software for a fast and easy analysis of 1:1 molecular interaction studies.
This package is suitable for a high-throughput data analysis.
Both the online app and the package are completely open source.
You provide a table of sensogram, tell 'anabel' which method to use,
and it takes care of all fitting details.
The first two releases of 'anabel' were created and implemented as in
(<doi:10.1177/1177932218821383>, <doi:10.1093/database/baz101>).
Author: Hoor Al-Hasani [aut, cre] ,
Oliver Selinger [aut] ,
Stefan Kraemer [aut]
Maintainer: Hoor Al-Hasani <anabel@biocopy.de>
Diff between anabel versions 3.0.0 dated 2023-05-08 and 3.0.1 dated 2023-05-11
DESCRIPTION | 6 +++--- MD5 | 27 ++++++++++++++------------- NEWS.md |only R/anabel.R | 12 ++++++------ inst/doc/anabel.Rmd | 2 +- inst/doc/anabel.html | 4 ++-- man/MCK_dataset.Rd | 2 +- man/MCK_dataset_drift.Rd | 2 +- man/SCA_dataset.Rd | 2 +- man/SCA_dataset_drift.Rd | 2 +- man/SCK_dataset.Rd | 2 +- man/SCK_dataset_decay.Rd | 2 +- tests/testthat/test-SCA.R | 5 +++-- tests/testthat/test-SCK.R | 4 ++-- vignettes/anabel.Rmd | 2 +- 15 files changed, 38 insertions(+), 36 deletions(-)
Title: Descriptive 3D Multidimensional Item Response Theory Modeling
Description: The 'D3mirt' package is used for identifying, estimating, and plotting descriptive multidimensional item response theory models, restricted to 3D and dichotomous or polytomous data that fit the two-parameter logistic model or the graded response model.
The method is foremost explorative and centered around the plot function that exposes item characteristics and constructs, represented by vector arrows, located in a three-dimensional interactive space.
The results can be useful for item-level analysis as well as test development.
Author: Erik Forsberg [aut, cre, cph]
Maintainer: Erik Forsberg <forsbergpsychometrics@gmail.com>
Diff between D3mirt versions 1.0.2 dated 2023-05-10 and 1.0.3 dated 2023-05-11
DESCRIPTION | 6 +-- MD5 | 12 +++--- NEWS.md | 2 + README.md | 19 ++++++--- inst/doc/Intro_to_D3mirt.Rmd | 25 ++++++++----- inst/doc/Intro_to_D3mirt.html | 80 ++++++++++++++++++++++++------------------ vignettes/Intro_to_D3mirt.Rmd | 25 ++++++++----- 7 files changed, 102 insertions(+), 67 deletions(-)
Title: Ensemble Platform for Species Distribution Modeling
Description: Functions for species distribution modeling, calibration and evaluation,
ensemble of models, ensemble forecasting and visualization. The package permits to run
consistently up to 10 single models on a presence/absences (resp presences/pseudo-absences)
dataset and to combine them in ensemble models and ensemble projections. Some bench of other
evaluation and visualisation tools are also available within the package.
Author: Wilfried Thuiller [aut],
Damien Georges [aut],
Maya Gueguen [aut, cre],
Robin Engler [aut],
Frank Breiner [aut],
Bruno Lafourcade [aut],
Remi Patin [aut]
Maintainer: Maya Gueguen <maya.gueguen@univ-grenoble-alpes.fr>
Diff between biomod2 versions 4.2-2 dated 2023-01-16 and 4.2-3 dated 2023-05-11
biomod2-4.2-2/biomod2/R/BIOMOD_CrossValidation.R |only biomod2-4.2-2/biomod2/man/BIOMOD_CrossValidation.Rd |only biomod2-4.2-3/biomod2/DESCRIPTION | 32 biomod2-4.2-3/biomod2/MD5 | 156 +- biomod2-4.2-3/biomod2/NAMESPACE | 18 biomod2-4.2-3/biomod2/R/BIOMOD_EnsembleForecasting.R | 60 biomod2-4.2-3/biomod2/R/BIOMOD_EnsembleModeling.R | 376 +++-- biomod2-4.2-3/biomod2/R/BIOMOD_FormatingData.R | 385 ----- biomod2-4.2-3/biomod2/R/BIOMOD_LoadModels.R | 6 biomod2-4.2-3/biomod2/R/BIOMOD_Modeling.R | 692 ++++------ biomod2-4.2-3/biomod2/R/BIOMOD_ModelingOptions.R | 8 biomod2-4.2-3/biomod2/R/BIOMOD_PresenceOnly.R | 123 - biomod2-4.2-3/biomod2/R/BIOMOD_Projection.R | 86 - biomod2-4.2-3/biomod2/R/BIOMOD_RangeSize.R | 6 biomod2-4.2-3/biomod2/R/DEPRECATED.R | 17 biomod2-4.2-3/biomod2/R/biomod2_classes_1.R | 508 ++++--- biomod2-4.2-3/biomod2/R/biomod2_classes_2.R | 29 biomod2-4.2-3/biomod2/R/biomod2_classes_3.R | 112 + biomod2-4.2-3/biomod2/R/biomod2_classes_4.R | 72 - biomod2-4.2-3/biomod2/R/biomod2_classes_5.R | 97 - biomod2-4.2-3/biomod2/R/biomod2_globalVariables.R | 20 biomod2-4.2-3/biomod2/R/biomod2_internal.R | 420 +++++- biomod2-4.2-3/biomod2/R/bm_CrossValidation.R |only biomod2-4.2-3/biomod2/R/bm_PlotEvalBoxplot.R | 6 biomod2-4.2-3/biomod2/R/bm_PlotEvalMean.R | 6 biomod2-4.2-3/biomod2/R/bm_PlotRangeSize.R | 6 biomod2-4.2-3/biomod2/R/bm_PlotResponseCurves.R | 10 biomod2-4.2-3/biomod2/R/bm_PlotVarImpBoxplot.R | 6 biomod2-4.2-3/biomod2/R/bm_PseudoAbsences.R | 307 +++- biomod2-4.2-3/biomod2/R/bm_RunModelsLoop.R | 504 +++---- biomod2-4.2-3/biomod2/R/bm_SRE.R | 22 biomod2-4.2-3/biomod2/README.md | 18 biomod2-4.2-3/biomod2/build/vignette.rds |binary biomod2-4.2-3/biomod2/inst/doc/examples_1_mainFunctions.Rmd | 190 +- biomod2-4.2-3/biomod2/inst/doc/examples_1_mainFunctions.html | 175 +- biomod2-4.2-3/biomod2/inst/doc/examples_2_secundaryFunctions.Rmd | 217 ++- biomod2-4.2-3/biomod2/inst/doc/examples_2_secundaryFunctions.html | 199 ++ biomod2-4.2-3/biomod2/inst/doc/news.Rmd | 43 biomod2-4.2-3/biomod2/inst/doc/news.html | 42 biomod2-4.2-3/biomod2/man/BIOMOD.ensemble.models.out.Rd | 6 biomod2-4.2-3/biomod2/man/BIOMOD.formated.data.PA.Rd | 14 biomod2-4.2-3/biomod2/man/BIOMOD.formated.data.Rd | 4 biomod2-4.2-3/biomod2/man/BIOMOD.models.out.Rd | 8 biomod2-4.2-3/biomod2/man/BIOMOD.projection.out.Rd | 6 biomod2-4.2-3/biomod2/man/BIOMOD.stored.data.Rd | 3 biomod2-4.2-3/biomod2/man/BIOMOD_CrossValidation-deprecated.Rd |only biomod2-4.2-3/biomod2/man/BIOMOD_EnsembleForecasting.Rd | 12 biomod2-4.2-3/biomod2/man/BIOMOD_EnsembleModeling.Rd | 182 +- biomod2-4.2-3/biomod2/man/BIOMOD_FormatingData.Rd | 34 biomod2-4.2-3/biomod2/man/BIOMOD_LoadModels.Rd | 7 biomod2-4.2-3/biomod2/man/BIOMOD_Modeling.Rd | 129 + biomod2-4.2-3/biomod2/man/BIOMOD_ModelingOptions.Rd | 9 biomod2-4.2-3/biomod2/man/BIOMOD_PresenceOnly.Rd | 39 biomod2-4.2-3/biomod2/man/BIOMOD_Projection.Rd | 7 biomod2-4.2-3/biomod2/man/BIOMOD_RangeSize.Rd | 7 biomod2-4.2-3/biomod2/man/BIOMOD_Tuning.Rd | 1 biomod2-4.2-3/biomod2/man/biomod2-deprecated.Rd | 8 biomod2-4.2-3/biomod2/man/bm_BinaryTransformation.Rd | 1 biomod2-4.2-3/biomod2/man/bm_CVnnet.Rd | 1 biomod2-4.2-3/biomod2/man/bm_CrossValidation.Rd |only biomod2-4.2-3/biomod2/man/bm_FindOptimStat.Rd | 1 biomod2-4.2-3/biomod2/man/bm_MakeFormula.Rd | 1 biomod2-4.2-3/biomod2/man/bm_PlotEvalBoxplot.Rd | 7 biomod2-4.2-3/biomod2/man/bm_PlotEvalMean.Rd | 7 biomod2-4.2-3/biomod2/man/bm_PlotRangeSize.Rd | 7 biomod2-4.2-3/biomod2/man/bm_PlotResponseCurves.Rd | 7 biomod2-4.2-3/biomod2/man/bm_PlotVarImpBoxplot.Rd | 7 biomod2-4.2-3/biomod2/man/bm_PseudoAbsences.Rd | 116 + biomod2-4.2-3/biomod2/man/bm_RunModelsLoop.Rd | 69 biomod2-4.2-3/biomod2/man/bm_SRE.Rd | 1 biomod2-4.2-3/biomod2/man/bm_SampleBinaryVector.Rd | 1 biomod2-4.2-3/biomod2/man/bm_SampleFactorLevels.Rd | 1 biomod2-4.2-3/biomod2/man/bm_VariablesImportance.Rd | 1 biomod2-4.2-3/biomod2/man/check_duplicated_cells.Rd | 2 biomod2-4.2-3/biomod2/man/dot-get_env_class.Rd |only biomod2-4.2-3/biomod2/man/getters.out.Rd | 38 biomod2-4.2-3/biomod2/man/plot.Rd | 2 biomod2-4.2-3/biomod2/man/predict2.em.Rd | 4 biomod2-4.2-3/biomod2/man/summary.Rd | 2 biomod2-4.2-3/biomod2/vignettes/examples_1_mainFunctions.Rmd | 190 +- biomod2-4.2-3/biomod2/vignettes/examples_2_secundaryFunctions.Rmd | 217 ++- biomod2-4.2-3/biomod2/vignettes/news.Rmd | 43 82 files changed, 3726 insertions(+), 2450 deletions(-)
Title: Algorithms for Helping Build Dynamic TOPMODEL Implementations
from Spatial Data
Description: A set of algorithms based on Quinn et al. (1991) <doi:10.1002/hyp.3360050106> for processing river network and digital elevation data to build implementations of Dynamic TOPMODEL, a semi-distributed hydrological model proposed in Beven and Freer (2001) <doi:10.1002/hyp.252>. The 'dynatop' package implements simulation code for Dynamic TOPMODEL based on the output of 'dynatopGIS'.
Author: Paul Smith [aut, cre]
Maintainer: Paul Smith <paul@waternumbers.co.uk>
Diff between dynatopGIS versions 0.2.4 dated 2022-11-30 and 0.2.5 dated 2023-05-11
DESCRIPTION | 10 +- MD5 | 12 +- NEWS.md | 5 + R/dygis.R | 13 +- README.md | 6 - build/vignette.rds |binary inst/doc/dynatopGIS.html | 228 +++++++++++++++++++++++------------------------ 7 files changed, 139 insertions(+), 135 deletions(-)
Title: Fit 'TabNet' Models for Classification and Regression
Description: Implements the 'TabNet' model by Sercan O. Arik et al. (2019) <arXiv:1908.07442>
and provides a consistent interface for fitting and creating predictions. It's
also fully compatible with the 'tidymodels' ecosystem.
