Title: Open Population Capture-Recapture
Description: Non-spatial and spatial open-population capture-recapture analysis.
Author: Murray Efford [aut, cre]
Maintainer: Murray Efford <murray.efford@otago.ac.nz>
Diff between openCR versions 2.2.5 dated 2022-09-25 and 2.2.6 dated 2023-11-27
DESCRIPTION | 12 MD5 | 75 +- NAMESPACE | 2 NEWS | 16 R/collate.R |only R/cumMove.R | 5 R/loglik.R | 1 R/logliksecr.R | 33 - R/makeNewData.openCR.R | 30 R/openCR.design.R | 1220 +++++++++++++++++++-------------------- R/openCR.esa.r | 6 R/openCR.fit.R | 72 +- R/posterior2.R | 6 R/predict.openCR.R | 1 R/utility.R | 126 ++-- build/partial.rdb |binary build/vignette.rds |binary inst/CITATION | 15 inst/doc/openCR-vignette.R | 28 inst/doc/openCR-vignette.Rmd | 53 + inst/doc/openCR-vignette.pdf |binary inst/extdata/poss8088F.RDS |only man/age.matrix.Rd | 7 man/collate.Rd |only man/expected.d.Rd | 4 man/kernel.Rd | 4 man/make.table.Rd | 7 man/microtus.Rd | 2 man/movementmodels.Rd | 9 man/openCR-deprecated.Rd | 2 man/openCR-package.Rd | 8 man/openCR.design.Rd | 9 man/openCR.fit.Rd | 13 man/openCR.make.newdata.Rd | 10 man/pkernel.Rd | 4 man/simulate.Rd | 4 src/Makevars | 1 src/Makevars.win | 1 tests/testthat/test-nonspatial.R | 13 vignettes/openCR-vignette.Rmd | 53 + 40 files changed, 1064 insertions(+), 788 deletions(-)
Title: Brings Seurat to the Tidyverse
Description: It creates an invisible layer that allow to see the 'Seurat' object
as tibble and interact seamlessly with the tidyverse.
Author: Stefano Mangiola [aut, cre],
Maria Doyle [ctb]
Maintainer: Stefano Mangiola <mangiolastefano@gmail.com>
Diff between tidyseurat versions 0.7.4 dated 2023-10-02 and 0.7.9 dated 2023-11-27
DESCRIPTION | 12 +-- MD5 | 48 ++++++------ NAMESPACE | 1 R/dplyr_methods.R | 32 ++++++-- R/methods.R | 76 ++++++++++---------- R/tidyr_methods.R | 7 + R/utilities.R | 22 ++--- README.md | 60 ++++++---------- build/stage23.rdb |binary build/tidyseurat.pdf |binary inst/doc/figures_article.R | 2 inst/doc/figures_article.Rmd | 2 inst/doc/figures_article.html | 4 - inst/doc/introduction.R | 2 inst/doc/introduction.html | 137 ++++++++++++++++++++++--------------- man/bind_rows.Rd | 2 man/figures/pc_plot-1.png |binary man/figures/plot1-1.png |binary man/figures/plot2-1.png |binary man/figures/unnamed-chunk-15-1.png |only man/fragments/intro.Rmd | 2 tests/testthat/Rplots.pdf |only tests/testthat/test-dplyr.R | 52 +++++++------- tests/testthat/test-methods.R | 5 + tests/testthat/test-tidyr.R | 6 - vignettes/figures_article.Rmd | 2 26 files changed, 258 insertions(+), 216 deletions(-)
Title: Power and Sample Size Calculation for Non-Proportional Hazards
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).
Author: Kaifeng Lu
Maintainer: Kaifeng Lu <kaifenglu@gmail.com>
Diff between lrstat versions 0.2.0 dated 2023-10-01 and 0.2.1 dated 2023-11-27
lrstat-0.2.0/lrstat/man/getAccrualDuration.Rd |only lrstat-0.2.0/lrstat/src/fseqbon.cpp |only lrstat-0.2.1/lrstat/DESCRIPTION | 8 lrstat-0.2.1/lrstat/MD5 | 151 lrstat-0.2.1/lrstat/NAMESPACE | 9 lrstat-0.2.1/lrstat/NEWS.md | 21 lrstat-0.2.1/lrstat/R/RcppExports.R | 2049 ++++++++-- lrstat-0.2.1/lrstat/R/lrstat-package.R | 20 lrstat-0.2.1/lrstat/R/parameter_descriptions.R | 13 lrstat-0.2.1/lrstat/R/prints.R | 232 + lrstat-0.2.1/lrstat/R/wrappers.R | 73 lrstat-0.2.1/lrstat/inst/doc/group_sequential_multiplicity.R | 10 lrstat-0.2.1/lrstat/inst/doc/group_sequential_multiplicity.Rmd | 10 lrstat-0.2.1/lrstat/inst/doc/group_sequential_multiplicity.html | 45 lrstat-0.2.1/lrstat/inst/doc/group_sequential_simulation.html | 16 lrstat-0.2.1/lrstat/inst/doc/maxcombo.html | 18 lrstat-0.2.1/lrstat/inst/doc/non-proportional_hazards.html | 4 lrstat-0.2.1/lrstat/inst/doc/stratified.html | 4 lrstat-0.2.1/lrstat/man/accrual.Rd | 6 lrstat-0.2.1/lrstat/man/ad.Rd | 10 lrstat-0.2.1/lrstat/man/adaptDesign.Rd |only lrstat-0.2.1/lrstat/man/caltime.Rd | 10 lrstat-0.2.1/lrstat/man/errorSpent.Rd | 3 lrstat-0.2.1/lrstat/man/exitprob.Rd | 15 lrstat-0.2.1/lrstat/man/fadjpbon.Rd | 9 lrstat-0.2.1/lrstat/man/fadjpdun.Rd | 11 lrstat-0.2.1/lrstat/man/fadjpsim.Rd | 11 lrstat-0.2.1/lrstat/man/findInterval2.Rd | 9 lrstat-0.2.1/lrstat/man/fmodmix.Rd | 15 lrstat-0.2.1/lrstat/man/fseqbon.Rd | 47 lrstat-0.2.1/lrstat/man/fstdmix.Rd | 9 lrstat-0.2.1/lrstat/man/fstp2seq.Rd | 5 lrstat-0.2.1/lrstat/man/fwgtmat.Rd | 3 lrstat-0.2.1/lrstat/man/getADCI.Rd |only lrstat-0.2.1/lrstat/man/getADRCI.Rd |only lrstat-0.2.1/lrstat/man/getAccrualDurationFromN.Rd |only lrstat-0.2.1/lrstat/man/getBound.Rd | 27 lrstat-0.2.1/lrstat/man/getCI.Rd |only lrstat-0.2.1/lrstat/man/getCP.Rd |only lrstat-0.2.1/lrstat/man/getDesign.Rd | 123 lrstat-0.2.1/lrstat/man/getDurationFromNevents.Rd | 24 lrstat-0.2.1/lrstat/man/getNeventsFromHazardRatio.Rd | 15 lrstat-0.2.1/lrstat/man/getRCI.Rd |only lrstat-0.2.1/lrstat/man/hd.Rd | 7 lrstat-0.2.1/lrstat/man/kmest.Rd | 40 lrstat-0.2.1/lrstat/man/kmest1.Rd | 31 lrstat-0.2.1/lrstat/man/lrpower.Rd | 152 lrstat-0.2.1/lrstat/man/lrsamplesize.Rd | 65 lrstat-0.2.1/lrstat/man/lrsim.Rd | 124 lrstat-0.2.1/lrstat/man/lrsim2e.Rd | 137 lrstat-0.2.1/lrstat/man/lrsim2e3a.Rd | 167 lrstat-0.2.1/lrstat/man/lrsim3a.Rd | 110 lrstat-0.2.1/lrstat/man/lrstat-package.Rd | 44 lrstat-0.2.1/lrstat/man/lrstat.Rd | 74 lrstat-0.2.1/lrstat/man/lrstat1.Rd | 47 lrstat-0.2.1/lrstat/man/natrisk.Rd | 10 lrstat-0.2.1/lrstat/man/nevent.Rd | 10 lrstat-0.2.1/lrstat/man/nevent2.Rd | 10 lrstat-0.2.1/lrstat/man/param_accrualTime.Rd | 3 lrstat-0.2.1/lrstat/man/param_estimateHazardRatio.Rd | 4 lrstat-0.2.1/lrstat/man/param_piecewiseSurvivalTime.Rd | 4 lrstat-0.2.1/lrstat/man/param_rho1.Rd | 2 lrstat-0.2.1/lrstat/man/param_rho2.Rd | 2 lrstat-0.2.1/lrstat/man/param_typeOfComputation.Rd | 6 lrstat-0.2.1/lrstat/man/patrisk.Rd | 7 lrstat-0.2.1/lrstat/man/pd.Rd | 7 lrstat-0.2.1/lrstat/man/pevent.Rd | 7 lrstat-0.2.1/lrstat/man/print.adaptDesign.Rd |only lrstat-0.2.1/lrstat/man/print.design.Rd | 5 lrstat-0.2.1/lrstat/man/print.lrpower.Rd | 3 lrstat-0.2.1/lrstat/man/print.lrsim.Rd | 3 lrstat-0.2.1/lrstat/man/qtpwexp.Rd | 7 lrstat-0.2.1/lrstat/man/repeatedPValue.Rd | 17 lrstat-0.2.1/lrstat/man/updateGraph.Rd | 9 lrstat-0.2.1/lrstat/src/RcppExports.cpp | 568 +- lrstat-0.2.1/lrstat/src/lrsim.cpp | 473 +- lrstat-0.2.1/lrstat/src/lrstat.cpp | 2044 ++++++--- lrstat-0.2.1/lrstat/src/misc.cpp |only lrstat-0.2.1/lrstat/src/utilities.cpp | 287 + lrstat-0.2.1/lrstat/src/utilities.h | 18 lrstat-0.2.1/lrstat/tests/testthat/test-f_lrpower.R | 1 lrstat-0.2.1/lrstat/vignettes/group_sequential_multiplicity.Rmd | 10 82 files changed, 5753 insertions(+), 1797 deletions(-)
Title: Long-Short Term Memory for Time-Series Forecasting, Enhanced
Description: The LSTM (Long Short-Term Memory) model is a Recurrent Neural Network (RNN) based architecture that is widely used for time series forecasting. Customizable configurations for the model are allowed, improving the capabilities and usability of this model compared to other packages. This package is based on 'keras' and 'tensorflow' modules and the algorithm of Paul and Garai (2021) <doi:10.1007/s00500-021-06087-4>.
Author: Jaime Pizarroso Gonzalo [aut, ctb, cre],
Antonio Munoz San Roque [aut]
Maintainer: Jaime Pizarroso Gonzalo <jpizarroso@comillas.edu>
Diff between TSLSTMplus versions 1.0.0 dated 2023-11-21 and 1.0.1 dated 2023-11-27
DESCRIPTION | 8 ++++---- MD5 | 6 +++--- R/TSLSTM.R | 50 ++++++++++++++++++++++++++++++++------------------ man/ts.lstm.Rd | 8 +++++++- 4 files changed, 46 insertions(+), 26 deletions(-)
Title: Nonparametric Failure Time Bayesian Additive Regression Trees
Description: Nonparametric Failure Time (NFT) Bayesian Additive Regression Trees (BART): Time-to-event Machine Learning with Heteroskedastic Bayesian Additive Regression Trees (HBART) and Low Information Omnibus (LIO) Dirichlet Process Mixtures (DPM). An NFT BART model is of the form Y = mu + f(x) + sd(x) E where functions f and sd have BART and HBART priors, respectively, while E is a nonparametric error distribution due to a DPM LIO prior hierarchy. See the following for a complete description of the model at <doi:10.1111/biom.13857>.
Author: Rodney Sparapani [aut, cre],
Robert McCulloch [aut],
Matthew Pratola [ctb],
Hugh Chipman [ctb]
Maintainer: Rodney Sparapani <rsparapa@mcw.edu>
Diff between nftbart versions 1.6 dated 2023-04-30 and 2.1 dated 2023-11-27
DESCRIPTION | 10 +- MD5 | 36 ++++---- NAMESPACE | 3 NEWS | 13 ++ R/nft2.R | 32 ++----- R/predict.nft.R | 6 - R/predict.nft2.R | 76 +++++++++++++--- R/tsvs.R | 22 ++++ R/tsvs2.R | 234 +++++++++++++++++++++++++++------------------------- README |only cleanup | 5 - cleanup.win | 5 - data/CDCheight.rda |only data/bmx.rda |only demo/00Index | 2 demo/height.R |only demo/lung.relrisk.R |only man/CDCheight.Rd |only man/bmx.Rd |only man/predict.nft2.Rd | 13 ++ src/Makevars.win | 2 src/cnft2.h | 48 +++------- src/nftdart.h |only 23 files changed, 296 insertions(+), 211 deletions(-)
Title: Classes and Methods for Trajectory Data
Description: Classes and methods for trajectory data, with support for nesting individual Track objects in track sets (Tracks) and track sets for different entities in collections of Tracks. Methods include selection, generalization, aggregation, intersection, simulation, and plotting.
Author: Edzer Pebesma [aut, cre] ,
Benedikt Klus [aut],
Benedikt Graeler [ctb],
Nikolai Gorte [ctb],
Mehdi Moradi [aut]
Maintainer: Edzer Pebesma <edzer.pebesma@uni-muenster.de>
Diff between trajectories versions 0.2-7 dated 2023-04-05 and 0.2-8 dated 2023-11-27
DESCRIPTION | 8 ++++---- MD5 | 16 ++++++++-------- build/vignette.rds |binary inst/doc/article.R | 6 +++--- inst/doc/article.Rnw | 10 +++++----- inst/doc/article.pdf |binary man/Track-class.Rd | 6 +++--- tests/tracks.Rout.save | 49 ++++++++++++++++++++++++++++++++++++++++++++----- vignettes/article.Rnw | 10 +++++----- 9 files changed, 72 insertions(+), 33 deletions(-)
Title: Age-Depth Modelling using Bayesian Statistics
Description: An approach to age-depth modelling that uses Bayesian statistics to reconstruct accumulation histories for deposits, through combining radiocarbon and other dates with prior information on accumulation rates and their variability. See Blaauw & Christen (2011).
