Title: Simplification of scRNA-Seq Data by Merging Together Similar
Cells
Description: Aggregates large single-cell data into metacell dataset by merging together gene expression of very similar cells. 'SuperCell' uses 'velocyto.R' <doi:10.1038/s41586-018-0414-6> <https://github.com/velocyto-team/velocyto.R> for RNA velocity. We also recommend installing 'scater' Bioconductor package <doi:10.18129/B9.bioc.scater> <https://bioconductor.org/packages/release/bioc/html/scater.html>.
Author: Mariia Bilous [aut],
Leonard Herault [cre]
Maintainer: Leonard Herault <leonard.herault@unil.ch>
Diff between SuperCell versions 1.0 dated 2024-09-05 and 1.0.1 dated 2024-10-25
SuperCell-1.0.1/SuperCell/DESCRIPTION | 6 +++--- SuperCell-1.0.1/SuperCell/MD5 | 5 ++--- SuperCell-1.0.1/SuperCell/inst/doc/a_SuperCell.html | 15 ++------------- SuperCell-1.0/SuperCell/R/zzz.R |only 4 files changed, 7 insertions(+), 19 deletions(-)
Title: Goodness-of-Fit Methods for Complete and Right-Censored Data
Description: Graphical tools and goodness-of-fit tests for complete and right-censored data:
1. Kolmogorov-Smirnov, Cramér-von Mises, and Anderson-Darling tests,
which use the empirical distribution function for complete data
and are extended for right-censored data.
2. Generalized chi-squared-type test, which is based on the squared
differences between observed and expected counts using random
cells with right-censored data.
3. A series of graphical tools such as probability or cumulative hazard
plots to guide the decision about the most suitable parametric model
for the data.
Author: Klaus Langohr [aut, cre],
Mireia Besalu [aut],
Matilde Francisco [aut],
Arnau Garcia [aut],
Guadalupe Gomez [aut]
Maintainer: Klaus Langohr <klaus.langohr@upc.edu>
Diff between GofCens versions 1.1 dated 2024-07-29 and 1.2 dated 2024-10-25
DESCRIPTION | 14 MD5 | 79 ++- NAMESPACE | 6 R/ADcens.default.R | 68 ++- R/CvMcens.default.R | 67 ++- R/KScens.default.R | 1017 +++++++++++++++++++++++++++++++++++++++++-------- R/chisqcens.default.R | 72 ++- R/cumhazPlot.default.R | 81 +++ R/gofcens.default.R | 740 ++++++++++++++++++++++++++++++++++- R/kmPlot.default.R | 81 +++ R/plot.kmPlot.R | 40 + R/print.ADcens.R | 68 ++- R/print.CvMcens.R | 69 ++- R/print.KScens.R | 69 ++- R/print.chisqcens.R | 69 ++- R/print.cumhazPlot.R | 24 - R/print.gofcens.R | 74 ++- R/print.kmPlot.R | 24 - R/print.probPlot.R | 26 - R/probPlot.default.R | 118 ++++- README.md |only build |only inst |only man/ADcens.Rd | 69 +-- man/CvMcens.Rd | 83 ++- man/GofCens-package.Rd | 44 +- man/KScens.Rd | 126 +++--- man/chisqcens.Rd | 73 +-- man/cumhazPlot.Rd | 68 +-- man/figures |only man/gofcens.Rd | 104 ++--- man/kmPlot.Rd | 61 +- man/print.ADcens.Rd | 24 - man/print.CvMcens.Rd | 26 - man/print.KScens.Rd | 33 + man/print.chisqcens.Rd | 28 - man/print.gofcens.Rd | 29 - man/probPlot.Rd | 104 ++--- vignettes |only 39 files changed, 2840 insertions(+), 838 deletions(-)
Title: Bayesian Mode Inference
Description: A two-step Bayesian approach for mode inference following
Cross, Hoogerheide, Labonne and van Dijk (2024) <doi:10.1016/j.econlet.2024.111579>).
First, a mixture distribution is fitted on the data using a sparse finite
mixture (SFM) Markov chain Monte Carlo (MCMC) algorithm. The number of
mixture components does not have to be known; the size of the mixture is
estimated endogenously through the SFM approach. Second, the modes of the
estimated mixture at each MCMC draw are retrieved using algorithms
specifically tailored for mode detection. These estimates are then used to
construct posterior probabilities for the number of modes, their locations
and uncertainties, providing a powerful tool for mode inference.
Author: Nalan Bastuerk [aut],
Jamie Cross [aut],
Peter de Knijff [aut],
Lennart Hoogerheide [aut],
Paul Labonne [aut, cre],
Herman van Dijk [aut]
Maintainer: Paul Labonne <labonnepaul@gmail.com>
Diff between BayesMultiMode versions 0.7.1 dated 2024-03-21 and 0.7.2 dated 2024-10-25
DESCRIPTION | 16 MD5 | 44 - NEWS.md | 8 R/bayes_fit.R | 208 ++++---- R/bayes_mixture.R | 186 ++++--- R/bayes_mode.R | 420 +++++++++-------- R/bayes_trace.R | 49 +- R/data.R | 20 R/gibbs_sfm_algos.R | 876 ++++++++++++++++++------------------ R/mix_mode.R | 479 ++++++++++--------- R/mixture.R | 125 ++--- R/mixture_functions.R | 175 +++---- R/plot_methods.R | 470 ++++++++++--------- R/print_methods.R | 50 -- R/summary_methods.R | 96 ++- build/partial.rdb |binary man/bayes_fit.Rd | 62 +- man/bayes_mixture.Rd | 72 +- man/bayes_mode.Rd | 88 ++- man/bayes_trace.Rd | 16 man/mix_mode.Rd | 78 +-- man/mixture.Rd | 32 - tests/testthat/_snaps/bayes_mode.md | 79 ++- 23 files changed, 1987 insertions(+), 1662 deletions(-)
More information about BayesMultiMode at CRAN
Permanent link
Title: Tools for 2D and 3D Plots of Single and Multi-Objective
Linear/Integer Programming Models
Description: Make 2D and 3D plots of linear programming (LP),
integer linear programming (ILP), or mixed integer linear programming (MILP) models
with up to three objectives. Plots of both the solution and criterion space are possible.
For instance the non-dominated (Pareto) set for bi-objective LP/ILP/MILP programming models
(see vignettes for an overview). The package also contains an function for checking if a point
is inside the convex hull.
Author: Lars Relund Nielsen [aut, cre]
Maintainer: Lars Relund Nielsen <lars@relund.dk>
Diff between gMOIP versions 1.5.3 dated 2024-10-09 and 1.5.4 dated 2024-10-25
DESCRIPTION | 8 +++--- MD5 | 20 ++++++++--------- NEWS.md | 4 +++ R/ndset.R | 2 - build/vignette.rds |binary inst/doc/bi-objective_2x.html | 34 ++++++++++++++--------------- inst/doc/bi-objective_3x_ex1.html | 36 +++++++++++++++---------------- inst/doc/intro.html | 36 +++++++++++++++---------------- inst/doc/polytope_2d.html | 4 +-- inst/doc/polytope_3d_ex1.html | 44 +++++++++++++++++++------------------- inst/doc/tri-objective.html | 24 ++++++++++---------- 11 files changed, 108 insertions(+), 104 deletions(-)
Title: Black-Box Optimization Toolkit
Description: Features highly configurable search spaces via the 'paradox'
package and optimizes every user-defined objective function. The
package includes several optimization algorithms e.g. Random Search,
Iterated Racing, Bayesian Optimization (in 'mlr3mbo') and Hyperband
(in 'mlr3hyperband'). bbotk is the base package of 'mlr3tuning',
'mlr3fselect' and 'miesmuschel'.
Author: Marc Becker [cre, aut] ,
Jakob Richter [aut] ,
Michel Lang [aut] ,
Bernd Bischl [aut] ,
Martin Binder [aut],
Olaf Mersmann [ctb]
Maintainer: Marc Becker <marcbecker@posteo.de>
Diff between bbotk versions 1.1.1 dated 2024-10-15 and 1.2.0 dated 2024-10-25
DESCRIPTION | 6 +++--- MD5 | 34 +++++++++++++++++----------------- NEWS.md | 7 +++++++ R/ContextAsync.R | 10 ++++++++++ R/ContextBatch.R | 10 ++++++++++ R/OptimInstance.R | 1 + R/OptimInstanceAsyncMultiCrit.R | 5 ++++- R/OptimInstanceAsyncSingleCrit.R | 5 ++++- R/OptimInstanceBatchMultiCrit.R | 6 +++++- R/OptimInstanceBatchSingleCrit.R | 5 ++++- R/Optimizer.R | 21 ++++++++++++++++----- R/OptimizerBatchIrace.R | 15 +++++++++++---- man/ContextAsync.Rd | 3 +++ man/ContextBatch.Rd | 3 +++ man/OptimInstanceAsyncMultiCrit.Rd | 5 ++++- man/OptimInstanceAsyncSingleCrit.Rd | 5 ++++- man/OptimInstanceBatchMultiCrit.Rd | 5 ++++- man/OptimInstanceBatchSingleCrit.Rd | 5 ++++- 18 files changed, 114 insertions(+), 37 deletions(-)
Title: Generalised Joint Regression Modelling
Description: Routines for fitting various joint (and univariate) regression models, with several types of covariate effects, in the presence of equations' errors association, endogeneity, non-random sample selection or partial observability.
Author: Giampiero Marra [aut, cre],
Rosalba Radice [aut]
Maintainer: Giampiero Marra <giampiero.marra@ucl.ac.uk>
Diff between GJRM versions 0.2-6.5 dated 2024-01-25 and 0.2-6.7 dated 2024-10-25
GJRM-0.2-6.5/GJRM/R/AT.r |only GJRM-0.2-6.5/GJRM/R/ass.ms.r |only GJRM-0.2-6.5/GJRM/R/bprobgHsFixTheta.r |only GJRM-0.2-6.5/GJRM/R/distrExIntegrate.R |only GJRM-0.2-6.5/GJRM/R/hazsurv.r |only GJRM-0.2-6.5/GJRM/R/imputeCounter.r |only GJRM-0.2-6.5/GJRM/R/imputeSS.r |only GJRM-0.2-6.5/GJRM/R/int.postcheck.R |only GJRM-0.2-6.5/GJRM/R/mice.impute.copulaSS.R |only GJRM-0.2-6.5/GJRM/R/post.check.R |only GJRM-0.2-6.5/GJRM/R/pred.mvt.r |only GJRM-0.2-6.5/GJRM/R/print.AT.r |only GJRM-0.2-6.5/GJRM/R/vis.gam2.r |only GJRM-0.2-6.5/GJRM/R/vis.gjrm.r |only GJRM-0.2-6.5/GJRM/R/zzz.r |only GJRM-0.2-6.5/GJRM/data |only GJRM-0.2-6.5/GJRM/man/AT.Rd |only GJRM-0.2-6.5/GJRM/man/areds.Rd |only GJRM-0.2-6.5/GJRM/man/hazsurv.Rd |only GJRM-0.2-6.5/GJRM/man/hiv.Rd |only GJRM-0.2-6.5/GJRM/man/imputeCounter.Rd |only GJRM-0.2-6.5/GJRM/man/imputeSS.Rd |only GJRM-0.2-6.5/GJRM/man/meps.Rd |only GJRM-0.2-6.5/GJRM/man/post.check.Rd |only GJRM-0.2-6.5/GJRM/man/pred.mvt.Rd |only GJRM-0.2-6.5/GJRM/man/print.AT.Rd |only GJRM-0.2-6.5/GJRM/man/vis.gjrm.Rd |only GJRM-0.2-6.5/GJRM/man/war.Rd |only GJRM-0.2-6.7/GJRM/ChangeLog | 20 GJRM-0.2-6.7/GJRM/DESCRIPTION | 19 GJRM-0.2-6.7/GJRM/MD5 | 308 +++--- GJRM-0.2-6.7/GJRM/NAMESPACE | 30 GJRM-0.2-6.7/GJRM/R/ATE.r |only GJRM-0.2-6.7/GJRM/R/CopulaCLM.r | 39 GJRM-0.2-6.7/GJRM/R/H.triESS.r |only GJRM-0.2-6.7/GJRM/R/H.triSS.r |only GJRM-0.2-6.7/GJRM/R/OR.r | 138 +- GJRM-0.2-6.7/GJRM/R/PE.r | 6 GJRM-0.2-6.7/GJRM/R/RR.r | 157 +-- GJRM-0.2-6.7/GJRM/R/Reg2Copost.r | 31 GJRM-0.2-6.7/GJRM/R/SATE.r |only GJRM-0.2-6.7/GJRM/R/SemiParBIV.fit.R | 10 GJRM-0.2-6.7/GJRM/R/SemiParBIV.fit.post.r | 54 - GJRM-0.2-6.7/GJRM/R/SemiParBIV.r | 28 GJRM-0.2-6.7/GJRM/R/SemiParROY.fit.post.r | 49 - GJRM-0.2-6.7/GJRM/R/SemiParROY.r | 51 - GJRM-0.2-6.7/GJRM/R/SemiParTRIV.fit.post.r | 30 GJRM-0.2-6.7/GJRM/R/SemiParTRIV.r | 14 GJRM-0.2-6.7/GJRM/R/bCopulaCLMgHsOrd.R | 16 GJRM-0.2-6.7/GJRM/R/bcontSurvGBIN.R |only GJRM-0.2-6.7/GJRM/R/bcontSurvGDep.R |only GJRM-0.2-6.7/GJRM/R/bcontSurvGDepA.R |only GJRM-0.2-6.7/GJRM/R/bcontSurvG_extended.R | 115 +- GJRM-0.2-6.7/GJRM/R/bcontSurvGcont2Surv.R |only GJRM-0.2-6.7/GJRM/R/bcorrec.R | 4 GJRM-0.2-6.7/GJRM/R/bcorrec2.R | 2 GJRM-0.2-6.7/GJRM/R/bcorrecDiscr.R | 28 GJRM-0.2-6.7/GJRM/R/bcorrecFuncs.R | 612 +++++++++++++ GJRM-0.2-6.7/GJRM/R/bdiscrcont.R |only GJRM-0.2-6.7/GJRM/R/bdiscrcont12.R |only GJRM-0.2-6.7/GJRM/R/bdiscrcont13.R |only GJRM-0.2-6.7/GJRM/R/bdiscrcont23.R |only GJRM-0.2-6.7/GJRM/R/bdiscrdiscr.R | 13 GJRM-0.2-6.7/GJRM/R/bdiscrdiscr11.R | 15 GJRM-0.2-6.7/GJRM/R/bdiscrdiscr12.R | 14 GJRM-0.2-6.7/GJRM/R/bprobgHsBinROY.r | 6 GJRM-0.2-6.7/GJRM/R/bprobgHsCont3binTWSS.R |only GJRM-0.2-6.7/GJRM/R/bprobgHsContUniv.r | 9 GJRM-0.2-6.7/GJRM/R/bprobgHsContUniv3.r | 7 GJRM-0.2-6.7/GJRM/R/bprobgHsDiscr1.r | 3 GJRM-0.2-6.7/GJRM/R/bprobgHsDiscr1ROY.r | 6 GJRM-0.2-6.7/GJRM/R/bprobgHsDiscr1SS.r | 3 GJRM-0.2-6.7/GJRM/R/bprobgHsDiscr2.r | 3 GJRM-0.2-6.7/GJRM/R/bprobgHsDiscr2ROY.r | 6 GJRM-0.2-6.7/GJRM/R/bprobgHsDiscr2SS.r | 3 GJRM-0.2-6.7/GJRM/R/chooseFuncOpt1.R |only GJRM-0.2-6.7/GJRM/R/cond.mv.R |only GJRM-0.2-6.7/GJRM/R/conv.check.r | 14 GJRM-0.2-6.7/GJRM/R/copula.prob.r | 254 ++++- GJRM-0.2-6.7/GJRM/R/copulaReg.fit.post.r | 84 + GJRM-0.2-6.7/GJRM/R/copulaSampleSel.fit.post.r | 41 GJRM-0.2-6.7/GJRM/R/copulaSampleSel.r | 29 GJRM-0.2-6.7/GJRM/R/cov.c.r | 2 GJRM-0.2-6.7/GJRM/R/cv.inform.r | 8 GJRM-0.2-6.7/GJRM/R/distrHs.r | 4 GJRM-0.2-6.7/GJRM/R/distrHsAT.r | 2 GJRM-0.2-6.7/GJRM/R/distrHsAT1.r | 2 GJRM-0.2-6.7/GJRM/R/distrHsATDiscr.r | 100 +- GJRM-0.2-6.7/GJRM/R/distrHsATDiscr2.r | 69 - GJRM-0.2-6.7/GJRM/R/distrHsDiscr.r | 315 +++++- GJRM-0.2-6.7/GJRM/R/eta.tr.R | 2 GJRM-0.2-6.7/GJRM/R/form.eq12.r | 61 - GJRM-0.2-6.7/GJRM/R/func.OPT.r | 20 GJRM-0.2-6.7/GJRM/R/gamls.upsv.r | 118 +- GJRM-0.2-6.7/GJRM/R/gamlss.R | 720 +++++---------- GJRM-0.2-6.7/GJRM/R/gamlss.fit.post.r | 26 GJRM-0.2-6.7/GJRM/R/gjrm.r | 299 ++++-- GJRM-0.2-6.7/GJRM/R/haz.surv.r |only GJRM-0.2-6.7/GJRM/R/int.rescheck.R |only GJRM-0.2-6.7/GJRM/R/jc.probs1.r | 284 +++--- GJRM-0.2-6.7/GJRM/R/jc.probs2.r | 143 +-- GJRM-0.2-6.7/GJRM/R/jc.probs3.r | 57 - GJRM-0.2-6.7/GJRM/R/jc.probs4.r | 74 + GJRM-0.2-6.7/GJRM/R/jc.probs5.r | 86 + GJRM-0.2-6.7/GJRM/R/jc.probs6.r | 20 GJRM-0.2-6.7/GJRM/R/jc.probs7.r | 921 ++++---------------- GJRM-0.2-6.7/GJRM/R/jc.probs8.r | 608 ++++--------- GJRM-0.2-6.7/GJRM/R/k.tau.R |only GJRM-0.2-6.7/GJRM/R/marg.mv.r |only GJRM-0.2-6.7/GJRM/R/mb.r | 18 GJRM-0.2-6.7/GJRM/R/polys.map.r | 2 GJRM-0.2-6.7/GJRM/R/pp.r | 8 GJRM-0.2-6.7/GJRM/R/ppROY.r | 10 GJRM-0.2-6.7/GJRM/R/pream.wm.r | 31 GJRM-0.2-6.7/GJRM/R/prev.r | 97 -- GJRM-0.2-6.7/GJRM/R/print.ATE.r |only GJRM-0.2-6.7/GJRM/R/print.SATE.r |only GJRM-0.2-6.7/GJRM/R/print.SemiParBIV.r | 24 GJRM-0.2-6.7/GJRM/R/print.SemiParROY.r | 40 GJRM-0.2-6.7/GJRM/R/print.SemiParTRIV.r | 12 GJRM-0.2-6.7/GJRM/R/print.cond.mv.r |only GJRM-0.2-6.7/GJRM/R/print.copulaSampleSel.r | 20 GJRM-0.2-6.7/GJRM/R/print.gamlss.r | 2 GJRM-0.2-6.7/GJRM/R/print.gjrm.r | 76 - GJRM-0.2-6.7/GJRM/R/print.marg.mv.r |only GJRM-0.2-6.7/GJRM/R/print.mb.r | 6 GJRM-0.2-6.7/GJRM/R/print.prev.r | 4 GJRM-0.2-6.7/GJRM/R/print.summary.SemiParBIV.r | 41 GJRM-0.2-6.7/GJRM/R/print.summary.SemiParROY.r | 46 GJRM-0.2-6.7/GJRM/R/print.summary.SemiParTRIV.r | 31 GJRM-0.2-6.7/GJRM/R/print.summary.copulaSampleSel.r | 16 GJRM-0.2-6.7/GJRM/R/print.summary.gamlss.r | 4 GJRM-0.2-6.7/GJRM/R/print.summary.gjrm.r | 42 GJRM-0.2-6.7/GJRM/R/pscr.r | 316 +++--- GJRM-0.2-6.7/GJRM/R/pscr0.r | 269 +++-- GJRM-0.2-6.7/GJRM/R/r.resp.R | 18 GJRM-0.2-6.7/GJRM/R/rIC.R | 22 GJRM-0.2-6.7/GJRM/R/res.check.R |only GJRM-0.2-6.7/GJRM/R/resp.check.R | 91 + GJRM-0.2-6.7/GJRM/R/rob.const.R | 8 GJRM-0.2-6.7/GJRM/R/rob.int.R | 4 GJRM-0.2-6.7/GJRM/R/sim.resp.R | 12 GJRM-0.2-6.7/GJRM/R/startsn.r | 10 GJRM-0.2-6.7/GJRM/R/summary.SemiParBIV.r | 22 GJRM-0.2-6.7/GJRM/R/summary.SemiParROY.r | 24 GJRM-0.2-6.7/GJRM/R/summary.SemiParTRIV.r | 8 GJRM-0.2-6.7/GJRM/R/summary.copulaSampleSel.r | 23 GJRM-0.2-6.7/GJRM/R/summary.gamlss.r | 16 GJRM-0.2-6.7/GJRM/R/summary.gjrm.r | 31 GJRM-0.2-6.7/GJRM/R/susu.r | 23 GJRM-0.2-6.7/GJRM/R/susutsn.r | 34 GJRM-0.2-6.7/GJRM/R/teta.tr.R | 2 GJRM-0.2-6.7/GJRM/R/theta2tau.r |only GJRM-0.2-6.7/GJRM/R/triprobgHsESS.R |only GJRM-0.2-6.7/GJRM/R/triprobgHsSS.R |only GJRM-0.2-6.7/GJRM/inst/CITATION | 6 GJRM-0.2-6.7/GJRM/man/ATE.Rd |only GJRM-0.2-6.7/GJRM/man/GJRM-package.Rd | 15 GJRM-0.2-6.7/GJRM/man/LM.bpm.Rd | 3 GJRM-0.2-6.7/GJRM/man/OR.Rd | 48 - GJRM-0.2-6.7/GJRM/man/PE.Rd | 6 GJRM-0.2-6.7/GJRM/man/RR.Rd | 47 - GJRM-0.2-6.7/GJRM/man/SATE.Rd |only GJRM-0.2-6.7/GJRM/man/SemiParBIV.fit.post.Rd | 2 GJRM-0.2-6.7/GJRM/man/cond.mv.Rd |only GJRM-0.2-6.7/GJRM/man/conv.check.Rd | 5 GJRM-0.2-6.7/GJRM/man/copula.prob.Rd | 21 GJRM-0.2-6.7/GJRM/man/gamlss.Rd | 130 +- GJRM-0.2-6.7/GJRM/man/gjrm.Rd | 503 +++------- GJRM-0.2-6.7/GJRM/man/gt.bpm.Rd | 2 GJRM-0.2-6.7/GJRM/man/haz.surv.Rd |only GJRM-0.2-6.7/GJRM/man/k.tau.Rd |only GJRM-0.2-6.7/GJRM/man/marg.mv.Rd |only GJRM-0.2-6.7/GJRM/man/mb.Rd | 4 GJRM-0.2-6.7/GJRM/man/polys.map.Rd | 4 GJRM-0.2-6.7/GJRM/man/prev.Rd | 41 GJRM-0.2-6.7/GJRM/man/print.ATE.Rd |only GJRM-0.2-6.7/GJRM/man/print.SATE.Rd |only GJRM-0.2-6.7/GJRM/man/print.cond.mv.Rd |only GJRM-0.2-6.7/GJRM/man/print.marg.mv.Rd |only GJRM-0.2-6.7/GJRM/man/res.check.Rd |only GJRM-0.2-6.7/GJRM/man/resp.check.Rd | 44 GJRM-0.2-6.7/GJRM/man/rob.const.Rd | 5 GJRM-0.2-6.7/GJRM/man/rob.int.Rd | 2 GJRM-0.2-6.7/GJRM/man/summary.SemiParBIV.Rd | 9 GJRM-0.2-6.7/GJRM/man/summary.gjrm.Rd | 8 186 files changed, 4447 insertions(+), 4133 deletions(-)
Title: ADaM Test Data for the 'Pharmaverse' Family of Packages
Description: A set of Analysis Data Model (ADaM) datasets constructed using the
Study Data Tabulation Model (SDTM) datasets contained in the 'pharmaversesdtm' package and
the template scripts from the 'admiral' family of packages. ADaM dataset specifications
are described in the CDISC ADaM implementation guide, accessible by creating a free account on <https://www.cdisc.org/>.
Author: Edoardo Mancini [aut, cre] ,
Kangjie Zhang [aut],
Stefan Bundfuss [aut] ,
Gayatri G [aut],
Daphne Grassely [aut],
Zelos Zhu [aut],
Sadchla Mascary [aut]
Maintainer: Edoardo Mancini <edoardo.mancini@roche.com>
Diff between pharmaverseadam versions 1.0.0 dated 2024-07-01 and 1.1.0 dated 2024-10-25
DESCRIPTION | 21 ++--- MD5 | 147 ++++++++++++++++++++--------------------- NEWS.md | 39 +++++++++- R/adae.R | 13 ++- R/adbcva_ophtha.R | 12 ++- R/adce_vaccine.R | 4 - R/adcm.R | 13 ++- R/adeg.R | 17 ++-- R/adex.R | 12 ++- R/adface_vaccine.R | 7 + R/adis_vaccine.R | 4 - R/adlb.R | 12 ++- R/adlbhy.R | 4 - R/admh.R | 12 ++- R/adoe_ophtha.R | 12 ++- R/adpc.R | 12 ++- R/adpp.R | 14 ++- R/adppk.R | 4 - R/adrs_onco.R | 4 - R/adsl.R | 4 - R/adsl_vaccine.R | 4 - R/adtr_onco.R | 4 - R/adtte_onco.R | 4 - R/advfq_ophtha.R | 12 ++- R/advs.R | 14 ++- R/advs_peds.R |only README.md | 4 - data/adae.rda |binary data/adbcva_ophtha.rda |binary data/adce_vaccine.rda |binary data/adcm.rda |binary data/adeg.rda |binary data/adex.rda |binary data/adface_vaccine.rda |binary data/adis_vaccine.rda |binary data/adlb.rda |binary data/adlbhy.rda |binary data/admh.rda |binary data/adoe_ophtha.rda |binary data/adpc.rda |binary data/adpp.rda |binary data/adppk.rda |binary data/adrs_onco.rda |binary data/adsl.rda |binary data/adsl_vaccine.rda |binary data/adtr_onco.rda |binary data/adtte_onco.rda |binary data/advfq_ophtha.rda |binary data/advs.rda |binary data/advs_peds.rda |only inst/WORDLIST | 3 inst/extdata/adams-specs.xlsx |binary man/adae.Rd | 12 ++- man/adbcva_ophtha.Rd | 12 ++- man/adce_vaccine.Rd | 4 - man/adcm.Rd | 13 ++- man/adeg.Rd | 17 ++-- man/adex.Rd | 12 ++- man/adface_vaccine.Rd | 7 + man/adis_vaccine.Rd | 4 - man/adlb.Rd | 12 ++- man/adlbhy.Rd | 4 - man/admh.Rd | 12 ++- man/adoe_ophtha.Rd | 12 ++- man/adpc.Rd | 12 ++- man/adpp.Rd | 14 ++- man/adppk.Rd | 4 - man/adrs_onco.Rd | 4 - man/adsl.Rd | 4 - man/adsl_vaccine.Rd | 4 - man/adtr_onco.Rd | 4 - man/adtte_onco.Rd | 4 - man/advfq_ophtha.Rd | 12 ++- man/advs.Rd | 14 ++- man/advs_peds.Rd |only man/pharmaverseadam-package.Rd | 6 - 76 files changed, 372 insertions(+), 243 deletions(-)
More information about pharmaverseadam at CRAN
Permanent link
Title: Kernel Functions and Tools for Machine Learning Applications
Description: Kernel functions for diverse types of data (including, but not
restricted to: nonnegative and real vectors, real matrices, categorical
and ordinal variables, sets, strings), plus other utilities like kernel
similarity, kernel Principal Components Analysis (PCA) and features'
importance for Support Vector Machines (SVMs), which expand other 'R'
packages like 'kernlab'.