Author: Daniel Falbel [aut],
RStudio [cph],
Christophe Regouby [cre, ctb],
Egill Fridgeirsson [ctb],
Philipp Haarmeyer [ctb]
Maintainer: Christophe Regouby <christophe.regouby@free.fr>
Diff between tabnet versions 0.3.0 dated 2021-10-11 and 0.4.0 dated 2023-05-11
tabnet-0.3.0/tabnet/man/resolve_data.Rd |only tabnet-0.3.0/tabnet/tests/testthat/_snaps/hardhat.md |only tabnet-0.3.0/tabnet/tests/testthat/_snaps/unsupervised.md |only tabnet-0.3.0/tabnet/tests/testthat/test-hardhat-scenarios.R |only tabnet-0.3.0/tabnet/tests/testthat/test-hardhat.R |only tabnet-0.3.0/tabnet/tests/testthat/test-plots.R |only tabnet-0.3.0/tabnet/tests/testthat/test-unsupervised.R |only tabnet-0.4.0/tabnet/DESCRIPTION | 34 tabnet-0.4.0/tabnet/MD5 | 121 + tabnet-0.4.0/tabnet/NAMESPACE | 8 tabnet-0.4.0/tabnet/NEWS.md | 31 tabnet-0.4.0/tabnet/R/explain.R | 56 tabnet-0.4.0/tabnet/R/hardhat.R | 109 + tabnet-0.4.0/tabnet/R/model.R | 486 +++++-- tabnet-0.4.0/tabnet/R/package.R | 2 tabnet-0.4.0/tabnet/R/parsnip.R | 5 tabnet-0.4.0/tabnet/R/plot.R | 30 tabnet-0.4.0/tabnet/R/pretraining.R | 130 + tabnet-0.4.0/tabnet/R/tab-network.R | 333 +++-- tabnet-0.4.0/tabnet/README.md | 107 + tabnet-0.4.0/tabnet/build/vignette.rds |binary tabnet-0.4.0/tabnet/inst/WORDLIST |only tabnet-0.4.0/tabnet/inst/doc/Missing_data_predictors.R |only tabnet-0.4.0/tabnet/inst/doc/Missing_data_predictors.Rmd |only tabnet-0.4.0/tabnet/inst/doc/Missing_data_predictors.html |only tabnet-0.4.0/tabnet/inst/doc/interpretation.R | 4 tabnet-0.4.0/tabnet/inst/doc/interpretation.Rmd | 4 tabnet-0.4.0/tabnet/inst/doc/interpretation.html | 474 +++++-- tabnet-0.4.0/tabnet/inst/doc/tidymodels-interface.Rmd | 2 tabnet-0.4.0/tabnet/inst/doc/tidymodels-interface.html | 338 ++++- tabnet-0.4.0/tabnet/inst/doc/unsupervised_training.R | 29 tabnet-0.4.0/tabnet/inst/doc/unsupervised_training.Rmd | 287 +--- tabnet-0.4.0/tabnet/inst/doc/unsupervised_training.html | 660 ++++++---- tabnet-0.4.0/tabnet/man/autoplot.tabnet_explain.Rd | 5 tabnet-0.4.0/tabnet/man/autoplot.tabnet_fit.Rd | 5 tabnet-0.4.0/tabnet/man/figures |only tabnet-0.4.0/tabnet/man/nn_prune_head.Rd |only tabnet-0.4.0/tabnet/man/tabnet.Rd | 10 tabnet-0.4.0/tabnet/man/tabnet_config.Rd | 34 tabnet-0.4.0/tabnet/man/tabnet_explain.Rd | 18 tabnet-0.4.0/tabnet/man/tabnet_fit.Rd | 26 tabnet-0.4.0/tabnet/man/tabnet_nn.Rd |only tabnet-0.4.0/tabnet/man/tabnet_pretrain.Rd | 6 tabnet-0.4.0/tabnet/tests/testthat/Rplots.pdf |binary tabnet-0.4.0/tabnet/tests/testthat/_snaps/hardhat_interfaces.md |only tabnet-0.4.0/tabnet/tests/testthat/_snaps/pretraining.md |only tabnet-0.4.0/tabnet/tests/testthat/helper-tensor.R |only tabnet-0.4.0/tabnet/tests/testthat/setup.R |only tabnet-0.4.0/tabnet/tests/testthat/test-explain.R | 134 +- tabnet-0.4.0/tabnet/tests/testthat/test-hardhat_interfaces.R |only tabnet-0.4.0/tabnet/tests/testthat/test-hardhat_multi-outcome.R |only tabnet-0.4.0/tabnet/tests/testthat/test-hardhat_parameters.R |only tabnet-0.4.0/tabnet/tests/testthat/test-hardhat_scenarios.R |only tabnet-0.4.0/tabnet/tests/testthat/test-missing_values.R |only tabnet-0.4.0/tabnet/tests/testthat/test-model.R |only tabnet-0.4.0/tabnet/tests/testthat/test-parsnip.R | 141 +- tabnet-0.4.0/tabnet/tests/testthat/test-plot.R |only tabnet-0.4.0/tabnet/tests/testthat/test-pretraining.R |only tabnet-0.4.0/tabnet/vignettes/Missing_data_predictors.Rmd |only tabnet-0.4.0/tabnet/vignettes/ames_fit.png |only tabnet-0.4.0/tabnet/vignettes/ames_fit_vip.png |only tabnet-0.4.0/tabnet/vignettes/ames_fit_vip_.png |only tabnet-0.4.0/tabnet/vignettes/ames_mas_vnr_hist.png |only tabnet-0.4.0/tabnet/vignettes/ames_missing_fit.png |only tabnet-0.4.0/tabnet/vignettes/ames_missing_fit_vip.png |only tabnet-0.4.0/tabnet/vignettes/ames_missing_pretrain.png |only tabnet-0.4.0/tabnet/vignettes/ames_missing_pretrain_vip.png |only tabnet-0.4.0/tabnet/vignettes/ames_missing_pretrain_vip_.png |only tabnet-0.4.0/tabnet/vignettes/ames_pretrain.png |only tabnet-0.4.0/tabnet/vignettes/ames_pretrain_vip.png |only tabnet-0.4.0/tabnet/vignettes/ames_pretrain_vip_.png |only tabnet-0.4.0/tabnet/vignettes/ames_pretrain_vip__.png |only tabnet-0.4.0/tabnet/vignettes/interpretation.Rmd | 4 tabnet-0.4.0/tabnet/vignettes/pretrained_model.png |binary tabnet-0.4.0/tabnet/vignettes/pretraining_loss.png |binary tabnet-0.4.0/tabnet/vignettes/tidymodels-interface.Rmd | 2 tabnet-0.4.0/tabnet/vignettes/unsupervised_training.Rmd | 287 +--- tabnet-0.4.0/tabnet/vignettes/vanillia_model.png |binary tabnet-0.4.0/tabnet/vignettes/vis_miss_ames.png |only 79 files changed, 2673 insertions(+), 1249 deletions(-)
Title: Missingness in Multi-Task Regression with Network Estimation
Description: Efficient procedures for fitting conditional graphical lasso
models that link a set of predictor variables to a set of response
variables (or tasks), even when the response data may contain missing
values. 'missoNet' simultaneously estimates the predictor
coefficients for all tasks by leveraging information from one another,
in order to provide more accurate predictions in comparison to
modeling them individually. Additionally, 'missoNet' estimates the
response network structure influenced by conditioning predictor
variables in a L1-regularized conditional Gaussian graphical model.
Unlike most penalized multi-task regression methods (e.g., MRCE),
'missoNet' is capable of obtaining estimates even when the response
data is corrupted by missing values. The method automatically enjoys
the theoretical and computational benefits of convexity, and returns
solutions that are comparable to the estimates obtained without any
missing values. The package also includes auxiliary functions for data
[...truncated...]
Author: Yixiao Zeng [aut, cre, cph],
Celia Greenwood [ths, aut],
Archer Yang [ths, aut]
Maintainer: Yixiao Zeng <yixiao.zeng@mail.mcgill.ca>
Diff between missoNet versions 1.0.0 dated 2022-10-10 and 1.1.0 dated 2023-05-11
DESCRIPTION | 46 +++++++++++++++++++++++----------------------- MD5 | 30 +++++++++++++++--------------- NEWS.md | 8 ++++++++ R/InitParams.R | 2 +- R/cv.missoNet.R | 49 ++++++++++++++++++++++++++++++------------------- R/missoNet.R | 10 +++++----- R/parWrapper.R | 6 ++++-- R/update.missoNet.R | 6 +++--- README.md | 21 +++++++++++---------- inst/doc/missoNet.R | 2 +- inst/doc/missoNet.Rmd | 4 ++-- inst/doc/missoNet.html | 23 ++++++++--------------- man/missoNet.Rd | 8 ++++---- src/Makevars | 2 +- src/Makevars.win | 2 +- vignettes/missoNet.Rmd | 4 ++-- 16 files changed, 119 insertions(+), 104 deletions(-)
More information about emailvalidation at CRAN
Permanent link
Title: Create Ternary and Holdridge Plots
Description: Plots ternary diagrams (simplex plots / Gibbs triangles) and
Holdridge life zone plots <doi:10.1126/science.105.2727.367> using the
standard graphics functions.