Author: Maarten Blaauw [aut, cre] ,
J. Andres Christen [aut, ctb, cph]
,
Marco A. Aquino Lopez [aut] ,
Judith Esquivel Vazquez [ctb],
Oscar M. Gonzalez V. [ctb],
Ted Belding [cph],
James Theiler [cph],
Brian Gough [cph],
Charles Karney [cph]
Maintainer: Maarten Blaauw <maarten.blaauw@qub.ac.uk>
Diff between rbacon versions 3.1.1 dated 2023-07-15 and 3.2.0 dated 2023-11-27
rbacon-3.1.1/rbacon/R/Bacon.R |only rbacon-3.1.1/rbacon/inst/doc/FAQ.R |only rbacon-3.1.1/rbacon/inst/doc/FAQ.Rmd |only rbacon-3.1.1/rbacon/inst/doc/FAQ.html |only rbacon-3.1.1/rbacon/inst/doc/contents.Rmd |only rbacon-3.1.1/rbacon/inst/doc/contents.html |only rbacon-3.1.1/rbacon/inst/doc/foldersfiles.R |only rbacon-3.1.1/rbacon/inst/doc/foldersfiles.Rmd |only rbacon-3.1.1/rbacon/inst/doc/foldersfiles.html |only rbacon-3.1.1/rbacon/inst/doc/intro.R |only rbacon-3.1.1/rbacon/inst/doc/intro.Rmd |only rbacon-3.1.1/rbacon/inst/doc/intro.html |only rbacon-3.1.1/rbacon/inst/doc/postrun.R |only rbacon-3.1.1/rbacon/inst/doc/postrun.Rmd |only rbacon-3.1.1/rbacon/inst/doc/postrun.html |only rbacon-3.1.1/rbacon/inst/doc/priorssettings.R |only rbacon-3.1.1/rbacon/inst/doc/priorssettings.Rmd |only rbacon-3.1.1/rbacon/inst/doc/priorssettings.html |only rbacon-3.1.1/rbacon/vignettes/FAQ.Rmd |only rbacon-3.1.1/rbacon/vignettes/contents.Rmd |only rbacon-3.1.1/rbacon/vignettes/foldersfiles.Rmd |only rbacon-3.1.1/rbacon/vignettes/intro.Rmd |only rbacon-3.1.1/rbacon/vignettes/postrun.Rmd |only rbacon-3.1.1/rbacon/vignettes/priorssettings.Rmd |only rbacon-3.2.0/rbacon/DESCRIPTION | 8 +- rbacon-3.2.0/rbacon/MD5 | 64 ++++++++--------------- rbacon-3.2.0/rbacon/NEWS.md | 8 ++ rbacon-3.2.0/rbacon/R/MCMC.R | 13 ++-- rbacon-3.2.0/rbacon/R/calibrate.R | 16 ++--- rbacon-3.2.0/rbacon/R/rbacon-package.R |only rbacon-3.2.0/rbacon/R/rbacon.R |only rbacon-3.2.0/rbacon/R/read_write.R | 6 +- rbacon-3.2.0/rbacon/build/partial.rdb |binary rbacon-3.2.0/rbacon/build/vignette.rds |binary rbacon-3.2.0/rbacon/inst/doc/rbacon.R |only rbacon-3.2.0/rbacon/inst/doc/rbacon.Rmd |only rbacon-3.2.0/rbacon/inst/doc/rbacon.html |only rbacon-3.2.0/rbacon/man/Bacon.Rd | 12 ++-- rbacon-3.2.0/rbacon/man/add.dates.Rd | 2 rbacon-3.2.0/rbacon/man/rbacon.Rd | 4 + rbacon-3.2.0/rbacon/man/tofu.Rd | 2 rbacon-3.2.0/rbacon/src/bacon.cpp | 18 +++++- rbacon-3.2.0/rbacon/src/bacon.h | 5 + rbacon-3.2.0/rbacon/src/cal.h | 11 ++- rbacon-3.2.0/rbacon/src/input.cpp | 12 ++-- rbacon-3.2.0/rbacon/src/input.h | 1 rbacon-3.2.0/rbacon/src/twalk.h | 6 +- rbacon-3.2.0/rbacon/vignettes/rbacon.Rmd |only 48 files changed, 100 insertions(+), 88 deletions(-)
Title: Utility Functions for Statistical Analysis Report Generation and
Monte Carlo Studies
Description: Helper functions for creating formatted summary of regression models, writing publication-ready tables to latex files, and running Monte Carlo experiments.
Author: Youyi Fong [cre],
Krisztian Sebestyen [aut],
Han Sunwoo [aut],
Jason Becker [ctb],
Bendix Carstensen [ctb],
Daryl Morris [ctb],
Josh Pasek [ctb],
Dennis Chao [ctb],
Andri Signorell [ctb],
Sue Li [ctb],
Jonathan Bartlett [ctb],
Christophe Dutang [ctb]
Maintainer: Youyi Fong <youyifong@gmail.com>
Diff between kyotil versions 2023.2-2 dated 2023-02-02 and 2023.11-27 dated 2023-11-27
kyotil-2023.11-27/kyotil/ChangeLog | 38 ++ kyotil-2023.11-27/kyotil/DESCRIPTION | 6 kyotil-2023.11-27/kyotil/MD5 | 69 ++-- kyotil-2023.11-27/kyotil/NAMESPACE | 13 kyotil-2023.11-27/kyotil/R/P.adj.perm.R | 4 kyotil-2023.11-27/kyotil/R/auc.R |only kyotil-2023.11-27/kyotil/R/base.R | 103 ++++-- kyotil-2023.11-27/kyotil/R/misc.R | 2 kyotil-2023.11-27/kyotil/R/plotting.R | 44 +- kyotil-2023.11-27/kyotil/R/print.R | 15 kyotil-2023.11-27/kyotil/R/regression.model.functions.R | 6 kyotil-2023.11-27/kyotil/R/roc.R |only kyotil-2023.11-27/kyotil/R/stat.R | 2 kyotil-2023.11-27/kyotil/R/string.R | 2 kyotil-2023.11-27/kyotil/inst/doc/kyotil-vignette.pdf |binary kyotil-2023.11-27/kyotil/man/DMHeatMap.Rd | 108 +++--- kyotil-2023.11-27/kyotil/man/Deming.Rd | 14 kyotil-2023.11-27/kyotil/man/auc.Rd |only kyotil-2023.11-27/kyotil/man/base.Rd | 88 ++--- kyotil-2023.11-27/kyotil/man/binaryloess.Rd | 6 kyotil-2023.11-27/kyotil/man/cox.zph.2.Rd | 6 kyotil-2023.11-27/kyotil/man/cross_validation.Rd | 10 kyotil-2023.11-27/kyotil/man/getK.Rd | 4 kyotil-2023.11-27/kyotil/man/math.Rd | 24 - kyotil-2023.11-27/kyotil/man/matrix.Rd | 36 +- kyotil-2023.11-27/kyotil/man/misc.Rd | 18 - kyotil-2023.11-27/kyotil/man/p.adj.perm.Rd | 6 kyotil-2023.11-27/kyotil/man/plotting.Rd | 216 ++++++------- kyotil-2023.11-27/kyotil/man/print.Rd | 90 ++--- kyotil-2023.11-27/kyotil/man/random.Rd | 66 +-- kyotil-2023.11-27/kyotil/man/regression.model.functions.Rd | 78 ++-- kyotil-2023.11-27/kyotil/man/roc.Rd |only kyotil-2023.11-27/kyotil/man/stat.Rd | 30 - kyotil-2023.11-27/kyotil/man/string.Rd | 22 - kyotil-2023.11-27/kyotil/man/tests.Rd | 30 - kyotil-2023.11-27/kyotil/src/matrix.c | 4 kyotil-2023.2-2/kyotil/R/predictCompetingRisk.R |only kyotil-2023.2-2/kyotil/R/predictCompetingRisk2.R |only kyotil-2023.2-2/kyotil/man/predictCompetingRisk2.Rd |only 39 files changed, 647 insertions(+), 513 deletions(-)
Title: Robust Statistics: Theory and Methods
Description: Companion package for the book: "Robust Statistics: Theory and Methods, second edition", <http://www.wiley.com/go/maronna/robust>. This package contains code that implements the robust estimators discussed in the recent second edition of the book above, as well as the scripts reproducing all the examples in the book.
Author: Matias Salibian-Barrera [cre],
Victor Yohai [aut],
Ricardo Maronna [aut],
Doug Martin [aut],
Gregory Brownson [aut] ,
Kjell Konis [aut],
Kjell Konis [cph] ,
Christophe Croux [ctb] ,
Gentiane Haesbroeck [ctb] ,
Martin Maechler [cph] ,
Manuel Koller [c [...truncated...]
Maintainer: Matias Salibian-Barrera <matias@stat.ubc.ca>
Diff between RobStatTM versions 1.0.7 dated 2023-04-05 and 1.0.8 dated 2023-11-27
.Rinstignore | 2 DESCRIPTION | 8 MD5 | 248 NAMESPACE | 124 NEWS.md | 151 R/BYlogreg.R | 632 +- R/DCML.R | 770 +- R/INVTR2.R | 144 R/KurtSDNew.R | 1608 ++--- R/MLocDis.R | 308 - R/Multirobu.R | 1736 +++--- R/RFPE.R | 786 +- R/RobPCA_SM.R | 176 R/WBYlogreg.R | 646 +- R/WMLlogreg.R | 218 R/alcohol.R | 58 R/algae.R | 58 R/biochem.R | 34 R/breslow.dat.R | 88 R/bus.R | 82 R/fastmve.R | 108 R/flour.R | 40 R/glass.R | 58 R/hearing.R | 72 R/image.R | 38 R/leuk.dat.R | 52 R/lmrob.MM.R | 2794 +++++----- R/lmrob.lar.R | 194 R/lmrobdet.R | 2992 +++++----- R/mineral.R | 42 R/neuralgia.R | 32 R/oats.R | 38 R/prcompRob.R | 206 R/psiFunUtils.R | 726 +- R/psiFuns.R | 612 +- R/resex.R | 42 R/shock.R | 46 R/skin.R | 44 R/stackloss.R | 50 R/utils.R | 60 R/vehicle.R | 78 R/waste.R | 64 R/wine.R | 66 build/vignette.rds |binary inst/doc/OptimalBiasRobustRegressionPsiandRho.pdf.asis | 6 inst/doc/PolynomialOptandmOptRhoFunctions.pdf.asis | 6 inst/doc/VignetteRobStatTM.pdf.asis | 6 inst/doc/fitmodelsusingRobStatTM.pdf.asis | 6 inst/scripts/ExactFit.R | 78 inst/scripts/VignetteRobStatTM.R | 256 inst/scripts/algae.R | 70 inst/scripts/autism.R | 162 inst/scripts/epilepsy.R | 168 inst/scripts/fitmodelsRobStatTM.R | 106 inst/scripts/flour.R | 72 inst/scripts/identAR2.R | 134 inst/scripts/leukemia.R | 136 inst/scripts/mineral.R | 188 inst/scripts/oats.R | 134 inst/scripts/skin.R | 126 inst/scripts/step.R | 86 inst/scripts/wine1.R | 208 inst/scripts/wood.R | 124 man/BYlogreg.Rd | 108 man/DCML.Rd | 82 man/INVTR2.Rd | 74 man/KurtSDNew.Rd | 104 man/MLocDis.Rd | 108 man/MMPY.Rd | 78 man/MMultiSHR.Rd | 100 man/Multirobu.Rd | 124 man/RockeMulti.Rd | 144 man/SMPCA.Rd | 104 man/SMPY.Rd | 82 man/WBYlogreg.Rd | 110 man/WMLlogreg.Rd | 90 man/alcohol.Rd | 74 man/algae.Rd | 76 man/biochem.Rd | 50 man/bisquare.Rd | 60 man/breslow.dat.Rd | 104 man/bus.Rd | 98 man/cov.dcml.Rd | 70 man/covClassic.Rd | 106 man/drop1.lmrobdetMM.Rd | 96 man/fastmve.Rd | 102 man/flour.Rd | 56 man/glass.Rd | 74 man/hearing.Rd | 88 man/huber.Rd | 60 man/image.Rd | 54 man/leuk.dat.Rd | 68 man/lmrobM.Rd | 212 man/lmrobM.control.Rd | 132 man/lmrobdet.control.Rd | 304 - man/lmrobdetDCML.Rd | 212 man/lmrobdetMM.RFPE.Rd | 84 man/lmrobdetMM.Rd | 274 - man/mineral.Rd | 58 man/mopt.Rd | 62 man/moptv0.Rd | 62 man/mscale.Rd | 148 man/neuralgia.Rd | 50 man/oats.Rd | 56 man/opt.Rd | 62 man/optv0.Rd | 62 man/prcompRob.Rd | 82 man/refine.sm.Rd | 142 man/resex.Rd | 60 man/rho.Rd | 80 man/rhoprime.Rd | 74 man/rhoprime2.Rd | 74 man/rob.linear.test.Rd | 78 man/shock.Rd | 66 man/skin.Rd | 60 man/stackloss.Rd | 66 man/step.lmrobdetMM.Rd | 168 man/vehicle.Rd | 94 man/waste.Rd | 82 man/wine.Rd | 82 src/lmrob.c | 5 vignettes/OptimalBiasRobustRegressionPsiandRho.pdf.asis | 6 vignettes/PolynomialOptandmOptRhoFunctions.pdf.asis | 6 vignettes/VignetteRobStatTM.pdf.asis | 6 vignettes/fitmodelsusingRobStatTM.lyx | 4370 ++++++++-------- vignettes/fitmodelsusingRobStatTM.pdf.asis | 6 126 files changed, 14168 insertions(+), 14164 deletions(-)
Title: Solvers for Initial Value Problems of Differential Equations
('ODE', 'DAE', 'DDE')
Description: Functions that solve initial value problems of a system
of first-order ordinary differential equations ('ODE'), of
partial differential equations ('PDE'), of differential
algebraic equations ('DAE'), and of delay differential
equations. The functions provide an interface to the FORTRAN
functions 'lsoda', 'lsodar', 'lsode', 'lsodes' of the 'ODEPACK'
collection, to the FORTRAN functions 'dvode', 'zvode' and 'daspk'
and a C-implementation of solvers of the 'Runge-Kutta' family with
fixed or variable time steps. The package contains routines
designed for solving 'ODEs' resulting from 1-D, 2-D and 3-D
partial differential equations ('PDE') that have been converted
to 'ODEs' by numerical differencing.
Author: Karline Soetaert [aut] ,
Thomas Petzoldt [aut, cre] ,
R. Woodrow Setzer [aut] ,
Peter N. Brown [ctb] ,
George D. Byrne [ctb] ,
Ernst Hairer [ctb] ,
Alan C. Hindmarsh [ctb] ,
Cleve Moler [ctb] ,
Linda R. Petzold [ctb] ,
Youcef Saad [ctb] ,
Clement W. [...truncated...]
Maintainer: Thomas Petzoldt <thomas.petzoldt@tu-dresden.de>
Diff between deSolve versions 1.38 dated 2023-09-05 and 1.40 dated 2023-11-27
DESCRIPTION | 6 +++--- MD5 | 14 +++++++------- NEWS.md | 15 +++++++++++++++ inst/doc/compiledCode.pdf |binary inst/doc/deSolve.pdf |binary man/events.Rd | 14 +++++++------- src/forcings.c | 2 +- src/rprintf.c | 2 +- 8 files changed, 34 insertions(+), 19 deletions(-)
Title: Statistical Methods for Phenology Analysis in Temperate Fruit
Trees
Description: The phenology of plants (i.e. the timing of their annual life
phases) depends on climatic cues. For temperate trees and many other plants,
spring phases, such as leaf emergence and flowering, have been found to result
from the effects of both cool (chilling) conditions and heat. Fruit tree
scientists (pomologists) have developed some metrics to quantify chilling
and heat (e.g. see Luedeling (2012) <doi:10.1016/j.scienta.2012.07.011>).
'chillR' contains functions for processing temperature records into
chilling (Chilling Hours, Utah Chill Units and Chill Portions) and heat units
(Growing Degree Hours). Regarding chilling metrics, Chill Portions are often
considered the most promising, but they are difficult to calculate. This package
makes it easy. 'chillR' also contains procedures for conducting a PLS analysis
relating phenological dates (e.g. bloom dates) to either mean temperatures or
mean chill and heat accumulation rates, based on long-term weather and phenology
records (Lued [...truncated...]
Author: Eike Luedeling [aut, cre] ,
Lars Caspersen [aut] ,
Eduardo Fernandez [aut]
Maintainer: Eike Luedeling <eike@eikeluedeling.com>
Diff between chillR versions 0.74.1 dated 2023-11-19 and 0.75 dated 2023-11-27
DESCRIPTION | 10 MD5 | 40 +-- NAMESPACE | 10 R/chillR-package.R | 1 R/convert_scen_information.R |only R/download_baseline_cmip6_ecmwfr.R |only R/extract_cmip6_data.R | 2 R/extract_temperatures_from_grids.R | 8 R/gen_rel_change_scenario.R | 272 ++++++++++++++---------- R/handle_cimis.R | 14 - R/handle_dwd.R | 13 - R/handle_dwd_old.R | 14 - R/handle_gsod.R | 24 +- R/handle_gsod_old.R | 14 + R/handle_ucipm.R | 13 - R/temperature_scenario_baseline_adjustment.R | 3 inst/doc/PhenoFlex.html | 139 +++++------- inst/doc/hourly_temperatures.html | 4 man/convert_scen_information.Rd |only man/download_baseline_cmip6_ecmwfr.Rd |only man/extract_cmip6_data.Rd | 2 man/gen_rel_change_scenario.Rd | 56 ++-- man/temperature_scenario_baseline_adjustment.Rd | 6 23 files changed, 367 insertions(+), 278 deletions(-)
Title: Header-Only C++ Mathematical Optimization Library for
'Armadillo'
Description: 'Ensmallen' is a templated C++ mathematical optimization library
(by the 'MLPACK' team) that provides a simple set of abstractions for writing an
objective function to optimize. Provided within are various standard and
cutting-edge optimizers that include full-batch gradient descent techniques,
small-batch techniques, gradient-free optimizers, and constrained optimization.