Author: Elies Ramon [aut, cre, cph]
Maintainer: Elies Ramon <eramon@everlyrusher.com>
Diff between kerntools versions 1.0.2 dated 2024-09-04 and 1.1.0 dated 2024-10-25
DESCRIPTION | 9 +++-- MD5 | 38 +++++++++++++-------- NEWS.md | 6 +++ R/kernel_functions.R | 6 +-- R/soil.R |only README.md | 13 +++++-- build/vignette.rds |binary data/soil.rda |only inst/WORDLIST | 59 +++++++++++++++++++++++++++++++++ inst/doc/Kernel-PCA-and-CIA.R |only inst/doc/Kernel-PCA-and-CIA.Rmd |only inst/doc/Kernel-PCA-and-CIA.html |only inst/doc/Kernel-functions.R |only inst/doc/Kernel-functions.Rmd |only inst/doc/Kernel-functions.html |only inst/doc/kerntools.Rmd | 2 - inst/doc/kerntools.html | 14 +++---- man/BrayCurtis.Rd | 2 - man/Jaccard.Rd | 4 +- man/figures/logo.png |only man/kerntools-package.Rd | 11 ++++++ man/soil.Rd |only tests/testthat/test-kernel_functions.R | 4 +- vignettes/Kernel-PCA-and-CIA.Rmd |only vignettes/Kernel-functions.Rmd |only vignettes/kerntools.Rmd | 2 - 26 files changed, 134 insertions(+), 36 deletions(-)
More information about dexisensitivity at CRAN
Permanent link
Title: SDTM Test Data for the 'Pharmaverse' Family of Packages
Description: A set of Study Data Tabulation Model (SDTM) datasets from the Clinical
Data Interchange Standards Consortium (CDISC) pilot project used for testing
and developing Analysis Data Model (ADaM) datasets inside the pharmaverse
family of packages. SDTM dataset specifications are described in the CDISC SDTM implementation guide,
accessible by creating a free account on <https://www.cdisc.org/>.
Author: Edoardo Mancini [aut, cre] ,
Gayatri G [aut],
Kangjie Zhang [aut],
Pooja Kumari [aut],
Stefan Bundfuss [aut] ,
Zelos Zhu [aut],
Sadchla Mascary [aut],
Vladyslav Shuliar [aut]
Maintainer: Edoardo Mancini <edoardo.mancini@roche.com>
Diff between pharmaversesdtm versions 1.0.0 dated 2024-06-06 and 1.1.0 dated 2024-10-25
DESCRIPTION | 26 ++++++++++++++------------ MD5 | 26 +++++++++++++++----------- NEWS.md | 17 +++++++++++++++++ R/data.R | 14 ++++++++++++++ data/ae_ophtha.rda |binary data/cm.rda |binary data/dm_peds.rda |only data/eg.rda |binary data/vs_peds.rda |only inst/WORDLIST | 7 ++++--- man/ae_ophtha.Rd | 2 +- man/cm.Rd | 2 +- man/dm_peds.Rd |only man/eg.Rd | 2 +- man/pharmaversesdtm-package.Rd | 7 ++++--- man/vs_peds.Rd |only 16 files changed, 71 insertions(+), 32 deletions(-)
More information about pharmaversesdtm at CRAN
Permanent link
More information about graphicalEvidence at CRAN
Permanent link
More information about DiscreteGapStatistic at CRAN
Permanent link
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2022-01-04 0.1.1
2021-12-10 0.1.0
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2023-09-19 0.3-3
2014-12-03 0.3-2
2014-12-01 0.3-1
Title: Clinical Stroke Research
Description: A collection of tools for clinical trial data management and
analysis in research and teaching.
The package is mainly collected for personal use, but any use beyond that is encouraged.
This package has migrated functions from 'agdamsbo/daDoctoR', and new functions has been added.
Version follows months and year. See NEWS/Changelog for release notes.
This package includes sampled data from the TALOS trial (Kraglund et al (2018) <doi:10.1161/STROKEAHA.117.020067>).
The win_prob() function is based on work by Zou et al (2022) <doi:10.1161/STROKEAHA.121.037744>.
The age_calc() function is based on work by Becker (2020) <doi:10.18637/jss.v093.i02>.
Author: Andreas Gammelgaard Damsbo [aut, cre]
Maintainer: Andreas Gammelgaard Damsbo <agdamsbo@clin.au.dk>
Diff between stRoke versions 23.9.1 dated 2023-09-07 and 24.10.1 dated 2024-10-25
stRoke-23.9.1/stRoke/inst/doc/ds2dd.R |only stRoke-23.9.1/stRoke/inst/doc/ds2dd.Rmd |only stRoke-23.9.1/stRoke/inst/doc/ds2dd.html |only stRoke-23.9.1/stRoke/tests/spelling.R |only stRoke-23.9.1/stRoke/tests/testthat/Rplots.pdf |only stRoke-23.9.1/stRoke/tests/testthat/data |only stRoke-23.9.1/stRoke/tests/testthat/test-add_padding.R |only stRoke-23.9.1/stRoke/tests/testthat/test-age_calc.R |only stRoke-23.9.1/stRoke/tests/testthat/test-chunks.R |only stRoke-23.9.1/stRoke/tests/testthat/test-contrast_text.R |only stRoke-23.9.1/stRoke/tests/testthat/test-ds2dd.R |only stRoke-23.9.1/stRoke/tests/testthat/test-files_filter.R |only stRoke-23.9.1/stRoke/tests/testthat/test-quantile_cut.R |only stRoke-23.9.1/stRoke/tests/testthat/test-str_extract.R |only stRoke-23.9.1/stRoke/tests/testthat/test-write_ical.R |only stRoke-23.9.1/stRoke/vignettes/ds2dd.Rmd |only stRoke-24.10.1/stRoke/DESCRIPTION | 20 - stRoke-24.10.1/stRoke/MD5 | 88 ++-- stRoke-24.10.1/stRoke/NAMESPACE | 1 stRoke-24.10.1/stRoke/NEWS.md | 15 stRoke-24.10.1/stRoke/R/add_padding.R | 15 stRoke-24.10.1/stRoke/R/chunks_of_n.R | 2 stRoke-24.10.1/stRoke/R/ci_plot.R | 4 stRoke-24.10.1/stRoke/R/contrast_text.R | 4 stRoke-24.10.1/stRoke/R/files_filter.R | 2 stRoke-24.10.1/stRoke/R/generic_stroke.R | 4 stRoke-24.10.1/stRoke/R/metadata.R | 2 stRoke-24.10.1/stRoke/R/mfi_calc.R |only stRoke-24.10.1/stRoke/R/pase_calc.R | 83 +++- stRoke-24.10.1/stRoke/R/quantile_cut.R | 2 stRoke-24.10.1/stRoke/R/str_extract.R | 4 stRoke-24.10.1/stRoke/R/write_ical.R | 2 stRoke-24.10.1/stRoke/build/partial.rdb |binary stRoke-24.10.1/stRoke/build/vignette.rds |binary stRoke-24.10.1/stRoke/data/cprs.rda |binary stRoke-24.10.1/stRoke/inst/WORDLIST | 11 stRoke-24.10.1/stRoke/inst/doc/toolbox.R | 2 stRoke-24.10.1/stRoke/inst/doc/toolbox.Rmd | 8 stRoke-24.10.1/stRoke/inst/doc/toolbox.html | 233 ++++++------- stRoke-24.10.1/stRoke/man/add_padding.Rd | 19 - stRoke-24.10.1/stRoke/man/chunks_of_n.Rd | 4 stRoke-24.10.1/stRoke/man/contrast_text.Rd | 2 stRoke-24.10.1/stRoke/man/files_filter.Rd | 2 stRoke-24.10.1/stRoke/man/metadata_names.Rd | 2 stRoke-24.10.1/stRoke/man/mfi_domains.Rd |only stRoke-24.10.1/stRoke/man/multi_rev.Rd |only stRoke-24.10.1/stRoke/man/pase_calc.Rd | 7 stRoke-24.10.1/stRoke/man/quantile_cut.Rd | 2 stRoke-24.10.1/stRoke/man/stRoke-package.Rd | 2 stRoke-24.10.1/stRoke/man/str_extract.Rd | 3 stRoke-24.10.1/stRoke/man/write_ical.Rd | 2 stRoke-24.10.1/stRoke/tests/testthat/test-generic_stroke.R | 4 stRoke-24.10.1/stRoke/tests/testthat/testthat-problems.rds |only stRoke-24.10.1/stRoke/vignettes/toolbox.Rmd | 8 54 files changed, 305 insertions(+), 254 deletions(-)
Title: Modeling of Ordinal Random Variables via Softmax Regression
Description: Supports the modeling of ordinal random variables,
like the outcomes of races, via Softmax regression,
under the Harville <doi:10.1080/01621459.1973.10482425> and
Henery <doi:10.1111/j.2517-6161.1981.tb01153.x> models.
Author: Steven E. Pav [aut, cre]
Maintainer: Steven E. Pav <shabbychef@gmail.com>
Diff between ohenery versions 0.1.1 dated 2019-10-15 and 0.1.2 dated 2024-10-25
ChangeLog | 4 + DESCRIPTION | 10 ++-- MD5 | 53 ++++++++++++------------- R/data.r | 2 R/harsm.r | 72 +++++++++++++++++++++++----------- R/hensm.r | 93 ++++++++++++++++++++++++++++++++++---------- R/linodds.r | 4 - R/ohenery.r | 13 ++++-- R/rsm.r | 82 +++++++++++++++++++------------------- R/utils.r | 4 - README.md | 10 ++-- build |only inst/CITATION | 24 +++++------ man/NEWS.Rd | 9 +++- man/best_picture.Rd | 6 +- man/diving.Rd | 6 +- man/harsm.Rd | 32 ++++++++++----- man/harsmfit.Rd | 29 +++++++++++-- man/hensm.Rd | 45 ++++++++++++++++----- man/linodds.Rd | 12 ++++- man/ohenery.Rd | 17 ++++++-- man/race_data.Rd | 6 +- man/smlik.Rd | 4 - src/RcppExports.cpp | 5 ++ src/erank.cpp | 2 src/rhenery.cpp | 2 src/smlik.cpp | 2 tests/testthat/test-basic.r | 83 ++++++++++++++++++++++++++++++++++++++- 28 files changed, 448 insertions(+), 183 deletions(-)
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2024-10-10 1.0.12
Title: Random Generation of Survival Data
Description: Random generation of survival data from a wide range of regression models, including accelerated failure time (AFT), proportional hazards (PH), proportional odds (PO), accelerated hazard (AH), Yang and Prentice (YP), and extended hazard (EH) models. The package 'rsurv' also stands out by its ability to generate survival data from an unlimited number of baseline distributions provided that an implementation of the quantile function of the chosen baseline distribution is available in R. Another nice feature of the package 'rsurv' lies in the fact that linear predictors are specified via a formula-based approach, facilitating the inclusion of categorical variables and interaction terms. The functions implemented in the package 'rsurv' can also be employed to simulate survival data with more complex structures, such as survival data with different types of censoring mechanisms, survival data with cure fraction, survival data with random effects (frailties), multivariate survival data, and [...truncated...]
Author: Fabio Demarqui [aut, cre, cph]
Maintainer: Fabio Demarqui <fndemarqui@est.ufmg.br>
Diff between rsurv versions 0.0.1 dated 2024-06-06 and 0.0.2 dated 2024-10-25
rsurv-0.0.1/rsurv/man/bell.Rd |only rsurv-0.0.1/rsurv/man/poisson.Rd |only rsurv-0.0.2/rsurv/DESCRIPTION | 14 +-- rsurv-0.0.2/rsurv/MD5 | 70 ++++++++-------- rsurv-0.0.2/rsurv/NAMESPACE | 5 - rsurv-0.0.2/rsurv/NEWS.md | 9 ++ rsurv-0.0.2/rsurv/R/lp.R | 7 - rsurv-0.0.2/rsurv/R/raftreg.R | 24 ++++- rsurv-0.0.2/rsurv/R/rahreg.R | 24 ++++- rsurv-0.0.2/rsurv/R/rehreg.R | 25 ++++- rsurv-0.0.2/rsurv/R/rfrailty.R | 2 rsurv-0.0.2/rsurv/R/rphreg.R | 23 ++++- rsurv-0.0.2/rsurv/R/rporeg.R | 23 ++++- rsurv-0.0.2/rsurv/R/rsurv-package.R | 4 rsurv-0.0.2/rsurv/R/rsurv.R | 35 +++++++- rsurv-0.0.2/rsurv/R/rsurvcure.R | 130 ++++++------------------------- rsurv-0.0.2/rsurv/R/rypreg.R | 25 ++++- rsurv-0.0.2/rsurv/README.md | 6 + rsurv-0.0.2/rsurv/build/partial.rdb |binary rsurv-0.0.2/rsurv/build/vignette.rds |binary rsurv-0.0.2/rsurv/inst/doc/rsurv.R | 1 rsurv-0.0.2/rsurv/inst/doc/rsurv.Rmd | 1 rsurv-0.0.2/rsurv/inst/doc/rsurv.html | 79 +++++++++--------- rsurv-0.0.2/rsurv/man/bernoulli.Rd | 2 rsurv-0.0.2/rsurv/man/inv_pgf.Rd | 11 -- rsurv-0.0.2/rsurv/man/lp.Rd | 5 - rsurv-0.0.2/rsurv/man/negbin.Rd | 6 - rsurv-0.0.2/rsurv/man/qsurv.Rd |only rsurv-0.0.2/rsurv/man/raftreg.Rd | 9 +- rsurv-0.0.2/rsurv/man/rahreg.Rd | 9 +- rsurv-0.0.2/rsurv/man/rehreg.Rd | 7 - rsurv-0.0.2/rsurv/man/rfrailty.Rd | 2 rsurv-0.0.2/rsurv/man/rphreg.Rd | 9 +- rsurv-0.0.2/rsurv/man/rporeg.Rd | 9 +- rsurv-0.0.2/rsurv/man/rsurv-package.Rd | 2 rsurv-0.0.2/rsurv/man/rypreg.Rd | 7 - rsurv-0.0.2/rsurv/tests/testthat/test5.R |only rsurv-0.0.2/rsurv/vignettes/rsurv.Rmd | 1 38 files changed, 311 insertions(+), 275 deletions(-)
Title: Identify Characteristics of Patients in the OMOP Common Data
Model
Description: Identify the characteristics of patients in data mapped to the Observational Medical Outcomes Partnership (OMOP) common data model.
Author: Marti Catala [aut, cre] ,
Yuchen Guo [aut] ,
Mike Du [aut] ,
Kim Lopez-Guell [aut] ,
Edward Burn [aut] ,
Nuria Mercade-Besora [aut] ,
Xintong Li [ctb] ,
Xihang Chen [ctb]
Maintainer: Marti Catala <marti.catalasabate@ndorms.ox.ac.uk>
Diff between PatientProfiles versions 1.2.0 dated 2024-09-11 and 1.2.1 dated 2024-10-25
DESCRIPTION | 6 MD5 | 60 +++--- R/addConceptIntersect.R | 23 ++ R/addDeath.R | 14 - R/addDemographics.R | 13 + R/addDemographicsQuery.R | 12 - R/addIntersect.R | 61 +++--- R/addObservationPeriodId.R | 2 R/checks.R | 147 --------------- R/formats.R | 5 R/mockPatientProfiles.R | 9 R/summariseResult.R | 5 inst/doc/cohort-intersect.html | 126 ++++++------- inst/doc/concept-intersect.html | 94 +++++----- inst/doc/demographics.html | 250 +++++++++++++-------------- inst/doc/summarise.html | 210 +++++++++++----------- inst/doc/table-intersect.html | 86 ++++----- man/addConceptIntersectCount.Rd | 4 man/addConceptIntersectDate.Rd | 4 man/addConceptIntersectDays.Rd | 4 man/addConceptIntersectFlag.Rd | 4 tests/testthat/test-addCategories.R | 13 + tests/testthat/test-addCohortIntersect.R | 2 tests/testthat/test-addConceptIntersect.R | 138 ++++++++++++++ tests/testthat/test-addDeath.R | 4 tests/testthat/test-addDemographics.R | 49 ++++- tests/testthat/test-addInObservation.R | 10 - tests/testthat/test-addIntersect.R | 16 - tests/testthat/test-addObservationPeriodId.R | 23 ++ tests/testthat/test-checks.R | 31 --- tests/testthat/test-summariseResult.R | 3 31 files changed, 766 insertions(+), 662 deletions(-)
More information about PatientProfiles at CRAN
Permanent link
Title: Time Series Goodness of Fit and Forecast Evaluation Tests
Description: Goodness of Fit and Forecast Evaluation Tests for timeseries models. Includes, among others, the Generalized Method of Moments (GMM) Orthogonality Test of Hansen (1982), the Nyblom (1989) parameter constancy test, the sign-bias test of Engle and Ng (1993), and a range of tests for value at risk and expected shortfall evaluation.
Author: Alexios Galanos [aut, cre, cph]
Maintainer: Alexios Galanos <alexios@4dscape.com>
Diff between tstests versions 1.0.0 dated 2024-05-15 and 1.0.1 dated 2024-10-24
DESCRIPTION | 11 ++-- MD5 | 14 ++--- NEWS.md | 7 ++ R/var_cp.R | 90 ++++++++++++++++++++++++-------------- build/partial.rdb |binary build/vignette.rds |binary inst/doc/tstest_introduction.html | 68 ++++++++++++++-------------- man/tstests-package.Rd | 2 8 files changed, 114 insertions(+), 78 deletions(-)
Title: Work with Open Road Traffic Casualty Data from Great Britain
Description: Tools to help download, process and analyse the UK road collision data collected using the
'STATS19' form. The datasets are provided as 'CSV' files with detailed road safety information about the
circumstances of car crashes and other incidents on the roads resulting in casualties in Great Britain
from 1979 to present. Tables are available on 'colissions' with the circumstances (e.g. speed limit
of road), information about 'vehicles' involved (e.g. type of vehicle), and 'casualties' (e.g. age).
The statistics relate only to events on public roads that were reported
to the police, and subsequently recorded, using the 'STATS19' collision reporting form. See
the Department for Transport website
<https://www.data.gov.uk/dataset/cb7ae6f0-4be6-4935-9277-47e5ce24a11f/road-safety-data> for more
information on these datasets.
The package is described in a paper in the Journal of Open Source Software
(Lovelace et al. 2019) <doi:10.21105/joss.01181>.
See
Gilardi et al. (2022) <doi [...truncated...]
Author: Robin Lovelace [aut, cre] ,
Malcolm Morgan [aut] ,
Layik Hama [aut] ,
Mark Padgham [aut] ,
David Ranzolin [rev],
Adam Sparks [rev, ctb] ,
Ivo Wengraf [ctb],
RAC Foundation [fnd]
Maintainer: Robin Lovelace <rob00x@gmail.com>
Diff between stats19 versions 3.1.0 dated 2024-08-01 and 3.2.0 dated 2024-10-24
stats19-3.1.0/stats19/tests |only stats19-3.2.0/stats19/DESCRIPTION | 6 stats19-3.2.0/stats19/MD5 | 37 stats19-3.2.0/stats19/NEWS.md | 4 stats19-3.2.0/stats19/R/dl.R | 15 stats19-3.2.0/stats19/R/read.R | 4 stats19-3.2.0/stats19/R/utils.R | 1 stats19-3.2.0/stats19/README.md | 123 - stats19-3.2.0/stats19/inst/doc/blog.html | 659 +++--- stats19-3.2.0/stats19/inst/doc/stats19-training-setup.html | 250 +- stats19-3.2.0/stats19/inst/doc/stats19-training.html | 1260 +++++++---- stats19-3.2.0/stats19/inst/doc/stats19-vehicles.R | 4 stats19-3.2.0/stats19/inst/doc/stats19-vehicles.Rmd | 4 stats19-3.2.0/stats19/inst/doc/stats19-vehicles.html | 243 +- stats19-3.2.0/stats19/inst/doc/stats19.html | 1375 +++++++------ stats19-3.2.0/stats19/vignettes/stats19-vehicles.Rmd | 4 16 files changed, 2398 insertions(+), 1591 deletions(-)
Title: Small Area Estimation with Cluster Information for Estimation of
Non-Sampled Areas
Description: Implementation of small area estimation (Fay-Herriot model) with EBLUP (Empirical Best Linear Unbiased Prediction) Approach for non-sampled area estimation by adding cluster information and assuming that there are similarities among particular areas. See also Rao & Molina (2015, ISBN:978-1-118-73578-7) and Anisa et al. (2013) <doi:10.9790/5728-10121519>.
Author: Ridson Al Farizal P [aut, cre, cph]
,
Azka Ubaidillah [aut]
Maintainer: Ridson Al Farizal P <alfrzlp@gmail.com>
Diff between saens versions 0.1.0 dated 2024-02-21 and 0.1.1 dated 2024-10-24
DESCRIPTION | 10 +++++----- MD5 | 2 +- 2 files changed, 6 insertions(+), 6 deletions(-)
Title: Load Data for Analysis System
Description: Provides a framework to load text and excel files through a 'shiny' graphical interface. It allows renaming, transforming, ordering and removing variables. It includes basic exploratory methods such as the mean, median, mode, normality test, histogram and correlation.
Author: Oldemar Rodriguez [aut, cre],
Diego Jimenez [aut],
Joseline Quiros [aut]
Maintainer: Oldemar Rodriguez <oldemar.rodriguez@ucr.ac.cr>
Diff between loadeR versions 1.2.0 dated 2024-05-09 and 1.3.0 dated 2024-10-24
DESCRIPTION | 8 ++-- MD5 | 26 ++++++------- NEWS.md | 5 ++ R/app_server.R | 12 ++---- R/golem_utils_server.R | 4 +- R/golem_utils_ui.R | 5 +- R/loadeR.R | 4 +- R/mod_acercade.R | 2 - R/mod_carga_datos.R | 66 +++++++++++++++++++++-------------- inst/app/lang/diccionario.csv | 7 ++- inst/app/lang/translation_loadeR.bin |binary inst/golem-config.yml | 2 - man/loadeR.Rd | 4 +- man/options.run.Rd | 4 +- 14 files changed, 86 insertions(+), 63 deletions(-)
Title: Example Data Sets for Causal Inference Textbooks
Description: Example data sets to run the example
problems from causal inference textbooks. Currently, contains data
sets for Huntington-Klein, Nick (2021 and 2025) "The Effect" <https://theeffectbook.net>, first and second edition,
Cunningham, Scott (2021 and 2025, ISBN-13: 978-0-300-25168-5) "Causal Inference: The Mixtape",
and Hernán, Miguel and James Robins (2020) "Causal Inference: What If"
<https://www.hsph.harvard.edu/miguel-hernan/causal-inference-book/>.
Author: Nick Huntington-Klein [aut, cre]
,
Malcolm Barrett [aut]
Maintainer: Nick Huntington-Klein <nhuntington-klein@seattleu.edu>
Diff between causaldata versions 0.1.3 dated 2021-12-01 and 0.1.4 dated 2024-10-24
DESCRIPTION | 12 +-- MD5 | 69 +++++++++++----------- NEWS.md | 4 + R/data.R | 23 +++++++ README.md |only data/ccdrug.rda |only man/Mroz.Rd | 92 ++++++++++++++--------------- man/abortion.Rd | 100 ++++++++++++++++---------------- man/adult_services.Rd | 126 ++++++++++++++++++++--------------------- man/auto.Rd | 80 +++++++++++++------------- man/avocado.Rd | 62 ++++++++++---------- man/black_politicians.Rd | 84 +++++++++++++-------------- man/castle.Rd | 120 +++++++++++++++++++-------------------- man/causaldata-package.Rd | 2 man/ccdrug.Rd |only man/close_college.Rd | 72 +++++++++++------------ man/close_elections_lmb.Rd | 74 ++++++++++++------------ man/cps_mixtape.Rd | 78 ++++++++++++------------- man/credit_cards.Rd | 64 ++++++++++---------- man/gapminder.Rd | 72 +++++++++++------------ man/google_stock.Rd | 62 ++++++++++---------- man/gov_transfers.Rd | 66 ++++++++++----------- man/gov_transfers_density.Rd | 58 +++++++++--------- man/mortgages.Rd | 68 +++++++++++----------- man/nsw_mixtape.Rd | 82 +++++++++++++------------- man/organ_donations.Rd | 64 ++++++++++---------- man/restaurant_inspections.Rd | 66 ++++++++++----------- man/ri.Rd | 66 ++++++++++----------- man/scorecard.Rd | 84 +++++++++++++-------------- man/snow.Rd | 68 +++++++++++----------- man/social_insure.Rd | 82 +++++++++++++------------- man/texas.Rd | 80 +++++++++++++------------- man/thornton_hiv.Rd | 70 +++++++++++----------- man/titanic.Rd | 64 ++++++++++---------- man/training_bias_reduction.Rd | 64 ++++++++++---------- man/training_example.Rd | 74 ++++++++++++------------ man/yule.Rd | 66 ++++++++++----------- 37 files changed, 1174 insertions(+), 1144 deletions(-)
Title: Tau-Leaping Stochastic Simulation
Description: Implements adaptive tau leaping to approximate the
trajectory of a continuous-time stochastic process as
described by Cao et al. (2007) The Journal of Chemical Physics
<doi:10.1063/1.2745299> (aka. the Gillespie stochastic
simulation algorithm). This package is based upon work
supported by NSF DBI-0906041 and NIH K99-GM104158 to Philip
Johnson and NIH R01-AI049334 to Rustom Antia.