An alternative to 'ggtern', which uses the 'ggplot2' family of plotting
functions.
Includes a 'Shiny' user interface for point-and-click ternary plotting.
Author: Martin R. Smith [aut, cre, cph]
,
Lilian Sanselme [ctb]
Maintainer: Martin R. Smith <martin.smith@durham.ac.uk>
Diff between Ternary versions 2.1.3 dated 2023-02-20 and 2.2.0 dated 2023-05-11
DESCRIPTION | 14 MD5 | 88 NAMESPACE | 4 NEWS.md | 9 R/Annotate.R |only R/Contours.R | 157 R/TernaryPlot.R | 13 README.md | 7 build/partial.rdb |binary build/vignette.rds |binary inst/CITATION | 1 inst/WORDLIST | 1 inst/doc/Holdridge.R | 12 inst/doc/Holdridge.Rmd | 12 inst/doc/Holdridge.html | 20 inst/doc/Ternary.R | 87 inst/doc/Ternary.Rmd | 136 inst/doc/Ternary.html | 148 inst/doc/annotation.R | 28 inst/doc/annotation.Rmd | 37 inst/doc/annotation.html | 36 inst/doc/interpolation.R | 4 inst/doc/interpolation.Rmd | 4 inst/doc/interpolation.html | 12 inst/doc/new-users.R | 47 inst/doc/new-users.Rmd | 51 inst/doc/new-users.html | 59 man/AddToTernary.Rd | 13 man/Annotate.Rd |only man/ColourTernary.Rd | 25 man/TernaryContour.Rd | 55 man/TernaryDensityContour.Rd | 43 man/TernaryPointValues.Rd | 3 man/TernaryTiles.Rd | 15 tests/testthat/Rplots.pdf |binary tests/testthat/_snaps/Annotate |only tests/testthat/_snaps/Contours/contours.svg | 315 + tests/testthat/_snaps/Contours/density-contours.svg | 2705 +++++++++---- tests/testthat/_snaps/Contours/filledcontours.svg |only tests/testthat/_snaps/Contours/lo-res-density-contours.svg | 424 +- tests/testthat/test-Annotate.R |only tests/testthat/test-Contours.R | 55 vignettes/Holdridge.Rmd | 12 vignettes/Ternary.Rmd | 136 vignettes/annotation.Rmd | 37 vignettes/interpolation.Rmd | 4 vignettes/new-users.Rmd | 51 47 files changed, 3463 insertions(+), 1417 deletions(-)
Title: Random Generation Functionality for the 'spatstat' Family
Description: Functionality for random generation of spatial data in the 'spatstat' family of packages.
Generates random spatial patterns of points according to many simple rules (complete spatial randomness,
Poisson, binomial, random grid, systematic, cell), randomised alteration of patterns
(thinning, random shift, jittering), simulated realisations of random point processes including
simple sequential inhibition, Matern inhibition models, Neyman-Scott cluster processes
(using direct, Brix-Kendall, or hybrid algorithms),
log-Gaussian Cox processes, product shot noise cluster processes
and Gibbs point processes (using Metropolis-Hastings birth-death-shift algorithm,
alternating Gibbs sampler, or coupling-from-the-past perfect simulation).
Also generates random spatial patterns of line segments,
random tessellations, and random images (random noise, random mosaics).
Excludes random generation on a linear network,
which is covered by the separate package 'spatstat.linnet'.
Author: Adrian Baddeley [aut, cre] ,
Rolf Turner [aut] ,
Ege Rubak [aut] ,
Kasper Klitgaard Berthelsen [ctb],
Ya-Mei Chang [ctb],
Tilman Davies [ctb],
Ute Hahn [ctb],
Abdollah Jalilian [ctb],
Dominic Schuhmacher [ctb],
Rasmus Plenge Waagepetersen [ctb]
Maintainer: Adrian Baddeley <Adrian.Baddeley@curtin.edu.au>
Diff between spatstat.random versions 3.1-4 dated 2023-03-13 and 3.1-5 dated 2023-05-11
DESCRIPTION | 10 +++++----- MD5 | 10 +++++----- NEWS | 12 ++++++++++++ R/rLGCP.R | 6 ++++-- inst/doc/packagesizes.txt | 1 + man/macros/defns.Rd | 1 + 6 files changed, 28 insertions(+), 12 deletions(-)
More information about spatstat.random at CRAN
Permanent link
Title: Spatial Exploration of ArcHaeological Objects in R Shiny
Description: An R 'Shiny' application dedicated to the intra-site spatial analysis of piece-plotted archaeological remains, making the two and three-dimensional spatial exploration of archaeological data as user-friendly as possible. Documentation about 'SEAHORS' is provided by the vignette included in this package and by the companion scientific paper: Royer, Discamps, Plutniak, Thomas (2023, PCI Archaeology, <doi:10.5281/zenodo.7674698>).
Author: Aurelien Royer [aut] ,
Sebastien Plutniak [cre] ,
Emmanuel Discamps [ctb] ,
Marc Thomas [ctb]
Maintainer: Sebastien Plutniak <sebastien.plutniak@posteo.net>
Diff between SEAHORS versions 1.6.1 dated 2023-05-02 and 1.7.0 dated 2023-05-11
DESCRIPTION | 14 +-- MD5 | 10 +- NAMESPACE | 3 NEWS.md | 10 ++ R/app_server.R | 231 ++++++++++++++++++++++++++++++++++++++------------------- R/app_ui.R | 22 +++-- 6 files changed, 195 insertions(+), 95 deletions(-)
Title: Prediction Intervals for Synthetic Control Methods with Multiple
Treated Units and Staggered Adoption
Description: Implementation of prediction and inference procedures for Synthetic Control methods using least square, lasso, ridge, or simplex-type constraints. Uncertainty is quantified with prediction intervals as developed in Cattaneo, Feng, and Titiunik (2021) <https://mdcattaneo.github.io/papers/Cattaneo-Feng-Titiunik_2021_JASA.pdf>.
Author: Matias Cattaneo [aut],
Yingjie Feng [aut],
Filippo Palomba [aut, cre],
Rocio Titiunik [aut]
Maintainer: Filippo Palomba <fpalomba@princeton.edu>
Diff between scpi versions 2.2.2 dated 2023-04-20 and 2.2.3 dated 2023-05-11
DESCRIPTION | 6 +- MD5 | 20 ++++----- R/scdata.R | 2 R/scdataMulti.R | 24 +++++++++- R/scest.R | 17 ++++--- R/scpi.R | 104 +++++++++++++++++++++++++++++------------------ R/supporting_functions.R | 86 +++++++++++++++++++++++--------------- man/scdata.Rd | 1 man/scdataMulti.Rd | 1 man/scest.Rd | 11 +++- man/scpi.Rd | 10 +++- 11 files changed, 177 insertions(+), 105 deletions(-)
Title: Interface with 'Nominatim' API Service
Description: Lite interface for getting data from 'OSM' service
'Nominatim' <https://nominatim.org/release-docs/latest/>. Extract
coordinates from addresses, find places near a set of coordinates,
search for amenities and return spatial objects on 'sf' format.