The 'RcppEnsmallen' package includes the header files from the 'Ensmallen' library
and pairs the appropriate header files from 'armadillo' through the
'RcppArmadillo' package. Therefore, users do not need to install 'Ensmallen' nor
'Armadillo' to use 'RcppEnsmallen'. Note that 'Ensmallen' is licensed under
3-Clause BSD, 'Armadillo' starting from 7.800.0 is licensed under Apache License 2,
'RcppArmadillo' (the 'Rcpp' bindings/bridge to 'Armadillo') is licensed under
the GNU GPL version 2 or later. Thus, 'RcppEnsmallen' is also licensed under
similar terms. Note that 'Ensmallen' requires a compiler that supports
'C++11 [...truncated...]
Author: James Joseph Balamuta [aut, cre, cph]
,
Dirk Eddelbuettel [aut, cph]
Maintainer: James Joseph Balamuta <balamut2@illinois.edu>
Diff between RcppEnsmallen versions 0.2.20.0.1 dated 2023-10-06 and 0.2.21.0.1 dated 2023-11-27
ChangeLog | 7 DESCRIPTION | 7 MD5 | 97 +- NEWS.md | 12 build/vignette.rds |binary inst/doc/package-usage.Rmd |only inst/doc/package-usage.html |only inst/doc/using-rcppensmallen.Rmd | 32 inst/doc/using-rcppensmallen.html | 52 - inst/include/ensmallen_bits/aug_lagrangian/aug_lagrangian_impl.hpp | 24 inst/include/ensmallen_bits/bigbatch_sgd/bigbatch_sgd_impl.hpp | 23 inst/include/ensmallen_bits/callbacks/callbacks.hpp | 352 ++++++---- inst/include/ensmallen_bits/callbacks/early_stop_at_min_loss.hpp | 15 inst/include/ensmallen_bits/callbacks/grad_clip_by_norm.hpp | 3 inst/include/ensmallen_bits/callbacks/grad_clip_by_value.hpp | 3 inst/include/ensmallen_bits/callbacks/print_loss.hpp | 3 inst/include/ensmallen_bits/callbacks/progress_bar.hpp | 14 inst/include/ensmallen_bits/callbacks/query_front.hpp | 82 +- inst/include/ensmallen_bits/callbacks/report.hpp | 22 inst/include/ensmallen_bits/callbacks/store_best_coordinates.hpp | 3 inst/include/ensmallen_bits/callbacks/traits.hpp | 172 +++- inst/include/ensmallen_bits/cd/cd_impl.hpp | 10 inst/include/ensmallen_bits/cmaes/active_cmaes_impl.hpp | 20 inst/include/ensmallen_bits/cmaes/cmaes_impl.hpp | 20 inst/include/ensmallen_bits/cmaes/full_selection.hpp | 5 inst/include/ensmallen_bits/cmaes/random_selection.hpp | 5 inst/include/ensmallen_bits/cne/cne_impl.hpp | 26 inst/include/ensmallen_bits/de/de_impl.hpp | 16 inst/include/ensmallen_bits/ens_version.hpp | 10 inst/include/ensmallen_bits/eve/eve_impl.hpp | 15 inst/include/ensmallen_bits/fw/frank_wolfe_impl.hpp | 2 inst/include/ensmallen_bits/gradient_descent/gradient_descent_impl.hpp | 2 inst/include/ensmallen_bits/iqn/iqn_impl.hpp | 5 inst/include/ensmallen_bits/katyusha/katyusha_impl.hpp | 13 inst/include/ensmallen_bits/lbfgs/lbfgs_impl.hpp | 2 inst/include/ensmallen_bits/lookahead/lookahead_impl.hpp | 6 inst/include/ensmallen_bits/moead/moead_impl.hpp | 2 inst/include/ensmallen_bits/nsga2/nsga2_impl.hpp | 2 inst/include/ensmallen_bits/parallel_sgd/parallel_sgd_impl.hpp | 3 inst/include/ensmallen_bits/pso/pso_impl.hpp | 34 inst/include/ensmallen_bits/sa/sa.hpp | 3 inst/include/ensmallen_bits/sa/sa_impl.hpp | 23 inst/include/ensmallen_bits/sarah/sarah_impl.hpp | 18 inst/include/ensmallen_bits/sdp/primal_dual_impl.hpp | 3 inst/include/ensmallen_bits/sgd/sgd_impl.hpp | 20 inst/include/ensmallen_bits/spalera_sgd/spalera_sgd_impl.hpp | 21 inst/include/ensmallen_bits/spsa/spsa_impl.hpp | 18 inst/include/ensmallen_bits/svrg/svrg_impl.hpp | 19 man/RcppEnsmallen-package.Rd | 1 vignettes/package-usage.Rmd |only vignettes/using-rcppensmallen.Rmd | 32 51 files changed, 762 insertions(+), 517 deletions(-)
Title: Model-Assisted Survey Estimators
Description: A set of model-assisted survey estimators and corresponding
variance estimators for single stage, unequal probability, without replacement
sampling designs. All of the estimators can be written as a generalized
regression estimator with the Horvitz-Thompson, ratio, post-stratified, and
regression estimators summarized by Sarndal et al. (1992, ISBN:978-0-387-40620-6).
Two of the estimators employ a statistical learning model as the assisting model:
the elastic net regression estimator, which is an extension of the lasso regression
estimator given by McConville et al. (2017) <doi:10.1093/jssam/smw041>, and the
regression tree estimator described in McConville and Toth (2017) <arXiv:1712.05708>.
The variance estimators which approximate the joint inclusion probabilities can
be found in Berger and Tille (2009) <doi:10.1016/S0169-7161(08)00002-3> and the
bootstrap variance estimator is presented in Mashreghi et al. (2016)
<doi:10.1214/16-SS113>.
Author: Kelly McConville [cre, aut, cph],
Josh Yamamoto [aut],
Becky Tang [aut],
George Zhu [aut],
Sida Li [ctb],
Shirley Chueng [ctb],
Daniell Toth [ctb]
Maintainer: Kelly McConville <kmcconville@fas.harvard.edu>
Diff between mase versions 0.1.5 dated 2023-11-16 and 0.1.5.1 dated 2023-11-27
DESCRIPTION | 8 ++++---- MD5 | 6 +++--- R/GREG.R | 1 + build/partial.rdb |binary 4 files changed, 8 insertions(+), 7 deletions(-)
Title: Tools for Analyzing QTL Experiments
Description: Analysis of experimental crosses to identify genes
(called quantitative trait loci, QTLs) contributing to variation in
quantitative traits.
Broman et al. (2003) <doi:10.1093/bioinformatics/btg112>.
Author: Karl W Broman <broman@wisc.edu> and Hao Wu, with
ideas from Gary Churchill and Saunak Sen and contributions from
Danny Arends, Robert Corty, Timothee Flutre, Ritsert Jansen, Pjotr
Prins, Lars Ronnegard, Rohan Shah, Laura Shannon, Quoc Tran, Aaron
Wol [...truncated...]
Maintainer: Karl W Broman <broman@wisc.edu>
Diff between qtl versions 1.62 dated 2023-11-17 and 1.66 dated 2023-11-27
DESCRIPTION | 8 ++++---- MD5 | 16 ++++++++-------- NEWS.md | 10 ++++++++++ inst/INSTALL_ME.txt | 12 ++++++------ inst/doc/bcsft.pdf |binary inst/doc/rqtltour.pdf |binary inst/doc/rqtltour2.pdf |binary src/mqmaugment.cpp | 4 ++-- src/mqmdatatypes.cpp | 7 +++++-- 9 files changed, 35 insertions(+), 22 deletions(-)
Title: Functions for Wayne W. Daniel's Biostatistics, Tenth Edition
Description: Functions to accompany Wayne W. Daniel's Biostatistics: A
Foundation for Analysis in the Health Sciences, Tenth Edition.
Author: Tingting Zhan [aut, cre, cph]
Maintainer: Tingting Zhan <tingtingzhan@gmail.com>
Diff between DanielBiostatistics10th versions 0.1.9 dated 2023-10-18 and 0.1.10 dated 2023-11-27
DanielBiostatistics10th-0.1.10/DanielBiostatistics10th/DESCRIPTION | 14 DanielBiostatistics10th-0.1.10/DanielBiostatistics10th/MD5 | 79 - DanielBiostatistics10th-0.1.10/DanielBiostatistics10th/NAMESPACE | 8 DanielBiostatistics10th-0.1.10/DanielBiostatistics10th/R/BooleanTable.R | 16 DanielBiostatistics10th-0.1.10/DanielBiostatistics10th/R/Gosset_Welch_vanilla.R | 43 DanielBiostatistics10th-0.1.10/DanielBiostatistics10th/R/addProbs_vanilla.R | 14 DanielBiostatistics10th-0.1.10/DanielBiostatistics10th/R/chp1.R | 8 DanielBiostatistics10th-0.1.10/DanielBiostatistics10th/R/chp11.R | 2 DanielBiostatistics10th-0.1.10/DanielBiostatistics10th/R/chp12.R | 2 DanielBiostatistics10th-0.1.10/DanielBiostatistics10th/R/chp2.R | 14 DanielBiostatistics10th-0.1.10/DanielBiostatistics10th/R/chp3.R | 8 DanielBiostatistics10th-0.1.10/DanielBiostatistics10th/R/chp4.R | 12 DanielBiostatistics10th-0.1.10/DanielBiostatistics10th/R/chp5.6.7.R | 36 DanielBiostatistics10th-0.1.10/DanielBiostatistics10th/R/chp7.power.R | 293 +--- DanielBiostatistics10th-0.1.10/DanielBiostatistics10th/R/chp9.R | 2 DanielBiostatistics10th-0.1.10/DanielBiostatistics10th/R/data_doc.R | 682 +++++----- DanielBiostatistics10th-0.1.10/DanielBiostatistics10th/build/partial.rdb |binary DanielBiostatistics10th-0.1.10/DanielBiostatistics10th/data/data.rda |binary DanielBiostatistics10th-0.1.10/DanielBiostatistics10th/inst/developer/save_data.R | 4 DanielBiostatistics10th-0.1.10/DanielBiostatistics10th/inst/example/Chapter7.power.R | 4 DanielBiostatistics10th-0.1.10/DanielBiostatistics10th/man/BooleanTable.Rd | 35 DanielBiostatistics10th-0.1.10/DanielBiostatistics10th/man/Chapter01.Rd | 2 DanielBiostatistics10th-0.1.10/DanielBiostatistics10th/man/Chapter02.Rd | 16 DanielBiostatistics10th-0.1.10/DanielBiostatistics10th/man/Chapter04.Rd | 4 DanielBiostatistics10th-0.1.10/DanielBiostatistics10th/man/Chapter05to07.Rd | 58 DanielBiostatistics10th-0.1.10/DanielBiostatistics10th/man/Chapter07_power.Rd | 18 DanielBiostatistics10th-0.1.10/DanielBiostatistics10th/man/Chapter09.Rd | 2 DanielBiostatistics10th-0.1.10/DanielBiostatistics10th/man/Chapter11.Rd | 2 DanielBiostatistics10th-0.1.10/DanielBiostatistics10th/man/Chapter12.Rd | 4 DanielBiostatistics10th-0.1.10/DanielBiostatistics10th/man/DanielBiostatistics10th-package.Rd | 2 DanielBiostatistics10th-0.1.10/DanielBiostatistics10th/man/Gosset_Welch.Rd | 29 DanielBiostatistics10th-0.1.10/DanielBiostatistics10th/man/addProbs.Rd | 22 DanielBiostatistics10th-0.1.10/DanielBiostatistics10th/man/autoplot.BooleanTable.Rd | 4 DanielBiostatistics10th-0.1.10/DanielBiostatistics10th/man/binom2pois.Rd | 4 DanielBiostatistics10th-0.1.10/DanielBiostatistics10th/man/show-BooleanTable-method.Rd | 2 DanielBiostatistics10th-0.1.10/DanielBiostatistics10th/man/show-addedProbs-method.Rd | 2 DanielBiostatistics10th-0.1.10/DanielBiostatistics10th/man/show-freqs-method.Rd | 2 DanielBiostatistics10th-0.1.10/DanielBiostatistics10th/man/summary.BooleanTable.Rd | 8 DanielBiostatistics10th-0.1.9/DanielBiostatistics10th/man/BooleanTable-class.Rd |only DanielBiostatistics10th-0.1.9/DanielBiostatistics10th/man/RejectionRegion-class.Rd |only DanielBiostatistics10th-0.1.9/DanielBiostatistics10th/man/addedProbs-class.Rd |only DanielBiostatistics10th-0.1.9/DanielBiostatistics10th/man/power-class.Rd |only DanielBiostatistics10th-0.1.9/DanielBiostatistics10th/man/show-power-method.Rd |only 43 files changed, 682 insertions(+), 775 deletions(-)
More information about DanielBiostatistics10th at CRAN
Permanent link
Title: Regression Models with Break-Points / Change-Points Estimation
(with Possibly Random Effects)
Description: Fitting regression models where, in addition to possible linear terms, one or more covariates have segmented (i.e., broken-line or piece-wise linear) or stepmented (i.e. piece-wise constant) effects.
Multiple breakpoints for the same variable are allowed. The estimation method is discussed in Muggeo (2003, <doi:10.1002/sim.1545>) and
illustrated in Muggeo (2008, <https://www.r-project.org/doc/Rnews/Rnews_2008-1.pdf>). An approach for hypothesis testing is presented
in Muggeo (2016, <doi:10.1080/00949655.2016.1149855>), and interval estimation for the breakpoint is discussed in Muggeo (2017, <doi:10.1111/anzs.12200>).
Segmented mixed models, i.e. random effects in the change point, are discussed in Muggeo (2014, <doi:10.1177/1471082X13504721>).
Estimation of piecewise-constant relationships and changepoints (mean-shift models) is
discussed in Fasola et al. (2018, <doi:10.1007/s00180-017-0740-4>).