Author: Philip Johnson [aut, cre]
Maintainer: Philip Johnson <plfj@umd.edu>
Diff between adaptivetau versions 2.3-1 dated 2024-04-17 and 2.3-2 dated 2024-10-24
DESCRIPTION | 17 +++++++++++------ MD5 | 10 +++++----- NEWS | 7 +++++++ inst/doc/adaptivetau.pdf |binary src/Rwrappers.h | 44 +++++++++++++++++++++----------------------- src/adaptivetau.cpp | 39 +++++++++++++++++++++------------------ 6 files changed, 65 insertions(+), 52 deletions(-)
Title: Tidy Processing and Analysis of Biological Sequences
Description: A tidy approach to analysis of biological sequences. All processing and data-storage functions are heavily optimized to allow the fastest and most efficient data storage.
Author: Dominik Rafacz [cre, aut] ,
Michal Burdukiewicz [aut] ,
Laura Bakala [aut],
Leon Eyrich Jessen [ctb] ,
Stefan Roediger [ctb] ,
Jadwiga Slowik [ctb] ,
Weronika Puchala [ctb] ,
Katarzyna Sidorczuk [ctb],
Filip Pietluch [ctb],
Jaroslaw Chilimoniuk [ctb] [...truncated...]
Maintainer: Dominik Rafacz <dominikrafacz@gmail.com>
Diff between tidysq versions 1.2.1 dated 2024-10-06 and 1.2.2 dated 2024-10-24
DESCRIPTION | 8 - MD5 | 18 +-- NEWS.md | 5 inst/WORDLIST | 89 +++++++++-------- inst/include/tidysq/ProtoSq.h | 4 inst/include/tidysq/Sq.h | 2 inst/include/tidysq/sqapply.h | 2 man/export_sq.Rd | 186 ++++++++++++++++++------------------ man/import_sq.Rd | 212 +++++++++++++++++++++--------------------- src/RcppExports.cpp | 2 10 files changed, 269 insertions(+), 259 deletions(-)
Title: Regression and Clustering in Multivariate Response Scenarios
Description: Fitting multivariate response models with random effects on one or two levels; whereby the (one-dimensional) random effect represents a latent variable approximating the multivariate space of outcomes, after possible adjustment for covariates. The method is particularly useful for multivariate, highly correlated outcome variables with unobserved heterogeneities. Applications include regression with multivariate responses, as well as multivariate clustering or ranking problems. See Zhang and Einbeck (2024) <doi:10.1007/s42519-023-00357-0>.
Author: Yingjuan Zhang [aut, cre],
Jochen Einbeck [aut, ctb]
Maintainer: Yingjuan Zhang <yingjuan.zhang@durham.ac.uk>
Diff between mult.latent.reg versions 0.1.9 dated 2024-09-06 and 0.2.0 dated 2024-10-24
mult.latent.reg-0.1.9/mult.latent.reg/man/open-curly-mult.latent.reg-close.Rd |only mult.latent.reg-0.2.0/mult.latent.reg/DESCRIPTION | 6 mult.latent.reg-0.2.0/mult.latent.reg/MD5 | 14 mult.latent.reg-0.2.0/mult.latent.reg/R/mult.latent.reg-package.R | 4 mult.latent.reg-0.2.0/mult.latent.reg/R/start.em.1level.R | 171 +++++++++- mult.latent.reg-0.2.0/mult.latent.reg/R/start.em.2level.R | 164 ++++++++- mult.latent.reg-0.2.0/mult.latent.reg/man/mult.em_1level.Rd | 7 mult.latent.reg-0.2.0/mult.latent.reg/man/mult.em_2level.Rd | 9 mult.latent.reg-0.2.0/mult.latent.reg/man/mult.latent.reg.Rd |only 9 files changed, 342 insertions(+), 33 deletions(-)
More information about mult.latent.reg at CRAN
Permanent link
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2022-07-20 0.4.1
2021-12-02 0.4
2021-05-02 0.3.1
2021-04-22 0.3.0
Title: Statistical Methods for Regional Counts
Description: Implements statistical methods for analyzing the counts of areal data, with a focus on the detection of spatial clusters and clustering. The package has a heavy emphasis on spatial scan methods, which were first introduced by Kulldorff and Nagarwalla (1995) <doi:10.1002/sim.4780140809> and Kulldorff (1997) <doi:10.1080/03610929708831995>.
Author: Joshua French [aut, cre] ,
Mohammad Meysami [ctb]
Maintainer: Joshua French <joshua.french@ucdenver.edu>
Diff between smerc versions 1.8.3 dated 2023-10-10 and 1.8.4 dated 2024-10-24
DESCRIPTION | 8 ++++---- MD5 | 24 ++++++++++++------------ R/noc_enn.R | 4 +++- R/noc_nn.R | 4 +++- R/scan.test2.R | 8 +++++--- R/smerc_cluster-summary.R | 2 +- build/partial.rdb |binary build/vignette.rds |binary inst/doc/smerc_demo.R | 8 ++++---- inst/doc/smerc_demo.html | 26 +++++++++++++------------- man/lget.Rd | 2 +- man/smerc.Rd | 2 +- man/summary.smerc_cluster.Rd | 6 +----- 13 files changed, 48 insertions(+), 46 deletions(-)
Title: R Commander
Description: A platform-independent basic-statistics GUI (graphical user interface) for R, based on the tcltk package.
Author: John Fox [aut, cre],
Milan Bouchet-Valat [aut],
Manuel Munoz Marquez [aut],
Liviu Andronic [ctb],
Michael Ash [ctb],
Theophilius Boye [ctb],
Stefano Calza [ctb],
Andy Chang [ctb],
Vilmantas Gegzna [ctb],
Philippe Grosjean [ctb],
Richard Heiberger [ct [...truncated...]
Maintainer: John Fox <jfox@mcmaster.ca>
Diff between Rcmdr versions 2.9-4 dated 2024-10-04 and 2.9-5 dated 2024-10-24
DESCRIPTION | 8 MD5 | 12 NEWS | 4 inst/doc/Empezando-con-Rcmdr-es.pdf |binary inst/doc/Getting-Started-with-the-Rcmdr.pdf |binary man/Commander-es.Rd | 429 ++++++++++++++-------------- man/Rcmdr-package.Rd | 4 7 files changed, 231 insertions(+), 226 deletions(-)
Title: Handwriting Analysis in R
Description: Perform statistical writership analysis of scanned handwritten documents.
Webpage provided at: <https://github.com/CSAFE-ISU/handwriter>.
Author: Iowa State University of Science and Technology on behalf of its Center
for Statistics and Applications in Forensic Evidence [aut, cph,
fnd],
Nick Berry [aut],
Stephanie Reinders [aut, cre],
James Taylor [aut],
Felix Baez-Santiago [ctb],
Jon Gonzalez [...truncated...]
Maintainer: Stephanie Reinders <srein@iastate.edu>
Diff between handwriter versions 3.2.0 dated 2024-10-09 and 3.2.1 dated 2024-10-24
DESCRIPTION | 6 +++--- MD5 | 15 ++++++++------- NAMESPACE | 1 + NEWS.md | 12 ++++++++++++ R/cluster_assignment.R | 10 +++++----- R/cluster_format.R | 12 +++++++++--- R/plot.R | 26 +++++++++++++++++++++++--- README.md | 8 ++++---- man/plot_graphs.Rd |only 9 files changed, 65 insertions(+), 25 deletions(-)
Title: Nested Cross Validation for the Relaxed Lasso and Other Machine
Learning Models
Description: Cross validation informed Relaxed LASSO, Artificial Neural Network (ANN), gradient boosting machine ('xgboost'), Random Forest ('RandomForestSRC'), Oblique Random Forest ('aorsf'), Recursive Partitioning ('RPART') or step wise regression models are fit. Cross validation leave out samples (leading to nested cross validation) or bootstrap out-of-bag samples are used to evaluate and compare performances between these models with results presented in tabular or graphical means. Calibration plots can also be generated, again based upon (outer nested) cross validation or bootstrap leave out (out of bag) samples.
For some datasets, for example when the design matrix is not of full rank, 'glmnet' may have very long run times when fitting the relaxed lasso model, from our experience when fitting Cox models on data with many predictors and many patients, making it difficult to get solutions from either glmnet() or cv.glmnet(). This may be remedied by using the 'path=TRUE' option when calling [...truncated...]
Author: Walter K Kremers [aut, cre] ,
Nicholas B Larson [ctb]
Maintainer: Walter K Kremers <kremers.walter@mayo.edu>
Diff between glmnetr versions 0.5-3 dated 2024-08-28 and 0.5-4 dated 2024-10-24
glmnetr-0.5-3/glmnetr/R/calplot_240708.R |only glmnetr-0.5-3/glmnetr/R/nested.glmnetr_240824.R |only glmnetr-0.5-3/glmnetr/R/xgbm_tuned_240322.R |only glmnetr-0.5-3/glmnetr/inst/doc/An_Overview_of_glmnetr_240828.pdf |only glmnetr-0.5-3/glmnetr/inst/doc/An_Overview_of_glmnetr_240828.pdf.asis |only glmnetr-0.5-3/glmnetr/inst/doc/Calibration_240828.pdf |only glmnetr-0.5-3/glmnetr/inst/doc/Calibration_240828.pdf.asis |only glmnetr-0.5-3/glmnetr/inst/doc/Ridge_and_Lasso_240322.pdf |only glmnetr-0.5-3/glmnetr/inst/doc/Ridge_and_Lasso_240322.pdf.asis |only glmnetr-0.5-3/glmnetr/inst/doc/Using_ann_tab_cv_240828.pdf |only glmnetr-0.5-3/glmnetr/inst/doc/Using_ann_tab_cv_240828.pdf.asis |only glmnetr-0.5-3/glmnetr/inst/doc/Using_stepreg_240828.pdf |only glmnetr-0.5-3/glmnetr/inst/doc/Using_stepreg_240828.pdf.asis |only glmnetr-0.5-3/glmnetr/vignettes/An_Overview_of_glmnetr_240828.Rmd |only glmnetr-0.5-3/glmnetr/vignettes/An_Overview_of_glmnetr_240828.pdf.asis |only glmnetr-0.5-3/glmnetr/vignettes/Calibration_240828.Rmd |only glmnetr-0.5-3/glmnetr/vignettes/Calibration_240828.pdf.asis |only glmnetr-0.5-3/glmnetr/vignettes/Ridge_and_Lasso_240322.Rmd |only glmnetr-0.5-3/glmnetr/vignettes/Ridge_and_Lasso_240322.pdf.asis |only glmnetr-0.5-3/glmnetr/vignettes/Using_ann_tab_cv_240828.Rmd |only glmnetr-0.5-3/glmnetr/vignettes/Using_ann_tab_cv_240828.pdf.asis |only glmnetr-0.5-3/glmnetr/vignettes/Using_stepreg_240828.Rmd |only glmnetr-0.5-3/glmnetr/vignettes/Using_stepreg_240828.pdf.asis |only glmnetr-0.5-4/glmnetr/DESCRIPTION | 8 - glmnetr-0.5-4/glmnetr/MD5 | 58 +++++----- glmnetr-0.5-4/glmnetr/R/calplot_241022.R |only glmnetr-0.5-4/glmnetr/R/nested.glmnetr_241020.R |only glmnetr-0.5-4/glmnetr/R/xgbm_tuned_240905.R |only glmnetr-0.5-4/glmnetr/build/vignette.rds |binary glmnetr-0.5-4/glmnetr/inst/doc/An_Overview_of_glmnetr_241024.pdf |only glmnetr-0.5-4/glmnetr/inst/doc/An_Overview_of_glmnetr_241024.pdf.asis |only glmnetr-0.5-4/glmnetr/inst/doc/Calibration_241024.pdf |only glmnetr-0.5-4/glmnetr/inst/doc/Calibration_241024.pdf.asis |only glmnetr-0.5-4/glmnetr/inst/doc/Ridge_and_Lasso_241024.pdf |only glmnetr-0.5-4/glmnetr/inst/doc/Ridge_and_Lasso_241024.pdf.asis |only glmnetr-0.5-4/glmnetr/inst/doc/Using_ann_tab_cv_241024.pdf |only glmnetr-0.5-4/glmnetr/inst/doc/Using_ann_tab_cv_241024.pdf.asis |only glmnetr-0.5-4/glmnetr/inst/doc/Using_stepreg_241024.pdf |only glmnetr-0.5-4/glmnetr/inst/doc/Using_stepreg_241024.pdf.asis |only glmnetr-0.5-4/glmnetr/man/calplot.Rd | 37 ++++-- glmnetr-0.5-4/glmnetr/man/nested.glmnetr.Rd | 4 glmnetr-0.5-4/glmnetr/man/xgb.simple.Rd | 2 glmnetr-0.5-4/glmnetr/man/xgb.tuned.Rd | 4 glmnetr-0.5-4/glmnetr/vignettes/An_Overview_of_glmnetr_241024.Rmd |only glmnetr-0.5-4/glmnetr/vignettes/An_Overview_of_glmnetr_241024.pdf.asis |only glmnetr-0.5-4/glmnetr/vignettes/Calibration_241024.Rmd |only glmnetr-0.5-4/glmnetr/vignettes/Calibration_241024.pdf.asis |only glmnetr-0.5-4/glmnetr/vignettes/Ridge_and_Lasso_241024.Rmd |only glmnetr-0.5-4/glmnetr/vignettes/Ridge_and_Lasso_241024.pdf.asis |only glmnetr-0.5-4/glmnetr/vignettes/Using_ann_tab_cv_241024.Rmd |only glmnetr-0.5-4/glmnetr/vignettes/Using_ann_tab_cv_241024.pdf.asis |only glmnetr-0.5-4/glmnetr/vignettes/Using_stepreg_241024.Rmd |only glmnetr-0.5-4/glmnetr/vignettes/Using_stepreg_241024.pdf.asis |only 53 files changed, 63 insertions(+), 50 deletions(-)
Title: Miscellaneous Functions 'T. Yanagida'
Description: Miscellaneous functions for (1) data management (e.g., grand-mean and group-mean centering, coding variables and reverse coding items, scale and cluster scores, reading and writing Excel and SPSS files), (2) descriptive statistics (e.g., frequency table, cross tabulation, effect size measures), (3) missing data (e.g., descriptive statistics for missing data, missing data pattern, Little's test of Missing Completely at Random, and auxiliary variable analysis), (4) multilevel data (e.g., multilevel descriptive statistics, within-group and between-group correlation matrix, multilevel confirmatory factor analysis, level-specific fit indices, cross-level measurement equivalence evaluation, multilevel composite reliability, and multilevel R-squared measures), (5) item analysis (e.g., confirmatory factor analysis, coefficient alpha and omega, between-group and longitudinal measurement equivalence evaluation), (6) statistical analysis (e.g., confidence intervals, collinearity and residual diag [...truncated...]
Author: Takuya Yanagida [aut, cre]
Maintainer: Takuya Yanagida <takuya.yanagida@univie.ac.at>
Diff between misty versions 0.6.7 dated 2024-09-18 and 0.6.8 dated 2024-10-24
DESCRIPTION | 13 +- MD5 | 68 ++++++----- NAMESPACE | 6 + NEWS.md | 26 ++++ R/blimp.plot.R | 14 +- R/blimp.print.R | 4 R/blimp.update.R | 4 R/check.outlier.R | 2 R/check.resid.R | 4 R/ci.prop.R | 2 R/dominance.R | 3 R/mplus.plot.R | 42 +++---- R/mplus.print.R | 293 ++++++++++++++++++++++++++----------------------- R/mplus.run.R | 3 R/mplus.update.R | 8 - R/multilevel.fit.R | 2 R/na.descript.R | 2 R/na.indicator.R | 9 - R/na.satcor.R |only R/na.test.R | 20 +-- R/print.misty.object.R | 12 +- R/read.data.R |only R/read.sav.R | 2 R/read.xlsx.R | 6 - R/result.lca.R | 2 R/std.coef.R | 2 R/test.welch.R | 2 R/utils.R | 40 +++++- R/write.result.R | 2 man/blimp.update.Rd | 2 man/mplus.update.Rd | 8 - man/na.descript.Rd | 2 man/na.indicator.Rd | 9 - man/na.satcor.Rd |only man/na.test.Rd | 14 +- man/read.data.Rd |only man/read.sav.Rd | 2 37 files changed, 360 insertions(+), 270 deletions(-)
Title: Management of Survey Data and Presentation of Analysis Results
Description: An infrastructure for the management of survey data including
value labels, definable missing values, recoding of variables,
production of code books, and import of (subsets of) 'SPSS' and
'Stata' files is provided. Further, the package allows to produce
tables and data frames of arbitrary descriptive statistics and
(almost) publication-ready tables of regression model
estimates, which can be exported to 'LaTeX' and HTML.
Author: Martin Elff [aut, cre],
Christopher N. Lawrence [ctb],
Dave Atkins [ctb],
Jason W. Morgan [ctb],
Achim Zeileis [ctb],
Mael Astruc-Le Souder [ctb],
Kiril Mueller [ctb],
Pieter Schoonees [ctb]
Maintainer: Martin Elff <memisc@elff.eu>
Diff between memisc versions 0.99.31.8 dated 2024-09-28 and 0.99.31.8.1 dated 2024-10-24
DESCRIPTION | 8 ++++---- MD5 | 8 ++++---- inst/ChangeLog | 15 +++++++++++++++ inst/doc/anes48.html | 2 +- man/items-to-vectors.Rd | 2 ++ 5 files changed, 26 insertions(+), 9 deletions(-)
Title: Distance Sampling Detection Function and Abundance Estimation
Description: A simple way of fitting detection functions to distance sampling
data for both line and point transects. Adjustment term selection, left and
right truncation as well as monotonicity constraints and binning are
supported. Abundance and density estimates can also be calculated (via a
Horvitz-Thompson-like estimator) if survey area information is provided. See
Miller et al. (2019) <doi:10.18637/jss.v089.i01> for more information on
methods and <https://examples.distancesampling.org/> for example analyses.
Author: Laura Marshall [cre],
David Miller [aut],
T.J. Clark-Wolf [aut],
Len Thomas [ctb],
Jeff Laake [ctb],
Eric Rexstad [rev]
Maintainer: Laura Marshall <lhm@st-andrews.ac.uk>
Diff between Distance versions 1.0.9 dated 2023-12-21 and 2.0.0 dated 2024-10-24
DESCRIPTION | 24 ++++++++++++++++++------ MD5 | 24 ++++++++++++------------ NEWS | 6 ++++++ R/Distance-package.R | 4 +++- R/ds.R | 17 +++++++++++------ R/print.summary.dsmodel.R | 2 +- R/summary.dsmodel.R | 2 +- build/partial.rdb |binary man/Distance-package.Rd | 5 ++++- man/ds.Rd | 10 +++++++--- man/print.summary.dsmodel.Rd | 2 +- man/summary.dsmodel.Rd | 2 +- tests/testthat/test_summarize.R | 4 ++-- 13 files changed, 67 insertions(+), 35 deletions(-)
Title: Bayesian Estimation of Structural Vector Autoregressive Models
Description: Provides fast and efficient procedures for Bayesian analysis of Structural Vector Autoregressions. This package estimates a wide range of models, including homo-, heteroskedastic, and non-normal specifications. Structural models can be identified by adjustable exclusion restrictions, time-varying volatility, or non-normality. They all include a flexible three-level equation-specific local-global hierarchical prior distribution for the estimated level of shrinkage for autoregressive and structural parameters. Additionally, the package facilitates predictive and structural analyses such as impulse responses, forecast error variance and historical decompositions, forecasting, verification of heteroskedasticity, non-normality, and hypotheses on autoregressive parameters, as well as analyses of structural shocks, volatilities, and fitted values. Beautiful plots, informative summary functions, and extensive documentation including the vignette by Woźniak (2024) <doi:10.48550/arXiv.2410.15 [...truncated...]
Author: Tomasz Wozniak [aut, cre]
Maintainer: Tomasz Wozniak <wozniak.tom@pm.me>
Diff between bsvars versions 3.1 dated 2024-07-14 and 3.2 dated 2024-10-24
DESCRIPTION | 16 - MD5 | 101 +++--- NEWS.md | 14 R/bsvars-package.R | 54 ++- R/compute_conditional_sd.R | 34 +- R/compute_fitted_values.R | 17 + R/compute_historical_decompositions.R | 10 R/compute_impulse_responses.R | 15 R/compute_regime_probabilities.R | 6 R/compute_structural_shocks.R | 10 R/compute_variance_decompositions.R | 28 + R/estimate.BSVART.R | 6 R/forecast.R | 232 +++++++++++---- R/plot.R | 55 ++- R/specify_bsvar.R | 13 R/us_fiscal_cond_forecasts.R |only R/us_fiscal_ex.R | 4 R/us_fiscal_ex_forecasts.R |only R/us_fiscal_lsuw.R | 4 README.md | 77 +++- build/partial.rdb |binary build/vignette.rds |only data/us_fiscal_cond_forecasts.rda |only data/us_fiscal_ex.rda |binary data/us_fiscal_ex_forecasts.rda |only data/us_fiscal_lsuw.rda |binary inst/CITATION | 13 inst/doc |only man/bsvars-package.Rd | 54 ++- man/compute_variance_decompositions.PosteriorBSVAR.Rd | 3 man/compute_variance_decompositions.PosteriorBSVARMIX.Rd | 3 man/compute_variance_decompositions.PosteriorBSVARMSH.Rd | 3 man/compute_variance_decompositions.PosteriorBSVARSV.Rd | 3 man/compute_variance_decompositions.PosteriorBSVART.Rd | 3 man/compute_variance_decompositions.Rd | 3 man/estimate.BSVART.Rd | 6 man/estimate.PosteriorBSVART.Rd | 6 man/forecast.PosteriorBSVAR.Rd | 38 +- man/forecast.PosteriorBSVARMIX.Rd | 42 +- man/forecast.PosteriorBSVARMSH.Rd | 38 +- man/forecast.PosteriorBSVARSV.Rd | 36 +- man/forecast.PosteriorBSVART.Rd | 40 +- man/forecast.Rd | 38 ++ man/plot.PosteriorFEVD.Rd | 3 man/plot.PosteriorHD.Rd | 3 man/plot.PosteriorIR.Rd | 3 man/plot.PosteriorSigma.Rd | 3 man/us_fiscal_cond_forecasts.Rd |only man/us_fiscal_ex.Rd | 4 man/us_fiscal_ex_forecasts.Rd |only man/us_fiscal_lsuw.Rd | 4 src/forecast.cpp | 2 src/forecast.h | 2 src/sample_t.cpp | 2 vignettes |only 55 files changed, 776 insertions(+), 275 deletions(-)
Title: Management of Deterministic and Stochastic Projects
Description: Management problems of deterministic and stochastic projects. It obtains the duration of a project and the appropriate slack for each activity in a deterministic context. In addition it obtains a schedule of activities' time (Castro, Gómez & Tejada (2007) <doi:10.1016/j.orl.2007.01.003>). It also allows the management of resources. When the project is done, and the actual duration for each activity is known, then it can know how long the project is delayed and make a fair delivery of the delay between each activity (Bergantiños, Valencia-Toledo & Vidal-Puga (2018) <doi:10.1016/j.dam.2017.08.012>). In a stochastic context it can estimate the average duration of the project and plot the density of this duration, as well as, the density of the early and last times of the chosen activities. As in the deterministic case, it can make a distribution of the delay generated by observing the project already carried out.
Author: Juan Carlos Goncalves Dosantos [aut, cre],
Ignacio Garcia Jurado [aut],
Julian Costa Bouzas [aut]
Maintainer: Juan Carlos Goncalves Dosantos <juan.carlos.goncalves@udc.es>
Diff between ProjectManagement versions 1.5.2 dated 2023-09-14 and 2.0.2 dated 2024-10-24
DESCRIPTION | 10 +- MD5 | 22 ++-- NAMESPACE | 6 - R/ProjectManagement.R | 2 R/function_organize.R | 4 R/function_pert_demora.R | 66 ++++++-------- R/function_pert_demora_unions.R |only R/function_pert_estocastico_demora.R | 125 ++++++++++----------------- R/function_pert_estocastico_demora_uniones.R |only R/function_rebuild.R | 8 - man/delay.pert.unions.Rd |only man/delay.stochastic.pert.unions.Rd |only man/organize.Rd | 4 man/rebuild.Rd | 8 - 14 files changed, 113 insertions(+), 142 deletions(-)
More information about ProjectManagement at CRAN
Permanent link
Title: FDR Based Multiple Testing Procedures with Adaptation for
Discrete Tests
Description: Implementations of the multiple testing procedures for discrete
tests described in the paper Döhler, Durand and Roquain (2018) "New FDR
bounds for discrete and heterogeneous tests" <doi:10.1214/18-EJS1441>. The
main procedures of the paper (HSU and HSD), their adaptive counterparts
(AHSU and AHSD), and the HBR variant are available and are coded to take as
input the results of a test procedure from package 'DiscreteTests', or a set
of observed p-values and their discrete support under their nulls. A
shortcut function to obtain such p-values and supports is also provided,
along with a wrapper allowing to apply discrete procedures directly to data.