Author: Diego Hernangomez [aut, cre, cph]
,
Jindra Lacko [ctb, rev]
Maintainer: Diego Hernangomez <diego.hernangomezherrero@gmail.com>
Diff between nominatimlite versions 0.1.6 dated 2022-06-10 and 0.2.0 dated 2023-05-11
nominatimlite-0.1.6/nominatimlite/man/figures/README-penta-1.png |only nominatimlite-0.1.6/nominatimlite/vignettes/penta-1.png |only nominatimlite-0.2.0/nominatimlite/DESCRIPTION | 11 nominatimlite-0.2.0/nominatimlite/MD5 | 101 ++-- nominatimlite-0.2.0/nominatimlite/NAMESPACE | 1 nominatimlite-0.2.0/nominatimlite/NEWS.md | 16 nominatimlite-0.2.0/nominatimlite/R/bbox_to_poly.R | 21 nominatimlite-0.2.0/nominatimlite/R/data.R | 9 nominatimlite-0.2.0/nominatimlite/R/geo_address_lookup.R | 119 ++--- nominatimlite-0.2.0/nominatimlite/R/geo_address_lookup_sf.R | 125 ++--- nominatimlite-0.2.0/nominatimlite/R/geo_amenity.R | 202 ++------ nominatimlite-0.2.0/nominatimlite/R/geo_amenity_sf.R | 203 +++----- nominatimlite-0.2.0/nominatimlite/R/geo_lite.R | 168 ++----- nominatimlite-0.2.0/nominatimlite/R/geo_lite_sf.R | 200 +++----- nominatimlite-0.2.0/nominatimlite/R/nominatim_check_access.R | 2 nominatimlite-0.2.0/nominatimlite/R/nominatimlite-package.R | 1 nominatimlite-0.2.0/nominatimlite/R/reverse_geo_lite.R | 191 +++----- nominatimlite-0.2.0/nominatimlite/R/reverse_geo_lite_sf.R | 229 +++------- nominatimlite-0.2.0/nominatimlite/R/utils.R |only nominatimlite-0.2.0/nominatimlite/README.md | 49 +- nominatimlite-0.2.0/nominatimlite/build/vignette.rds |binary nominatimlite-0.2.0/nominatimlite/data/osm_amenities.rda |binary nominatimlite-0.2.0/nominatimlite/inst/WORDLIST | 15 nominatimlite-0.2.0/nominatimlite/inst/doc/nominatimlite.Rmd | 28 - nominatimlite-0.2.0/nominatimlite/inst/doc/nominatimlite.html | 155 +++--- nominatimlite-0.2.0/nominatimlite/man/api_call.Rd | 70 +-- nominatimlite-0.2.0/nominatimlite/man/bbox_to_poly.Rd | 23 - nominatimlite-0.2.0/nominatimlite/man/figures/README-line-object-1.png |binary nominatimlite-0.2.0/nominatimlite/man/figures/README-pizzahut-1.png |binary nominatimlite-0.2.0/nominatimlite/man/figures/README-statue_liberty-1.png |only nominatimlite-0.2.0/nominatimlite/man/geo_address_lookup.Rd | 60 +- nominatimlite-0.2.0/nominatimlite/man/geo_address_lookup_sf.Rd | 90 ++- nominatimlite-0.2.0/nominatimlite/man/geo_amenity.Rd | 67 +- nominatimlite-0.2.0/nominatimlite/man/geo_amenity_sf.Rd | 95 ++-- nominatimlite-0.2.0/nominatimlite/man/geo_lite.Rd | 36 - nominatimlite-0.2.0/nominatimlite/man/geo_lite_sf.Rd | 63 +- nominatimlite-0.2.0/nominatimlite/man/nominatim_check_access.Rd | 2 nominatimlite-0.2.0/nominatimlite/man/osm_amenities.Rd | 10 nominatimlite-0.2.0/nominatimlite/man/reverse_geo_lite.Rd | 63 +- nominatimlite-0.2.0/nominatimlite/man/reverse_geo_lite_sf.Rd | 63 ++ nominatimlite-0.2.0/nominatimlite/man/roxygen |only nominatimlite-0.2.0/nominatimlite/tests/testthat.R | 8 nominatimlite-0.2.0/nominatimlite/tests/testthat/test-bbox_to_poly.R | 13 nominatimlite-0.2.0/nominatimlite/tests/testthat/test-geo_address_lookup.R | 99 +++- nominatimlite-0.2.0/nominatimlite/tests/testthat/test-geo_address_lookup_sf.R | 74 ++- nominatimlite-0.2.0/nominatimlite/tests/testthat/test-geo_amenity.R | 151 +++++- nominatimlite-0.2.0/nominatimlite/tests/testthat/test-geo_amenity_sf.R | 170 ++++++- nominatimlite-0.2.0/nominatimlite/tests/testthat/test-geo_lite.R | 91 +++ nominatimlite-0.2.0/nominatimlite/tests/testthat/test-geo_lite_sf.R | 127 ++++- nominatimlite-0.2.0/nominatimlite/tests/testthat/test-reverse_geo_lite.R | 190 +++++++- nominatimlite-0.2.0/nominatimlite/tests/testthat/test-reverse_geo_lite_sf.R | 216 ++++++++- nominatimlite-0.2.0/nominatimlite/tests/testthat/test-utils.R |only nominatimlite-0.2.0/nominatimlite/vignettes/nominatimlite.Rmd | 28 - nominatimlite-0.2.0/nominatimlite/vignettes/pizzahut-1.png |binary nominatimlite-0.2.0/nominatimlite/vignettes/sol-1.png |only 55 files changed, 2196 insertions(+), 1459 deletions(-)
Title: Access to Teaching Materials from a ZIP File or GitHub
Description: Provides access to teaching materials for various statistics courses, including R programs,
Shiny apps, data, and PDF/HTML documents. These materials are stored on the Internet as a ZIP file
(e.g., in a GitHub repository) and can be downloaded and displayed or run locally. The content of the ZIP file
is temporarily or permanently stored. By default, the package uses the GitHub repository
'sigbertklinke/mmstat4.data.' Additionally, the package includes 'association_measures.R'
from the archived package 'ryouready' by Mark Heckman and some auxiliary functions.
Author: Sigbert Klinke [aut, cre] ,
Jekaterina Zukovska [ctb]
Maintainer: Sigbert Klinke <sigbert@hu-berlin.de>
Diff between mmstat4 versions 0.1.4 dated 2023-05-02 and 0.1.5 dated 2023-05-11
DESCRIPTION | 16 ++++--- MD5 | 10 ++-- NAMESPACE | 17 +++++++ R/association_measures.R |only README.md | 14 +++++- inst/doc/mmstat4.html | 104 +++++++++++++++++++++++------------------------ man/association.Rd |only 7 files changed, 96 insertions(+), 65 deletions(-)
Title: Minimalist Async Evaluation Framework for R
Description: Lightweight parallel code execution and distributed computing.
Designed for simplicity, a 'mirai' evaluates an R expression asynchronously,
on local or network resources, resolving automatically upon completion.
Features efficient task scheduling, scalability beyond R connection limits,
and transports faster than TCP/IP for inter-process communications, courtesy
of 'nanonext' and 'NNG' (Nanomsg Next Gen).