Author: Vito M. R. Muggeo [aut, cre]
Maintainer: Vito M. R. Muggeo <vito.muggeo@unipa.it>
Diff between segmented versions 1.6-4 dated 2023-04-13 and 2.0-0 dated 2023-11-27
DESCRIPTION | 21 - MD5 | 137 +++++--- NAMESPACE | 134 ++++---- NEWS | 16 R/aapc.r | 45 ++ R/broken.line.r | 187 +++++++---- R/confint.segmented.R | 101 ++++-- R/confint.stepmented.R |only R/intercept.r | 22 - R/lines.segmented.R | 3 R/lines.stepmented.R |only R/model.matrix.segmented.r |only R/plot.segmented.R | 678 +++++++++++++++++++++--------------------- R/plot.segmented.lme.r | 72 +++- R/plot.stepmented.r |only R/points.segmented.r | 87 ++--- R/predict.segmented.r | 270 ++++++++++------ R/print.segmented.R | 2 R/print.stepmented.r |only R/print.summary.segmented.R | 2 R/print.summary.stepmented.R |only R/pscore.test.R | 2 R/seg.Ar.fit.r | 11 R/seg.control.R | 13 R/seg.def.fit.boot.r | 4 R/seg.def.fit.r | 193 +++++++---- R/seg.glm.fit.boot.r | 3 R/seg.glm.fit.r | 13 R/seg.lm.fit.boot.r | 9 R/seg.lm.fit.r | 43 +- R/seg.num.fit.boot.r | 3 R/seg.num.fit.r | 14 R/seg.r |only R/segConstr.glm.fit.boot.r |only R/segConstr.glm.fit.r |only R/segConstr.lm.fit.boot.r |only R/segConstr.lm.fit.r |only R/segmented.Arima.r | 3 R/segmented.default.r | 71 +++- R/segmented.glm.R | 12 R/segmented.lm.R | 36 +- R/segmented.lme.r | 116 +++++-- R/segmented.numeric.R | 3 R/segreg.r |only R/selgmented.R | 10 R/slope.R | 301 ++++++++++++------ R/step.glm.fit.boot.r |only R/step.glm.fit.r |only R/step.lm.fit.boot.r |only R/step.lm.fit.r |only R/step.num.fit.boot.r |only R/step.num.fit.r |only R/step.ts.fit.boot.r |only R/step.ts.fit.r |only R/stepmented.R |only R/stepmented.glm.R |only R/stepmented.lm.R |only R/stepmented.numeric.r |only R/stepmented.ts.R |only R/summary.segmented.R | 29 + R/summary.stepmented.R |only R/vcov.stepmented.R |only inst/CITATION | 16 man/broken.line.Rd | 24 - man/confint.stepmented.Rd |only man/lines.segmented.Rd | 2 man/lines.stepmented.Rd |only man/model.matrix.segmented.Rd |only man/plant.Rd | 13 man/plot.segmented.Rd | 11 man/plot.segmented.lme.Rd | 5 man/plot.stepmented.Rd |only man/points.segmented.Rd | 5 man/predict.segmented.Rd | 18 - man/seg.Rd |only man/seg.control.Rd | 46 +- man/seg.lm.fit.Rd | 18 + man/segmented-package.Rd | 163 +++++----- man/segmented.Rd | 58 ++- man/segmented.lme.Rd | 42 +- man/segreg.Rd |only man/selgmented.Rd | 49 +-- man/slope.Rd | 11 man/step.lm.fit.Rd |only man/stepmented.Rd |only man/summary.stepmented.Rd |only man/vcov.segmented.Rd | 5 man/vcov.stepmented.Rd |only 88 files changed, 1972 insertions(+), 1180 deletions(-)
Title: Seasonality Variation Plots of Stock Prices and Cryptocurrencies
Description: The price action at any given time is determined by investor
sentiment and market conditions. Although there is no established principle,
over a long period of time, things often move with a certain periodicity.
This is sometimes referred to as anomaly.
The seasonPlot() function in this package calculates and visualizes the
average value of price movements over a year for any given period.
In addition, the monthly increase or decrease in price movement is
represented with a colored background.
This seasonPlot() function can use the same symbols as the 'quantmod' package
(e.g. ^IXIC, ^DJI, SPY, BTC-USD, and ETH-USD etc).
Author: Satoshi Kume [aut, cre]
Maintainer: Satoshi Kume <satoshi.kume.1984@gmail.com>
Diff between seasonalityPlot versions 1.0.1 dated 2023-09-14 and 1.1.0 dated 2023-11-27
DESCRIPTION | 8 +++---- MD5 | 10 ++++----- NAMESPACE | 1 R/seasonPlot.R | 59 +++++++++++++++++++++++++++++++++++++++++++----------- README.md | 6 +++-- man/seasonPlot.Rd | 12 ++++++---- 6 files changed, 69 insertions(+), 27 deletions(-)
More information about seasonalityPlot at CRAN
Permanent link
Title: Nonlinear Nonparametric Statistics
Description: Nonlinear nonparametric statistics using partial moments. Partial moments are the elements of variance and asymptotically approximate the area of f(x). These robust statistics provide the basis for nonlinear analysis while retaining linear equivalences. NNS offers: Numerical integration, Numerical differentiation, Clustering, Correlation, Dependence, Causal analysis, ANOVA, Regression, Classification, Seasonality, Autoregressive modeling, Normalization and Stochastic dominance. All routines based on: Viole, F. and Nawrocki, D. (2013), Nonlinear Nonparametric Statistics: Using Partial Moments (ISBN: 1490523995).
Author: Fred Viole [aut, cre],
Roberto Spadim [ctb]
Maintainer: Fred Viole <ovvo.financial.systems@gmail.com>
Diff between NNS versions 10.3 dated 2023-11-10 and 10.4 dated 2023-11-27
DESCRIPTION | 8 - MD5 | 74 ++++++------ R/ARMA.R | 6 - R/ARMA_optim.R | 10 - R/Copula.R | 19 +-- R/FSD.R | 10 + R/Multivariate_Regression.R | 8 - R/NNS_VAR.R | 6 - R/NNS_meboot.R | 6 - R/Partition_Map.R | 3 R/Regression.R | 109 +++++++++---------- R/SSD.R | 11 + R/TSD.R | 13 +- README.md | 4 inst/doc/NNSvignette_Classification.R | 2 inst/doc/NNSvignette_Classification.Rmd | 2 inst/doc/NNSvignette_Clustering_and_Regression.R | 2 inst/doc/NNSvignette_Clustering_and_Regression.Rmd | 2 inst/doc/NNSvignette_Clustering_and_Regression.html | 96 +++++++--------- inst/doc/NNSvignette_Comparing_Distributions.R | 2 inst/doc/NNSvignette_Comparing_Distributions.Rmd | 2 inst/doc/NNSvignette_Correlation_and_Dependence.R | 2 inst/doc/NNSvignette_Correlation_and_Dependence.Rmd | 2 inst/doc/NNSvignette_Correlation_and_Dependence.html | 2 inst/doc/NNSvignette_Forecasting.R | 2 inst/doc/NNSvignette_Forecasting.Rmd | 2 inst/doc/NNSvignette_Partial_Moments.R | 2 inst/doc/NNSvignette_Partial_Moments.Rmd | 2 inst/doc/NNSvignette_Sampling.R | 2 inst/doc/NNSvignette_Sampling.Rmd | 2 tests/testthat/test_Copula.R | 6 - vignettes/NNSvignette_Classification.Rmd | 2 vignettes/NNSvignette_Clustering_and_Regression.Rmd | 2 vignettes/NNSvignette_Comparing_Distributions.Rmd | 2 vignettes/NNSvignette_Correlation_and_Dependence.Rmd | 2 vignettes/NNSvignette_Forecasting.Rmd | 2 vignettes/NNSvignette_Partial_Moments.Rmd | 2 vignettes/NNSvignette_Sampling.Rmd | 2 38 files changed, 217 insertions(+), 216 deletions(-)
Title: Interpolation Methods
Description: Bivariate data interpolation on regular and irregular
grids, either linear or using splines are the main part of this
package. It is intended to provide FOSS replacement functions for
the ACM licensed akima::interp and tripack::tri.mesh functions.
Linear interpolation is implemented in
interp::interp(..., method="linear"), this corresponds to the call
akima::interp(..., linear=TRUE) which is the default setting and
covers most of akima::interp use cases in depending packages.
A re-implementation of Akimas irregular grid spline
interpolation (akima::interp(..., linear=FALSE)) is now also
available via interp::interp(..., method="akima").
Estimators for partial derivatives are now also available in
interp::locpoly(), these are a prerequisite for the spline interpolation.
The basic part is a GPLed triangulation algorithm (sweep hull
algorithm by David Sinclair) providing the starting point for the
irregular grid interpolator. As side effect this algorithm is also
used to provide replacem [...truncated...]
Author: Albrecht Gebhardt [aut, cre, cph],
Roger Bivand [aut],
David Sinclair [aut, cph]
Maintainer: Albrecht Gebhardt <albrecht.gebhardt@aau.at>
Diff between interp versions 1.1-4 dated 2023-03-31 and 1.1-5 dated 2023-11-27
DESCRIPTION | 8 ++++---- MD5 | 12 ++++++------ build/vignette.rds |binary inst/doc/interp.pdf |binary inst/doc/partDeriv.pdf |binary inst/doc/tri.pdf |binary src/convexHull.cpp | 2 +- 7 files changed, 11 insertions(+), 11 deletions(-)
More information about FDRsamplesize2 at CRAN
Permanent link
Title: Automatic Description of Factorial Analysis
Description: Brings a set of tools to help and automatically realise the description of principal component analyses (from 'FactoMineR' functions). Detection of existing outliers, identification of the informative components, graphical views and dimensions description are performed threw dedicated functions. The Investigate() function performs all these functions in one, and returns the result as a report document (Word, PDF or HTML).
Author: Simon Thuleau, Francois Husson
Maintainer: Francois Husson <francois.husson@institut-agro.fr>
Diff between FactoInvestigate versions 1.8 dated 2022-04-26 and 1.9 dated 2023-11-27
DESCRIPTION | 10 +++++----- MD5 | 8 ++++---- R/description.R | 44 +++++++++++++++++++++----------------------- build/partial.rdb |binary po/R-fr.po | 2 +- 5 files changed, 31 insertions(+), 33 deletions(-)
More information about FactoInvestigate at CRAN
Permanent link
Title: Descriptive Statistics
Description: Weighted frequency and contingency tables of categorical
variables and of the comparison of the mean value of a numerical
variable by the levels of a factor, and methods to produce xtable
objects of the tables and to plot them. There are also functions to
facilitate the character encoding conversion of objects, to quickly
convert fixed width files into csv ones, and to export a data.frame to
a text file with the necessary R and SPSS codes to reread the data.
Author: Jakson Aquino. Includes R source code and/or documentation
written by Dirk Enzmann, Marc Schwartz, Nitin Jain, and Stefan
Kraft
Maintainer: Jakson Aquino <jalvesaq@gmail.com>
Diff between descr versions 1.1.7 dated 2023-03-22 and 1.1.8 dated 2023-11-27
DESCRIPTION | 8 ++++---- MD5 | 6 +++--- NEWS | 4 ++++ src/descr.c | 16 +++++++++++----- 4 files changed, 22 insertions(+), 12 deletions(-)
Title: "Finding Groups in Data": Cluster Analysis Extended Rousseeuw et
al.
Description: Methods for Cluster analysis. Much extended the original from
Peter Rousseeuw, Anja Struyf and Mia Hubert,
based on Kaufman and Rousseeuw (1990) "Finding Groups in Data".
Author: Martin Maechler [aut, cre] ,
Peter Rousseeuw [aut] ,
Anja Struyf [aut] ,
Mia Hubert [aut] ,
Kurt Hornik [trl, ctb] ,
<https://orcid.org/0000-0003-4198-9911>),
Matthias Studer [ctb],
Pierre Roudier [ctb],
Juan Gonzalez [ctb],
Kamil Kozlowski [ctb],
Er [...truncated...]
Maintainer: Martin Maechler <maechler@stat.math.ethz.ch>
Diff between cluster versions 2.1.4 dated 2022-08-22 and 2.1.5 dated 2023-11-27
cluster-2.1.4/cluster/tests/withAutoprint.R |only cluster-2.1.5/cluster/DESCRIPTION | 14 cluster-2.1.5/cluster/MD5 | 62 +- cluster-2.1.5/cluster/R/0aaa.R | 2 cluster-2.1.5/cluster/R/clara.q | 17 cluster-2.1.5/cluster/R/daisy.q | 14 cluster-2.1.5/cluster/R/internal.R | 7 cluster-2.1.5/cluster/R/pam.q | 4 cluster-2.1.5/cluster/R/silhouette.R | 6 cluster-2.1.5/cluster/build/partial.rdb |binary cluster-2.1.5/cluster/inst/CITATION | 12 cluster-2.1.5/cluster/inst/NEWS.Rd | 76 +- cluster-2.1.5/cluster/man/clara.Rd | 14 cluster-2.1.5/cluster/man/clusGap.Rd | 3 cluster-2.1.5/cluster/man/cluster-internal.Rd | 10 cluster-2.1.5/cluster/man/daisy.Rd | 34 - cluster-2.1.5/cluster/man/flower.Rd | 16 cluster-2.1.5/cluster/man/pam.Rd | 2 cluster-2.1.5/cluster/man/silhouette.Rd | 5 cluster-2.1.5/cluster/po/update-me.sh | 2 cluster-2.1.5/cluster/src/clara.c | 353 ++++++------- cluster-2.1.5/cluster/src/cluster.h | 7 cluster-2.1.5/cluster/src/daisy.f | 24 cluster-2.1.5/cluster/tests/clara-NAs.R | 21 cluster-2.1.5/cluster/tests/clara-NAs.Rout.save | 404 ++++++++------- cluster-2.1.5/cluster/tests/clara-ex.Rout.save |only cluster-2.1.5/cluster/tests/clara-gower.R |only cluster-2.1.5/cluster/tests/clara.Rout.save | 11 cluster-2.1.5/cluster/tests/fanny-ex.R | 32 - cluster-2.1.5/cluster/tests/fanny-ex.Rout.save |only cluster-2.1.5/cluster/tests/mona.R | 2 cluster-2.1.5/cluster/tests/mona.Rout.save | 8 cluster-2.1.5/cluster/tests/silhouette-default.R | 25 cluster-2.1.5/cluster/tests/silhouette-default.Rout.save | 33 - 34 files changed, 715 insertions(+), 505 deletions(-)
Title: Read and Write Sparse Matrices in 'SVMLight' and 'LibSVM'
Formats
Description: Read and write labelled sparse matrices in text format as used by
software such as 'SVMLight', 'LibSVM', 'ThunderSVM', 'LibFM', 'xLearn', 'XGBoost', 'LightGBM',
and others. Supports labelled data for regression, classification (binary, multi-class, multi-label),
and ranking (with 'qid' field), and can handle header metadata and comments in files.
Author: David Cortes
Maintainer: David Cortes <david.cortes.rivera@gmail.com>
Diff between readsparse versions 0.1.5-5 dated 2023-11-13 and 0.1.5-6 dated 2023-11-27
readsparse-0.1.5-5/readsparse/man/readsparse_nonascii_support.Rd |only readsparse-0.1.5-6/readsparse/DESCRIPTION | 6 readsparse-0.1.5-6/readsparse/MD5 | 17 -- readsparse-0.1.5-6/readsparse/NAMESPACE | 1 readsparse-0.1.5-6/readsparse/R/RcppExports.R | 16 - readsparse-0.1.5-6/readsparse/R/read_sparse.R | 44 +---- readsparse-0.1.5-6/readsparse/man/read.sparse.Rd | 19 +- readsparse-0.1.5-6/readsparse/src/RcppExports.cpp | 32 +-- readsparse-0.1.5-6/readsparse/src/Rwrapper.cpp | 82 +++++----- readsparse-0.1.5-6/readsparse/src/writer.h | 8 10 files changed, 101 insertions(+), 124 deletions(-)
Title: Causal Moderated Mediation Analysis
Description: Causal moderated mediation analysis using the methods proposed by Qin and Wang (2023) <doi:10.3758/s13428-023-02095-4>. Causal moderated mediation analysis is crucial for investigating how, for whom, and where a treatment is effective by assessing the heterogeneity of mediation mechanism across individuals and contexts. This package enables researchers to estimate and test the conditional and moderated mediation effects, assess their sensitivity to unmeasured pre-treatment confounding, and visualize the results. The package is built based on the quasi-Bayesian Monte Carlo method, because it has relatively better performance at small sample sizes, and its running speed is the fastest. The package is applicable to a treatment of any scale, a binary or continuous mediator, a binary or continuous outcome, and one or more moderators of any scale.
Author: Xu Qin [aut, cre, cph],
Lijuan Wang [ctb]
Maintainer: Xu Qin <xuqin@pitt.edu>
Diff between moderate.mediation versions 0.0.6 dated 2023-10-19 and 0.0.7 dated 2023-11-27
DESCRIPTION | 8 ++--- MD5 | 4 +- R/moderate.mediation.R | 72 +++++++++++++++++++++++++++++-------------------- 3 files changed, 50 insertions(+), 34 deletions(-)
More information about moderate.mediation at CRAN
Permanent link
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2021-06-14 1.1.1
2021-03-15 1.0.0
Title: Expected Value of Information
Description: Methods to calculate the expected value of information from a decision-analytic model. This includes the expected value of perfect information (EVPI), partial perfect information (EVPPI) and sample information (EVSI), and the expected net benefit of sampling (ENBS). A range of alternative computational methods are provided under the same user interface. See Jackson et al. (2022) <doi:10.1146/annurev-statistics-040120-010730>.