Author: Sebastian Doehler [aut, ctb] ,
Florian Junge [aut, ctb, cre] ,
Guillermo Durand [aut, ctb],
Etienne Roquain [ctb],
Christina Kihn [ctb]
Maintainer: Florian Junge <diso.fbmn@h-da.de>
Diff between DiscreteFDR versions 2.0.0 dated 2024-07-08 and 2.0.1 dated 2024-10-24
DiscreteFDR-2.0.0/DiscreteFDR/R/amnesia.R |only DiscreteFDR-2.0.0/DiscreteFDR/data |only DiscreteFDR-2.0.0/DiscreteFDR/man/amnesia.Rd |only DiscreteFDR-2.0.0/DiscreteFDR/src/kernel_fun.cpp |only DiscreteFDR-2.0.1/DiscreteFDR/DESCRIPTION | 26 DiscreteFDR-2.0.1/DiscreteFDR/MD5 | 77 - DiscreteFDR-2.0.1/DiscreteFDR/NAMESPACE | 1 DiscreteFDR-2.0.1/DiscreteFDR/NEWS.md | 10 DiscreteFDR-2.0.1/DiscreteFDR/R/Aux_fun.R | 60 - DiscreteFDR-2.0.1/DiscreteFDR/R/DBR_fun.R | 2 DiscreteFDR-2.0.1/DiscreteFDR/R/DiscreteFDR-package.R | 122 +- DiscreteFDR-2.0.1/DiscreteFDR/R/RcppExports.R | 73 - DiscreteFDR-2.0.1/DiscreteFDR/R/discreteBH_fun.R | 2 DiscreteFDR-2.0.1/DiscreteFDR/R/discreteFDR_fun.R | 12 DiscreteFDR-2.0.1/DiscreteFDR/R/fast_appli.R | 2 DiscreteFDR-2.0.1/DiscreteFDR/R/plot_funs.R | 72 + DiscreteFDR-2.0.1/DiscreteFDR/R/print_fun.R | 106 +- DiscreteFDR-2.0.1/DiscreteFDR/R/summary_funs.R | 200 ++-- DiscreteFDR-2.0.1/DiscreteFDR/R/support.R | 29 DiscreteFDR-2.0.1/DiscreteFDR/inst/doc/DiscreteFDR.html | 138 +- DiscreteFDR-2.0.1/DiscreteFDR/inst/doc/furtheranalyses.Rmd | 590 ++++++------ DiscreteFDR-2.0.1/DiscreteFDR/inst/doc/furtheranalyses.html | 18 DiscreteFDR-2.0.1/DiscreteFDR/inst/doc/toyexample.Rmd | 4 DiscreteFDR-2.0.1/DiscreteFDR/inst/doc/toyexample.html | 80 - DiscreteFDR-2.0.1/DiscreteFDR/man/ADBH.Rd | 22 DiscreteFDR-2.0.1/DiscreteFDR/man/DBH.Rd | 22 DiscreteFDR-2.0.1/DiscreteFDR/man/DBR.Rd | 22 DiscreteFDR-2.0.1/DiscreteFDR/man/DiscreteFDR.Rd | 6 DiscreteFDR-2.0.1/DiscreteFDR/man/direct.discrete.BH.Rd | 4 DiscreteFDR-2.0.1/DiscreteFDR/man/discrete.BH.Rd | 22 DiscreteFDR-2.0.1/DiscreteFDR/man/fast.Discrete.Rd | 24 DiscreteFDR-2.0.1/DiscreteFDR/man/generate.pvalues.Rd | 17 DiscreteFDR-2.0.1/DiscreteFDR/man/hist.DiscreteFDR.Rd | 19 DiscreteFDR-2.0.1/DiscreteFDR/man/kernel.Rd | 64 - DiscreteFDR-2.0.1/DiscreteFDR/man/match.pvals.Rd | 18 DiscreteFDR-2.0.1/DiscreteFDR/src/RcppExports.cpp | 9 DiscreteFDR-2.0.1/DiscreteFDR/src/helper.h | 29 DiscreteFDR-2.0.1/DiscreteFDR/src/kernel.h |only DiscreteFDR-2.0.1/DiscreteFDR/src/kernel_ADBH.cpp |only DiscreteFDR-2.0.1/DiscreteFDR/src/kernel_DBH.cpp |only DiscreteFDR-2.0.1/DiscreteFDR/src/kernel_DBR.cpp |only DiscreteFDR-2.0.1/DiscreteFDR/src/kernel_common.cpp |only DiscreteFDR-2.0.1/DiscreteFDR/vignettes/furtheranalyses.Rmd | 590 ++++++------ DiscreteFDR-2.0.1/DiscreteFDR/vignettes/toyexample.Rmd | 4 44 files changed, 1310 insertions(+), 1186 deletions(-)
Title: Prepare American Psychological Association Journal Articles with
R Markdown
Description: Tools to create dynamic, submission-ready manuscripts, which
conform to American Psychological Association manuscript guidelines. We
provide R Markdown document formats for manuscripts (PDF and Word) and
revision letters (PDF). Helper functions facilitate reporting statistical
analyses or create publication-ready tables and plots.
Author: Frederik Aust [aut, cre] ,
Marius Barth [aut] ,
Birk Diedenhofen [ctb],
Christoph Stahl [ctb],
Joseph V. Casillas [ctb],
Rudolf Siegel [ctb]
Maintainer: Frederik Aust <frederik.aust@uni-koeln.de>
Diff between papaja versions 0.1.2 dated 2023-09-29 and 0.1.3 dated 2024-10-24
DESCRIPTION | 22 MD5 | 168 NAMESPACE | 3 R/add_custom_effect_sizes.R | 5 R/apa6_formats.R | 8 R/apa_barplot.R | 4 R/apa_beeplot.R | 4 R/apa_factorial_plot.R | 88 R/apa_interval.R | 73 R/apa_lineplot.R | 7 R/apa_print_BFBayesFactor.R | 16 R/apa_print_anova.R | 74 R/apa_print_emm_lsm.R | 24 R/apa_print_glm.R | 2 R/apa_print_htest.R | 7 R/apa_print_wsci.R | 12 R/apa_violinplot.R |only R/arrange_anova.R | 7 R/calculations.R | 28 R/cite_r.R | 34 R/generate_author_yml.R | 3 R/lookup_tables.R | 33 R/onload.R | 14 R/print_anova.R | 3 R/revision_letter_format.R | 8 R/tidy_es.R | 12 R/utils.R | 25 R/utils_text.R | 6 README.md | 40 build/partial.rdb |binary build/vignette.rds |binary inst/CITATION | 1 inst/NEWS.html |only inst/NEWS.md | 37 inst/WORDLIST | 2 inst/doc/extending_apa_print.html | 20 inst/lua/docx_fixes.lua | 58 inst/rmarkdown/templates/apa6/resources/apa6_header_includes.tex | 3 inst/rmarkdown/templates/revision_letter/resources/revision_letter.tex | 36 inst/rmd/apa6-annotated-no-disambiguation.csl | 68 inst/rmd/apa6-annotated.csl | 68 inst/rmd/apa6-no-disambiguation.csl | 68 inst/rmd/apa6.csl | 68 inst/rmd/apa7-annotated-no-disambiguation.csl | 1736 +++++----- inst/rmd/apa7-annotated.csl | 1736 +++++----- inst/rmd/apa7-no-disambiguation.csl | 1736 +++++----- inst/rmd/apa7.csl | 1736 +++++----- man/add_effect_sizes.Rd | 4 man/apa_barplot.Rd | 15 man/apa_beeplot.Rd | 15 man/apa_factorial_plot.Rd | 17 man/apa_interval.Rd | 62 man/apa_lineplot.Rd | 17 man/apa_num.Rd | 5 man/apa_print.BFBayesFactor.Rd | 6 man/apa_print.Rd | 2 man/apa_print.aov.Rd | 47 man/apa_print.emmGrid.Rd | 19 man/apa_print.glht.Rd | 6 man/apa_print.glm.Rd | 17 man/apa_print.htest.Rd | 21 man/apa_print.list.Rd | 6 man/apa_print.lme.Rd | 4 man/apa_print.merMod.Rd | 4 man/apa_print.papaja_wsci.Rd | 13 man/apa_table.Rd | 4 man/apa_violinplot.Rd |only man/arrange_regression.Rd | 4 man/cite_r.Rd | 4 man/extract_apa_results_table.Rd | 6 man/glue_apa_results.Rd | 4 man/init_apa_results.Rd | 4 man/lookup_tables.Rd | 4 man/papaja.Rd | 2 man/parse_bcp47.Rd |only man/quote_from_tex.Rd | 2 man/revision_letter_pdf.Rd | 10 tests/testthat/helper-structure.R | 9 tests/testthat/test-generate_author_yml.R | 24 tests/testthat/test_apa_print_anova.R | 145 tests/testthat/test_apa_print_htest.R | 16 tests/testthat/test_apa_print_model_comp.R | 11 tests/testthat/test_apa_print_wsci.R | 2 tests/testthat/test_calculations.R | 9 tests/testthat/test_custom_effect_sizes.R | 2 tests/testthat/test_meta.R | 6 tests/testthat/test_transmute_df_into_label.R | 2 87 files changed, 5118 insertions(+), 3535 deletions(-)
Title: Estimate the Four Parameters of Stable Laws using Different
Methods
Description: Estimate the four parameters of stable laws using maximum
likelihood method, generalised method of moments with
finite and continuum number of points, iterative
Koutrouvelis regression and Kogon-McCulloch method. The
asymptotic properties of the estimators (covariance
matrix, confidence intervals) are also provided.
Author: Tarak Kharrat [aut],
Georgi N. Boshnakov [aut, cre]
Maintainer: Georgi N. Boshnakov <georgi.boshnakov@manchester.ac.uk>
Diff between StableEstim versions 2.2 dated 2022-08-07 and 2.3 dated 2024-10-24
DESCRIPTION | 11 MD5 | 10 NEWS.md | 5 build/partial.rdb |binary inst/REFERENCES.bib | 2114 ++++++++++++++++++++++++++-------------------------- man/get.abMat.Rd | 2 6 files changed, 1073 insertions(+), 1069 deletions(-)
Title: Spatially Aware Cell-Cell Interaction Analysis
Description: Provides tools for analyzing spatial cell-cell interactions based on ligand-receptor pairs, including functions for local, regional, and global analysis using spatial transcriptomics data. Integrates with databases like 'CellChat' <http://www.cellchat.org/>, 'CellPhoneDB' <https://www.cellphonedb.org/>, 'Cellinker' <https://www.rna-society.org/cellinker/>, 'ICELLNET' <https://github.com/soumelis-lab/ICELLNET>, and 'ConnectomeDB' <https://humanconnectome.org/software/connectomedb/> to identify ligand-receptor pairs, visualize interactions through heatmaps, chord diagrams, and infer interactions on different spatial scales.
Author: Li-Ting Ku [aut, cre]
Maintainer: Li-Ting Ku <lku@mdanderson.org>
Diff between SpaCCI versions 1.0 dated 2024-09-30 and 1.0.2 dated 2024-10-24
DESCRIPTION | 8 ++++---- MD5 | 6 +++--- R/modeling.R | 12 ++++++++++-- R/run_SpaCCI.R | 4 ++-- 4 files changed, 19 insertions(+), 11 deletions(-)
Title: Converts 'Monolix' Models to 'rxode2'
Description: 'Monolix' is a tool for running mixed effects model using
'saem'. This tool allows you to convert 'Monolix' models to 'rxode2'
(Wang, Hallow and James (2016) <doi:10.1002/psp4.12052>) using the
form compatible with 'nlmixr2' (Fidler et al (2019) <doi:10.1002/psp4.12445>).
If available, the 'rxode2' model will
read in the 'Monolix' data and compare the simulation for the
population model individual model and residual
model to immediately show how well the translation is
performing. This saves the model development time for people who are
creating an 'rxode2' model manually. Additionally, this package reads
in all the information to allow simulation with uncertainty (that is the
number of observations, the number of subjects, and the covariance
matrix) with a 'rxode2' model. This is complementary to the
'babelmixr2' package that translates 'nlmixr2' models to 'Monolix' and can
convert the objects converted from 'monolix2rx' to a full 'nlmixr2' fit. While not
required, you c [...truncated...]
Author: Matthew Fidler [aut, cre] ,
Justin Wilkins [ctb]
Maintainer: Matthew Fidler <matthew.fidler@gmail.com>
Diff between monolix2rx versions 0.0.1 dated 2024-09-20 and 0.0.3 dated 2024-10-24
DESCRIPTION | 13 +++++++------ MD5 | 8 ++++---- NEWS.md | 13 +++++++++++++ R/def2ini.R | 17 ++++++++++++++++- R/equation.R | 2 ++ 5 files changed, 42 insertions(+), 11 deletions(-)
Title: Scrape and Analyze 'Goodreads' Book Data
Description: A comprehensive toolkit for scraping and analyzing book data from <https://www.goodreads.com/>. This package provides functions to search for books, scrape book details and reviews, perform sentiment analysis on reviews, and conduct topic modeling. It's designed for researchers, data analysts, and book enthusiasts who want to gain insights from 'Goodreads' data.
Author: Chao Liu [aut, cre, cph]
Maintainer: Chao Liu <chaoliu@cedarville.edu>
Diff between Goodreader versions 0.1.1 dated 2024-08-30 and 0.1.2 dated 2024-10-24
Goodreader-0.1.1/Goodreader/man/figures/logo.png |only Goodreader-0.1.2/Goodreader/DESCRIPTION | 9 Goodreader-0.1.2/Goodreader/MD5 | 117 +- Goodreader-0.1.2/Goodreader/NAMESPACE | 162 +-- Goodreader-0.1.2/Goodreader/NEWS.md | 2 Goodreader-0.1.2/Goodreader/R/get_author_info.R | 82 - Goodreader-0.1.2/Goodreader/R/get_book_ids.R | 64 - Goodreader-0.1.2/Goodreader/R/get_book_summary.R | 92 +- Goodreader-0.1.2/Goodreader/R/get_format_info.R | 90 - Goodreader-0.1.2/Goodreader/R/get_genres.R | 116 +- Goodreader-0.1.2/Goodreader/R/get_num_pages.R | 120 +- Goodreader-0.1.2/Goodreader/R/get_published_time.R | 88 - Goodreader-0.1.2/Goodreader/R/get_rating_distribution.R | 112 +- Goodreader-0.1.2/Goodreader/R/scrape_books.R | 344 +++---- Goodreader-0.1.2/Goodreader/R/scrape_reviews.R | 336 +++---- Goodreader-0.1.2/Goodreader/R/search_goodreads.R | 224 ++-- Goodreader-0.1.2/Goodreader/R/sentiment_analysis.R | 302 +++--- Goodreader-0.1.2/Goodreader/R/sentiment_plots.R | 286 +++--- Goodreader-0.1.2/Goodreader/R/topic_modeling.R | 404 ++++---- Goodreader-0.1.2/Goodreader/R/topic_visualization.R | 458 +++++----- Goodreader-0.1.2/Goodreader/README.md | 9 Goodreader-0.1.2/Goodreader/build/vignette.rds |binary Goodreader-0.1.2/Goodreader/inst/doc/Intro_to_Goodreader.R | 51 - Goodreader-0.1.2/Goodreader/inst/doc/Intro_to_Goodreader.Rmd | 40 Goodreader-0.1.2/Goodreader/inst/doc/Intro_to_Goodreader.html | 36 Goodreader-0.1.2/Goodreader/man/analyze_sentiment.Rd | 88 - Goodreader-0.1.2/Goodreader/man/average_book_sentiment.Rd | 88 - Goodreader-0.1.2/Goodreader/man/figures/Goodreader.png |only Goodreader-0.1.2/Goodreader/man/fit_lda.Rd | 86 - Goodreader-0.1.2/Goodreader/man/gen_topic_clouds.Rd | 86 - Goodreader-0.1.2/Goodreader/man/get_author_info.Rd | 60 - Goodreader-0.1.2/Goodreader/man/get_book_ids.Rd | 66 - Goodreader-0.1.2/Goodreader/man/get_book_summary.Rd | 60 - Goodreader-0.1.2/Goodreader/man/get_format_info.Rd | 64 - Goodreader-0.1.2/Goodreader/man/get_genres.Rd | 70 - Goodreader-0.1.2/Goodreader/man/get_num_pages.Rd | 60 - Goodreader-0.1.2/Goodreader/man/get_published_time.Rd | 60 - Goodreader-0.1.2/Goodreader/man/get_rating_distribution.Rd | 64 - Goodreader-0.1.2/Goodreader/man/model_topics.Rd | 94 +- Goodreader-0.1.2/Goodreader/man/plot_topic_heatmap.Rd | 72 - Goodreader-0.1.2/Goodreader/man/plot_topic_prevalence.Rd | 72 - Goodreader-0.1.2/Goodreader/man/plot_topic_terms.Rd | 76 - Goodreader-0.1.2/Goodreader/man/preprocess_reviews.Rd | 88 - Goodreader-0.1.2/Goodreader/man/replace_special_chars.Rd | 34 Goodreader-0.1.2/Goodreader/man/scrape_books.Rd | 68 - Goodreader-0.1.2/Goodreader/man/scrape_reviews.Rd | 80 - Goodreader-0.1.2/Goodreader/man/search_goodreads.Rd | 62 - Goodreader-0.1.2/Goodreader/man/sentiment_histogram.Rd | 94 +- Goodreader-0.1.2/Goodreader/man/sentiment_trend.Rd | 102 +- Goodreader-0.1.2/Goodreader/man/top_terms.Rd | 86 - Goodreader-0.1.2/Goodreader/tests/testthat.R | 24 Goodreader-0.1.2/Goodreader/tests/testthat/test-scrape_books.R | 142 +-- Goodreader-0.1.2/Goodreader/tests/testthat/test-scrape_reviews.R | 36 Goodreader-0.1.2/Goodreader/tests/testthat/test-search_goodreads.R | 34 Goodreader-0.1.2/Goodreader/tests/testthat/test-sentiment_analysis.R | 100 +- Goodreader-0.1.2/Goodreader/tests/testthat/test-sentiment_plots.R | 106 +- Goodreader-0.1.2/Goodreader/tests/testthat/test-topic_modeling.R | 106 +- Goodreader-0.1.2/Goodreader/tests/testthat/test-topic_visualization.R | 76 - Goodreader-0.1.2/Goodreader/tests/testthat/test-utilities.R | 162 +-- Goodreader-0.1.2/Goodreader/vignettes/Intro_to_Goodreader.Rmd | 40 Goodreader-0.1.2/Goodreader/vignettes/parent_books.txt |only 61 files changed, 3095 insertions(+), 3055 deletions(-)
Title: Documentation for 'distr' Family of R Packages
Description: Provides documentation in form of a common vignette to packages 'distr',
'distrEx', 'distrMod', 'distrSim', 'distrTEst', 'distrTeach', and 'distrEllipse'.
Author: Florian Camphausen [ctb] ,
Matthias Kohl [aut, cph],
Peter Ruckdeschel [cre, cph],
Thomas Stabla [ctb]
Maintainer: Peter Ruckdeschel <peter.ruckdeschel@uni-oldenburg.de>
Diff between distrDoc versions 2.8.2 dated 2024-02-01 and 2.8.4 dated 2024-10-24
DESCRIPTION | 16 ++++++++-------- MD5 | 14 +++++++------- build/vignette.rds |binary inst/NEWS | 5 +++++ inst/doc/distr.Rnw | 11 ++++++----- inst/doc/distr.pdf |binary man/0distrDoc-package.Rd | 6 +++--- vignettes/distr.Rnw | 11 ++++++----- 8 files changed, 35 insertions(+), 28 deletions(-)
Title: Package Admix for Admixture (aka Contamination) Models
Description: Implements techniques to estimate the unknown quantities
related to two-component admixture models, where the two components
can belong to any distribution (note that in the case of multinomial
mixtures, the two components must belong to the same family).
Estimation methods depend on the assumptions made on the unknown
component density; see Bordes and Vandekerkhove (2010)
<doi:10.3103/S1066530710010023>, Patra and Sen (2016)
<doi:10.1111/rssb.12148>, and Milhaud, Pommeret, Salhi, Vandekerkhove
(2024) <doi:10.3150/23-BEJ1593>. In practice, one can estimate both
the mixture weight and the unknown component density in a wide variety
of frameworks. On top of that, hypothesis tests can be performed in
one and two-sample contexts to test the unknown component density (see
Milhaud, Pommeret, Salhi and Vandekerkhove (2022)
<doi:10.1016/j.jspi.2021.05.010>, and Milhaud, Pommeret, Salhi,
Vandekerkhove (2024) <doi:10.3150/23-BEJ1593>). Finally, clustering of
unknown [...truncated...]
Author: Xavier Milhaud [aut, cre],
Pierre Vandekerkhove [ctb],
Denys Pommeret [ctb],
Yahia Salhi [ctb]
Maintainer: Xavier Milhaud <xavier.milhaud.research@gmail.com>
Diff between admix versions 2.1-3 dated 2024-04-25 and 2.3.1 dated 2024-10-24
admix-2.1-3/admix/R/BVdk_ML_varCov_estimators.R |only admix-2.1-3/admix/R/BVdk_contrast.R |only admix-2.1-3/admix/R/BVdk_contrast_gradient.R |only admix-2.1-3/admix/R/BVdk_estimParam.R |only admix-2.1-3/admix/R/IBM_2samples_test.R |only admix-2.1-3/admix/R/IBM_empirical_contrast.R |only admix-2.1-3/admix/R/IBM_estimProp.R |only admix-2.1-3/admix/R/IBM_gap.R |only admix-2.1-3/admix/R/IBM_greenLight_criterion.R |only admix-2.1-3/admix/R/IBM_hessian_contrast.R |only admix-2.1-3/admix/R/IBM_tabul_stochasticInteg.R |only admix-2.1-3/admix/R/IBM_theoretical_contrast.R |only admix-2.1-3/admix/R/IBM_theoretical_gap.R |only admix-2.1-3/admix/R/PatraSen_cv_mixmodel.R |only admix-2.1-3/admix/R/PatraSen_density_est.R |only admix-2.1-3/admix/R/PatraSen_dist_calc.R |only admix-2.1-3/admix/R/PatraSen_est_mix_model.R |only admix-2.1-3/admix/R/admix_clustering.R |only admix-2.1-3/admix/R/decontaminated_cdf.R |only admix-2.1-3/admix/R/detect_support_type.R |only admix-2.1-3/admix/R/estimVarCov_empProcess.R |only admix-2.1-3/admix/R/is_equal_knownComp.R |only admix-2.1-3/admix/R/kernel_cdf.R |only admix-2.1-3/admix/R/kernel_density.R |only admix-2.1-3/admix/R/knownComp_to_uniform.R |only admix-2.1-3/admix/R/orthoBasis_coef.R |only admix-2.1-3/admix/R/orthoBasis_test_H0.R |only admix-2.1-3/admix/R/plot.decontaminated_density.R |only admix-2.1-3/admix/R/plot_mixt_density.R |only admix-2.1-3/admix/R/poly_orthonormal_basis.R |only admix-2.1-3/admix/R/print.admix_cluster.R |only admix-2.1-3/admix/R/print.admix_estim.R |only admix-2.1-3/admix/R/print.admix_test.R |only admix-2.1-3/admix/R/rsimmix.R |only admix-2.1-3/admix/R/sim_gaussianProcess.R |only admix-2.1-3/admix/R/two_samples_test.R |only admix-2.1-3/admix/R/zzz.R |only admix-2.1-3/admix/inst/WORDLIST |only admix-2.1-3/admix/man/BVdk_ML_varCov_estimators.Rd |only admix-2.1-3/admix/man/BVdk_contrast.Rd |only admix-2.1-3/admix/man/BVdk_contrast_gradient.Rd |only admix-2.1-3/admix/man/BVdk_estimParam.Rd |only admix-2.1-3/admix/man/IBM_2samples_test.Rd |only admix-2.1-3/admix/man/IBM_empirical_contrast.Rd |only admix-2.1-3/admix/man/IBM_estimProp.Rd |only admix-2.1-3/admix/man/IBM_estimVarCov_gaussVect.Rd |only admix-2.1-3/admix/man/IBM_gap.Rd |only admix-2.1-3/admix/man/IBM_greenLight_criterion.Rd |only admix-2.1-3/admix/man/IBM_hessian_contrast.Rd |only admix-2.1-3/admix/man/IBM_theoretical_contrast.Rd |only admix-2.1-3/admix/man/IBM_theoretical_gap.Rd |only admix-2.1-3/admix/man/PatraSen_cv_mixmodel.Rd |only admix-2.1-3/admix/man/PatraSen_density_est.Rd |only admix-2.1-3/admix/man/PatraSen_dist_calc.Rd |only admix-2.1-3/admix/man/PatraSen_est_mix_model.Rd |only admix-2.1-3/admix/man/admix_clustering.Rd |only admix-2.1-3/admix/man/detect_support_type.Rd |only admix-2.1-3/admix/man/estimVarCov_empProcess.Rd |only admix-2.1-3/admix/man/is_equal_knownComp.Rd |only admix-2.1-3/admix/man/kernel_cdf.Rd |only admix-2.1-3/admix/man/kernel_density.Rd |only admix-2.1-3/admix/man/knownComp_to_uniform.Rd |only admix-2.1-3/admix/man/orthoBasis_coef.Rd |only admix-2.1-3/admix/man/orthoBasis_test_H0.Rd |only admix-2.1-3/admix/man/plot_mixt_density.Rd |only admix-2.1-3/admix/man/poly_orthonormal_basis.Rd |only admix-2.1-3/admix/man/rsimmix.Rd |only admix-2.1-3/admix/man/rsimmix_mix.Rd |only admix-2.1-3/admix/man/sim_gaussianProcess.Rd |only admix-2.1-3/admix/man/two_samples_test.Rd |only admix-2.1-3/admix/tests |only admix-2.3.1/admix/DESCRIPTION | 75 admix-2.3.1/admix/MD5 | 203 -- admix-2.3.1/admix/NAMESPACE | 61 admix-2.3.1/admix/R/BVdk_varCov_estimators.R | 292 ++- admix-2.3.1/admix/R/IBM_estimVarCov_gaussVect.R | 1038 +++++++----- admix-2.3.1/admix/R/IBM_k_samples_test.R | 857 +++++++-- admix-2.3.1/admix/R/admix-package.R | 1 admix-2.3.1/admix/R/admix_cluster.R |only admix-2.3.1/admix/R/admix_estim.R | 234 +- admix-2.3.1/admix/R/admix_model.R |only admix-2.3.1/admix/R/admix_test.R | 256 +- admix-2.3.1/admix/R/allGalaxies.R | 8 admix-2.3.1/admix/R/decontaminated_density.R | 434 +++-- admix-2.3.1/admix/R/estim_BVdk.R |only admix-2.3.1/admix/R/estim_IBM.R |only admix-2.3.1/admix/R/estim_PS.R |only admix-2.3.1/admix/R/gaussianity_test.R | 215 +- admix-2.3.1/admix/R/milkyWay.R | 6 admix-2.3.1/admix/R/mortality_sample.R | 10 admix-2.3.1/admix/R/orthobasis_test.R |only admix-2.3.1/admix/R/stmf_small.R | 7 admix-2.3.1/admix/R/twoComp_mixt.R |only admix-2.3.1/admix/R/utils.R |only admix-2.3.1/admix/README.md | 79 admix-2.3.1/admix/build/partial.rdb |binary admix-2.3.1/admix/inst/REFERENCES.bib |only admix-2.3.1/admix/inst/doc/admixture-clustering.R | 75 admix-2.3.1/admix/inst/doc/admixture-clustering.Rmd | 79 admix-2.3.1/admix/inst/doc/admixture-clustering.html | 138 - admix-2.3.1/admix/inst/doc/admixture-weight-estimation.R | 171 - admix-2.3.1/admix/inst/doc/admixture-weight-estimation.Rmd | 187 +- admix-2.3.1/admix/inst/doc/admixture-weight-estimation.html | 285 +-- admix-2.3.1/admix/inst/doc/test-hypothesis.R | 108 - admix-2.3.1/admix/inst/doc/test-hypothesis.Rmd | 148 - admix-2.3.1/admix/inst/doc/test-hypothesis.html | 300 +-- admix-2.3.1/admix/man/BVdk_varCov_estimators.Rd | 57 admix-2.3.1/admix/man/IBM_k_samples_test.Rd | 133 - admix-2.3.1/admix/man/IBM_tabul_stochasticInteg.Rd | 85 admix-2.3.1/admix/man/admix-package.Rd | 6 admix-2.3.1/admix/man/admix_cluster.Rd |only admix-2.3.1/admix/man/admix_estim.Rd | 84 admix-2.3.1/admix/man/admix_model.Rd |only admix-2.3.1/admix/man/admix_test.Rd | 109 - admix-2.3.1/admix/man/allGalaxies.Rd | 6 admix-2.3.1/admix/man/decontaminated_cdf.Rd | 102 - admix-2.3.1/admix/man/decontaminated_density.Rd | 130 - admix-2.3.1/admix/man/estim_BVdk.Rd |only admix-2.3.1/admix/man/estim_IBM.Rd |only admix-2.3.1/admix/man/estim_PS.Rd |only admix-2.3.1/admix/man/gaussianity_test.Rd | 72 admix-2.3.1/admix/man/getmixingWeight.Rd |only admix-2.3.1/admix/man/getmixtData.Rd |only admix-2.3.1/admix/man/milkyWay.Rd | 9 admix-2.3.1/admix/man/mortality_sample.Rd | 13 admix-2.3.1/admix/man/orthobasis_test.Rd |only admix-2.3.1/admix/man/plot.decontaminated_density.Rd | 153 - admix-2.3.1/admix/man/plot.twoComp_mixt.Rd |only admix-2.3.1/admix/man/print.IBM_test.Rd |only admix-2.3.1/admix/man/print.admix_cluster.Rd | 44 admix-2.3.1/admix/man/print.admix_estim.Rd | 28 admix-2.3.1/admix/man/print.admix_model.Rd |only admix-2.3.1/admix/man/print.admix_test.Rd | 29 admix-2.3.1/admix/man/print.decontaminated_density.Rd |only admix-2.3.1/admix/man/print.estim_BVdk.Rd |only admix-2.3.1/admix/man/print.estim_IBM.Rd |only admix-2.3.1/admix/man/print.estim_PS.Rd |only admix-2.3.1/admix/man/print.gaussianity_test.Rd |only admix-2.3.1/admix/man/print.orthobasis_test.Rd |only admix-2.3.1/admix/man/print.twoComp_mixt.Rd |only admix-2.3.1/admix/man/stmf_small.Rd | 7 admix-2.3.1/admix/man/summary.IBM_test.Rd |only admix-2.3.1/admix/man/summary.admix_cluster.Rd |only admix-2.3.1/admix/man/summary.admix_estim.Rd |only admix-2.3.1/admix/man/summary.admix_test.Rd |only admix-2.3.1/admix/man/summary.estim_BVdk.Rd |only admix-2.3.1/admix/man/summary.estim_IBM.Rd |only admix-2.3.1/admix/man/summary.estim_PS.Rd |only admix-2.3.1/admix/man/summary.gaussianity_test.Rd |only admix-2.3.1/admix/man/summary.orthobasis_test.Rd |only admix-2.3.1/admix/man/twoComp_mixt.Rd |only admix-2.3.1/admix/vignettes/admixture-clustering.Rmd | 79 admix-2.3.1/admix/vignettes/admixture-weight-estimation.Rmd | 187 +- admix-2.3.1/admix/vignettes/references.bib | 108 - admix-2.3.1/admix/vignettes/test-hypothesis.Rmd | 148 - 155 files changed, 4026 insertions(+), 2830 deletions(-)
Title: Import Data from EDC Software
Description: A convenient toolbox to import data exported from Electronic Data Capture (EDC) software 'TrialMaster'.