Author: Charlie Gao [aut, cre] ,
Hibiki AI Limited [cph]
Maintainer: Charlie Gao <charlie.gao@shikokuchuo.net>
Diff between mirai versions 0.8.4 dated 2023-05-09 and 0.8.7 dated 2023-05-11
DESCRIPTION | 6 +- MD5 | 18 ++++---- NEWS.md | 5 ++ R/mirai.R | 36 ++++++++++------ README.md | 42 ++++++++++++------ inst/CITATION | 2 man/dispatcher.Rd | 14 +++--- man/launch_server.Rd | 11 ++++ man/server.Rd | 14 +++--- tests/tests.R | 114 ++++++++++++++++++++++++++++----------------------- 10 files changed, 157 insertions(+), 105 deletions(-)
Title: Optimal Multilevel Matching using a Network Algorithm
Description: Performs multilevel matches for data with cluster-
level treatments and individual-level outcomes using a network
optimization algorithm. Functions for checking balance at the
cluster and individual levels are also provided, as are methods
for permutation-inference-based outcome analysis. Details in
Pimentel et al. (2018) <doi:10.1214/17-AOAS1118>. The optmatch
package, which is useful for running many of the provided
functions, may be downloaded from Github at
<https://github.com/markmfredrickson/optmatch> if not available on
CRAN.
Author: Luke Keele [aut],
Luke Miratrix [aut],
Sam Pimentel [aut, cre],
Paul Rosenbaum [ctb]
Maintainer: Sam Pimentel <spi@berkeley.edu>
Diff between matchMulti versions 1.1.11 dated 2022-11-16 and 1.1.12 dated 2023-05-11
DESCRIPTION | 8 ++++---- MD5 | 18 +++++++++--------- R/buildCaliper.R | 2 +- R/matchMulti-internal.R | 39 +++++++++++++++++++++------------------ R/matchMulti.R | 2 +- R/matchMultioutcome.R | 2 +- R/matchMultisens.R | 31 ++++++++----------------------- R/rematchSchools.R | 2 +- build/matchMulti.pdf |binary inst/doc/multiMatch_vignette.pdf |binary 10 files changed, 46 insertions(+), 58 deletions(-)
Title: Keyword Assisted Topic Models
Description: Fits keyword assisted topic models (keyATM) using collapsed Gibbs samplers. The keyATM combines the latent dirichlet allocation (LDA) models with a small number of keywords selected by researchers in order to improve the interpretability and topic classification of the LDA. The keyATM can also incorporate covariates and directly model time trends. The keyATM is proposed in Eshima, Imai, and Sasaki (2023) <doi:10.1111/ajps.12779>.
Author: Shusei Eshima [aut, cre] ,
Tomoya Sasaki [aut],
Kosuke Imai [aut],
Chung-hong Chan [ctb] ,
Romain Francois [ctb] ,
William Lowe [ctb],
Seo-young Silvia Kim [ctb]
Maintainer: Shusei Eshima <shuseieshima@gmail.com>
Diff between keyATM versions 0.4.2 dated 2023-01-06 and 0.5.0 dated 2023-05-11
keyATM-0.4.2/keyATM/man/keyATM_fit.Rd |only keyATM-0.4.2/keyATM/man/keyATM_fit_label.Rd |only keyATM-0.4.2/keyATM/src/keyATM_label.cpp |only keyATM-0.4.2/keyATM/src/keyATM_label.h |only keyATM-0.5.0/keyATM/DESCRIPTION | 30 keyATM-0.5.0/keyATM/MD5 | 145 ++-- keyATM-0.5.0/keyATM/NEWS.md | 90 +- keyATM-0.5.0/keyATM/R/RcppExports.R | 59 - keyATM-0.5.0/keyATM/R/analysis_covariates.R | 25 keyATM-0.5.0/keyATM/R/keyATM.R | 162 +++- keyATM-0.5.0/keyATM/R/keyATMvb.R | 76 +- keyATM-0.5.0/keyATM/R/model.R | 390 ++++-------- keyATM-0.5.0/keyATM/R/plots.R | 92 +- keyATM-0.5.0/keyATM/R/posterior.R | 35 - keyATM-0.5.0/keyATM/R/predict.R | 10 keyATM-0.5.0/keyATM/R/utils.R | 95 +- keyATM-0.5.0/keyATM/inst/CITATION | 8 keyATM-0.5.0/keyATM/man/keyATM-package.Rd | 2 keyATM-0.5.0/keyATM/man/keyATM.Rd | 19 keyATM-0.5.0/keyATM/man/keyATM_fit_HMM.Rd | 4 keyATM-0.5.0/keyATM/man/keyATM_fit_LDA.Rd | 4 keyATM-0.5.0/keyATM/man/keyATM_fit_LDAHMM.Rd | 4 keyATM-0.5.0/keyATM/man/keyATM_fit_LDAcov.Rd | 4 keyATM-0.5.0/keyATM/man/keyATM_fit_base.Rd | 4 keyATM-0.5.0/keyATM/man/keyATM_fit_cov.Rd | 4 keyATM-0.5.0/keyATM/man/keyATM_fit_covPG.Rd | 4 keyATM-0.5.0/keyATM/man/keyATM_initialize.Rd |only keyATM-0.5.0/keyATM/man/keyATM_output.Rd | 2 keyATM-0.5.0/keyATM/man/keyATM_read.Rd | 3 keyATM-0.5.0/keyATM/man/read_dfm_cpp.Rd | 4 keyATM-0.5.0/keyATM/man/read_keywords.Rd | 2 keyATM-0.5.0/keyATM/man/save_fig.Rd | 2 keyATM-0.5.0/keyATM/man/values_fig.Rd | 2 keyATM-0.5.0/keyATM/man/weightedLDA.Rd | 16 keyATM-0.5.0/keyATM/src/LDA_base.cpp | 36 - keyATM-0.5.0/keyATM/src/LDA_base.h | 19 keyATM-0.5.0/keyATM/src/LDA_weight.cpp | 20 keyATM-0.5.0/keyATM/src/LDA_weight.h | 17 keyATM-0.5.0/keyATM/src/LDA_weightCov.cpp | 30 keyATM-0.5.0/keyATM/src/LDA_weightCov.h | 17 keyATM-0.5.0/keyATM/src/LDA_weightHMM.cpp | 26 keyATM-0.5.0/keyATM/src/LDA_weightHMM.h | 16 keyATM-0.5.0/keyATM/src/RcppExports.cpp | 78 -- keyATM-0.5.0/keyATM/src/count.cpp | 2 keyATM-0.5.0/keyATM/src/helper.cpp | 12 keyATM-0.5.0/keyATM/src/initialize.cpp | 63 - keyATM-0.5.0/keyATM/src/initialize.h | 4 keyATM-0.5.0/keyATM/src/keyATM_HMM.cpp | 222 +++--- keyATM-0.5.0/keyATM/src/keyATM_HMM.h | 34 - keyATM-0.5.0/keyATM/src/keyATM_base.cpp | 88 -- keyATM-0.5.0/keyATM/src/keyATM_base.h | 25 keyATM-0.5.0/keyATM/src/keyATM_cov.cpp | 158 +--- keyATM-0.5.0/keyATM/src/keyATM_cov.h | 25 