Author: Christopher Jackson [aut, cre],
Anna Heath [aut],
Gianluca Baio [ctb] ,
Mark Strong [ctb] ,
Kofi Placid Adragni [ctb] ,
Andrew Raim [ctb]
Maintainer: Christopher Jackson <chris.jackson@mrc-bsu.cam.ac.uk>
Diff between voi versions 1.0.1 dated 2023-11-22 and 1.0.2 dated 2023-11-27
DESCRIPTION | 8 ++++---- MD5 | 10 +++++----- NEWS.md | 7 ++++++- inst/doc/plots.html | 4 ++-- inst/doc/voi.html | 4 ++-- tests/testthat/test_multcomp.R | 6 +++--- 6 files changed, 22 insertions(+), 17 deletions(-)
Title: Using Cytogenetics Data in R
Description: Defines classes and methods to process text-based
cytogenetics using the CytoGPS web site, then import the results
into R for further analysis and graphing.
Author: Kevin R. Coombes, Dwayne Tally
Maintainer: Kevin R. Coombes <krc@silicovore.com>
Diff between RCytoGPS versions 1.2.1 dated 2021-09-17 and 1.2.5 dated 2023-11-27
RCytoGPS-1.2.1/RCytoGPS/tests/test100-read.Rout |only RCytoGPS-1.2.5/RCytoGPS/DESCRIPTION | 8 +- RCytoGPS-1.2.5/RCytoGPS/MD5 | 22 ++--- RCytoGPS-1.2.5/RCytoGPS/R/sysdata.rda |binary RCytoGPS-1.2.5/RCytoGPS/build/vignette.rds |binary RCytoGPS-1.2.5/RCytoGPS/data/cytoData.rda |binary RCytoGPS-1.2.5/RCytoGPS/data/cytobandLocations.rda |binary RCytoGPS-1.2.5/RCytoGPS/inst/doc/Gallery.html | 69 +++++++++--------- RCytoGPS-1.2.5/RCytoGPS/inst/doc/IntroRCytoGPS.html | 71 ++++++++++--------- RCytoGPS-1.2.5/RCytoGPS/man/02-readLGF.Rd | 14 +-- RCytoGPS-1.2.5/RCytoGPS/man/03-CytobandData.Rd | 2 RCytoGPS-1.2.5/RCytoGPS/man/06-Chromosome.Rd | 2 RCytoGPS-1.2.5/RCytoGPS/tests/test100-read.Rout.save |only 13 files changed, 99 insertions(+), 89 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 1.4.5 dated 2023-08-14 and 1.4.6 dated 2023-11-27
tuneR-1.4.5/tuneR/tests/tuneR-Ex.Rout |only tuneR-1.4.6/tuneR/DESCRIPTION | 8 ++++---- tuneR-1.4.6/tuneR/MD5 | 4 ++-- tuneR-1.4.6/tuneR/tests/Examples |only 4 files changed, 6 insertions(+), 6 deletions(-)
Title: Template Model Builder: A General Random Effect Tool Inspired by
'ADMB'
Description: With this tool, a user should be able to quickly implement
complex random effect models through simple C++ templates. The package combines
'CppAD' (C++ automatic differentiation), 'Eigen' (templated matrix-vector
library) and 'CHOLMOD' (sparse matrix routines available from R) to obtain
an efficient implementation of the applied Laplace approximation with exact
derivatives. Key features are: Automatic sparseness detection, parallelism
through 'BLAS' and parallel user templates.
Author: Kasper Kristensen [aut, cre, cph],
Brad Bell [cph],
Hans Skaug [ctb],
Arni Magnusson [ctb],
Casper Berg [ctb],
Anders Nielsen [ctb],
Martin Maechler [ctb],
Theo Michelot [ctb],
Mollie Brooks [ctb],
Alex Forrence [ctb],
Christoffer Moesgaard Albertsen [...truncated...]
Maintainer: Kasper Kristensen <kaskr@dtu.dk>
Diff between TMB versions 1.9.7 dated 2023-11-21 and 1.9.8 dated 2023-11-27
DESCRIPTION | 8 ++++---- MD5 | 14 +++++++------- NEWS | 6 ++++++ inst/include/Rstream.hpp | 22 ++++++++++++++-------- inst/include/TMB.hpp | 2 +- inst/include/tmb_core.hpp | 2 +- inst/include/toggle_thread_safe_R.hpp | 2 +- src/solve_subset.c | 4 ++-- 8 files changed, 36 insertions(+), 24 deletions(-)
Title: Text Analysis Through the 'Receptiviti' API
Description: Send text to the <https://www.receptiviti.com> API to be scored
by all available frameworks.
Author: Receptiviti Inc. [fnd, cph],
Kent English [cre],
Micah Iserman [aut, ctr]
Maintainer: Kent English <kenglish@receptiviti.com>
Diff between receptiviti versions 0.1.5 dated 2023-09-18 and 0.1.6 dated 2023-11-27
DESCRIPTION | 9 ++- MD5 | 18 +++---- NAMESPACE | 2 NEWS.md | 13 +++++ R/receptiviti.R | 67 +++++++++++++++++++++------- R/receptiviti_status.R | 8 ++- README.md | 6 +- man/receptiviti.Rd | 8 ++- tests/testthat/test-receptiviti.R | 73 +++++++++++++++++-------------- tests/testthat/test-receptiviti_status.R | 1 10 files changed, 137 insertions(+), 68 deletions(-)
Title: Projected Spatial Gaussian Process Methods
Description: Implements projected sparse Gaussian process Kriging (Ingram 'et. al.', 2008, <doi:10.1007/s00477-007-0163-9>) as an additional method for the 'intamap' package. More details on implementation (Barillec 'et. al.', 2010, <doi:10.1016/j.cageo.2010.05.008>).
Author: Ben Ingram <ingrambr.work@gmail.com>, Remi Barillec <remi@igiltd.com>, Jon Olav Skoien <jon.skoien@gmail.com>
Maintainer: Ben Ingram <ingrambr.work@gmail.com>
Diff between psgp versions 0.3-20 dated 2023-07-20 and 0.3-21 dated 2023-11-27
psgp-0.3-20/psgp/tests/meuse_psgp.Rout |only psgp-0.3-20/psgp/tests/psgp.Rout |only psgp-0.3-21/psgp/ChangeLog | 3 + psgp-0.3-21/psgp/DESCRIPTION | 8 +-- psgp-0.3-21/psgp/MD5 | 32 ++++++------- psgp-0.3-21/psgp/R/makePrediction.R | 2 psgp-0.3-21/psgp/src/ModelTrainer.cpp | 2 psgp-0.3-21/psgp/src/PSGP.cpp | 49 +++++++++++++++----- psgp-0.3-21/psgp/src/PSGP.h | 1 psgp-0.3-21/psgp/src/RInterface.cpp | 22 +++++++-- psgp-0.3-21/psgp/src/SumCovarianceFunction.cpp | 7 +- psgp-0.3-21/psgp/src/psgp_common.h | 1 psgp-0.3-21/psgp/src/psgp_data.cpp | 27 ++++++++--- psgp-0.3-21/psgp/src/psgp_estimator.cpp | 22 ++++----- psgp-0.3-21/psgp/tests/meuse_psgp.R | 1 psgp-0.3-21/psgp/tests/meuse_psgp.Rout.save | 60 ------------------------- psgp-0.3-21/psgp/tests/psgp.R | 1 psgp-0.3-21/psgp/tests/psgp.Rout.save | 23 ++------- 18 files changed, 123 insertions(+), 138 deletions(-)
Title: Linear and Nonlinear Mixed Effects Models
Description: Fit and compare Gaussian linear and nonlinear mixed-effects models.
Author: Jose Pinheiro [aut] ,
Douglas Bates [aut] ,
Saikat DebRoy [ctb] ,
Deepayan Sarkar [ctb] ,
EISPACK authors [ctb] ,
Siem Heisterkamp [ctb] ,
Bert Van Willigen [ctb] ,
Johannes Ranke [ctb] ),
R Core Team [aut, cre]
Maintainer: R Core Team <R-core@R-project.org>
Diff between nlme versions 3.1-163 dated 2023-08-09 and 3.1-164 dated 2023-11-27
DESCRIPTION | 8 ++-- MD5 | 88 ++++++++++++++++++++++++------------------------- build/partial.rdb |binary data/Alfalfa.rda |binary data/Assay.rda |binary data/BodyWeight.rda |binary data/Cefamandole.rda |binary data/Dialyzer.rda |binary data/Earthquake.rda |binary data/Fatigue.rda |binary data/Gasoline.rda |binary data/Glucose.rda |binary data/Glucose2.rda |binary data/Gun.rda |binary data/IGF.rda |binary data/Machines.rda |binary data/MathAchSchool.rda |binary data/MathAchieve.rda |binary data/Meat.rda |binary data/Milk.rda |binary data/Muscle.rda |binary data/Nitrendipene.rda |binary data/Oats.rda |binary data/Orthodont.rda |binary data/Ovary.rda |binary data/Oxboys.rda |binary data/Oxide.rda |binary data/PBG.rda |binary data/Phenobarb.rda |binary data/Pixel.rda |binary data/Quinidine.rda |binary data/Rail.rda |binary data/RatPupWeight.rda |binary data/Relaxin.rda |binary data/Remifentanil.rda |binary data/Soybean.rda |binary data/Spruce.rda |binary data/Tetracycline1.rda |binary data/Tetracycline2.rda |binary data/Wafer.rda |binary data/Wheat.rda |binary data/Wheat2.rda |binary data/bdf.rda |binary data/ergoStool.rda |binary src/nlmefit.c | 6 +-- 45 files changed, 51 insertions(+), 51 deletions(-)
Title: Linear Mixed Model Solver
Description: An efficient and flexible system to solve sparse mixed model
equations. Important applications are the use of splines to model spatial or temporal
trends as described in Boer (2023). (<doi:10.1177/1471082X231178591>).
Author: Martin Boer [aut] ,
Bart-Jan van Rossum [aut, cre]
Maintainer: Bart-Jan van Rossum <bart-jan.vanrossum@wur.nl>
Diff between LMMsolver versions 1.0.5 dated 2023-04-14 and 1.0.6 dated 2023-11-27
LMMsolver-1.0.5/LMMsolver/man/LMMsolver-package.Rd |only LMMsolver-1.0.6/LMMsolver/DESCRIPTION | 20 LMMsolver-1.0.6/LMMsolver/MD5 | 38 LMMsolver-1.0.6/LMMsolver/NEWS.md | 9 LMMsolver-1.0.6/LMMsolver/R/LMMsolve.R | 62 LMMsolver-1.0.6/LMMsolver/R/LMMsolver.R | 22 LMMsolver-1.0.6/LMMsolver/R/predictFunctions.R | 51 LMMsolver-1.0.6/LMMsolver/R/sparseMixedModels.R | 29 LMMsolver-1.0.6/LMMsolver/R/utils.R | 39 LMMsolver-1.0.6/LMMsolver/README.md | 65 - LMMsolver-1.0.6/LMMsolver/build/partial.rdb |binary LMMsolver-1.0.6/LMMsolver/build/vignette.rds |binary LMMsolver-1.0.6/LMMsolver/inst/CITATION |only LMMsolver-1.0.6/LMMsolver/inst/doc/Solving_Linear_Mixed_Models.R | 35 LMMsolver-1.0.6/LMMsolver/inst/doc/Solving_Linear_Mixed_Models.Rmd | 625 +++++----- LMMsolver-1.0.6/LMMsolver/inst/doc/Solving_Linear_Mixed_Models.html | 510 ++++---- LMMsolver-1.0.6/LMMsolver/man/LMMsolve.Rd | 6 LMMsolver-1.0.6/LMMsolver/man/LMMsolver.Rd |only LMMsolver-1.0.6/LMMsolver/man/figures/README-Plot_USprecip-1.png |binary LMMsolver-1.0.6/LMMsolver/man/predictTest.Rd |only LMMsolver-1.0.6/LMMsolver/vignettes/Solving_Linear_Mixed_Models.Rmd | 625 +++++----- LMMsolver-1.0.6/LMMsolver/vignettes/bibliography.bib | 16 22 files changed, 1174 insertions(+), 978 deletions(-)
Title: Identification of Counterfactual Queries in Causal Models
Description: Facilitates the identification of counterfactual queries in
structural causal models via the ID* and IDC* algorithms
by Shpitser, I. and Pearl, J. (2007, 2008) <arXiv:1206.5294>,
<https://jmlr.org/papers/v9/shpitser08a.html>.
Provides a simple interface for defining causal diagrams and counterfactual
conjunctions. Construction of parallel worlds graphs and counterfactual graphs
is carried out automatically based on the counterfactual query and the causal
diagram. See Tikka, S. (2023) <doi:10.32614/RJ-2023-053> for a tutorial of
the package.
Author: Santtu Tikka [aut, cre]
Maintainer: Santtu Tikka <santtuth@gmail.com>
Diff between cfid versions 0.1.6 dated 2023-11-13 and 0.1.7 dated 2023-11-27
DESCRIPTION | 6 +++--- MD5 | 24 ++++++++++++------------ NEWS.md | 4 ++++ R/algorithms.R | 26 +++++++++++++++++++------- R/cf_variable.R | 9 +++++++-- R/functional.R | 29 +++++++++++------------------ R/identifiable.R | 9 +++++---- R/probability.R | 15 ++++----------- man/counterfactuals.Rd | 9 +++++++-- man/functional.Rd | 15 +-------------- man/identifiable.Rd | 3 ++- man/probability.Rd | 10 +--------- tests/testthat/test-probability.R | 20 +++++++++++++++++--- 13 files changed, 93 insertions(+), 86 deletions(-)
Title: Read-Write Support for 'NumPy' Files via 'Rcpp'
Description: The 'cnpy' library written by Carl Rogers provides read and write
facilities for files created with (or for) the 'NumPy' extension for 'Python'.
Vectors and matrices of numeric types can be read or written to and from
files as well as compressed files. Support for integer files is available if
the package has been built with as C++11 which should be the default on
all platforms since the release of R 3.3.0.
Author: Dirk Eddelbuettel and Wush Wu
Maintainer: Dirk Eddelbuettel <edd@debian.org>
Diff between RcppCNPy versions 0.2.11 dated 2022-03-25 and 0.2.12 dated 2023-11-27
ChangeLog | 22 ++++++++++++++++++++++ DESCRIPTION | 10 +++++----- MD5 | 20 ++++++++++---------- build/vignette.rds |binary inst/CITATION | 35 ++++++++++++++++------------------- inst/NEWS.Rd | 12 ++++++++++++ inst/doc/RcppCNPy-intro.pdf |binary inst/doc/UsingReticulate.pdf |binary src/Makevars | 4 ---- src/Makevars.win | 4 ---- src/cnpy.h | 4 ++-- 11 files changed, 67 insertions(+), 44 deletions(-)
Title: Multivariate Normal and t Distributions
Description: Computes multivariate normal and t probabilities, quantiles, random deviates,
and densities. Log-likelihoods for multivariate Gaussian models and Gaussian copulae
parameterised by Cholesky factors of covariance or precision matrices are implemented
for interval-censored and exact data, or a mix thereof. Score functions for these
log-likelihoods are available. A class representing multiple lower triangular matrices
and corresponding methods are part of this package.