Author: Dan Chaltiel [aut, cre]
Maintainer: Dan Chaltiel <dan.chaltiel@gmail.com>
Diff between EDCimport versions 0.4.1 dated 2023-12-19 and 0.5.0 dated 2024-10-24
EDCimport-0.4.1/EDCimport/R/reexport.R |only EDCimport-0.4.1/EDCimport/R/todo_base_macro.R |only EDCimport-0.4.1/EDCimport/R/todo_read_all_csv.R |only EDCimport-0.4.1/EDCimport/R/trialmaster.R |only EDCimport-0.4.1/EDCimport/man/check_subjid.Rd |only EDCimport-0.4.1/EDCimport/man/get_lookup.Rd |only EDCimport-0.4.1/EDCimport/man/read_tm_all_xpt.Rd |only EDCimport-0.4.1/EDCimport/tests/testthat/_snaps/plot |only EDCimport-0.4.1/EDCimport/tests/testthat/test-real.R |only EDCimport-0.5.0/EDCimport/DESCRIPTION | 27 EDCimport-0.5.0/EDCimport/MD5 | 137 + EDCimport-0.5.0/EDCimport/NAMESPACE | 109 + EDCimport-0.5.0/EDCimport/NEWS.md | 153 +- EDCimport-0.5.0/EDCimport/R/7zip.R | 23 EDCimport-0.5.0/EDCimport/R/EDCimport-package.R | 53 EDCimport-0.5.0/EDCimport/R/assertions.R |only EDCimport-0.5.0/EDCimport/R/burgled.R |only EDCimport-0.5.0/EDCimport/R/crf_status.R |only EDCimport-0.5.0/EDCimport/R/data.R | 100 + EDCimport-0.5.0/EDCimport/R/helpers.R | 720 +++++++--- EDCimport-0.5.0/EDCimport/R/lookup.R |only EDCimport-0.5.0/EDCimport/R/options.R | 26 EDCimport-0.5.0/EDCimport/R/population_plot.R |only EDCimport-0.5.0/EDCimport/R/read_all_csv.R |only EDCimport-0.5.0/EDCimport/R/read_all_sas.R |only EDCimport-0.5.0/EDCimport/R/read_all_xpt.R |only EDCimport-0.5.0/EDCimport/R/read_trialmaster.R |only EDCimport-0.5.0/EDCimport/R/sanity_checks.R |only EDCimport-0.5.0/EDCimport/R/sas_format.R | 94 + EDCimport-0.5.0/EDCimport/R/save_to_excel.R |only EDCimport-0.5.0/EDCimport/R/search_for_newer_data.R |only EDCimport-0.5.0/EDCimport/R/split_mixed.R | 122 + EDCimport-0.5.0/EDCimport/R/swimmerplot.R | 53 EDCimport-0.5.0/EDCimport/R/utils.R | 420 ++++- EDCimport-0.5.0/EDCimport/R/utils_read.R |only EDCimport-0.5.0/EDCimport/inst/IMPORTLIST | 18 EDCimport-0.5.0/EDCimport/inst/WORDLIST | 59 EDCimport-0.5.0/EDCimport/man/assert_no_duplicate.Rd | 22 EDCimport-0.5.0/EDCimport/man/build_lookup.Rd |only EDCimport-0.5.0/EDCimport/man/crf_status_plot.Rd |only EDCimport-0.5.0/EDCimport/man/data_example.Rd | 9 EDCimport-0.5.0/EDCimport/man/edc_data_warn.Rd |only EDCimport-0.5.0/EDCimport/man/edc_db_to_excel.Rd |only EDCimport-0.5.0/EDCimport/man/edc_inform_code.Rd |only EDCimport-0.5.0/EDCimport/man/edc_lookup.Rd |only EDCimport-0.5.0/EDCimport/man/edc_options.Rd | 17 EDCimport-0.5.0/EDCimport/man/edc_population_plot.Rd |only EDCimport-0.5.0/EDCimport/man/edc_swimmerplot.Rd | 8 EDCimport-0.5.0/EDCimport/man/edc_warn_extraction_date.Rd |only EDCimport-0.5.0/EDCimport/man/edc_warn_patient_diffs.Rd |only EDCimport-0.5.0/EDCimport/man/extend_lookup.Rd | 12 EDCimport-0.5.0/EDCimport/man/fct_yesno.Rd |only EDCimport-0.5.0/EDCimport/man/find_keyword.Rd | 2 EDCimport-0.5.0/EDCimport/man/get_common_cols.Rd |only EDCimport-0.5.0/EDCimport/man/get_datasets.Rd | 2 EDCimport-0.5.0/EDCimport/man/get_key_cols.Rd | 2 EDCimport-0.5.0/EDCimport/man/get_meta_cols.Rd |only EDCimport-0.5.0/EDCimport/man/get_subjid_cols.Rd |only EDCimport-0.5.0/EDCimport/man/harmonize_subjid.Rd |only EDCimport-0.5.0/EDCimport/man/lastnews_table.Rd |only EDCimport-0.5.0/EDCimport/man/manual_correction.Rd | 4 EDCimport-0.5.0/EDCimport/man/read_all_csv.Rd |only EDCimport-0.5.0/EDCimport/man/read_all_sas.Rd |only EDCimport-0.5.0/EDCimport/man/read_all_xpt.Rd |only EDCimport-0.5.0/EDCimport/man/read_trialmaster.Rd | 4 EDCimport-0.5.0/EDCimport/man/reexports.Rd | 4 EDCimport-0.5.0/EDCimport/man/save_plotly.Rd |only EDCimport-0.5.0/EDCimport/man/save_sessioninfo.Rd |only EDCimport-0.5.0/EDCimport/man/search_for_newer_data.Rd |only EDCimport-0.5.0/EDCimport/man/select_distinct.Rd |only EDCimport-0.5.0/EDCimport/man/split_mixed_datasets.Rd | 4 EDCimport-0.5.0/EDCimport/man/table_format.Rd |only EDCimport-0.5.0/EDCimport/tests/testthat/_snaps/local.md |only EDCimport-0.5.0/EDCimport/tests/testthat/_snaps/population_plot |only EDCimport-0.5.0/EDCimport/tests/testthat/_snaps/population_plot.md |only EDCimport-0.5.0/EDCimport/tests/testthat/_snaps/read_all_csv.md |only EDCimport-0.5.0/EDCimport/tests/testthat/_snaps/sanity.md |only EDCimport-0.5.0/EDCimport/tests/testthat/_snaps/search_data.md |only EDCimport-0.5.0/EDCimport/tests/testthat/_snaps/trialmaster-simple.md |only EDCimport-0.5.0/EDCimport/tests/testthat/_snaps/utils.md |only EDCimport-0.5.0/EDCimport/tests/testthat/csv |only EDCimport-0.5.0/EDCimport/tests/testthat/helper-init.R | 63 EDCimport-0.5.0/EDCimport/tests/testthat/helper-local.R |only EDCimport-0.5.0/EDCimport/tests/testthat/test-helpers.R | 69 EDCimport-0.5.0/EDCimport/tests/testthat/test-local.R |only EDCimport-0.5.0/EDCimport/tests/testthat/test-options.R |only EDCimport-0.5.0/EDCimport/tests/testthat/test-plot.R | 2 EDCimport-0.5.0/EDCimport/tests/testthat/test-population_plot.R |only EDCimport-0.5.0/EDCimport/tests/testthat/test-quicktest.R |only EDCimport-0.5.0/EDCimport/tests/testthat/test-read_all_csv.R |only EDCimport-0.5.0/EDCimport/tests/testthat/test-read_all_sas.R |only EDCimport-0.5.0/EDCimport/tests/testthat/test-sanity.R |only EDCimport-0.5.0/EDCimport/tests/testthat/test-search_data.R |only EDCimport-0.5.0/EDCimport/tests/testthat/test-split_mixed.R | 17 EDCimport-0.5.0/EDCimport/tests/testthat/test-trialmaster-simple.R |only EDCimport-0.5.0/EDCimport/tests/testthat/test-trialmaster.R | 53 EDCimport-0.5.0/EDCimport/tests/testthat/test-utils.R | 122 + 97 files changed, 1887 insertions(+), 643 deletions(-)
Title: Collect your Microinverter Data
Description: Collect and normalize local microinverter energy and power production
data through off-cloud API requests. Currently supports 'APSystems', 'Enphase',
and 'Fronius' microinverters.
Author: Christophe Regouby [aut, cre, cph]
Maintainer: Christophe Regouby <christophe.regouby@free.fr>
Diff between microinverterdata versions 0.1.0 dated 2024-10-02 and 0.2.0 dated 2024-10-24
microinverterdata-0.1.0/microinverterdata/vignettes/images/logo_r.png |only microinverterdata-0.1.0/microinverterdata/vignettes/images/pv_design.png |only microinverterdata-0.2.0/microinverterdata/DESCRIPTION | 22 microinverterdata-0.2.0/microinverterdata/MD5 | 68 ++ microinverterdata-0.2.0/microinverterdata/NAMESPACE | 18 microinverterdata-0.2.0/microinverterdata/NEWS.md | 23 + microinverterdata-0.2.0/microinverterdata/R/get_alarm.R | 49 +- microinverterdata-0.2.0/microinverterdata/R/get_device_info.R | 41 + microinverterdata-0.2.0/microinverterdata/R/get_output_data.R | 119 ++++- microinverterdata-0.2.0/microinverterdata/R/query_device.R | 229 +++++++++- microinverterdata-0.2.0/microinverterdata/README.md | 14 microinverterdata-0.2.0/microinverterdata/inst/doc/data_collection.Rmd | 28 - microinverterdata-0.2.0/microinverterdata/inst/doc/data_collection.html | 28 - microinverterdata-0.2.0/microinverterdata/inst/inverter_data.R | 2 microinverterdata-0.2.0/microinverterdata/man/get_output_data.Rd | 7 microinverterdata-0.2.0/microinverterdata/man/query_ap_device.Rd | 11 microinverterdata-0.2.0/microinverterdata/man/query_ap_devices.Rd | 13 microinverterdata-0.2.0/microinverterdata/man/query_enphaseenergy_device.Rd |only microinverterdata-0.2.0/microinverterdata/man/query_enphaseenvoy_device.Rd |only microinverterdata-0.2.0/microinverterdata/man/query_fronius_device.Rd |only microinverterdata-0.2.0/microinverterdata/man/query_fronius_devices.Rd |only microinverterdata-0.2.0/microinverterdata/tests/testthat/apsystems |only microinverterdata-0.2.0/microinverterdata/tests/testthat/enphase |only microinverterdata-0.2.0/microinverterdata/tests/testthat/f |only microinverterdata-0.2.0/microinverterdata/tests/testthat/setup.R | 5 microinverterdata-0.2.0/microinverterdata/tests/testthat/test-get_alarm.R | 58 +- microinverterdata-0.2.0/microinverterdata/tests/testthat/test-get_device_info.R | 93 ++-- microinverterdata-0.2.0/microinverterdata/tests/testthat/test-get_output_data.R | 115 +++-- microinverterdata-0.2.0/microinverterdata/vignettes/data_collection.Rmd | 28 - microinverterdata-0.2.0/microinverterdata/vignettes/images/__logo_r.png |only microinverterdata-0.2.0/microinverterdata/vignettes/images/__pv_design.png |only 31 files changed, 756 insertions(+), 215 deletions(-)
More information about microinverterdata at CRAN
Permanent link
Title: Stock Assessment Graphs Database Web Services
Description: R interface to access the web services of the ICES Stock Assessment
Graphs database <https://sg.ices.dk>.
Author: Colin Millar [aut, cre],
Scott Large [aut],
Arni Magnusson [aut],
Carlos Pinto [aut],
Laura Andreea Petre [aut]
Maintainer: Colin Millar <colin.millar@ices.dk>
Diff between icesSAG versions 1.4.1 dated 2023-05-11 and 1.5.0 dated 2024-10-24
icesSAG-1.4.1/icesSAG/R/SAGtokens.R |only icesSAG-1.4.1/icesSAG/R/WSDL_parser.R |only icesSAG-1.4.1/icesSAG/R/getYSBRSummaryTable.R |only icesSAG-1.4.1/icesSAG/R/uploadStock.R |only icesSAG-1.4.1/icesSAG/R/uploadXMLFile.R |only icesSAG-1.4.1/icesSAG/man/findAssessmentKeydocs.Rd |only icesSAG-1.4.1/icesSAG/man/getTokenExpiration.Rd |only icesSAG-1.4.1/icesSAG/man/getYSBRSummaryTable.Rd |only icesSAG-1.4.1/icesSAG/man/uploadStock.Rd |only icesSAG-1.5.0/icesSAG/DESCRIPTION | 23 - icesSAG-1.5.0/icesSAG/MD5 | 80 ++-- icesSAG-1.5.0/icesSAG/NAMESPACE | 21 - icesSAG-1.5.0/icesSAG/NEWS.md | 62 --- icesSAG-1.5.0/icesSAG/R/SAGxml.R | 16 icesSAG-1.5.0/icesSAG/R/findAssessmentKey.R | 17 icesSAG-1.5.0/icesSAG/R/getCustomColumns.R | 30 + icesSAG-1.5.0/icesSAG/R/getFishStockReferencePoints.R | 32 + icesSAG-1.5.0/icesSAG/R/getGraph.R | 25 - icesSAG-1.5.0/icesSAG/R/getLatestStockAdviceList.R | 9 icesSAG-1.5.0/icesSAG/R/getListStocks.R | 30 + icesSAG-1.5.0/icesSAG/R/getSAG.R | 60 --- icesSAG-1.5.0/icesSAG/R/getSAGTypeGraphsSettings.R | 30 - icesSAG-1.5.0/icesSAG/R/getStockDownloadData.R | 56 -- icesSAG-1.5.0/icesSAG/R/getStockStatusValues.R | 27 + icesSAG-1.5.0/icesSAG/R/getSummaryTable.R | 65 ++- icesSAG-1.5.0/icesSAG/R/getsetSettingsForAStock.R | 37 + icesSAG-1.5.0/icesSAG/R/icesSAG-package.R | 7 icesSAG-1.5.0/icesSAG/R/ices_get.R |only icesSAG-1.5.0/icesSAG/R/ices_post.R |only icesSAG-1.5.0/icesSAG/R/onLoad.R | 24 + icesSAG-1.5.0/icesSAG/R/sag_api.R |only icesSAG-1.5.0/icesSAG/R/setPackageOptions.R |only icesSAG-1.5.0/icesSAG/R/utilities.R | 283 --------------- icesSAG-1.5.0/icesSAG/R/utilitiesGraphs.R |only icesSAG-1.5.0/icesSAG/R/utilitiesXML.R |only icesSAG-1.5.0/icesSAG/man/findAssessmentKey.Rd |only icesSAG-1.5.0/icesSAG/man/getCustomColumns.Rd | 6 icesSAG-1.5.0/icesSAG/man/getFishStockReferencePoints.Rd | 15 icesSAG-1.5.0/icesSAG/man/getLatestStockAdviceList.Rd | 5 icesSAG-1.5.0/icesSAG/man/getListStocks.Rd | 14 icesSAG-1.5.0/icesSAG/man/getSAG.Rd | 22 - icesSAG-1.5.0/icesSAG/man/getSAGSettings.Rd | 8 icesSAG-1.5.0/icesSAG/man/getStockDownloadData.Rd | 7 icesSAG-1.5.0/icesSAG/man/getStockStatusValues.Rd | 4 icesSAG-1.5.0/icesSAG/man/getSummaryTable.Rd | 7 icesSAG-1.5.0/icesSAG/man/getsetStockSettings.Rd | 7 icesSAG-1.5.0/icesSAG/man/icesSAG-package.Rd | 11 icesSAG-1.5.0/icesSAG/man/ices_get.Rd |only icesSAG-1.5.0/icesSAG/man/ices_post.Rd |only icesSAG-1.5.0/icesSAG/man/sag_api.Rd |only icesSAG-1.5.0/icesSAG/man/setPackageOptions.Rd |only 51 files changed, 422 insertions(+), 618 deletions(-)
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2024-10-21 0.1.3.3
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2023-07-01 0.0.10-4
2023-01-30 0.0.10-2
2022-04-11 0.0.9
2021-09-08 0.0.8-6
2021-08-05 0.0.8-4
2021-07-22 0.0.8-3
2021-07-19 0.0.8-2
2021-03-04 0.0.8-1
2021-02-26 0.0.8
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2024-10-19 2.2.0
2023-10-21 2.1.1
2023-06-28 2.0.1
Title: Logging Setup for the 'teal' Family of Packages
Description: Utilizing the 'logger' framework to record events within a
package, specific to 'teal' family of packages. Supports logging
namespaces, hierarchical logging, various log destinations,
vectorization, and more.
Author: Dawid Kaledkowski [aut, cre],
Konrad Pagacz [aut],
F. Hoffmann-La Roche AG [cph, fnd]
Maintainer: Dawid Kaledkowski <dawid.kaledkowski@roche.com>
Diff between teal.logger versions 0.2.0 dated 2024-03-24 and 0.3.0 dated 2024-10-24
DESCRIPTION | 18 +++++++++--------- MD5 | 24 +++++++++++++++--------- NAMESPACE | 1 + NEWS.md | 6 ++++++ R/log_formatter.R |only R/log_shiny_input_changes.R |only R/supress_logs.R | 12 ++++++++++-- R/zzz.R | 1 + README.md | 9 +-------- build/vignette.rds |binary man/log_shiny_input_changes.Rd |only man/suppress_logs.Rd | 3 ++- man/teal_logger_formatter.Rd |only tests/testthat/setup-logger.R |only tests/testthat/test-log_formatter.R |only tests/testthat/test-register_logger.R | 8 +++++++- 16 files changed, 52 insertions(+), 30 deletions(-)
Title: Exact Sequential Analysis for Poisson and Binomial Data
Description: Functions to calculate exact critical values, statistical power, expected time to signal, and required sample sizes for performing exact sequential analysis. All these calculations can be done for either Poisson or binomial data, for continuous or group sequential analyses, and for different types of rejection boundaries. In case of group sequential analyses, the group sizes do not have to be specified in advance and the alpha spending can be arbitrarily settled.
Author: Ivair Ramos Silva [aut, cre],
Martin Kulldorff [aut]
Maintainer: Ivair Ramos Silva <ivair@ufop.edu.br>
Diff between Sequential versions 4.3.3 dated 2024-02-20 and 4.3.4 dated 2024-10-24
DESCRIPTION | 16 +++++++++++----- MD5 | 6 +++--- R/Analyze.CondPoisson.R | 1 + man/Sequential-package.Rd | 10 +++++++--- 4 files changed, 22 insertions(+), 11 deletions(-)
Title: Draw Network with Data
Description: Extends the 'ggplot2' plotting system to support network visualization. Inspired by 'ggtree', 'ggtangle' is designed to work with network associated data.
Author: Guangchuang Yu [aut, cre]
Maintainer: Guangchuang Yu <guangchuangyu@gmail.com>
Diff between ggtangle versions 0.0.2 dated 2024-09-18 and 0.0.3 dated 2024-10-24
DESCRIPTION | 10 +-- MD5 | 26 +++++---- NAMESPACE | 13 ++++ NEWS.md | 6 ++ R/AllGenerics.r |only R/cnet.r |only R/drag-network.R |only R/graph.r | 2 R/reexports.r | 10 +++ R/utilities.r |only inst/doc/ggtangle.R | 23 ++++---- inst/doc/ggtangle.Rmd | 25 ++++----- inst/doc/ggtangle.html | 134 +++++++++++++++++++++++-------------------------- man/cnetplot.Rd |only man/drag_network.Rd |only man/reexports.Rd | 6 +- vignettes/ggtangle.Rmd | 25 ++++----- 17 files changed, 153 insertions(+), 127 deletions(-)
Title: Miscellaneous Functions for 'ggplot2'
Description: Useful functions and utilities for 'ggplot' object (e.g., geometric layers, themes, and utilities to edit the object).
Author: Guangchuang Yu [aut, cre, cph]
,
Shuangbin Xu [aut]
Maintainer: Guangchuang Yu <guangchuangyu@gmail.com>
Diff between ggfun versions 0.1.6 dated 2024-08-28 and 0.1.7 dated 2024-10-23
DESCRIPTION | 6 +++--- MD5 | 14 +++++++++----- NAMESPACE | 4 ++++ NEWS.md | 5 +++++ R/operator.R | 14 ++++++++++---- R/treedata-function.R |only inst/doc/ggfun.html | 6 +++--- man/td_filter.Rd |only man/td_mutate.Rd |only man/td_unnest.Rd |only 10 files changed, 34 insertions(+), 15 deletions(-)
Title: Motivational Quotes and Shakespearean Bard–bits for Personal
Projects
Description: Generate motivational quotes and Shakespearean word combinations (bard–bits) that a user can consider for their personal projects. Each of the package functions takes two arguments, cat which default to any, and a a numeric or character seed to ensure reproducible results.
Author: JP Monteagudo [aut, cre, cph]
Maintainer: JP Monteagudo <jpmonteagudo2014@gmail.com>
Diff between despair versions 0.1.0 dated 2024-08-22 and 0.1.1 dated 2024-10-23
DESCRIPTION | 6 +++--- MD5 | 6 +++--- NEWS.md | 7 +++++-- R/demotivate.R | 3 ++- 4 files changed, 13 insertions(+), 9 deletions(-)
Title: Penalized Linear Mixed Models for Correlated Data
Description: Fits penalized linear mixed models that correct for
unobserved confounding factors. 'plmmr' infers and corrects for the
presence of unobserved confounding effects such as population
stratification and environmental heterogeneity. It then fits a linear
model via penalized maximum likelihood. Originally designed for the
multivariate analysis of single nucleotide polymorphisms (SNPs)
measured in a genome-wide association study (GWAS), 'plmmr' eliminates
the need for subpopulation-specific analyses and post-analysis p-value
adjustments. Functions for the appropriate processing of 'PLINK'
files are also supplied. For examples, see the package homepage.
<https://pbreheny.github.io/plmmr/>.