keyATM-0.5.0/keyATM/src/keyATM_covPG.cpp | 26 keyATM-0.5.0/keyATM/src/keyATM_covPG.h | 23 keyATM-0.5.0/keyATM/src/keyATM_meta.cpp | 279 +------- keyATM-0.5.0/keyATM/src/keyATM_meta.h | 32 keyATM-0.5.0/keyATM/src/keyATMvb_call.cpp | 5 keyATM-0.5.0/keyATM/src/keyATMvb_main.cpp | 176 ++--- keyATM-0.5.0/keyATM/src/keyATMvb_main.h | 9 keyATM-0.5.0/keyATM/src/read.cpp | 29 keyATM-0.5.0/keyATM/src/sampler.cpp | 27 keyATM-0.5.0/keyATM/src/sampler.h | 3 keyATM-0.5.0/keyATM/src/train.cpp | 108 +-- keyATM-0.5.0/keyATM/src/utils.h | 1 keyATM-0.5.0/keyATM/tests/testthat/test-Initialization.R | 28 keyATM-0.5.0/keyATM/tests/testthat/test-checks.R |only keyATM-0.5.0/keyATM/tests/testthat/test-keyATMBase.R | 20 keyATM-0.5.0/keyATM/tests/testthat/test-keyATMCovDirMulti.R | 52 + keyATM-0.5.0/keyATM/tests/testthat/test-keyATMCovPG.R | 1 keyATM-0.5.0/keyATM/tests/testthat/test-keyATMDynamic.R | 1 keyATM-0.5.0/keyATM/tests/testthat/test-keyATMvb.R | 1 keyATM-0.5.0/keyATM/tests/testthat/test-plot.R | 31 keyATM-0.5.0/keyATM/tests/testthat/test-read_keywords.R | 18 keyATM-0.5.0/keyATM/tests/testthat/test-read_texts.R | 49 + keyATM-0.5.0/keyATM/tests/testthat/test-resume.R |only keyATM-0.5.0/keyATM/tests/testthat/test-weightedLDA.R | 6 77 files changed, 1456 insertions(+), 1658 deletions(-)
Title: HTTP and WebSocket Server Library
Description: Provides low-level socket and protocol support for handling
HTTP and WebSocket requests directly from within R. It is primarily
intended as a building block for other packages, rather than making it
particularly easy to create complete web applications using httpuv alone.
httpuv is built on top of the libuv and http-parser C libraries, both of
which were developed by Joyent, Inc. (See LICENSE file for libuv and
http-parser license information.)
Author: Joe Cheng [aut],
Winston Chang [aut, cre],
Posit, PBC fnd [cph],
Hector Corrada Bravo [ctb],
Jeroen Ooms [ctb],
Andrzej Krzemienski [cph] ,
libuv project contributors [cph] ,
Joyent, Inc. and other Node contributors [cph] ,
Niels Provos [cph] ,
Inter [...truncated...]
Maintainer: Winston Chang <winston@rstudio.com>
Diff between httpuv versions 1.6.10 dated 2023-05-08 and 1.6.11 dated 2023-05-11
DESCRIPTION | 72 ++++++++++++++++++++++++++++++++++++++------------ LICENSE | 27 ++++++++++++++++-- MD5 | 20 ++++++------- NEWS.md | 7 ++++ R/httpuv.R | 2 - man/httpuv-package.Rd | 2 - src/Makevars | 2 - src/uvutil.cpp | 25 +++++++++++++---- src/uvutil.h | 2 + src/websockets.cpp | 2 - src/websockets.h | 11 ++++--- 11 files changed, 128 insertions(+), 44 deletions(-)
Title: Rounded Bar Plots
Description: Creates bar plots with rounded corners using 'ggplot2'.
The code in this package was adapted from a solution provided by
Stack Overflow user 'sthoch' in the following post
<https://stackoverflow.com/questions/62176038/r-ggplot2-bar-chart-with-round-corners-on-top-of-bar>.
Author: Botan Agin [aut, cre, cph]
Maintainer: Botan Agin <aginbotan@gmail.com>
Diff between ggrounded versions 0.0.2 dated 2023-05-08 and 0.0.3 dated 2023-05-11
ggrounded-0.0.2/ggrounded/man/figures/README-example-1.png |only ggrounded-0.0.3/ggrounded/DESCRIPTION | 6 - ggrounded-0.0.3/ggrounded/MD5 | 17 +++-- ggrounded-0.0.3/ggrounded/NAMESPACE | 1 ggrounded-0.0.3/ggrounded/NEWS.md |only ggrounded-0.0.3/ggrounded/R/geom-bar-rounded.R |only ggrounded-0.0.3/ggrounded/R/geom-col-rounded.R | 14 ++-- ggrounded-0.0.3/ggrounded/README.md | 33 ++++++++-- ggrounded-0.0.3/ggrounded/man/figures/README-example1-1.png |only ggrounded-0.0.3/ggrounded/man/figures/README-example2-1.png |only ggrounded-0.0.3/ggrounded/man/geom_col_rounded.Rd | 31 +++++++-- ggrounded-0.0.3/ggrounded/tests/testthat/_snaps/geom-bar-rounded |only ggrounded-0.0.3/ggrounded/tests/testthat/test-geom-bar-rounded.R |only 13 files changed, 75 insertions(+), 27 deletions(-)
Title: Bayesian Change-Point Detection and Time Series Decomposition
Description: Interpretation of time series data is affected by model choices. Different models can give different or even contradicting estimates of patterns, trends, and mechanisms for the same data--a limitation alleviated by the Bayesian estimator of abrupt change,seasonality, and trend (BEAST) of this package. BEAST seeks to improve time series decomposition by forgoing the "single-best-model" concept and embracing all competing models into the inference via a Bayesian model averaging scheme. It is a flexible tool to uncover abrupt changes (i.e., change-points), cyclic variations (e.g., seasonality), and nonlinear trends in time-series observations. BEAST not just tells when changes occur but also quantifies how likely the detected changes are true. It detects not just piecewise linear trends but also arbitrary nonlinear trends. BEAST is applicable to real-valued time series data of all kinds, be it for remote sensing, economics, climate sciences, ecology, and hydrology. Example applications in [...truncated...]