Author: Alan Genz [aut],
Frank Bretz [aut],
Tetsuhisa Miwa [aut],
Xuefei Mi [aut],
Friedrich Leisch [ctb],
Fabian Scheipl [ctb],
Bjoern Bornkamp [ctb] ,
Martin Maechler [ctb] ,
Torsten Hothorn [aut, cre]
Maintainer: Torsten Hothorn <Torsten.Hothorn@R-project.org>
Diff between mvtnorm versions 1.2-3 dated 2023-08-25 and 1.2-4 dated 2023-11-27
DESCRIPTION | 8 ++++---- MD5 | 14 +++++++------- build/partial.rdb |binary build/vignette.rds |binary inst/NEWS.Rd | 8 ++++++++ inst/doc/MVT_Rnews.pdf |binary inst/doc/lmvnorm_src.pdf |binary src/miwa.c | 2 +- 8 files changed, 20 insertions(+), 12 deletions(-)
More information about multipanelfigure at CRAN
Permanent link
Title: Grab Longitudinal Employer-Household Dynamics (LEHD) Flat Files
Description: Designed to query Longitudinal Employer-Household Dynamics (LEHD)
workplace/residential association and origin-destination flat files and
optionally aggregate Census block-level data to block group, tract, county,
or state. Data comes from the LODES FTP server <https://lehd.ces.census.gov/data/lodes/LODES8/>.
Author: Jamaal Green [cre, aut],
Liming Wang [aut],
Dillon Mahmoudi [aut],
Matthew Rogers [ctb],
Kyle Walker [ctb]
Maintainer: Jamaal Green <jamaal.green@gmail.com>
Diff between lehdr versions 1.1.2 dated 2023-11-21 and 1.1.3 dated 2023-11-27
DESCRIPTION | 8 LICENSE | 2 MD5 | 30 - NAMESPACE | 34 - R/grab_crosswalk.R | 191 ++++--- R/lehdr.R | 538 +++++++++++---------- README.md | 274 +++++----- build/vignette.rds |binary inst/doc/getting_started.R | 224 ++++---- inst/doc/getting_started.Rmd | 342 ++++++------- inst/doc/getting_started.html | 1066 +++++++++++++++++++++--------------------- man/grab_crosswalk.Rd | 65 +- man/grab_lodes.Rd | 196 +++---- tests/testthat.R | 10 tests/testthat/test-lehdr.R | 298 +++++------ vignettes/getting_started.Rmd | 342 ++++++------- 16 files changed, 1820 insertions(+), 1800 deletions(-)
Title: Basic Linear Algebra with GPU
Description: GPUs are great resources for data analysis, especially in statistics and linear algebra. Unfortunately, very few packages connect R to the GPU, and none of them are transparent enough to run the computations on the GPU without substantial changes to the code. The maintenance of these packages is cumbersome: several of the earlier attempts have been removed from their respective repositories. It would be desirable to have a properly maintained R package that takes advantage of the GPU with minimal changes to the existing code. We have developed the GPUmatrix package (available on CRAN). GPUmatrix mimics the behavior of the Matrix package and extends R to use the GPU for computations. It includes single(FP32) and double(FP64) precision data types, and provides support for sparse matrices. It is easy to learn, and requires very few code changes to perform the operations on the GPU. GPUmatrix relies on either the Torch or Tensorflow R packages to perform the GPU operations. We have demonst [...truncated...]
Author: Cesar Lobato-Fernandez [aut, cre],
Juan A.Ferrer-Bonsoms [aut],
Angel Rubio [aut, ctb]
Maintainer: Cesar Lobato-Fernandez <clobatofern@unav.es>
Diff between GPUmatrix versions 0.1.1 dated 2023-10-16 and 1.0.0 dated 2023-11-27
GPUmatrix-0.1.1/GPUmatrix/man/outer.Rd |only GPUmatrix-0.1.1/GPUmatrix/man/xtfrm.Rd |only GPUmatrix-0.1.1/GPUmatrix/vignettes/images/GPUmatrix_CPU.png |only GPUmatrix-0.1.1/GPUmatrix/vignettes/images/Rplot.png |only GPUmatrix-1.0.0/GPUmatrix/DESCRIPTION | 8 GPUmatrix-1.0.0/GPUmatrix/MD5 | 100 GPUmatrix-1.0.0/GPUmatrix/NAMESPACE | 26 GPUmatrix-1.0.0/GPUmatrix/R/AllClass.R | 423 + GPUmatrix-1.0.0/GPUmatrix/R/ArithMethods_torch.R | 30 GPUmatrix-1.0.0/GPUmatrix/R/ComplexMethods_tensorflow.R |only GPUmatrix-1.0.0/GPUmatrix/R/ComplexMethods_torch.R |only GPUmatrix-1.0.0/GPUmatrix/R/IndexingGPUMatrix_torch.R | 728 +-- GPUmatrix-1.0.0/GPUmatrix/R/LogicMethod_torch.R |only GPUmatrix-1.0.0/GPUmatrix/R/LogicMethods_tensorflow.R |only GPUmatrix-1.0.0/GPUmatrix/R/StatisticalApplications.R |only GPUmatrix-1.0.0/GPUmatrix/R/SummaryMethods_torch.R |only GPUmatrix-1.0.0/GPUmatrix/R/glm.fit.GPU.R |only GPUmatrix-1.0.0/GPUmatrix/R/setAsMethods_tensorflow.R | 116 GPUmatrix-1.0.0/GPUmatrix/R/setAsMethods_torch.R | 12 GPUmatrix-1.0.0/GPUmatrix/R/setMethods_tensorflow.R | 2130 +++++----- GPUmatrix-1.0.0/GPUmatrix/R/setMethods_torch.R | 489 +- GPUmatrix-1.0.0/GPUmatrix/inst/doc/vignette.R | 249 - GPUmatrix-1.0.0/GPUmatrix/inst/doc/vignette.Rmd | 430 +- GPUmatrix-1.0.0/GPUmatrix/inst/doc/vignette.html | 964 +++- GPUmatrix-1.0.0/GPUmatrix/man/GPUglm.Rd |only GPUmatrix-1.0.0/GPUmatrix/man/LR_GradientConjugate_gpumatrix.Rd |only GPUmatrix-1.0.0/GPUmatrix/man/NMFgpumatrix.Rd |only GPUmatrix-1.0.0/GPUmatrix/man/aperm.Rd | 31 GPUmatrix-1.0.0/GPUmatrix/man/apply.Rd | 140 GPUmatrix-1.0.0/GPUmatrix/man/as_methods.Rd | 72 GPUmatrix-1.0.0/GPUmatrix/man/cbind_rbind_methods.Rd | 33 GPUmatrix-1.0.0/GPUmatrix/man/concatenate_gpu.matrix.Rd | 29 GPUmatrix-1.0.0/GPUmatrix/man/cor_cov.Rd | 47 GPUmatrix-1.0.0/GPUmatrix/man/density.Rd | 169 GPUmatrix-1.0.0/GPUmatrix/man/det.Rd | 151 GPUmatrix-1.0.0/GPUmatrix/man/diag.Rd | 130 GPUmatrix-1.0.0/GPUmatrix/man/dim_and_names.Rd | 27 GPUmatrix-1.0.0/GPUmatrix/man/expmGPU.Rd | 101 GPUmatrix-1.0.0/GPUmatrix/man/extract_gpu.matrix.Rd | 21 GPUmatrix-1.0.0/GPUmatrix/man/fft.Rd | 107 GPUmatrix-1.0.0/GPUmatrix/man/gpu.matrix-class.Rd | 8 GPUmatrix-1.0.0/GPUmatrix/man/gpu.matrix.Rd | 63 GPUmatrix-1.0.0/GPUmatrix/man/head.Rd | 21 GPUmatrix-1.0.0/GPUmatrix/man/installTorch.Rd | 24 GPUmatrix-1.0.0/GPUmatrix/man/kroneker.Rd | 25 GPUmatrix-1.0.0/GPUmatrix/man/matrix-product.Rd | 39 GPUmatrix-1.0.0/GPUmatrix/man/matrix_decomposition.Rd | 57 GPUmatrix-1.0.0/GPUmatrix/man/matrix_ranges.Rd | 61 GPUmatrix-1.0.0/GPUmatrix/man/power_of_a_matrix.Rd | 78 GPUmatrix-1.0.0/GPUmatrix/man/qr_decomposition.Rd |only GPUmatrix-1.0.0/GPUmatrix/man/round.Rd | 17 GPUmatrix-1.0.0/GPUmatrix/man/set_type_of_gpumatrix.Rd | 15 GPUmatrix-1.0.0/GPUmatrix/man/solve_gpu.matrix.Rd | 69 GPUmatrix-1.0.0/GPUmatrix/man/sort_gpu.matrix.Rd | 112 GPUmatrix-1.0.0/GPUmatrix/vignettes/images/LRGC.png |only GPUmatrix-1.0.0/GPUmatrix/vignettes/images/LRGC_glm.png |only GPUmatrix-1.0.0/GPUmatrix/vignettes/images/SparsePerformanceComparison.png |only GPUmatrix-1.0.0/GPUmatrix/vignettes/images/performanceComparison.png |only GPUmatrix-1.0.0/GPUmatrix/vignettes/images/plotGLMRes.png |only GPUmatrix-1.0.0/GPUmatrix/vignettes/images/plotNMFgpumatrix.png |only GPUmatrix-1.0.0/GPUmatrix/vignettes/references.bib |only GPUmatrix-1.0.0/GPUmatrix/vignettes/vignette.Rmd | 430 +- 62 files changed, 4408 insertions(+), 3374 deletions(-)
Title: Serialize R Objects to JSON, JavaScript Object Notation
Description: This is a package that allows conversion to and from
data in Javascript object notation (JSON) format.
This allows R objects to be inserted into Javascript/ECMAScript/ActionScript code
and allows R programmers to read and convert JSON content to R objects.
This is an alternative to rjson package. Originally, that was too slow for converting large R objects to JSON
and was not extensible. rjson's performance is now similar to this package, and perhaps slightly faster in some cases.
This package uses methods and is readily extensible by defining methods for different classes,
vectorized operations, and C code and callbacks to R functions for deserializing JSON objects to R.
The two packages intentionally share the same basic interface. This package (RJSONIO) has many additional
options to allow customizing the generation and processing of JSON content.
This package uses libjson rather than implementing yet another JSON parser. The aim is to support
other general projects by building on [...truncated...]
Author: CRAN Team [ctb, cre] ,
Duncan Temple Lang [aut] ,
Jonathan Wallace [aut]
Maintainer: CRAN Team <CRAN@r-project.org>
Diff between RJSONIO versions 1.3-1.8 dated 2023-01-31 and 1.3-1.9 dated 2023-11-27
DESCRIPTION | 6 +++--- MD5 | 6 +++--- inst/doc/overview.pdf |binary src/RJSON.c | 2 +- 4 files changed, 7 insertions(+), 7 deletions(-)
Title: R-Enzymology
Description: Contains utilities for the analysis of Michaelian kinetic data. Beside the classical linearization
methods (Lineweaver-Burk, Eadie-Hofstee, Hanes-Woolf and Eisenthal-Cornish-Bowden), features include the
ability to carry out weighted regression analysis that, in most cases, substantially improves the estimation
of kinetic parameters (Aledo (2021) <doi:10.1002/bmb.21522>). To avoid data transformation and the potential
biases introduced by them, the package also offers functions to directly fitting data to the Michaelis-Menten
equation, either using ([S], v) or (time, [S]) data. Utilities to simulate substrate progress-curves (making
use of the Lambert W function) are also provided. The package is accompanied of vignettes that aim to orientate
the user in the choice of the most suitable method to estimate the kinetic parameter of an Michaelian enzyme.
Author: Juan Carlos Aledo
Maintainer: Juan Carlos Aledo <caledo@uma.es>
Diff between renz versions 0.1.1 dated 2021-12-02 and 0.2.1 dated 2023-11-27
DESCRIPTION | 8 MD5 | 51 +- NAMESPACE | 2 NEWS.md | 11 R/BiBi.R |only R/TcTS.R |only R/hk.R |only build/vignette.rds |binary data/TcTS.rda |only data/hk.rda |only inst/doc/Km_Vm.R | 4 inst/doc/Km_Vm.html | 417 +++++++++++++++---- inst/doc/Lambert.R | 10 inst/doc/Lambert.Rmd | 20 inst/doc/Lambert.html | 549 +++++++++++++++++++++----- inst/doc/Linearized_MM.R | 2 inst/doc/Linearized_MM.html | 509 +++++++++++++++++------- inst/doc/dirMM.R | 2 inst/doc/dirMM.Rmd | 4 inst/doc/dirMM.html | 483 +++++++++++++++++----- inst/doc/intMM.R | 6 inst/doc/intMM.html | 393 ++++++++++++++---- man/TcTS.Rd |only man/bibi.Rd |only man/hk.Rd |only tests/testthat/Rplots.pdf |binary tests/testthat/TcTS.txt |only tests/testthat/test_bibi.R |only vignettes/Figures/png/SummaryMethodsKmVm.png |binary vignettes/Figures/png/SummaryMethodsKmVm_.png |only vignettes/Lambert.Rmd | 20 vignettes/dirMM.Rmd | 4 32 files changed, 1951 insertions(+), 544 deletions(-)
Title: PLS Analyses for Genomics
Description: Routines for PLS-based genomic analyses,
implementing PLS methods for classification with
microarray data and prediction of transcription factor
activities from combined ChIP-chip analysis. The >=1.2-1
versions include two new classification methods for microarray
data: GSIM and Ridge PLS. The >=1.3 versions includes a
new classification method combining variable selection and
compression in logistic regression context: logit-SPLS; and
an adaptive version of the sparse PLS.
Author: Anne-Laure Boulesteix <boulesteix@ibe.med.uni-muenchen.de>,
Ghislain Durif <gd.dev@libertymail.net>,
Sophie Lambert-Lacroix
<sophie.lambert-lacroix@univ-grenoble-alpes.fr>, Julie Peyre
<Julie.Peyre@univ-grenoble-alpes.fr>, and Korbinian Strimmer
<k.s [...truncated...]
Maintainer: Ghislain Durif <gd.dev@libertymail.net>
Diff between plsgenomics versions 1.5-2 dated 2018-08-24 and 1.5-2.1 dated 2023-11-27
DESCRIPTION | 8 +++----- MD5 | 10 +++++----- data/Colon.rda |binary data/Ecoli.rda |binary data/SRBCT.rda |binary data/leukemia.rda |binary 6 files changed, 8 insertions(+), 10 deletions(-)
Title: CAlibrating Penalities Using Slope HEuristics
Description: Calibration of penalized criteria for model selection. The calibration methods available are based on the slope heuristics.
Author: Sylvain Arlot, Vincent Brault, Jean-Patrick Baudry, Cathy Maugis and Bertrand Michel
Maintainer: Vincent Brault <vincent.brault@agroparistech.fr>
Diff between capushe versions 1.1.1 dated 2016-04-19 and 1.1.2 dated 2023-11-27
DESCRIPTION | 7 +++---- MD5 | 8 ++++---- data/datacapushe.rda |binary data/datapartialcapushe.rda |binary data/datavalidcapushe.rda |binary 5 files changed, 7 insertions(+), 8 deletions(-)
Title: A Parametric Model for Estimating the Mean Number of Events
Description: Implementation of a parametric joint model for modelling recurrent
and competing event processes using generalised survival models. The joint
model can subsequently be used to predict the mean number of events in the
presence of competing risks at different time points. Comparisons of the mean
number of event functions, e.g. the differences in mean number of events
between two exposure groups, are also available.
Author: Joshua P. Entrop [aut, cre, cph]
,
Alessandro Gasparini [ctb],
Mark Clements [ctb]
Maintainer: Joshua P. Entrop <joshuaentrop@posteo.de>
Diff between JointFPM versions 1.0.1 dated 2023-10-13 and 1.1.0 dated 2023-11-27
DESCRIPTION | 12 MD5 | 28 + NEWS.md | 28 + R/JointFPM.R | 62 ++++ R/bladder1_stacked.R | 2 R/predict.JointFPM.R | 292 +++++++++++++++++--- README.md | 291 ++++++++++---------- data/bladder1_stacked.rda |binary man/bladder1_stacked.Rd | 2 man/predict.JointFPM.Rd | 21 + tests/testthat/_snaps/JointFPM.md |only tests/testthat/_snaps/mean_no.md |only tests/testthat/_snaps/predict.JointFPM.md | 54 +++ tests/testthat/_snaps/test_dfs_JointFPM.md |only tests/testthat/test-JointFPM.R |only tests/testthat/test-mean_no.R |only tests/testthat/test-predict.JointFPM.R | 418 +++++++++++++++++++++++++++++ tests/testthat/test-test_dfs_JointFPM.R |only 18 files changed, 983 insertions(+), 227 deletions(-)
Title: Correlated Trait Locus Mapping
Description: Identification and network inference of genetic loci associated
with correlation changes in quantitative traits (called correlated trait loci, CTLs).