Author: Tabitha K. Peter [aut] ,
Anna C. Reisetter [aut] ,
Patrick J. Breheny [aut, cre] ,
Yujing Lu [aut]
Maintainer: Patrick J. Breheny <patrick-breheny@uiowa.edu>
Diff between plmmr versions 4.0.0 dated 2024-10-11 and 4.1.0 dated 2024-10-23
DESCRIPTION | 8 +-- MD5 | 84 ++++++++++++++++++++--------------------- NEWS.md | 10 ++++ R/coef-cv-plmm.R | 2 R/coef-plmm.R | 2 R/create_design.R | 17 +++----- R/create_design_filebacked.R | 1 R/create_design_in_memory.R | 12 ++--- R/cv-plmm.R | 29 +++++++++++++- R/loss-plmm.R | 2 R/plmm.R | 32 +++++++++++++-- R/plmm_checks.R | 1 R/plot-cv-plmm.R | 2 R/plot-plmm.R | 2 R/predict-plmm.R | 2 R/print-summary-cv-plmm.R | 2 R/print-summary-plmm.R | 2 R/summary-cv-plmm.R | 2 R/summary-plmm.R | 2 R/untransform.R | 2 README.md | 28 +++++++++++-- data/admix.rda |binary inst/doc/getting-started.R | 9 ++++ inst/doc/getting-started.Rmd | 19 +++++++-- inst/doc/getting-started.html | 32 +++++++++++---- inst/tinytest/test_cv.R | 2 inst/tinytest/test_plmm.R | 4 - man/coef.cv_plmm.Rd | 2 man/coef.plmm.Rd | 2 man/create_design.Rd | 18 ++------ man/create_design_in_memory.Rd | 4 - man/cv_plmm.Rd | 12 ++++- man/plmm.Rd | 12 ++++- man/plmm_loss.Rd | 2 man/plot.cv_plmm.Rd | 2 man/plot.plmm.Rd | 2 man/predict.plmm.Rd | 2 man/print.summary.cv_plmm.Rd | 2 man/print.summary.plmm.Rd | 2 man/summary.cv_plmm.Rd | 2 man/summary.plmm.Rd | 2 src/plmm_init.c | 1 vignettes/getting-started.Rmd | 19 +++++++-- 43 files changed, 268 insertions(+), 128 deletions(-)
Title: Maximum Likelihood Estimation of Various Univariate and
Multivariate Distributions
Description: Several functions for maximum likelihood estimation of various univariate and multivariate distributions. The list includes more than 100 functions for univariate continuous and discrete distributions, distributions that lie on the real line, the positive line, interval restricted, circular distributions. Further, multivariate continuous and discrete distributions, distributions for compositional and directional data, etc. Some references include Johnson N. L., Kotz S. and Balakrishnan N. (1994). "Continuous Univariate Distributions, Volume 1" <ISBN:978-0-471-58495-7>, Johnson, Norman L. Kemp, Adrianne W. Kotz, Samuel (2005). "Univariate Discrete Distributions". <ISBN:978-0-471-71580-1> and Mardia, K. V. and Jupp, P. E. (2000). "Directional Statistics". <ISBN:978-0-471-95333-3>.
Author: Michail Tsagris [aut, cre],
Sofia Piperaki [aut],
Muhammad Imran [ctb]
Maintainer: Michail Tsagris <mtsagris@uoc.gr>
Diff between MLE versions 1.1 dated 2024-09-10 and 1.2 dated 2024-10-23
DESCRIPTION | 10 +++++----- MD5 | 10 +++++----- NAMESPACE | 2 ++ R/positive.mle.R | 41 +++++++++++++++++++++++++++++++++++++++++ man/MLE-package.Rd | 4 ++-- man/positive.mle.Rd | 6 +++++- 6 files changed, 60 insertions(+), 13 deletions(-)
Title: Object Oriented Implementation of Probability Models
Description: Implements S4 classes for probability models based on packages 'distr' and
'distrEx'.
Author: Matthias Kohl [aut, cph],
Peter Ruckdeschel [cre, cph],
R Core Team [ctb, cph]
Maintainer: Peter Ruckdeschel <peter.ruckdeschel@uni-oldenburg.de>
Diff between distrMod versions 2.9.4 dated 2024-09-03 and 2.9.6 dated 2024-10-23
DESCRIPTION | 16 ++++++++-------- MD5 | 12 ++++++------ inst/NEWS | 7 +++++++ inst/doc/distrMod.pdf |binary man/0distrMod-package.Rd | 6 +++--- man/fiCov.Rd | 2 +- tests/Examples/distrMod-Ex.Rout.save | 2 +- 7 files changed, 26 insertions(+), 19 deletions(-)
Title: Bayesian Time-Stratified Population Analysis
Description: Provides advanced Bayesian methods to estimate
abundance and run-timing from temporally-stratified
Petersen mark-recapture experiments. Methods include
hierarchical modelling of the capture probabilities
and spline smoothing of the daily run size. Theory
described in Bonner and Schwarz (2011)
<doi:10.1111/j.1541-0420.2011.01599.x>.
Author: Carl J Schwarz [aut, cre],
Simon J Bonner [aut]
Maintainer: Carl J Schwarz <cschwarz.stat.sfu.ca@gmail.com>
Diff between BTSPAS versions 2024.5.9 dated 2024-05-10 and 2024.11.1 dated 2024-10-23
DESCRIPTION | 24 ++++++++++++++------- MD5 | 26 +++++++++++------------ NEWS.md | 6 +++++ R/TimeStratPetersenDiagErrorWHChinook2_fit.R | 2 - R/TimeStratPetersenDiagErrorWHChinook_fit.R | 2 - R/TimeStratPetersenDiagErrorWHSteel_fit.R | 2 - R/TimeStratPetersenDiagError_fit.R | 7 ++++-- R/TimeStratPetersenNonDiagErrorNPMarkAvail_fit.R | 2 - R/TimeStratPetersenNonDiagErrorNP_fit.R | 2 - R/TimeStratPetersenNonDiagError_fit.R | 3 +- R/run_jags.R | 14 +++++++++++- R/zzz.R | 11 +-------- build/partial.rdb |binary build/vignette.rds |binary 14 files changed, 62 insertions(+), 39 deletions(-)
Title: Extract 'REDCap' Databases into Tidy 'Tibble's
Description: Convert 'REDCap' exports into tidy tables for easy handling of 'REDCap' repeat instruments and event arms.
Author: Richard Hanna [aut, cre] ,
Stephan Kadauke [aut] ,
Ezra Porter [aut]
Maintainer: Richard Hanna <richardshanna91@gmail.com>
Diff between REDCapTidieR versions 1.1.1 dated 2024-04-16 and 1.2.0 dated 2024-10-23
DESCRIPTION | 12 +- MD5 | 55 ++++++----- NAMESPACE | 21 ++++ NEWS.md | 15 ++- R/REDCapTidieR-package.R | 19 ++- R/checks.R | 125 +++++++++++++++++++++++++ R/clean_redcap_long.R | 76 +++++++++++++-- R/combine_checkboxes.R |only R/read_redcap.R | 93 ++++++++++++++++-- R/utils.R | 82 ++++++++++++---- README.md | 3 build/vignette.rds |binary inst/WORDLIST | 8 + inst/doc/REDCapTidieR.Rmd | 2 inst/doc/REDCapTidieR.html | 116 ++++++++--------------- man/add_event_mapping.Rd | 5 - man/check_equal_col_summaries.Rd |only man/check_fields_are_checkboxes.Rd |only man/check_fields_exist.Rd |only man/check_metadata_fields_exist.Rd |only man/combine_and_repair_tbls.Rd |only man/combine_checkboxes.Rd |only man/convert_checkbox_vals.Rd |only man/extract_metadata_tibble.Rd |only man/get_metadata_spec.Rd |only man/get_repeat_event_types.Rd |only man/read_redcap.Rd | 4 man/replace_true.Rd |only tests/testthat/_snaps/write.md | 154 +++++++++++++++++++++++++++---- tests/testthat/test-checks.R | 69 +++++++++++++ tests/testthat/test-clean_redcap_long.R | 29 +++-- tests/testthat/test-combine_checkboxes.R |only tests/testthat/test-read_redcap.R | 40 ++++++++ tests/testthat/test-utils.R | 46 ++++++++- vignettes/REDCapTidieR.Rmd | 2 35 files changed, 785 insertions(+), 191 deletions(-)
Title: Modelling Phylogenetic Signals using Eigenvector Maps
Description: Computational tools to represent phylogenetic signals using adapted
eigenvector maps.
Author: Guillaume Guenard [aut, cre] ,
Pierre Legendre [ctb]
Maintainer: Guillaume Guenard <guillaume.guenard@umontreal.ca>
Diff between MPSEM versions 0.4-4 dated 2024-09-04 and 0.5-1 dated 2024-10-23
DESCRIPTION | 10 - MD5 | 42 ++--- NAMESPACE | 4 R/MPSEM-package.R | 6 R/PEM-class.R | 4 R/PEM-functions.R | 143 ++++++++---------- R/dstGraph.R |only R/dst_idx.R |only R/global.R |only R/graph-class.R | 4 R/graph-functions.R | 4 R/lm-utils.R | 4 R/trait-simulator.R | 8 - build/partial.rdb |binary inst/doc/REM_with_MPSEM.R | 2 inst/doc/REM_with_MPSEM.Rmd | 2 inst/doc/REM_with_MPSEM.html | 341 +++++++++++++++++++++---------------------- man/MPSEM-package.Rd | 2 man/PEM-functions.Rd | 41 ++--- man/dstGraph.Rd |only src/MPSEM.c | 161 ++++++++++++++++---- src/MPSEM.h | 36 ++-- src/init.c | 8 - vignettes/REM_with_MPSEM.Rmd | 2 24 files changed, 466 insertions(+), 358 deletions(-)
Title: Fit, Simulate, and Diagnose Hierarchical Exponential-Family
Models for Big Networks
Description: A toolbox for analyzing and simulating large networks based on hierarchical exponential-family random graph models (HERGMs).'bigergm' implements the estimation for large networks efficiently building on the 'lighthergm' and 'hergm' packages. Moreover, the package contains tools for simulating networks with local dependence to assess the goodness-of-fit.
Author: Cornelius Fritz [aut, cre],
Michael Schweinberger [aut],
Shota Komatsu [aut],
Juan Nelson Martinez Dahbura [aut],
Takanori Nishida [aut],
Angelo Mele [aut]
Maintainer: Cornelius Fritz <corneliusfritz2010@gmail.com>
Diff between bigergm versions 1.2.2 dated 2024-10-03 and 1.2.3 dated 2024-10-23
DESCRIPTION | 14 +++++++------- MD5 | 4 ++-- vignettes/bigergm.html | 4 ++-- 3 files changed, 11 insertions(+), 11 deletions(-)
Title: Synthetic Population Generator
Description: Generates high-entropy integer synthetic populations from marginal and (optionally) seed data using quasirandom sampling,
in arbitrary dimensionality (Smith, Lovelace and Birkin (2017) <doi:10.18564/jasss.3550>).
The package also provides an implementation of the Iterative Proportional Fitting (IPF) algorithm (Zaloznik (2011) <doi:10.13140/2.1.2480.9923>).
Author: Andrew Smith [aut, cre],
Steven Johnson [ctb] ,
Massachusetts Institute of Technology [cph] ,
John Burkhardt [ctb, cph] ,
G Bhattacharjee [ctb]
Maintainer: Andrew Smith <andrew@friarswood.net>
Diff between humanleague versions 2.3.1 dated 2024-02-24 and 2.3.2 dated 2024-10-23
DESCRIPTION | 6 ++-- MD5 | 17 ++++++------- src/Integerise.cpp | 1 src/Microsynthesis.h | 21 ++++++---------- src/NDArrayUtils.h | 19 ++++++++++++++ src/TestNDArray.cpp | 56 ------------------------------------------- src/TestSobol.cpp | 65 +++++++++++++++++++++++--------------------------- src/TestStatFuncs.cpp | 1 src/UnitTester.cpp | 2 - tests/test_errors.py |only 10 files changed, 71 insertions(+), 117 deletions(-)
Title: Data Mining Classification and Regression Methods
Description: Facilitates the use of data mining algorithms in classification and regression (including time series forecasting) tasks by presenting a short and coherent set of functions. Versions: 1.4.7 improved Importance function and examples, minor error fixes; 1.4.6 / 1.4.5 / 1.4.4 new automated machine learning (AutoML) and ensembles, via improved fit(), mining() and mparheuristic() functions, and new categorical preprocessing, via improved delevels() function; 1.4.3 new metrics (e.g., macro precision, explained variance), new "lssvm" model and improved mparheuristic() function; 1.4.2 new "NMAE" metric, "xgboost" and "cv.glmnet" models (16 classification and 18 regression models); 1.4.1 new tutorial and more robust version; 1.4 - new classification and regression models, with a total of 14 classification and 15 regression methods, including: Decision Trees, Neural Networks, Support Vector Machines, Random Forests, Bagging and Boosting; 1.3 and 1.3.1 - new classification and regression metrics; [...truncated...]
Author: Paulo Cortez [aut, cre]
Maintainer: Paulo Cortez <pcortez@dsi.uminho.pt>
Diff between rminer versions 1.4.6 dated 2020-08-28 and 1.4.7 dated 2024-10-23
DESCRIPTION | 11 - MD5 | 39 +++--- R/metrics.R | 2 R/model.R | 294 ++++++++++++++++++++++++++++++++------------------- R/plots.R | 21 ++- R/preprocess.R | 6 - build |only data/sa_tree.rda |binary man/CasesSeries.Rd | 2 man/Importance.Rd | 52 ++++++++- man/crossvaldata.Rd | 2 man/delevels.Rd | 2 man/fit.Rd | 70 ++++++------ man/lforecast.Rd | 2 man/mgraph.Rd | 3 man/mining.Rd | 6 - man/mmetric.Rd | 4 man/mparheuristic.Rd | 9 - man/sa_fri1.Rd | 2 man/sin1reg.Rd | 2 man/vecplot.Rd | 4 21 files changed, 333 insertions(+), 200 deletions(-)
Title: Mark-Recapture Distance Sampling
Description: Animal abundance estimation via conventional, multiple covariate
and mark-recapture distance sampling (CDS/MCDS/MRDS). Detection function
fitting is performed via maximum likelihood. Also included are diagnostics
and plotting for fitted detection functions. Abundance estimation is via a
Horvitz-Thompson-like estimator.
Author: Laura Marshall [cre],
Jeff Laake [aut],
David Miller [aut],
Felix Petersma [aut],
Len Thomas [ctb],
David Borchers [ctb],
Jon Bishop [ctb],
Jonah McArthur [ctb],
Eric Rexstad [rev]
Maintainer: Laura Marshall <lhm@st-andrews.ac.uk>
Diff between mrds versions 2.3.0 dated 2023-12-18 and 3.0.0 dated 2024-10-23
DESCRIPTION | 32 +++- MD5 | 74 +++++++---- NAMESPACE | 1 NEWS | 15 ++ R/adj.cos.R |only R/adj.herm.R |only R/adj.poly.R |only R/adj.series.grad.cos.R |only R/adj.series.grad.herm.R |only R/adj.series.grad.poly.R |only R/check.mono.R | 37 +++-- R/ddf.R | 15 +- R/ddf.ds.R | 22 ++- R/detfct.fit.R | 3 R/detfct.fit.mono.R | 43 +++--- R/detfct.fit.opt.R | 291 +++++++++++++++++++++++++++++++++++--------- R/distpdf.grad.R |only R/flnl.constr.grad.R |only R/flnl.grad.R |only R/gstdint.R | 4 R/integratepdf.grad.R |only R/keyfct.grad.hn.R |only R/keyfct.grad.hz.R |only R/mcds_tools.R | 36 +++-- R/mrds-package.R | 33 ++++ R/nlminb_wrapper.R | 2 R/rescale_pars.R | 2 R/zzz.R | 8 - README.md | 2 build/partial.rdb |binary man/adj.cos.Rd |only man/adj.herm.Rd |only man/adj.poly.Rd |only man/adj.series.grad.cos.Rd |only man/adj.series.grad.herm.Rd |only man/adj.series.grad.poly.Rd |only man/check.mono.Rd | 6 man/ddf.Rd | 15 +- man/detfct.fit.opt.Rd | 7 - man/distpdf.grad.Rd |only man/flnl.constr.grad.neg.Rd |only man/flnl.grad.Rd |only man/integratepdf.grad.Rd |only man/keyfct.grad.hn.Rd |only man/keyfct.grad.hz.Rd |only man/mcds_dot_exe.Rd | 35 +++-- man/mrds-package.Rd | 6 man/mrds_opt.Rd | 201 +++++++++++++++++------------- man/nlminb_wrapper.Rd | 2 man/rescale_pars.Rd | 2 50 files changed, 623 insertions(+), 271 deletions(-)
Title: K-Means for Joint Longitudinal Data
Description: An implementation of k-means specifically design
to cluster joint trajectories (longitudinal data on
several variable-trajectories).
Like 'kml', it provides facilities to deal with missing
value, compute several quality criterion (Calinski and Harabatz,
Ray and Turie, Davies and Bouldin, BIC,...) and propose a graphical
interface for choosing the 'best' number of clusters. In addition, the 3D graph
representing the mean joint-trajectories of each cluster can be exported through
LaTeX in a 3D dynamic rotating PDF graph.
Author: Christophe Genolini [cre, aut],
Bruno Falissard [ctb],
Patrice Kiener [ctb],
Jean-Baptiste Pingault [ctb]
Maintainer: Christophe Genolini <christophe.genolini@free.fr>
Diff between kml3d versions 2.4.6.1 dated 2023-12-13 and 2.5.0 dated 2024-10-23
DESCRIPTION | 30 ++++++++++++++---------------- MD5 | 26 +++++++++++++------------- NEWS | 11 +++++++++++ man/ClusterLongData3d-class.Rd | 24 ++++++++++++------------ man/clusterLongData3d.Rd | 2 +- man/generateArtificialLongData3d.Rd | 6 +++--- man/kml3d-package.Rd | 8 ++++---- man/kml3d.Rd | 20 ++++++++++---------- man/parKml3d.Rd | 12 ++++++------ man/plot.Rd | 18 +++++++++++------- man/plot3d.Rd | 16 ++++++++-------- man/plot3dPdf.Rd | 17 ++++++++++------- man/plotMean3d.Rd | 12 ++++++------ man/plotTraj3d.Rd | 12 ++++++------ 14 files changed, 115 insertions(+), 99 deletions(-)
Title: K-Means for Longitudinal Data
Description: An implementation of k-means specifically design
to cluster longitudinal data. It provides facilities to deal with missing
value, compute several quality criterion (Calinski and Harabatz,
Ray and Turie, Davies and Bouldin, BIC, ...) and propose a graphical
interface for choosing the 'best' number of clusters.
Author: Christophe Genolini [cre, aut],
Bruno Falissard [ctb],
Patrice Kiener [ctb]
Maintainer: Christophe Genolini <christophe.genolini@free.fr>
Diff between kml versions 2.4.6.1 dated 2023-12-13 and 2.5.0 dated 2024-10-23
DESCRIPTION | 25 +- MD5 | 24 +- NEWS | 28 +++ man/ClusterLongData-class.Rd | 380 ++++++++++++++++++++++--------------------- man/ParKml-class.Rd | 232 +++++++++++++------------- man/choice.Rd | 260 +++++++++++++++-------------- man/getBestPostProba.Rd | 106 +++++------ man/kml-package.Rd | 302 +++++++++++++++++----------------- man/kml.Rd | 286 ++++++++++++++++---------------- man/parKml.Rd | 240 +++++++++++++-------------- man/plot.Rd | 279 +++++++++++++++---------------- man/plotMeans.Rd | 173 +++++++++---------- man/plotTraj.Rd | 189 ++++++++++----------- 13 files changed, 1294 insertions(+), 1230 deletions(-)
Title: General Unified Threshold Model of Survival for Bees using
Bayesian Inference
Description: Tools to calibrate, validate, and make predictions with the
General Unified Threshold model of Survival adapted for Bee species. The
model is presented in the publication from Baas, J., Goussen, B., Miles, M.,
Preuss, T.G., Roessing, I. (2022) <doi:10.1002/etc.5423> and
Baas, J., Goussen, B., Taenzler, V., Roeben, V., Miles, M., Preuss, T.G.,
van den Berg, S., Roessink, I. (2024) <doi:10.1002/etc.5871>, and is based on the
GUTS framework Jager, T., Albert, C., Preuss, T.G. and Ashauer, R. (2011)
<doi:10.1021/es103092a>.
The authors are grateful to Bayer A.G. for its financial support.
Author: Benoit Goussen [aut, cre] ,
Liubov Zakharova [ctb],
Romoli Carlo [ctb],
Bayer AG [cph],
ibacon GmbH [cph]
Maintainer: Benoit Goussen <benoit.goussen@ibacon.com>
Diff between BeeGUTS versions 1.1.3 dated 2023-09-18 and 1.3.0 dated 2024-10-23
DESCRIPTION | 21 MD5 | 86 NAMESPACE | 12 NEWS.md | 11 R/BeeGUTS-Internal.R | 4 R/BeeGUTS-package.R | 38 R/LCx.R | 75 R/ShortTimeEffects.R |only R/TimeReinforcedToxicity.R |only R/plotBeeGUTS.R | 160 + R/ppc.R | 28 R/predictBeeGUTS.R | 19 R/predictBeeGUTS2.R |only R/readData.R | 6 R/stanmodels.R | 3 R/validateBeeGUTS.R | 148 + README.md | 123 + build/partial.rdb |binary build/vignette.rds |binary inst/doc/Tutorial.R | 2 inst/doc/Tutorial.Rmd | 11 inst/doc/Tutorial.html | 58 inst/stan/GUTS_hb_only.stan |only man/BeeGUTS-package.Rd | 34 man/ShortTimeEffects.Rd |only man/ShortTimeEffects.beeSurvFit.Rd |only man/TRT.Rd |only man/TRT.beeSurvFit.Rd |only man/correlation_plot.Rd |only man/figures/README-example-1.png |binary man/figures/README-example-2.png |binary man/figures/README-example-3.png |binary man/figures/README-example-4.png |binary man/figures/README-example-5.png |binary man/ppc.beeSurvValidation.Rd |only man/predict.beeSurvFit.Rd | 4 man/predict2.Rd |only man/priorposterior_plot.Rd |only man/validate.Rd | 10 man/validate.beeSurvFit.Rd | 10 src/RcppExports.cpp | 2 src/stanExports_GUTS_IT.h | 2762 +++++++++++++-------------- src/stanExports_GUTS_SD.h | 2664 ++++++++++++-------------- src/stanExports_GUTS_hb_only.cc |only src/stanExports_GUTS_hb_only.h |only vignettes/Tutorial.Rmd | 11 vignettes/man/figures/Tutorial-example-1.png |binary vignettes/man/figures/Tutorial-example-2.png |binary vignettes/man/figures/Tutorial-example-3.png |binary vignettes/man/figures/Tutorial-example-4.png |binary vignettes/man/figures/Tutorial-example-5.png |binary 51 files changed, 3390 insertions(+), 2912 deletions(-)
Title: A Method to Download Department of Education College Scorecard
Data
Description: A method to download Department of Education College
Scorecard data using the public API
<https://collegescorecard.ed.gov/data/data-documentation/>. It is based on
the 'dplyr' model of piped commands to select and filter data in a
single chained function call. An API key from the U.S. Department of
Education is required.
Author: Benjamin Skinner [aut, cre]
Maintainer: Benjamin Skinner <bskinner@neh.gov>
Diff between rscorecard versions 0.29.0 dated 2024-08-30 and 0.30.0 dated 2024-10-23
DESCRIPTION | 6 +++--- MD5 | 6 +++--- NEWS.md | 4 ++++ R/sysdata.rda |binary 4 files changed, 10 insertions(+), 6 deletions(-)
Title: Data Exchange Between R and 'LabKey' Server
Description: The 'LabKey' client library for R makes it easy for R users to
load live data from a 'LabKey' Server, <https://www.labkey.com/>,
into the R environment for analysis, provided users have permissions
to read the data. It also enables R users to insert, update, and
delete records stored on a 'LabKey' Server, provided they have appropriate
permissions to do so.
Author: Peter Hussey [aut],
Cory Nathe [cre]
Maintainer: Cory Nathe <cnathe@labkey.com>
Diff between Rlabkey versions 3.3.0 dated 2024-08-19 and 3.4.0 dated 2024-10-23
DESCRIPTION | 8 ++++---- MD5 | 8 ++++---- NEWS | 5 ++++- R/makeDF.R | 4 ++-- man/Rlabkey-package.Rd | 4 ++-- 5 files changed, 16 insertions(+), 13 deletions(-)
Title: Population Fisher Information Matrix
Description: Evaluate or optimize designs for nonlinear mixed effects models using the Fisher Information matrix. Methods used in the package refer to
Mentré F, Mallet A, Baccar D (1997) <doi:10.1093/biomet/84.2.429>,
Retout S, Comets E, Samson A, Mentré F (2007) <doi:10.1002/sim.2910>,
Bazzoli C, Retout S, Mentré F (2009) <doi:10.1002/sim.3573>,
Le Nagard H, Chao L, Tenaillon O (2011) <doi:10.1186/1471-2148-11-326>,
Combes FP, Retout S, Frey N, Mentré F (2013) <doi:10.1007/s11095-013-1079-3> and
Seurat J, Tang Y, Mentré F, Nguyen TT (2021) <doi:10.1016/j.cmpb.2021.106126>.