Author: Yang Li [aut],
Tongxi Hu [aut],
Xuesong Zhang [aut],
Kaiguang Zhao [aut, cre],
Jack Dongarra [ctb],
Cleve Moler [ctb]
Maintainer: Kaiguang Zhao <zhao.1423@osu.edu>
Diff between Rbeast versions 0.9.7 dated 2023-01-22 and 0.9.8 dated 2023-05-11
DESCRIPTION | 8 MD5 | 116 +++++++------ NEWS.md | 5 R/beast.R | 50 +++-- R/minesweeper.r | 23 +- R/plot.beast.R | 2 R/plot.interactive.R | 5 R/tetris.R | 12 - inst/CITATION | 35 +--- man/beast.Rd | 3 man/figures |only man/minesweeper.Rd | 5 man/tetris.Rd | 3 src/abc_000_macro.h | 26 +-- src/abc_001_config.h | 14 + src/abc_blas_lapack_lib.h | 4 src/abc_common.c | 128 ++++++++++++-- src/abc_common.h | 1 src/abc_cpu.c | 24 -- src/abc_datatype.h | 30 --- src/abc_date.c | 107 +++--------- src/abc_dir.c | 7 src/abc_dirent.h | 25 +- src/abc_ide_util.h | 195 +++++++++++----------- src/abc_ide_util_R.c | 10 + src/abc_ide_util_common.c | 2 src/abc_ide_util_matlab.c | 9 + src/abc_ide_util_python.c | 16 + src/abc_mat.c | 242 ++++++++++++++++++++++++++++ src/abc_mat.h | 33 +++ src/abc_math.c | 57 ++++++ src/abc_pthread.c | 28 +++ src/abc_rand_pcg_global.c | 126 +++++++++----- src/abc_rand_pcg_global.h | 8 src/abc_rand_pcg_local.c | 326 +++++++++++++++++++++++++++++--------- src/abc_rand_pcg_local.h | 8 src/abc_rand_pcg_local_avx2.c | 59 ++++++ src/abc_rand_pcg_local_avx512.c | 2 src/abc_rand_pcg_local_generic.c | 2 src/abc_sort.c | 57 ++++++ src/abc_sort.h | 9 + src/abc_timer.h | 6 src/abc_tranpose.c |only src/abc_tranpose.h |only src/abc_vec.c | 68 +++++-- src/abc_vec.h | 6 src/abc_vec_generic.c | 2 src/beastv2_COREV4.c | 6 src/beastv2_COREV4_gui.c | 6 src/beastv2_COREV4_mthrd.c | 6 src/beastv2_basis_updategoodvec.c | 12 - src/beastv2_func.h | 1 src/beastv2_func_q.c | 20 -- src/beastv2_header.h | 10 - src/beastv2_header_solaris.h | 10 - src/beastv2_io_in_args.c | 26 +-- src/beastv2_io_out_printargs.c | 22 +- src/beastv2_io_out_write_q.c | 2 58 files changed, 1431 insertions(+), 594 deletions(-)
Title: Datetimes with Optional UTC Offsets and/or Heterogeneous Time
Zones
Description: Supports import/export for a number of datetime string standards
and R datetime classes often including
lossless re-export of
any original reduced precision including 'ISO 8601' <https://en.wikipedia.org/wiki/ISO_8601> and
'pdfmark' <https://opensource.adobe.com/dc-acrobat-sdk-docs/library/pdfmark/> datetime strings.
Supports local/global datetimes with optional UTC offsets and/or (possibly heterogeneous) time zones
with up to nanosecond precision.
Author: Trevor L Davis [aut, cre]
Maintainer: Trevor L Davis <trevor.l.davis@gmail.com>
Diff between datetimeoffset versions 0.2.1 dated 2023-02-10 and 0.3.1 dated 2023-05-11
DESCRIPTION | 8 +- LICENSE | 2 MD5 | 40 +++++------ NAMESPACE | 16 ---- NEWS.md | 15 +++- R/as_datetimeoffset.r | 8 +- R/format.r | 14 ++-- R/from-datetimeoffset.r | 103 ++++++++++++++---------------- R/hooks.r | 8 ++ R/timezone.r | 6 - README.md | 8 +- build/vignette.rds |binary inst/doc/datetimeoffset.Rmd | 6 - inst/doc/datetimeoffset.html | 6 - man/format.Rd | 4 - man/from_datetimeoffset.Rd | 56 ++++------------ tests/testthat/test-as_datetimeoffset.r | 6 - tests/testthat/test-format.r | 3 tests/testthat/test-from-datetimeoffset.r | 56 ++++++++-------- tests/testthat/test-precision.r | 4 - vignettes/datetimeoffset.Rmd | 6 - 21 files changed, 177 insertions(+), 198 deletions(-)
More information about datetimeoffset at CRAN
Permanent link
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2023-04-27 0.0.4
2023-04-26 0.0.3
2023-03-18 0.0.2
2023-02-15 0.0.1
Title: Solving Mixed Model Equations in R
Description: Structural multivariate-univariate linear mixed model solver for estimation of multiple random effects with unknown variance-covariance structures (e.g., heterogeneous and unstructured) and known covariance among levels of random effects (e.g., pedigree and genomic relationship matrices) (Covarrubias-Pazaran, 2016 <doi:10.1371/journal.pone.0156744>; Maier et al., 2015 <doi:10.1016/j.ajhg.2014.12.006>). REML estimates can be obtained using the Direct-Inversion Newton-Raphson and Direct-Inversion Average Information algorithms for the problems r x r (r being the number of records) or using the mixed-model-equations-based average information algorithm for the problem c x c (c being the number of coefficients to estimate). Spatial models can also be fitted using the two-dimensional spline functionality available in sommer.
Author: Giovanny Covarrubias-Pazaran
Maintainer: Giovanny Covarrubias-Pazaran <cova_ruber@live.com.mx>
Diff between sommer versions 4.2.1.2 dated 2023-04-07 and 4.3.0 dated 2023-05-11
CHANGELOG | 10 DESCRIPTION | 15 MD5 | 79 +- NAMESPACE | 11 R/FUN_relationships.R | 12 R/FUN_special.R | 129 ++++ R/FUN_stats.R | 87 ++ R/FUN_utils.R | 4 R/FUN_vsc.R | 10 R/RcppExports.R | 4 R/mmec.R | 9 inst/doc/v1.sommer.quick.start.pdf |binary inst/doc/v2.sommer.changes.and.faqs.Rmd | 16 inst/doc/v2.sommer.changes.and.faqs.pdf |binary inst/doc/v3.sommer.qg.R | 10 inst/doc/v3.sommer.qg.Rmd | 10 inst/doc/v3.sommer.qg.pdf |binary inst/doc/v4.sommer.gxe.pdf |binary inst/doc/v5.sommer.vs.lme4.pdf |binary inst/doc/v6.sommer.spatial.R | 11 inst/doc/v6.sommer.spatial.Rmd | 13 inst/doc/v6.sommer.spatial.pdf |binary man/A.mat.Rd | 8 man/DT_wheat.Rd | 3 man/E.mat.Rd | 5 man/corImputation.Rd |only man/mmec.Rd | 27 man/redmm.Rd |only man/rrc.Rd | 14 man/sommer-package.Rd | 10 man/stackTrait.Rd |only src/MNR.cpp | 104 +-- src/RcppExports.cpp | 8 vignettes/v1.sommer.quick.start.html | 463 +++++++-------- vignettes/v2.sommer.changes.and.faqs.Rmd | 16 vignettes/v2.sommer.changes.and.faqs.html | 311 +++++----- vignettes/v3.sommer.qg.Rmd | 10 vignettes/v3.sommer.qg.html | 887 ++++++++++++++---------------- vignettes/v4.sommer.gxe.html | 446 +++++++-------- vignettes/v5.sommer.vs.lme4.html | 226 +++---- vignettes/v6.sommer.spatial.Rmd | 13 vignettes/v6.sommer.spatial.html | 161 ++--- 42 files changed, 1714 insertions(+), 1428 deletions(-)