Arends et al. (2016) <doi:10.21105/joss.00087>.
Author: Danny Arends <Danny.Arends@gmail.com>, Yang Li, Gudrun A Brockmann,
Ritsert C Jansen, Robert W Williams, and Pjotr Prins
Maintainer: Danny Arends <Danny.Arends@gmail.com>
Diff between ctl versions 1.0.0-8 dated 2023-01-16 and 1.0.0-9 dated 2023-11-27
DESCRIPTION | 8 MD5 | 156 ++-- NAMESPACE | 50 - R/basic.qc.R | 94 +- R/ctl.correlation.R | 220 ++--- R/ctl.effects.R | 128 +-- R/ctl.hist.R | 46 - R/ctl.image.R | 138 +-- R/ctl.load.R | 28 R/ctl.network.R | 228 ++--- R/ctl.plot.R | 482 ++++++------ R/ctl.power.R | 342 ++++---- R/ctl.print.R | 100 +- R/ctl.profiles.R | 74 - R/ctl.scan.R | 310 +++---- R/ctl.sd.R | 86 +- R/ctl.slope.R | 310 +++---- R/ctl.statistics.R | 214 ++--- R/ctl.utils.R | 196 ++--- R/detect.peaks.R | 104 +- R/helper.functions.R | 114 +- R/plot.traits.R | 84 +- R/qtl.scan.R | 54 - R/zzz.R | 24 build/vignette.rds |binary data/datalist | 8 inst/CITATION | 36 inst/TODO.txt | 64 - inst/doc/manual.R | 258 +++--- inst/doc/manual.Rnw | 802 ++++++++++---------- inst/doc/manual.pdf |binary man/ath.churchill.Rd | 78 +- man/ath.metabolites.Rd | 96 +- man/ath.result.Rd | 100 +- man/basic.qc.Rd | 74 - man/ctl-internal.Rd | 208 ++--- man/ctl-package.Rd | 122 +-- man/ctl.circle.Rd | 100 +- man/ctl.helper.Rd | 92 +- man/ctl.hist.Rd | 78 +- man/ctl.image.Rd | 106 +- man/ctl.lineplot.Rd | 114 +- man/ctl.load.Rd | 88 +- man/ctl.mapping.Rd | 154 +-- man/ctl.network.Rd | 148 +-- man/ctl.permute.plot.Rd | 76 - man/ctl.plot.ctlobject.Rd | 96 +- man/ctl.plot.ctlscan.Rd | 126 +-- man/ctl.print.ctlobject.Rd | 72 - man/ctl.print.ctlscan.Rd | 96 +- man/ctl.profiles.Rd | 96 +- man/ctl.regions.Rd | 90 +- man/ctl.scan.Rd | 184 ++-- man/ctl.scan.cross.Rd | 178 ++-- man/ctl.significant.Rd | 82 +- man/detect.peaks.Rd | 88 +- man/plotTraits.Rd | 98 +- man/qtl.image.Rd | 84 +- man/qtl.mapping.Rd | 100 +- man/scanSD.Rd | 100 +- man/scanSD.cross.Rd | 92 +- man/scanSlopes.Rd | 104 +- man/scanSlopes.cross.Rd | 102 +- man/yeast.brem.Rd | 74 - src/correlation.c | 18 src/ctlio.c | 2 src/mapctl.c | 14 src/matrix.c | 20 src/permutation.c | 4 src/rmapctl.c | 10 src/structs.c | 2 src/vector.c | 36 tests/GeneExpression_Yeast_Annotation.txt | 990 ++++++++++++------------- tests/GeneExpression_Yeast_RBrem.R | 56 - tests/GeneExpression_Yeast_RBrem.csvr | 1166 +++++++++++++++--------------- tests/test_ctl_long.R | 34 tests/test_openmp.R | 90 +- vignettes/manual.Rnw | 802 ++++++++++---------- vignettes/prepare.bat | 22 79 files changed, 5761 insertions(+), 5759 deletions(-)
Title: Unidimensional and Multidimensional Methods for Recurrence
Quantification Analysis
Description: Auto, Cross and Multi-dimensional recurrence quantification analysis.
Different methods for computing recurrence, cross vs. multidimensional
or profile iti.e., only looking at the diagonal recurrent points,
as well as functions for optimization and plotting are proposed.
in-depth measures of the whole cross-recurrence plot,
Please refer to Coco and others (2021) <doi:10.32614/RJ-2021-062>,
Coco and Dale (2014) <doi:10.3389/fpsyg.2014.00510>
and Wallot (2018) <doi: 10.1080/00273171.2018.1512846>
for further details about the method.
Author: Moreno I. Coco [cre, aut],
Dan Monster [aut],
Giuseppe Leonardi [aut],
Rick Dale [aut],
Sebastian Wallot [aut],
James D. Dixon [ctb],
John C. Nash [ctb],
Alexandra Paxton [ctb]
Maintainer: Moreno I. Coco <moreno.cocoi@gmail.com>
Diff between crqa versions 2.0.4 dated 2023-10-02 and 2.0.5 dated 2023-11-27
DESCRIPTION | 8 MD5 | 22 - NAMESPACE | 2 R/crqa.R | 113 ++--- R/crqa_helpers.R | 113 ++--- R/plotRP.R | 40 - R/wincrqa.R | 232 +++++++--- build/vignette.rds |binary inst/doc/crqa_tutorial.R | 50 +- inst/doc/crqa_tutorial.html | 940 ++++++++++++++++++++++---------------------- man/plotRP.Rd | 48 +- man/wincrqa.Rd | 11 12 files changed, 835 insertions(+), 744 deletions(-)
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2021-04-23 1.0.19
2021-04-10 1.0.18
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2017-07-25 0.1
2017-06-13 0.0.1
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2021-12-07 0.2.2
2021-06-09 0.2.1
Title: Machine Coded Genetic Algorithms for Real-Valued Optimization
Problems
Description: Machine coded genetic algorithm (MCGA) is a fast tool for
real-valued optimization problems. It uses the byte
representation of variables rather than real-values. It
performs the classical crossover operations (uniform) on these
byte representations. Mutation operator is also similar to
classical mutation operator, which is to say, it changes a
randomly selected byte value of a chromosome by +1 or -1 with
probability 1/2. In MCGAs there is no need for
encoding-decoding process and the classical operators are
directly applicable on real-values. It is fast and can handle a
wide range of a search space with high precision. Using a
256-unary alphabet is the main disadvantage of this algorithm
but a moderate size population is convenient for many problems.
Package also includes multi_mcga function for multi objective
optimization problems. This function sorts the chromosomes
using their ranks calculated from the non-dominated sorting
algorithm.
Author: Mehmet Hakan Satman
Maintainer: Mehmet Hakan Satman <mhsatman@istanbul.edu.tr>
Diff between mcga versions 3.0.6 dated 2023-08-20 and 3.0.7 dated 2023-11-27
DESCRIPTION | 8 ++++---- MD5 | 6 +++--- src/mcga.c | 2 +- src/multi_mcga.c | 2 +- 4 files changed, 9 insertions(+), 9 deletions(-)
Title: Hartigan's Dip Test Statistic for Unimodality - Corrected
Description: Compute Hartigan's dip test statistic for unimodality /
multimodality and provide a test with simulation based p-values, where
the original public code has been corrected.
Author: Martin Maechler
Maintainer: Martin Maechler <maechler@stat.math.ethz.ch>
Diff between diptest versions 0.76-0 dated 2021-05-04 and 0.77-0 dated 2023-11-27
DESCRIPTION | 12 ++++++------ MD5 | 10 +++++----- build/vignette.rds |binary inst/NEWS.Rd | 13 +++++++++++++ inst/doc/diptest-issues.pdf |binary src/dip.c | 2 +- 6 files changed, 25 insertions(+), 12 deletions(-)
Title: Signal Processing
Description: A set of signal processing functions originally written for 'Matlab' and 'Octave'.
Includes filter generation utilities, filtering functions,
resampling routines, and visualization of filter models. It also
includes interpolation functions.
Author: Uwe Ligges [aut, cre] ,
Tom Short [aut] ,
Paul Kienzle [aut] ,
Sarah Schnackenberg [ctb] ,
David Billinghurst [ctb],
Hans-Werner Borchers [ctb],
Andre Carezia [ctb],
Pascal Dupuis [ctb],
John W. Eaton [ctb],
E. Farhi [ctb],
Kai Habel [ctb],
Kurt Horn [...truncated...]
Maintainer: Uwe Ligges <ligges@statistik.tu-dortmund.de>
Diff between signal versions 0.7-7 dated 2021-05-25 and 1.8-0 dated 2023-11-27
ChangeLog | 12 +++++++++++- DESCRIPTION | 8 ++++---- MD5 | 16 ++++++++-------- R/levinson.R | 4 ++-- R/sgolayfilt.R | 2 +- build/partial.rdb |binary inst/CITATION | 11 +++-------- man/signal.package.Rd | 2 +- tests/savedTestLev.Rdata |binary 9 files changed, 30 insertions(+), 25 deletions(-)
Title: Streaming Capabilities for 'OpenAI API' Interactions
Description: Based on the 'httr2' framework, the 'OpenAI' interface supports streaming calls and model training.
For more details on the API methods implemented, see the 'OpenAI' platform documentation at <https://platform.openai.com/docs/api-reference>.
Author: Li Gen [aut, cre]
Maintainer: Li Gen <libingfei@sina.com>
Diff between openaistream versions 0.1.8 dated 2023-11-17 and 0.1.9 dated 2023-11-27
DESCRIPTION | 6 +++--- MD5 | 8 ++++---- R/chatstream.R | 49 +++++++++++++++++++++++++++++-------------------- R/openai.R | 36 +++++++++++++++++++++++++++++------- man/openai.Rd | 23 ++++++++++++++++++++++- 5 files changed, 87 insertions(+), 35 deletions(-)
Title: Analysis of Chronological Patterns from Archaeological Count
Data
Description: A toolkit for absolute and relative dating and analysis of
chronological patterns. This package includes functions for
chronological modeling and dating of archaeological assemblages from
count data. It provides methods for matrix seriation. It also allows
to compute time point estimates and density estimates of the
occupation and duration of an archaeological site.
Author: Nicolas Frerebeau [aut, cre] ,
Brice Lebrun [ctb] ,
Ben Marwick [ctb] ,
Anne Philippe [ctb] ,
Universite Bordeaux Montaigne [fnd],
CNRS [fnd]
Maintainer: Nicolas Frerebeau <nicolas.frerebeau@u-bordeaux-montaigne.fr>
Diff between kairos versions 2.0.1 dated 2023-09-05 and 2.0.2 dated 2023-11-27
DESCRIPTION | 16 +++-- MD5 | 46 ++++++++--------- NEWS.md | 4 + R/event_resample.R | 2 R/kairos-internal.R | 19 ------- R/kairos-package.R | 2 R/mcd.R | 4 - R/reexport.R | 1 README.md | 9 +-- build/partial.rdb |binary build/vignette.rds |binary inst/doc/bibliography.html | 4 - inst/doc/event.html | 18 +++--- inst/doc/seriation.html | 20 +++---- inst/tinytest/_tinysnapshot/plot_aoristic_group.svg | 2 inst/tinytest/_tinysnapshot/plot_event_activ-FALSE.svg | 2 inst/tinytest/_tinysnapshot/plot_event_activ-TRUE.svg | 2 inst/tinytest/_tinysnapshot/plot_event_tempo.svg | 2 inst/tinytest/_tinysnapshot/plot_fit.svg | 9 --- inst/tinytest/_tinysnapshot/plot_fit_roll.svg | 9 --- inst/tinytest/_tinysnapshot/plot_time_abundance.svg | 9 --- man/figures/README-aoristic-1.png |binary man/figures/README-aoristic-2.png |binary man/kairos-package.Rd | 2 24 files changed, 68 insertions(+), 114 deletions(-)
Title: Automated and Early Detection of Seasonal Epidemic Onset
Description: A powerful tool for automating the early detection of seasonal epidemic
onsets in time series data. It offers the ability to estimate growth rates
for consecutive time intervals and calculate the sum of cases (SoC) within
those intervals. It is particularly useful for epidemiologists, public
health professionals, and researchers seeking to identify and respond to
seasonal epidemics in a timely fashion.
For reference on growth rate estimation, see Walling and Lipstich (2007)
<doi:10.1098/rspb.2006.3754> and Obadia et al. (2012) <doi:10.1186/1472-6947-12-147>.
Author: Kasper Schou Telkamp [aut] ,
Lasse Engbo Christiansen [aut, cre]
,
Statens Serum Institut, SSI [cph, fnd]
Maintainer: Lasse Engbo Christiansen <lsec@ssi.dk>
Diff between aedseo versions 0.1.1 dated 2023-11-16 and 0.1.2 dated 2023-11-27
DESCRIPTION | 17 ++++++-------- MD5 | 6 ++--- NEWS.md | 58 ++++++++++++++++++++++++++++++++++---------------- man/aedseo-package.Rd | 4 +-- 4 files changed, 53 insertions(+), 32 deletions(-)
Title: Automated and Early Detection of Disease Outbreaks
Description: A powerful tool for automating the early detection of disease
outbreaks in time series data. 'aeddo' employs advanced statistical
methods, including hierarchical models, in an innovative manner to
effectively characterize outbreak signals. It is particularly useful
for epidemiologists, public health professionals, and researchers
seeking to identify and respond to disease outbreaks in a timely
fashion. For a detailed reference on hierarchical models, consult
Henrik Madsen and Poul Thyregod's book (2011), ISBN: 9781420091557.
Author: Kasper Schou Telkamp [aut] ,
Lasse Engbo Christiansen [aut, cre]
,
Statens Serum Institut, SSI [cph, fnd]
Maintainer: Lasse Engbo Christiansen <lsec@ssi.dk>
Diff between aeddo versions 0.1.0 dated 2023-11-14 and 0.1.1 dated 2023-11-27
DESCRIPTION | 17 ++++++++--------- MD5 | 6 +++--- NEWS.md | 11 +++++------ man/aeddo-package.Rd | 4 ++-- 4 files changed, 18 insertions(+), 20 deletions(-)
Title: Memory-Efficient, Visualize-Enhanced, Parallel-Accelerated GWAS
Tool
Description: A memory-efficient, visualize-enhanced, parallel-accelerated Genome-Wide Association Study (GWAS) tool. It can
(1) effectively process large data,
(2) rapidly evaluate population structure,
(3) efficiently estimate variance components several algorithms,
(4) implement parallel-accelerated association tests of markers three methods,
(5) globally efficient design on GWAS process computing,
(6) enhance visualization of related information.
'rMVP' contains three models GLM (Alkes Price (2006) <DOI:10.1038/ng1847>), MLM (Jianming Yu (2006) <DOI:10.1038/ng1702>)
and FarmCPU (Xiaolei Liu (2016) <doi:10.1371/journal.pgen.1005767>); variance components estimation methods EMMAX
(Hyunmin Kang (2008) <DOI:10.1534/genetics.107.080101>;), FaSTLMM (method: Christoph Lippert (2011) <DOI:10.1038/nmeth.1681>,
R implementation from 'GAPIT2': You Tang and Xiaolei Liu (2016) <DOI:10.1371/journal.pone.0107684> and
'SUPER': Qishan Wang and Feng Tian (2014) <DOI:10.1371/ [...truncated...]
Author: Lilin Yin [aut],
Haohao Zhang [aut],
Zhenshuang Tang [aut],
Jingya Xu [aut],
Dong Yin [aut],
Zhiwu Zhang [aut],
Xiaohui Yuan [aut],
Mengjin Zhu [aut],
Shuhong Zhao [aut],
Xinyun Li [aut],
Qishan Wang [ctb],
Feng Tian [ctb],
Hyunmin Kang [ctb],
Xiang [...truncated...]