Author: France Mentre [aut],
Romain Leroux [aut, cre],
Jeremy Seurat [aut],
Lucie Fayette [aut]
Maintainer: Romain Leroux <romain.leroux@inserm.fr>
Diff between PFIM versions 6.0.3 dated 2024-03-23 and 6.1 dated 2024-10-23
PFIM-6.0.3/PFIM/man/ModelODEBolus-class.Rd |only PFIM-6.1/PFIM/DESCRIPTION | 24 PFIM-6.1/PFIM/MD5 | 653 ++++--- PFIM-6.1/PFIM/NAMESPACE | 62 PFIM-6.1/PFIM/R/Administration.R | 10 PFIM-6.1/PFIM/R/AdministrationConstraints.R | 7 PFIM-6.1/PFIM/R/Arm.R | 99 + PFIM-6.1/PFIM/R/Combined1.R | 11 PFIM-6.1/PFIM/R/Constant.R | 11 PFIM-6.1/PFIM/R/Design.R | 254 +- PFIM-6.1/PFIM/R/Distribution.R | 6 PFIM-6.1/PFIM/R/Evaluation.R | 236 +- PFIM-6.1/PFIM/R/FedorovWynnAlgorithm.R | 174 -- PFIM-6.1/PFIM/R/Fim.R | 33 PFIM-6.1/PFIM/R/GenericMethods.R | 4 PFIM-6.1/PFIM/R/LibraryOfModels.R | 7 PFIM-6.1/PFIM/R/LibraryOfPKModels.R | 241 +- PFIM-6.1/PFIM/R/LibraryOfPKPDModels.R | 5 PFIM-6.1/PFIM/R/LogNormal.R | 6 PFIM-6.1/PFIM/R/Model.R | 141 + PFIM-6.1/PFIM/R/ModelAnalytic.R | 507 ++--- PFIM-6.1/PFIM/R/ModelAnalyticBolus.R | 11 PFIM-6.1/PFIM/R/ModelAnalyticBolusSteadyState.R | 10 PFIM-6.1/PFIM/R/ModelAnalyticInfusion.R | 800 ++++----- PFIM-6.1/PFIM/R/ModelAnalyticInfusionSteadyState.R | 812 ++++----- PFIM-6.1/PFIM/R/ModelAnalyticSteadyState.R | 515 ++---- PFIM-6.1/PFIM/R/ModelBolus.R | 14 PFIM-6.1/PFIM/R/ModelError.R | 11 PFIM-6.1/PFIM/R/ModelInfusion.R | 14 PFIM-6.1/PFIM/R/ModelODE.R | 17 PFIM-6.1/PFIM/R/ModelODEBolus.R | 542 ++---- PFIM-6.1/PFIM/R/ModelODEDoseInEquations.R | 515 ++---- PFIM-6.1/PFIM/R/ModelODEDoseNotInEquations.R | 416 ++-- PFIM-6.1/PFIM/R/ModelODEInfusion.R | 18 PFIM-6.1/PFIM/R/ModelODEInfusionDoseInEquations.R | 432 ++--- PFIM-6.1/PFIM/R/ModelParameter.R | 9 PFIM-6.1/PFIM/R/MultiplicativeAlgorithm.R | 191 +- PFIM-6.1/PFIM/R/Normal.R | 6 PFIM-6.1/PFIM/R/Optimization.R | 168 - PFIM-6.1/PFIM/R/OptimizationAlgorithm.R | 42 PFIM-6.1/PFIM/R/PFIM-package.R | 16 PFIM-6.1/PFIM/R/PFIMProject.R | 9 PFIM-6.1/PFIM/R/PGBOAlgorithm.R | 37 PFIM-6.1/PFIM/R/PSOAlgorithm.R | 38 PFIM-6.1/PFIM/R/PlotEvaluation.R | 170 - PFIM-6.1/PFIM/R/PopulationFim.R | 857 +++++----- PFIM-6.1/PFIM/R/Proportional.R | 11 PFIM-6.1/PFIM/R/SamplingTimeConstraints.R | 12 PFIM-6.1/PFIM/R/SamplingTimes.R | 9 PFIM-6.1/PFIM/R/SimplexAlgorithm.R | 12 PFIM-6.1/PFIM/build/partial.rdb |binary PFIM-6.1/PFIM/build/vignette.rds |binary PFIM-6.1/PFIM/inst/doc/Example01.R | 58 PFIM-6.1/PFIM/inst/doc/Example01.Rmd | 8 PFIM-6.1/PFIM/inst/doc/Example01.html | 213 +- PFIM-6.1/PFIM/inst/doc/Example02.R | 48 PFIM-6.1/PFIM/inst/rmarkdown/templates/skeleton/templateEvaluationBayesianFim.Rmd | 2 PFIM-6.1/PFIM/inst/rmarkdown/templates/skeleton/templateEvaluationIndividualFim.Rmd | 2 PFIM-6.1/PFIM/inst/rmarkdown/templates/skeleton/templateEvaluationPopulationFim.Rmd | 2 PFIM-6.1/PFIM/inst/rmarkdown/templates/skeleton/template_FedorovAlgorithm.Rmd | 2 PFIM-6.1/PFIM/inst/rmarkdown/templates/skeleton/template_PGBOAlgorithm.Rmd | 2 PFIM-6.1/PFIM/inst/rmarkdown/templates/skeleton/template_PSOAlgorithm.Rmd | 2 PFIM-6.1/PFIM/inst/rmarkdown/templates/skeleton/template_SimplexAlgorithm.Rmd | 2 PFIM-6.1/PFIM/inst/rmarkdown/templates/skeleton/template_evaluation.Rmd | 2 PFIM-6.1/PFIM/inst/rmarkdown/templates/skeleton/template_multiplicativeAlgorithm.Rmd | 2 PFIM-6.1/PFIM/man/Administration-class.Rd | 56 PFIM-6.1/PFIM/man/AdministrationConstraints-class.Rd | 52 PFIM-6.1/PFIM/man/BayesianFim-class.Rd | 22 PFIM-6.1/PFIM/man/Combined1-class.Rd | 54 PFIM-6.1/PFIM/man/Constant-class.Rd | 52 PFIM-6.1/PFIM/man/Design-class.Rd | 56 PFIM-6.1/PFIM/man/Distribution-class.Rd | 46 PFIM-6.1/PFIM/man/EvaluateArm.Rd | 54 PFIM-6.1/PFIM/man/EvaluateDesign.Rd | 48 PFIM-6.1/PFIM/man/EvaluateErrorModelDerivatives.Rd | 44 PFIM-6.1/PFIM/man/EvaluateFisherMatrix.Rd | 70 PFIM-6.1/PFIM/man/EvaluateModel.Rd | 96 - PFIM-6.1/PFIM/man/EvaluateModelGradient.Rd |only PFIM-6.1/PFIM/man/EvaluateVarianceFIM.Rd | 62 PFIM-6.1/PFIM/man/EvaluateVarianceModel.Rd | 50 PFIM-6.1/PFIM/man/Evaluation-class.Rd | 60 PFIM-6.1/PFIM/man/FedorovWynnAlgorithm-class.Rd | 62 PFIM-6.1/PFIM/man/FedorovWynnAlgorithm_Rcpp.Rd | 98 - PFIM-6.1/PFIM/man/Fim-class.Rd | 54 PFIM-6.1/PFIM/man/IndividualFim-class.Rd | 22 PFIM-6.1/PFIM/man/LibraryOfModels-class.Rd | 48 PFIM-6.1/PFIM/man/LibraryOfPDModels.Rd | 22 PFIM-6.1/PFIM/man/LibraryOfPKModels.Rd | 22 PFIM-6.1/PFIM/man/LibraryOfPKPDModels-class.Rd | 22 PFIM-6.1/PFIM/man/LogNormal-class.Rd | 22 PFIM-6.1/PFIM/man/Model-class.Rd | 64 PFIM-6.1/PFIM/man/ModelAnalytic-class.Rd | 22 PFIM-6.1/PFIM/man/ModelAnalyticBolus-class.Rd | 22 PFIM-6.1/PFIM/man/ModelAnalyticBolusSteadyState-class.Rd | 22 PFIM-6.1/PFIM/man/ModelAnalyticInfusion-class.Rd | 22 PFIM-6.1/PFIM/man/ModelAnalyticInfusionSteadyState-class.Rd | 22 PFIM-6.1/PFIM/man/ModelAnalyticSteadyState-class.Rd | 22 PFIM-6.1/PFIM/man/ModelBolus-class.Rd | 20 PFIM-6.1/PFIM/man/ModelError-class.Rd | 20 PFIM-6.1/PFIM/man/ModelInfusion-class.Rd | 20 PFIM-6.1/PFIM/man/ModelODE-class.Rd | 22 PFIM-6.1/PFIM/man/ModelODEDoseInEquations-class.Rd | 22 PFIM-6.1/PFIM/man/ModelODEDoseNotInEquations-class.Rd | 20 PFIM-6.1/PFIM/man/ModelODEInfusion-class.Rd | 22 PFIM-6.1/PFIM/man/ModelODEInfusionDoseInEquations-class.Rd | 22 PFIM-6.1/PFIM/man/ModelParameter-class.Rd | 52 PFIM-6.1/PFIM/man/MultiplicativeAlgorithm-class.Rd | 59 PFIM-6.1/PFIM/man/MultiplicativeAlgorithm_Rcpp.Rd | 74 PFIM-6.1/PFIM/man/Normal-class.Rd | 22 PFIM-6.1/PFIM/man/Optimization-class.Rd | 72 PFIM-6.1/PFIM/man/OptimizationAlgorithm-class.Rd | 48 PFIM-6.1/PFIM/man/PFIM-package.Rd | 22 PFIM-6.1/PFIM/man/PFIMProject-class.Rd | 48 PFIM-6.1/PFIM/man/PGBOAlgorithm-class.Rd | 70 PFIM-6.1/PFIM/man/PSOAlgorithm-class.Rd | 60 PFIM-6.1/PFIM/man/PlotEvaluation-class.Rd | 22 PFIM-6.1/PFIM/man/PopulationFim-class.Rd | 22 PFIM-6.1/PFIM/man/Proportional-class.Rd | 52 PFIM-6.1/PFIM/man/Report.Rd | 58 PFIM-6.1/PFIM/man/SamplingTimeConstraints-class.Rd | 58 PFIM-6.1/PFIM/man/SamplingTimes-class.Rd | 48 PFIM-6.1/PFIM/man/SimplexAlgorithm-class.Rd | 56 PFIM-6.1/PFIM/man/addModel.Rd | 44 PFIM-6.1/PFIM/man/addModels.Rd | 44 PFIM-6.1/PFIM/man/checkSamplingTimeConstraintsForContinuousOptimization.Rd | 76 PFIM-6.1/PFIM/man/checkValiditySamplingConstraint.Rd | 40 PFIM-6.1/PFIM/man/computeVMat.Rd |only PFIM-6.1/PFIM/man/convertPKModelAnalyticToPKModelODE.Rd | 54 PFIM-6.1/PFIM/man/dataForArmEvaluation.Rd |only PFIM-6.1/PFIM/man/defineModel.Rd | 44 PFIM-6.1/PFIM/man/defineModelEquationsFromStringToFunction.Rd |only PFIM-6.1/PFIM/man/defineModelFromLibraryOfModels.Rd | 44 PFIM-6.1/PFIM/man/defineModelType.Rd | 44 PFIM-6.1/PFIM/man/defineModelUserDefined.Rd | 44 PFIM-6.1/PFIM/man/definePKModel.Rd | 80 PFIM-6.1/PFIM/man/definePKPDModel.Rd | 114 - PFIM-6.1/PFIM/man/fisher.simplex.Rd | 42 PFIM-6.1/PFIM/man/fun.amoeba.Rd | 64 PFIM-6.1/PFIM/man/generateFimsFromConstraints.Rd | 44 PFIM-6.1/PFIM/man/generateReportEvaluation.Rd | 118 - PFIM-6.1/PFIM/man/generateReportOptimization.Rd | 156 - PFIM-6.1/PFIM/man/generateSamplingsFromSamplingConstraints.Rd | 40 PFIM-6.1/PFIM/man/generateTables.Rd | 50 PFIM-6.1/PFIM/man/getAdjustedGradient.Rd | 50 PFIM-6.1/PFIM/man/getAdministration.Rd | 44 PFIM-6.1/PFIM/man/getAdministrationConstraint.Rd | 44 PFIM-6.1/PFIM/man/getAdministrations.Rd | 42 PFIM-6.1/PFIM/man/getAdministrationsConstraints.Rd | 40 PFIM-6.1/PFIM/man/getArms.Rd | 48 PFIM-6.1/PFIM/man/getColumnAndParametersNamesFIM.Rd | 58 PFIM-6.1/PFIM/man/getColumnAndParametersNamesFIMInLatex.Rd | 58 PFIM-6.1/PFIM/man/getConditionNumberFixedEffects.Rd | 40 PFIM-6.1/PFIM/man/getConditionNumberVarianceEffects.Rd | 46 PFIM-6.1/PFIM/man/getContent.Rd | 40 PFIM-6.1/PFIM/man/getDataForArmEvaluation.Rd |only PFIM-6.1/PFIM/man/getDataFrameResults.Rd | 10 PFIM-6.1/PFIM/man/getDelta.Rd | 40 PFIM-6.1/PFIM/man/getDerivatives.Rd | 40 PFIM-6.1/PFIM/man/getDescription.Rd | 40 PFIM-6.1/PFIM/man/getDesigns.Rd | 40 PFIM-6.1/PFIM/man/getDistribution.Rd | 40 PFIM-6.1/PFIM/man/getDose.Rd | 46 PFIM-6.1/PFIM/man/getEigenValues.Rd | 40 PFIM-6.1/PFIM/man/getElementaryProtocols.Rd | 46 PFIM-6.1/PFIM/man/getEquation.Rd | 40 PFIM-6.1/PFIM/man/getEquations.Rd | 40 PFIM-6.1/PFIM/man/getEquationsAfterInfusion.Rd | 40 PFIM-6.1/PFIM/man/getEquationsDuringInfusion.Rd | 40 PFIM-6.1/PFIM/man/getEvaluationFIMResults.Rd | 40 PFIM-6.1/PFIM/man/getEvaluationInitialDesignResults.Rd | 40 PFIM-6.1/PFIM/man/getFixedEffects.Rd | 40 PFIM-6.1/PFIM/man/getFixedMu.Rd | 40 PFIM-6.1/PFIM/man/getFixedOmega.Rd | 40 PFIM-6.1/PFIM/man/getFixedParameters.Rd | 40 PFIM-6.1/PFIM/man/getFixedTimes.Rd | 40 PFIM-6.1/PFIM/man/getInitialConditions.Rd | 46 PFIM-6.1/PFIM/man/getIterationAndCriteria.Rd | 40 PFIM-6.1/PFIM/man/getLambda.Rd | 40 PFIM-6.1/PFIM/man/getLibraryPDModels.Rd | 40 PFIM-6.1/PFIM/man/getLibraryPKModels.Rd | 40 PFIM-6.1/PFIM/man/getMinSampling.Rd | 40 PFIM-6.1/PFIM/man/getModel.Rd | 40 PFIM-6.1/PFIM/man/getModelEquations.Rd | 40 PFIM-6.1/PFIM/man/getModelError.Rd | 46 PFIM-6.1/PFIM/man/getModelErrorParametersValues.Rd | 40 PFIM-6.1/PFIM/man/getModelFromLibrary.Rd | 40 PFIM-6.1/PFIM/man/getModelParameters.Rd | 40 PFIM-6.1/PFIM/man/getModelParametersValues.Rd | 40 PFIM-6.1/PFIM/man/getMu.Rd | 48 PFIM-6.1/PFIM/man/getName.Rd | 72 PFIM-6.1/PFIM/man/getNames.Rd | 40 PFIM-6.1/PFIM/man/getNumberOfArms.Rd | 40 PFIM-6.1/PFIM/man/getNumberOfIterations.Rd | 40 PFIM-6.1/PFIM/man/getNumberOfParameters.Rd | 40 PFIM-6.1/PFIM/man/getNumberOfTimesByWindows.Rd | 40 PFIM-6.1/PFIM/man/getNumberOfsamplingsOptimisable.Rd | 40 PFIM-6.1/PFIM/man/getOdeSolverParameters.Rd | 46 PFIM-6.1/PFIM/man/getOmega.Rd | 48 PFIM-6.1/PFIM/man/getOptimalDesign.Rd | 40 PFIM-6.1/PFIM/man/getOptimalWeights.Rd | 40 PFIM-6.1/PFIM/man/getOptimizationResults.Rd | 40 PFIM-6.1/PFIM/man/getOptimizer.Rd | 40 PFIM-6.1/PFIM/man/getOptimizerParameters.Rd | 40 PFIM-6.1/PFIM/man/getOutcome.Rd | 68 PFIM-6.1/PFIM/man/getOutcomes.Rd | 46 PFIM-6.1/PFIM/man/getOutcomesEvaluation.Rd | 40 PFIM-6.1/PFIM/man/getOutcomesForEvaluation.Rd | 40 PFIM-6.1/PFIM/man/getOutcomesGradient.Rd | 40 PFIM-6.1/PFIM/man/getPDModel.Rd | 44 PFIM-6.1/PFIM/man/getPKModel.Rd | 44 PFIM-6.1/PFIM/man/getPKPDModel.Rd | 44 PFIM-6.1/PFIM/man/getParameters.Rd | 54 PFIM-6.1/PFIM/man/getPlotOptions.Rd | 38 PFIM-6.1/PFIM/man/getProportionsOfSubjects.Rd | 40 PFIM-6.1/PFIM/man/getSamplingTime.Rd | 44 PFIM-6.1/PFIM/man/getSamplingTimeConstraint.Rd | 44 PFIM-6.1/PFIM/man/getSamplingTimes.Rd | 40 PFIM-6.1/PFIM/man/getSamplingTimesConstraints.Rd | 40 PFIM-6.1/PFIM/man/getSamplings.Rd | 48 PFIM-6.1/PFIM/man/getSamplingsWindows.Rd | 40 PFIM-6.1/PFIM/man/getSigmaInter.Rd | 40 PFIM-6.1/PFIM/man/getSigmaSlope.Rd | 40 PFIM-6.1/PFIM/man/getSize.Rd | 46 PFIM-6.1/PFIM/man/getTau.Rd | 40 PFIM-6.1/PFIM/man/getTimeDose.Rd | 40 PFIM-6.1/PFIM/man/getTinf.Rd | 40 PFIM-6.1/PFIM/man/getVariables.Rd |only PFIM-6.1/PFIM/man/getVarianceEffects.Rd | 40 PFIM-6.1/PFIM/man/getWeightThreshold.Rd |only PFIM-6.1/PFIM/man/getcError.Rd | 40 PFIM-6.1/PFIM/man/initialize-Administration-method.Rd |only PFIM-6.1/PFIM/man/initialize-AdministrationConstraints-method.Rd |only PFIM-6.1/PFIM/man/initialize-Arm-method.Rd |only PFIM-6.1/PFIM/man/initialize-Combined1-method.Rd |only PFIM-6.1/PFIM/man/initialize-Constant-method.Rd |only PFIM-6.1/PFIM/man/initialize-Design-method.Rd |only PFIM-6.1/PFIM/man/initialize-Distribution-method.Rd |only PFIM-6.1/PFIM/man/initialize-Evaluation-method.Rd |only PFIM-6.1/PFIM/man/initialize-FedorovWynnAlgorithm-method.Rd |only PFIM-6.1/PFIM/man/initialize-Fim-method.Rd |only PFIM-6.1/PFIM/man/initialize-LibraryOfModels-method.Rd |only PFIM-6.1/PFIM/man/initialize-LibraryOfPKPDModels-method.Rd |only PFIM-6.1/PFIM/man/initialize-LogNormal-method.Rd |only PFIM-6.1/PFIM/man/initialize-Model-method.Rd |only PFIM-6.1/PFIM/man/initialize-ModelAnalytic-method.Rd |only PFIM-6.1/PFIM/man/initialize-ModelAnalyticBolus-method.Rd |only PFIM-6.1/PFIM/man/initialize-ModelAnalyticBolusSteadyState-method.Rd |only PFIM-6.1/PFIM/man/initialize-ModelAnalyticInfusion-method.Rd |only PFIM-6.1/PFIM/man/initialize-ModelAnalyticInfusionSteadyState-method.Rd |only PFIM-6.1/PFIM/man/initialize-ModelAnalyticSteadyState-method.Rd |only PFIM-6.1/PFIM/man/initialize-ModelBolus-method.Rd |only PFIM-6.1/PFIM/man/initialize-ModelError-method.Rd |only PFIM-6.1/PFIM/man/initialize-ModelInfusion-method.Rd |only PFIM-6.1/PFIM/man/initialize-ModelParameter-method.Rd |only PFIM-6.1/PFIM/man/initialize-MultiplicativeAlgorithm-method.Rd |only PFIM-6.1/PFIM/man/initialize-Normal-method.Rd |only PFIM-6.1/PFIM/man/initialize-Optimization-method.Rd |only PFIM-6.1/PFIM/man/initialize-OptimizationAlgorithm-method.Rd |only PFIM-6.1/PFIM/man/initialize-PFIMProject-method.Rd |only PFIM-6.1/PFIM/man/initialize-PGBOAlgorithm-method.Rd |only PFIM-6.1/PFIM/man/initialize-PSOAlgorithm-method.Rd |only PFIM-6.1/PFIM/man/initialize-Proportional-method.Rd |only PFIM-6.1/PFIM/man/initialize-SamplingTimeConstraints-method.Rd |only PFIM-6.1/PFIM/man/initialize-SamplingTimes-method.Rd |only PFIM-6.1/PFIM/man/initialize-SimplexAlgorithm-method.Rd |only PFIM-6.1/PFIM/man/isDoseInEquations.Rd | 40 PFIM-6.1/PFIM/man/isModelAnalytic.Rd | 40 PFIM-6.1/PFIM/man/isModelBolus.Rd | 44 PFIM-6.1/PFIM/man/isModelInfusion.Rd | 40 PFIM-6.1/PFIM/man/isModelODE.Rd | 40 PFIM-6.1/PFIM/man/isModelSteadyState.Rd | 40 PFIM-6.1/PFIM/man/optimize.Rd | 76 PFIM-6.1/PFIM/man/parametersForComputingGradient.Rd | 42 PFIM-6.1/PFIM/man/plotEvaluation.Rd | 44 PFIM-6.1/PFIM/man/plotFrequencies.Rd | 8 PFIM-6.1/PFIM/man/plotOutcomesEvaluation.Rd | 62 PFIM-6.1/PFIM/man/plotOutcomesGradient.Rd | 52 PFIM-6.1/PFIM/man/plotRSE.Rd | 44 PFIM-6.1/PFIM/man/plotSE.Rd | 44 PFIM-6.1/PFIM/man/plotSensitivityIndice.Rd | 44 PFIM-6.1/PFIM/man/plotShrinkage.Rd | 44 PFIM-6.1/PFIM/man/plotWeights.Rd | 50 PFIM-6.1/PFIM/man/reportTablesAdministration.Rd | 40 PFIM-6.1/PFIM/man/reportTablesDesign.Rd | 40 PFIM-6.1/PFIM/man/reportTablesFIM.Rd | 58 PFIM-6.1/PFIM/man/reportTablesModelError.Rd | 40 PFIM-6.1/PFIM/man/reportTablesModelParameters.Rd | 40 PFIM-6.1/PFIM/man/reportTablesPlot.Rd | 44 PFIM-6.1/PFIM/man/reportTablesSamplingConstraints.Rd | 40 PFIM-6.1/PFIM/man/resizeFisherMatrix.Rd | 44 PFIM-6.1/PFIM/man/run.Rd | 46 PFIM-6.1/PFIM/man/setAdministrations.Rd | 48 PFIM-6.1/PFIM/man/setArm.Rd | 44 PFIM-6.1/PFIM/man/setArms.Rd | 52 PFIM-6.1/PFIM/man/setContent.Rd | 44 PFIM-6.1/PFIM/man/setDataForArmEvaluation.Rd |only PFIM-6.1/PFIM/man/setDataForModelEvaluation.Rd |only PFIM-6.1/PFIM/man/setDerivatives.Rd | 44 PFIM-6.1/PFIM/man/setDescription.Rd | 44 PFIM-6.1/PFIM/man/setDesigns.Rd | 44 PFIM-6.1/PFIM/man/setDistribution.Rd | 44 PFIM-6.1/PFIM/man/setDose.Rd | 44 PFIM-6.1/PFIM/man/setEquation.Rd | 44 PFIM-6.1/PFIM/man/setEquations.Rd | 44 PFIM-6.1/PFIM/man/setEquationsAfterInfusion.Rd | 44 PFIM-6.1/PFIM/man/setEquationsDuringInfusion.Rd | 44 PFIM-6.1/PFIM/man/setEvaluationFIMResults.Rd | 44 PFIM-6.1/PFIM/man/setEvaluationInitialDesignResults.Rd | 44 PFIM-6.1/PFIM/man/setFim.Rd | 44 PFIM-6.1/PFIM/man/setFimTypeToString.Rd | 40 PFIM-6.1/PFIM/man/setFisherMatrix.Rd | 44 PFIM-6.1/PFIM/man/setFixedEffects.Rd | 40 PFIM-6.1/PFIM/man/setFixedMu.Rd | 44 PFIM-6.1/PFIM/man/setFixedOmega.Rd | 44 PFIM-6.1/PFIM/man/setInitialConditions.Rd | 50 PFIM-6.1/PFIM/man/setIterationAndCriteria.Rd | 44 PFIM-6.1/PFIM/man/setModel.Rd | 44 PFIM-6.1/PFIM/man/setModelError.Rd | 44 PFIM-6.1/PFIM/man/setModelFromLibrary.Rd | 44 PFIM-6.1/PFIM/man/setMu.Rd | 52 PFIM-6.1/PFIM/man/setName.Rd | 58 PFIM-6.1/PFIM/man/setNumberOfArms.Rd | 44 PFIM-6.1/PFIM/man/setOdeSolverParameters.Rd | 44 PFIM-6.1/PFIM/man/setOmega.Rd | 52 PFIM-6.1/PFIM/man/setOptimalDesign.Rd | 44 PFIM-6.1/PFIM/man/setOptimalWeights.Rd | 44 PFIM-6.1/PFIM/man/setOptimizationResults.Rd | 44 PFIM-6.1/PFIM/man/setOutcome.Rd | 52 PFIM-6.1/PFIM/man/setOutcomes.Rd | 44 PFIM-6.1/PFIM/man/setOutcomesEvaluation.Rd | 44 PFIM-6.1/PFIM/man/setOutcomesForEvaluation.Rd | 44 PFIM-6.1/PFIM/man/setOutcomesGradient.Rd | 44 PFIM-6.1/PFIM/man/setParameters.Rd | 84 PFIM-6.1/PFIM/man/setSamplingConstraintForOptimization.Rd | 40 PFIM-6.1/PFIM/man/setSamplingTime.Rd | 44 PFIM-6.1/PFIM/man/setSamplingTimes.Rd | 44 PFIM-6.1/PFIM/man/setSamplingTimesConstraints.Rd | 44 PFIM-6.1/PFIM/man/setSamplings.Rd | 44 PFIM-6.1/PFIM/man/setShrinkage.Rd | 58 PFIM-6.1/PFIM/man/setSigmaInter.Rd | 44 PFIM-6.1/PFIM/man/setSigmaSlope.Rd | 44 PFIM-6.1/PFIM/man/setSize.Rd | 62 PFIM-6.1/PFIM/man/setTau.Rd | 44 PFIM-6.1/PFIM/man/setTimeDose.Rd | 44 PFIM-6.1/PFIM/man/setTinf.Rd | 44 PFIM-6.1/PFIM/man/setVarianceEffects.Rd | 40 PFIM-6.1/PFIM/man/setcError.Rd | 44 PFIM-6.1/PFIM/man/show.Rd | 102 - PFIM-6.1/PFIM/tests/testthat/test_PKModels-PFIM.R | 25 PFIM-6.1/PFIM/vignettes/Example01.Rmd | 8 350 files changed, 9619 insertions(+), 9801 deletions(-)
Title: Generate Random Walks Compatible with the 'tidyverse'
Description: Generates random walks of various types by providing a set of functions
that are compatible with the 'tidyverse'. The functions provided in the package
make it simple to create random walks with a variety of properties, such as
how many simulations to run, how many steps to take, and the distribution of
random walk itself.