Maintainer: Xiaolei Liu <xll198708@gmail.com>
Diff between rMVP versions 1.0.7 dated 2023-09-01 and 1.0.8 dated 2023-11-27
DESCRIPTION | 8 ++++---- MD5 | 6 +++--- R/MVP.Data.r | 8 ++++---- src/kinship.cpp | 4 ++-- 4 files changed, 13 insertions(+), 13 deletions(-)
Title: Circle Manhattan Plot
Description: Manhattan plot, a type of scatter plot, was widely used to display the association results. However, it is usually time-consuming and laborious for a non-specialist user to write scripts and adjust parameters of an elaborate plot. Moreover, the ever-growing traits measured have necessitated the integration of results from different Genome-wide association study researches. Circle Manhattan Plot is the first open R package that can lay out. Genome-wide association study P-value results in both traditional rectangular patterns, QQ-plot and novel circular ones. United in only one bull's eye style plot, association results from multiple traits can be compared interactively, thereby to reveal both similarities and differences between signals. Additional functions include: highlight signals, a group of SNPs, chromosome visualization and candidate genes around SNPs.
Author: LiLin-Yin
Maintainer: LiLin-Yin <ylilin@163.com>
Diff between CMplot versions 4.4.3 dated 2023-10-20 and 4.5.0 dated 2023-11-27
DESCRIPTION | 8 +- MD5 | 6 - R/CMplot.r | 167 ++++++++++++++++++++++++++++---------------------- man/CMplot-package.Rd | 4 - 4 files changed, 105 insertions(+), 80 deletions(-)
Title: UNHCR 'ggplot2' Theme and Colour Palettes
Description: A 'ggplot2' theme and color palettes following
the United Nations High Commissioner for Refugees (UNHCR) Data Visualization Guidelines recommendations.
Author: Cedric Vidonne [aut, cre],
Ahmadou Dicko [aut],
UNHCR [cph]
Maintainer: Cedric Vidonne <cedric@vidonne.me>
Diff between unhcrthemes versions 0.6.1 dated 2023-11-20 and 0.6.2 dated 2023-11-27
DESCRIPTION | 6 +- MD5 | 28 ++++++------ NEWS.md | 6 ++ R/theme_unhcr.R | 23 +++++----- README.md | 74 ++++++++++++++++++++-------------- inst/doc/unhcrthemes.R | 3 - inst/doc/unhcrthemes.Rmd | 3 - inst/doc/unhcrthemes.html | 61 +++++++++++++--------------- man/figures/README-base-plot-1.png |binary man/figures/README-geom-plot-1.png |binary man/figures/README-palette-all-1.png |binary man/figures/README-palette-blue-1.png |binary man/figures/README-scale-plot-1.png |binary man/theme_unhcr.Rd | 8 +-- vignettes/unhcrthemes.Rmd | 3 - 15 files changed, 113 insertions(+), 102 deletions(-)
Title: Topic Models
Description: Provides an interface to the C code for Latent Dirichlet
Allocation (LDA) models and Correlated Topics Models
(CTM) by David M. Blei and co-authors and the C++ code
for fitting LDA models using Gibbs sampling by Xuan-Hieu
Phan and co-authors.
Author: Bettina Gruen [aut, cre] ,
Kurt Hornik [aut] ,
David M Blei [ctb, cph] ,
John D Lafferty [ctb, cph] ,
Xuan-Hieu Phan [ctb, cph] ,
Makoto Matsumoto [ctb, cph] ,
Takuji Nishimura [ctb, cph] ,
Shawn Cokus [ctb]
Maintainer: Bettina Gruen <Bettina.Gruen@R-project.org>
Diff between topicmodels versions 0.2-14 dated 2023-03-31 and 0.2-15 dated 2023-11-27
DESCRIPTION | 6 +++--- MD5 | 14 +++++++------- build/vignette.rds |binary data/AssociatedPress.rda |binary inst/NEWS.Rd | 9 +++++++++ inst/doc/topicmodels.pdf |binary man/tmcontrol-class.Rd | 3 ++- src/ctm.c | 2 +- 8 files changed, 22 insertions(+), 12 deletions(-)
Title: Generalized Estimation Equation Solver
Description: Generalized Estimation Equation solver.
Author: Vincent J Carey [aut],
Thomas S Lumley [trl] ,
Cleve Moler [ctb] ,
Brian Ripley [trl, cre, ctb]
Maintainer: Brian Ripley <ripley@stats.ox.ac.uk>
Diff between gee versions 4.13-25 dated 2022-10-17 and 4.13-26 dated 2023-11-27
DESCRIPTION | 8 ++++---- MD5 | 4 ++-- src/ugee.c | 2 +- 3 files changed, 7 insertions(+), 7 deletions(-)
Title: Facilitation of Data Preparation and Plotting Procedures for RDA
and PCA Analyses
Description: Help to the occasional R user for synthesis and enhanced graphical visualization of redundancy analysis (RDA) and principal component analysis (PCA) methods and objects.
Inputs are : data frame, RDA (package 'vegan') and PCA (package 'FactoMineR') objects.
Outputs are : synthesized results of RDA, displayed in console and saved in tables ; displayed and saved objects of PCA graphic visualization of individuals and variables projections with multiple graphic parameters.
Author: Gregoire Bianchetti [aut, cre]
Maintainer: Gregoire Bianchetti <auguste.blam@gmail.com>
Diff between GABB versions 0.3.3 dated 2023-08-10 and 0.3.5 dated 2023-11-27
DESCRIPTION | 10 +- MD5 | 12 +- R/PCA_RDA_graphics.R | 10 +- R/RDA_outputs_synthesis.R | 84 ++++++++++++++----- README.md | 185 +++++++++++++++++++++---------------------- man/PCA_RDA_graphics.Rd | 2 man/RDA_outputs_synthesis.Rd | 18 ++-- 7 files changed, 186 insertions(+), 135 deletions(-)
Title: FastICA Algorithms to Perform ICA and Projection Pursuit
Description: Implementation of FastICA algorithm to perform Independent
Component Analysis (ICA) and Projection Pursuit.
Author: J L Marchini, C Heaton and B D Ripley <ripley@stats.ox.ac.uk>
Maintainer: Brian Ripley <ripley@stats.ox.ac.uk>
Diff between fastICA versions 1.2-3 dated 2021-09-25 and 1.2-4 dated 2023-11-27
DESCRIPTION | 8 ++++---- MD5 | 4 ++-- src/ica.c | 2 +- 3 files changed, 7 insertions(+), 7 deletions(-)
Title: Provides Some Useful Functions for Making Statistical Tables
Description: You can use the functions provided by the package to make various statistical tables,
such as baseline data tables. Creates 'Table 1', i.e., a description of the baseline patient
characteristics, which is essential in every medical research.
Supports both continuous and categorical variables, as well as
p-values and standardized mean differences.
This method was described by Mary L McHugh (2013) <doi:10.11613/bm.2013.018>.
Author: Qiang Liu [aut, cre]
Maintainer: Qiang Liu <dege857@163.com>
Diff between scitb versions 0.1.5 dated 2023-11-09 and 0.1.6 dated 2023-11-27
DESCRIPTION | 6 +++--- MD5 | 17 +++++++++-------- NAMESPACE | 1 + NEWS.md |only R/sci1freq.R | 45 ++++++++++++++++++++++++++++++++++++--------- R/sci1mean.R | 39 ++++++++++++++++++++++++++++++--------- R/scitb1.R | 24 ++++++++++++++++-------- man/sci1freq.Rd | 6 ++++++ man/sci1mean.Rd | 2 ++ man/scitb1.Rd | 11 ++++++++++- 10 files changed, 113 insertions(+), 38 deletions(-)
Title: Visualizations of Distributions and Uncertainty
Description: Provides primitives for visualizing distributions using 'ggplot2' that are particularly tuned for
visualizing uncertainty in either a frequentist or Bayesian mode. Both analytical distributions (such as
frequentist confidence distributions or Bayesian priors) and distributions represented as samples (such as
bootstrap distributions or Bayesian posterior samples) are easily visualized. Visualization primitives include
but are not limited to: points with multiple uncertainty intervals,
eye plots (Spiegelhalter D., 1999) <https://ideas.repec.org/a/bla/jorssa/v162y1999i1p45-58.html>,
density plots, gradient plots, dot plots (Wilkinson L., 1999) <doi:10.1080/00031305.1999.10474474>,
quantile dot plots (Kay M., Kola T., Hullman J., Munson S., 2016) <doi:10.1145/2858036.2858558>,
complementary cumulative distribution function
barplots (Fernandes M., Walls L., Munson S., Hullman J., Kay M., 2018) <doi:10.1145/3173574.3173718>,
and fit curves with multiple uncertainty ri [...truncated...]
Author: Matthew Kay [aut, cre],
Brenton M. Wiernik [ctb]
Maintainer: Matthew Kay <mjskay@northwestern.edu>
Diff between ggdist versions 3.3.0 dated 2023-05-13 and 3.3.1 dated 2023-11-27
ggdist-3.3.0/ggdist/man/automatic-partial-functions.Rd |only ggdist-3.3.0/ggdist/vignettes/slabinterval_family.png |only ggdist-3.3.1/ggdist/DESCRIPTION | 42 ggdist-3.3.1/ggdist/MD5 | 160 - ggdist-3.3.1/ggdist/NAMESPACE | 5 ggdist-3.3.1/ggdist/NEWS.md | 25 ggdist-3.3.1/ggdist/R/RcppExports.R |only ggdist-3.3.1/ggdist/R/abstract_geom.R | 5 ggdist-3.3.1/ggdist/R/abstract_stat.R | 5 ggdist-3.3.1/ggdist/R/auto_partial.R | 77 ggdist-3.3.1/ggdist/R/binning_methods.R | 109 - ggdist-3.3.1/ggdist/R/bounder.R | 12 ggdist-3.3.1/ggdist/R/density.R | 88 ggdist-3.3.1/ggdist/R/distributions.R | 25 ggdist-3.3.1/ggdist/R/geom_dotsinterval.R | 15 ggdist-3.3.1/ggdist/R/geom_spike.R | 12 ggdist-3.3.1/ggdist/R/ggdist-package.R | 6 ggdist-3.3.1/ggdist/R/guide_rampbar.R | 15 ggdist-3.3.1/ggdist/R/point_interval.R | 11 ggdist-3.3.1/ggdist/R/pr.R | 6 ggdist-3.3.1/ggdist/R/scale_.R | 4 ggdist-3.3.1/ggdist/R/scale_side_mirrored.R | 2 ggdist-3.3.1/ggdist/R/smooth.R | 44 ggdist-3.3.1/ggdist/R/stat_slabinterval.R | 5 ggdist-3.3.1/ggdist/R/weighted_hist.R | 79 ggdist-3.3.1/ggdist/build/partial.rdb |binary ggdist-3.3.1/ggdist/build/vignette.rds |binary ggdist-3.3.1/ggdist/inst/CITATION | 34 ggdist-3.3.1/ggdist/inst/doc/dotsinterval.R | 124 - ggdist-3.3.1/ggdist/inst/doc/dotsinterval.Rmd | 176 - ggdist-3.3.1/ggdist/inst/doc/dotsinterval.html | 772 +++---- ggdist-3.3.1/ggdist/inst/doc/freq-uncertainty-vis.R | 37 ggdist-3.3.1/ggdist/inst/doc/freq-uncertainty-vis.Rmd | 44 ggdist-3.3.1/ggdist/inst/doc/freq-uncertainty-vis.html | 224 +- ggdist-3.3.1/ggdist/inst/doc/lineribbon.R | 39 ggdist-3.3.1/ggdist/inst/doc/lineribbon.Rmd | 54 ggdist-3.3.1/ggdist/inst/doc/lineribbon.html | 499 ++-- ggdist-3.3.1/ggdist/inst/doc/slabinterval.R | 141 - ggdist-3.3.1/ggdist/inst/doc/slabinterval.Rmd | 192 - ggdist-3.3.1/ggdist/inst/doc/slabinterval.html | 1036 ++++------ ggdist-3.3.1/ggdist/man/Pr_.Rd | 6 ggdist-3.3.1/ggdist/man/align.Rd | 14 ggdist-3.3.1/ggdist/man/auto_partial.Rd |only ggdist-3.3.1/ggdist/man/bandwidth.Rd | 4 ggdist-3.3.1/ggdist/man/bin_dots.Rd | 5 ggdist-3.3.1/ggdist/man/bounder_cdf.Rd | 142 - ggdist-3.3.1/ggdist/man/breaks.Rd | 15 ggdist-3.3.1/ggdist/man/find_dotplot_binwidth.Rd | 26 ggdist-3.3.1/ggdist/man/geom_dots.Rd | 3 ggdist-3.3.1/ggdist/man/geom_dotsinterval.Rd | 3 ggdist-3.3.1/ggdist/man/geom_swarm.Rd | 3 ggdist-3.3.1/ggdist/man/geom_weave.Rd | 3 ggdist-3.3.1/ggdist/man/scales.Rd | 4 ggdist-3.3.1/ggdist/man/smooth_discrete.Rd | 11 ggdist-3.3.1/ggdist/man/stat_ccdfinterval.Rd | 5 ggdist-3.3.1/ggdist/man/stat_cdfinterval.Rd | 5 ggdist-3.3.1/ggdist/man/stat_dots.Rd | 3 ggdist-3.3.1/ggdist/man/stat_dotsinterval.Rd | 3 ggdist-3.3.1/ggdist/man/stat_eye.Rd | 5 ggdist-3.3.1/ggdist/man/stat_gradientinterval.Rd | 5 ggdist-3.3.1/ggdist/man/stat_halfeye.Rd | 5 ggdist-3.3.1/ggdist/man/stat_histinterval.Rd | 5 ggdist-3.3.1/ggdist/man/stat_slab.Rd | 5 ggdist-3.3.1/ggdist/man/stat_slabinterval.Rd | 5 ggdist-3.3.1/ggdist/man/stat_spike.Rd | 5 ggdist-3.3.1/ggdist/src |only ggdist-3.3.1/ggdist/tests/testthat/_snaps/test.geom_dotsinterval/bar-layout-with-order.svg |only ggdist-3.3.1/ggdist/tests/testthat/_snaps/test.geom_dotsinterval/swarm-vertical.svg | 64 ggdist-3.3.1/ggdist/tests/testthat/_snaps/test.geom_dotsinterval/varying-side-and-just.svg | 26 ggdist-3.3.1/ggdist/tests/testthat/_snaps/test.stat_dist_slabinterval.md | 22 ggdist-3.3.1/ggdist/tests/testthat/_snaps/test.stat_spike.md | 16 ggdist-3.3.1/ggdist/tests/testthat/test.auto_partial.R | 8 ggdist-3.3.1/ggdist/tests/testthat/test.binning_methods.R | 9 ggdist-3.3.1/ggdist/tests/testthat/test.density.R | 8 ggdist-3.3.1/ggdist/tests/testthat/test.geom_dotsinterval.R | 40 ggdist-3.3.1/ggdist/tests/testthat/test.geom_pointinterval.R | 2 ggdist-3.3.1/ggdist/tests/testthat/test.point_interval.R | 19 ggdist-3.3.1/ggdist/tests/testthat/test.stat_dist_slabinterval.R | 6 ggdist-3.3.1/ggdist/tests/testthat/test.stat_sample_slabinterval.R | 2 ggdist-3.3.1/ggdist/vignettes/.install_extras |only ggdist-3.3.1/ggdist/vignettes/children |only ggdist-3.3.1/ggdist/vignettes/dotsinterval.Rmd | 176 - ggdist-3.3.1/ggdist/vignettes/freq-uncertainty-vis.Rmd | 44 ggdist-3.3.1/ggdist/vignettes/lineribbon.Rmd | 54 ggdist-3.3.1/ggdist/vignettes/slabinterval.Rmd | 192 - 85 files changed, 2342 insertions(+), 2760 deletions(-)