Author: Steven Sanderson [aut, cre, cph]
,
Antti Rask [aut, cph]
Maintainer: Steven Sanderson <spsanderson@gmail.com>
Diff between RandomWalker versions 0.1.0 dated 2024-09-15 and 0.2.0 dated 2024-10-23
DESCRIPTION | 10 MD5 | 62 +-- NAMESPACE | 7 NEWS.md | 26 + R/00_global_variables.R | 10 R/auto-rw30.R | 13 R/gen-brown-motion-geometric.R | 10 R/gen-brown-motion.R | 10 R/gen-discrete-walk.R | 9 R/gen-random-normal-walk-drift.R | 12 R/gen-random-normal-walk.R | 8 R/helpers.R | 379 +++++++++++++++++++ R/plt-visualize-walks.R | 385 +++++++++++++------- R/vec-running-quantile.R |only README.md | 68 ++- inst/doc/getting-started.Rmd | 194 +++++----- inst/doc/getting-started.html | 32 - man/brownian_motion.Rd | 10 man/convert_snake_to_title_case.Rd | 85 ++-- man/discrete_walk.Rd | 9 man/figures/README-random_walk_visual_example-1.png |binary man/generate_caption.Rd | 97 ++--- man/geometric_brownian_motion.Rd | 10 man/get_attributes.Rd |only man/rand_walk_helper.Rd | 111 +++-- man/random_normal_drift_walk.Rd | 12 man/random_normal_walk.Rd | 8 man/running_quantile.Rd |only man/rw30.Rd | 13 man/std_cum_max_augment.Rd |only man/std_cum_mean_augment.Rd |only man/std_cum_min_augment.Rd |only man/std_cum_prod_augment.Rd |only man/std_cum_sum_augment.Rd |only man/visualize_walks.Rd | 36 + vignettes/getting-started.Rmd | 194 +++++----- 36 files changed, 1197 insertions(+), 623 deletions(-)
Title: Adverse Events Analysis Using 'metalite'
Description: Analyzes adverse events in clinical trials using the 'metalite'
data structure. The package simplifies the workflow to create
production-ready tables, listings, and figures discussed in the
adverse events analysis chapters of
"R for Clinical Study Reports and Submission"
by Zhang et al. (2022) <https://r4csr.org/>.
Author: Yilong Zhang [aut],
Yujie Zhao [aut, cre],
Benjamin Wang [aut],
Nan Xiao [aut],
Sarad Nepal [aut],
Madhusudhan Ginnaram [aut],
Venkatesh Burla [ctb],
Ruchitbhai Patel [aut],
Brian Lang [aut],
Xuan Deng [aut],
Hiroaki Fukuda [aut],
Bing Liu [aut],
Jee [...truncated...]
Maintainer: Yujie Zhao <yujie.zhao@merck.com>
Diff between metalite.ae versions 0.1.2 dated 2024-04-16 and 0.1.3 dated 2024-10-23
DESCRIPTION | 10 MD5 | 93 - NEWS.md | 79 R/avg.R | 201 +- R/data.R | 11 R/empty_table.R |only R/extend_ae_specific.R | 60 R/fmt.R | 2 R/format_ae_specific.R | 154 + R/format_ae_specific_subgroup.R | 1 R/tlf_ae_exp_adj.R | 120 - R/tlf_ae_listing.R | 126 - R/tlf_ae_specific.R | 314 +-- R/tlf_ae_specific_subgroup.R | 250 +- R/tlf_ae_summary.R | 136 - data/metalite_ae_adexsum.rda |only inst/doc/ae-listing.html | 2 inst/doc/ae-specific-subgroup.html | 16 inst/doc/ae-specific.R | 24 inst/doc/ae-specific.Rmd | 49 inst/doc/ae-specific.html | 254 +- inst/doc/ae-summary.R | 3 inst/doc/ae-summary.Rmd | 8 inst/doc/ae-summary.html | 17 inst/doc/metalite-ae.html | 2 man/extend_ae_specific_events.Rd | 2 man/extend_ae_specific_inference.Rd | 6 man/format_ae_specific.Rd | 41 man/format_ae_summary.Rd | 31 man/metalite.ae-package.Rd | 2 man/metalite_ae_adexsum.Rd |only tests/testthat/test-independent-testing-avg_duration.R | 5 tests/testthat/test-independent-testing-avg_event.R | 28 tests/testthat/test-independent-testing-empty_table.R |only tests/testthat/test-independent-testing-extend_ae_specific.R | 2 tests/testthat/test-independent-testing-format_ae_specific.R | 26 tests/testthat/test-independent-testing-tlf_ae_specific.R | 33 tests/testthat/test-independent-testing-tlf_ae_specific_subgroup.R | 2 vignettes/ae-specific.Rmd | 49 vignettes/ae-summary.Rmd | 8 vignettes/fig/ae0specific.png |binary vignettes/pdf/ae0specific0sub0gender1.pdf |binary vignettes/pdf/ae0specific1.pdf |binary vignettes/pdf/ae0specific2.pdf |binary vignettes/pdf/empty_ae0specific.pdf |only vignettes/pdf/mock_ae0specific1.pdf |binary vignettes/rtf/ae0specific0sub0gender1.rtf | 864 ++++----- vignettes/rtf/ae0specific1.rtf | 342 +-- vignettes/rtf/ae0specific2.rtf | 894 +++++----- vignettes/rtf/mock_ae0specific1.rtf | 2 50 files changed, 2456 insertions(+), 1813 deletions(-)
Title: Acknowledge all Contributors to a Project
Description: Acknowledge all contributors to a project via a single
function call. The function appends to a 'README' or other specified
file(s) a table with names of all individuals who contributed via code
or repository issues. The package also includes several additional
functions to extract and quantify contributions to any repository.
Author: Mark Padgham [aut, cre],
Chris Hartgerink [aut],
Maelle Salmon [ctb]
Maintainer: Mark Padgham <mark.padgham@email.com>
Diff between allcontributors versions 0.2.0 dated 2024-05-16 and 0.2.2 dated 2024-10-23
allcontributors-0.2.0/allcontributors/tests/testthat/getcontribs/api |only allcontributors-0.2.0/allcontributors/tests/testthat/getcontribs/api.github.com |only allcontributors-0.2.2/allcontributors/DESCRIPTION | 22 - allcontributors-0.2.2/allcontributors/MD5 | 43 +- allcontributors-0.2.2/allcontributors/NEWS.md | 15 allcontributors-0.2.2/allcontributors/R/add-contributors.R | 14 allcontributors-0.2.2/allcontributors/R/github-contribs-issue.R | 2 allcontributors-0.2.2/allcontributors/R/github.R | 104 +---- allcontributors-0.2.2/allcontributors/R/urlcheck.R | 10 allcontributors-0.2.2/allcontributors/R/utils.R | 2 allcontributors-0.2.2/allcontributors/README.md |only allcontributors-0.2.2/allcontributors/build/vignette.rds |binary allcontributors-0.2.2/allcontributors/inst/doc/allcontributors.Rmd | 170 ++++----- allcontributors-0.2.2/allcontributors/inst/doc/allcontributors.html | 174 +++++----- allcontributors-0.2.2/allcontributors/inst/httptest2/redact.R | 10 allcontributors-0.2.2/allcontributors/man/allcontributors-package.Rd | 14 allcontributors-0.2.2/allcontributors/man/get_contributors.Rd | 2 allcontributors-0.2.2/allcontributors/man/get_gh_code_contributors.Rd | 2 allcontributors-0.2.2/allcontributors/man/get_gh_contrib_issue.Rd | 2 allcontributors-0.2.2/allcontributors/man/get_gh_issue_people.Rd | 2 allcontributors-0.2.2/allcontributors/man/get_gh_issue_titles.Rd | 2 allcontributors-0.2.2/allcontributors/tests/testthat/getcontribs/gh-api |only allcontributors-0.2.2/allcontributors/vignettes/allcontributors.Rmd | 170 ++++----- 23 files changed, 376 insertions(+), 384 deletions(-)
More information about allcontributors at CRAN
Permanent link
Title: Access the 'Strava' API
Description: Functions to access data from the 'Strava v3 API' <https://developers.strava.com/>.
Author: Marcus W. Beck [cre],
Pedro Villarroel [aut],
Daniel Padfield [aut],
Lorenzo Gaborini [aut],
Niklas von Maltzahn [aut]
Maintainer: Marcus W. Beck <mbafs2012@gmail.com>
Diff between rStrava versions 1.3.1 dated 2024-03-26 and 1.3.2 dated 2024-10-23
DESCRIPTION | 12 +-- MD5 | 123 ++++++++++++++++++------------------- NAMESPACE | 1 NEWS.md |only R/athl_fun.R | 9 +- R/athlind_fun.R | 7 +- R/compile_activities.R | 8 +- R/compile_activity_streams.R | 7 +- R/compile_segment.R | 6 - R/get_KOMs.R | 7 +- R/get_activity.R | 10 ++- R/get_activity_list.R | 5 + R/get_activity_streams.R | 4 - R/get_athlete.R | 5 + R/get_club.R | 2 R/get_efforts_list.R | 9 +- R/get_elev_prof.R | 5 + R/get_gear.R | 5 + R/get_heat_map.R | 5 + R/get_laps.R | 7 +- R/get_leaderboard.R | 7 +- R/get_pages.R | 8 +- R/get_segment.R | 11 ++- R/get_starred.R | 5 + R/get_streams.R | 10 ++- R/plot_spdsplits.R | 5 + R/url_activities.R | 6 + R/url_athlete.R | 10 ++- R/url_clubs.R | 8 +- R/url_gear.R | 4 + R/url_segment.R | 7 +- R/url_streams.R | 7 +- man/athl_fun.Rd | 6 - man/athlind_fun.Rd | 2 man/compile_activities.Rd | 2 man/compile_activity_streams.Rd | 4 - man/compile_segment.Rd | 6 - man/figures/unnamed-chunk-12-1.png |binary man/figures/unnamed-chunk-13-1.png |binary man/figures/unnamed-chunk-13-2.png |binary man/figures/unnamed-chunk-17-1.png |binary man/get_KOMs.Rd | 4 - man/get_activity.Rd | 4 - man/get_activity_list.Rd | 2 man/get_activity_streams.Rd | 4 - man/get_athlete.Rd | 2 man/get_club.Rd | 2 man/get_efforts_list.Rd | 6 - man/get_elev_prof.Rd | 2 man/get_gear.Rd | 2 man/get_heat_map.Rd | 2 man/get_laps.Rd | 66 +++++++++---------- man/get_leaderboard.Rd | 4 - man/get_segment.Rd | 8 +- man/get_starred.Rd | 2 man/get_streams.Rd | 4 - man/plot_spdsplits.Rd | 2 man/seltime_fun.Rd | 52 +++++++-------- man/url_activities.Rd | 2 man/url_athlete.Rd | 2 man/url_clubs.Rd | 4 - man/url_segment.Rd | 4 - man/url_streams.Rd | 4 - 63 files changed, 308 insertions(+), 221 deletions(-)
Title: Cluster Analysis with Missing Values by Multiple Imputation
Description: Allows clustering of incomplete observations by addressing missing values using multiple imputation. For achieving this goal, the methodology consists in three steps, following Audigier and Niang 2022 <doi:10.1007/s11634-022-00519-1>. I) Missing data imputation using dedicated models. Four multiple imputation methods are proposed, two are based on joint modelling and two are fully sequential methods, as discussed in Audigier et al. (2021) <doi:10.48550/arXiv.2106.04424>. II) cluster analysis of imputed data sets. Six clustering methods are available (distances-based or model-based), but custom methods can also be easily used. III) Partition pooling. The set of partitions is aggregated using Non-negative Matrix Factorization based method. An associated instability measure is computed by bootstrap (see Fang, Y. and Wang, J., 2012 <doi:10.1016/j.csda.2011.09.003>). Among applications, this instability measure can be used to choose a number of clusters with missing value [...truncated...]
Author: Vincent Audigier [aut, cre] ,
Hang Joon Kim [ctb]
Maintainer: Vincent Audigier <vincent.audigier@cnam.fr>
Diff between clusterMI versions 1.2.1 dated 2024-07-07 and 1.2.2 dated 2024-10-23
DESCRIPTION | 10 - MD5 | 32 ++- R/choosem.R | 21 +- R/choosenbclust.R | 14 - R/clusterMI.R | 69 +++----- R/fastnmf.R | 135 +++++++++------- R/imputedata.R | 22 ++ R/initfastnmf.intern.R |only R/mclustboot.intern.R | 41 +++- R/overimpute.R | 2 inst/doc/clusterMI.R | 3 inst/doc/clusterMI.Rmd | 4 inst/doc/clusterMI.html | 398 ++++++++++++++++++++++++------------------------ man/clusterMI.Rd | 24 -- man/fastnmf.Rd | 32 +-- man/initfastnmf.Rd |only man/overimpute.Rd | 2 vignettes/clusterMI.Rmd | 4 18 files changed, 421 insertions(+), 392 deletions(-)
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 2.2.6 dated 2023-11-27 and 2.2.7 dated 2024-10-23
openCR-2.2.6/openCR/R/getD.R |only openCR-2.2.7/openCR/DESCRIPTION | 8 +-- openCR-2.2.7/openCR/MD5 | 53 ++++++++++------------ openCR-2.2.7/openCR/NEWS | 8 +++ openCR-2.2.7/openCR/R/openCR.fit.R | 7 +- openCR-2.2.7/openCR/R/utility.R | 4 - openCR-2.2.7/openCR/build/partial.rdb |binary openCR-2.2.7/openCR/build/vignette.rds |binary openCR-2.2.7/openCR/inst/doc/openCR-vignette.Rmd | 6 +- openCR-2.2.7/openCR/inst/doc/openCR-vignette.pdf |binary openCR-2.2.7/openCR/man/AIC.openCR.Rd | 2 openCR-2.2.7/openCR/man/LLsurface.Rd | 4 - openCR-2.2.7/openCR/man/cumMove.Rd | 5 +- openCR-2.2.7/openCR/man/kernel.Rd | 4 - openCR-2.2.7/openCR/man/microtus.Rd | 2 openCR-2.2.7/openCR/man/openCR-defunct.Rd | 2 openCR-2.2.7/openCR/man/openCR-internal.Rd | 2 openCR-2.2.7/openCR/man/openCR-package.Rd | 6 +- openCR-2.2.7/openCR/man/openCR.fit.Rd | 10 ++-- openCR-2.2.7/openCR/man/par.openCR.fit.Rd | 4 - openCR-2.2.7/openCR/man/read.inp.Rd | 2 openCR-2.2.7/openCR/man/simulate.Rd | 8 +-- openCR-2.2.7/openCR/man/strata.Rd | 2 openCR-2.2.7/openCR/man/stratify.Rd | 8 +-- openCR-2.2.7/openCR/man/ucare.Rd | 2 openCR-2.2.7/openCR/man/utility.Rd | 2 openCR-2.2.7/openCR/src/prwiparallel.cpp | 30 ++++++------ openCR-2.2.7/openCR/vignettes/openCR-vignette.Rmd | 6 +- 28 files changed, 99 insertions(+), 88 deletions(-)
Title: Cite 'R' Packages on the Fly in 'R Markdown' and 'Quarto'
Description: References and cites 'R' and 'R' packages on the fly in 'R
Markdown' and 'Quarto'. 'pakret' provides a minimalistic API that
generates preformatted citations of 'R' and 'R' packages, and adds
their reference to a '.bib' file directly from within your document.
Author: Arnaud Gallou [aut, cre, cph]
Maintainer: Arnaud Gallou <arangacas@gmail.com>
Diff between pakret versions 0.2.1 dated 2024-10-10 and 0.2.2 dated 2024-10-23
DESCRIPTION | 6 +++--- MD5 | 22 +++++++++++----------- NEWS.md | 6 ++++++ R/checkers.R | 15 ++++++++++++++- R/pakret.R | 4 ++++ R/pkrt-set.R | 11 ++++++----- R/utils-local.R | 22 ++++++++++++++-------- README.md | 17 ++++++++--------- tests/testthat/_snaps/onload.md | 4 ++-- tests/testthat/test-onload.R | 4 ++-- tests/testthat/test-pkrt-set.R | 34 ++++++++++++++++++++++++++++++++-- tests/testthat/test-pkrt.R | 5 +++-- 12 files changed, 105 insertions(+), 45 deletions(-)
Title: Kaplan-Meier Plot with 'ggplot2'
Description: The function 'jskm()' creates publication quality Kaplan-Meier plot with at risk tables below. 'svyjskm()' provides plot for weighted Kaplan-Meier estimator.
Author: Jinseob Kim [aut, cre] ,
yoonkyoung Chun [aut],
Zarathu [cph, fnd]
Maintainer: Jinseob Kim <jinseob2kim@gmail.com>
Diff between jskm versions 0.5.5 dated 2024-07-08 and 0.5.6 dated 2024-10-23
DESCRIPTION | 8 - MD5 | 52 +++---- NEWS.md | 8 + R/jskm.R | 187 +++++++++++++++++++++++----- R/svyjskm.R | 198 +++++++++++++++++++++++++----- README.md | 12 - inst/doc/jskm.html | 36 ++--- man/figures/README-unnamed-chunk-1-1.png |binary man/figures/README-unnamed-chunk-1-2.png |binary man/figures/README-unnamed-chunk-10-1.png |binary man/figures/README-unnamed-chunk-2-1.png |binary man/figures/README-unnamed-chunk-3-1.png |binary man/figures/README-unnamed-chunk-3-2.png |binary man/figures/README-unnamed-chunk-4-1.png |binary man/figures/README-unnamed-chunk-4-2.png |binary man/figures/README-unnamed-chunk-5-1.png |binary man/figures/README-unnamed-chunk-6-1.png |binary man/figures/README-unnamed-chunk-7-1.png |binary man/figures/README-unnamed-chunk-7-2.png |binary man/figures/README-unnamed-chunk-7-3.png |binary man/figures/README-unnamed-chunk-8-1.png |binary man/figures/README-unnamed-chunk-8-2.png |binary man/figures/README-unnamed-chunk-8-3.png |binary man/figures/README-unnamed-chunk-9-1.png |binary man/jskm.Rd | 5 man/svyjskm.Rd | 7 - tests/testthat/test-km.R | 12 + 27 files changed, 401 insertions(+), 124 deletions(-)
Title: Random Forest with Multivariate Longitudinal Predictors
Description: Based on random forest principle, 'DynForest' is able to include
multiple longitudinal predictors to provide individual predictions.
Longitudinal predictors are modeled through the random forest. The
methodology is fully described for a survival outcome in:
Devaux, Helmer, Genuer & Proust-Lima (2023)
<doi: 10.1177/09622802231206477>.
Author: Anthony Devaux [aut, cre] ,
Robin Genuer [aut] ,
Cecile Proust-Lima [aut] ,
Louis Capitaine [aut]
Maintainer: Anthony Devaux <anthony.devauxbarault@gmail.com>
Diff between DynForest versions 1.1.3 dated 2024-03-22 and 1.2.0 dated 2024-10-23
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DynForest-1.1.3/DynForest/vignettes/Introduction.Rmd |only DynForest-1.1.3/DynForest/vignettes/factor.Rmd |only DynForest-1.1.3/DynForest/vignettes/numeric.Rmd |only DynForest-1.1.3/DynForest/vignettes/surv.Rmd |only DynForest-1.2.0/DynForest/DESCRIPTION | 14 DynForest-1.2.0/DynForest/MD5 | 161 ++++------ DynForest-1.2.0/DynForest/NAMESPACE | 43 +- DynForest-1.2.0/DynForest/NEWS.md | 38 +- DynForest-1.2.0/DynForest/R/DynTree.R | 1 DynForest-1.2.0/DynForest/R/DynTree_surv.R | 1 DynForest-1.2.0/DynForest/R/Fact_partitions.R | 1 DynForest-1.2.0/DynForest/R/OOB_rfshape.R | 1 DynForest-1.2.0/DynForest/R/OOB_tree.R | 1 DynForest-1.2.0/DynForest/R/checking.R | 136 ++++++-- DynForest-1.2.0/DynForest/R/combine_times.R | 1 DynForest-1.2.0/DynForest/R/compute_gvimp.R |only DynForest-1.2.0/DynForest/R/compute_ooberror.R |only DynForest-1.2.0/DynForest/R/compute_vardepth.R |only DynForest-1.2.0/DynForest/R/compute_vimp.R |only DynForest-1.2.0/DynForest/R/data_simu2.R | 2 DynForest-1.2.0/DynForest/R/dynforest.R |only DynForest-1.2.0/DynForest/R/getParamMM.R | 1 DynForest-1.2.0/DynForest/R/get_tree.R |only DynForest-1.2.0/DynForest/R/get_treenodes.R |only DynForest-1.2.0/DynForest/R/impurity.R | 1 DynForest-1.2.0/DynForest/R/impurity_split.R | 1 DynForest-1.2.0/DynForest/R/plot.R | 94 +++-- DynForest-1.2.0/DynForest/R/predRE.R | 1 DynForest-1.2.0/DynForest/R/pred_MMT.R | 1 DynForest-1.2.0/DynForest/R/predict.R | 31 + DynForest-1.2.0/DynForest/R/print.R | 105 +++--- DynForest-1.2.0/DynForest/R/rf_shape_para.R | 1 DynForest-1.2.0/DynForest/R/summary.R | 34 +- DynForest-1.2.0/DynForest/R/var_split_factor.R | 1 DynForest-1.2.0/DynForest/R/var_split_long.R | 1 DynForest-1.2.0/DynForest/R/var_split_num.R | 1 DynForest-1.2.0/DynForest/README.md | 12 DynForest-1.2.0/DynForest/build/vignette.rds |binary DynForest-1.2.0/DynForest/inst/doc/classification.R |only DynForest-1.2.0/DynForest/inst/doc/classification.Rmd |only 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DynForest-1.2.0/DynForest/man/dynforest.Rd |only DynForest-1.2.0/DynForest/man/get_tree.Rd |only DynForest-1.2.0/DynForest/man/get_treenodes.Rd |only DynForest-1.2.0/DynForest/man/plot.dynforest.Rd |only DynForest-1.2.0/DynForest/man/predict.dynforest.Rd |only DynForest-1.2.0/DynForest/man/print.dynforest.Rd |only DynForest-1.2.0/DynForest/man/summary.dynforest.Rd |only DynForest-1.2.0/DynForest/vignettes/Figures/DynForestR_classi_VIMP.png |only DynForest-1.2.0/DynForest/vignettes/Figures/DynForestR_classi_mindepth.png |only DynForest-1.2.0/DynForest/vignettes/Figures/DynForestR_reg_mindepth.png |only DynForest-1.2.0/DynForest/vignettes/Figures/DynForestR_surv_CIF.png |only DynForest-1.2.0/DynForest/vignettes/Figures/DynForestR_surv_CIF9.png |only DynForest-1.2.0/DynForest/vignettes/Figures/DynForestR_surv_VIMP_gVIMP.png |only DynForest-1.2.0/DynForest/vignettes/Figures/DynForestR_surv_mindepth.png |only DynForest-1.2.0/DynForest/vignettes/Figures/DynForestR_surv_mtrytuned.png |only 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Title: Interaction Between R and REDCap
Description: Encapsulates functions to streamline calls from R to the REDCap
API. REDCap (Research Electronic Data CAPture) is a web application for
building and managing online surveys and databases developed at Vanderbilt
University. The Application Programming Interface (API) offers an avenue
to access and modify data programmatically, improving the capacity for
literate and reproducible programming.
Author: Will Beasley [aut, cre] ,
David Bard [ctb] ,
Thomas Wilson [ctb],
John J Aponte [ctb],
Rollie Parrish [ctb] ,
Benjamin Nutter [ctb],
Andrew Peters [ctb] ,
Hao Zhu [ctb] ,
Janosch Linkersdoerfer [ctb] ,
Jonathan Mang [ctb] ,
Felix Torres [ctb],
Philip [...truncated...]
Maintainer: Will Beasley <wibeasley@hotmail.com>
Diff between REDCapR versions 1.2.0 dated 2024-09-09 and 1.3.0 dated 2024-10-23
REDCapR-1.2.0/REDCapR/inst/test-data/checkboxes-1 |only REDCapR-1.2.0/REDCapR/inst/test-data/decimal-comma |only REDCapR-1.2.0/REDCapR/inst/test-data/decimal-comma-and-dot |only REDCapR-1.2.0/REDCapR/inst/test-data/decimal-dot |only REDCapR-1.2.0/REDCapR/inst/test-data/delete-multiple-arm |only REDCapR-1.2.0/REDCapR/inst/test-data/delete-single-arm |only REDCapR-1.2.0/REDCapR/inst/test-data/longitudinal-single-arm |only REDCapR-1.2.0/REDCapR/inst/test-data/problematic-dictionary |only REDCapR-1.2.0/REDCapR/inst/test-data/problematic-values |only REDCapR-1.2.0/REDCapR/inst/test-data/project-clinical-trial |only REDCapR-1.2.0/REDCapR/inst/test-data/project-dag |only REDCapR-1.2.0/REDCapR/inst/test-data/project-longitudinal |only REDCapR-1.2.0/REDCapR/inst/test-data/project-russian |only REDCapR-1.2.0/REDCapR/inst/test-data/project-simple |only REDCapR-1.2.0/REDCapR/inst/test-data/project-survey |only REDCapR-1.2.0/REDCapR/inst/test-data/repeating-instruments |only REDCapR-1.2.0/REDCapR/inst/test-data/specific-redcapr/log-read/2020-08-10.R |only REDCapR-1.2.0/REDCapR/inst/test-data/specific-redcapr/log-read/2021-07-11-record3-user.R |only REDCapR-1.2.0/REDCapR/inst/test-data/super-wide |only REDCapR-1.2.0/REDCapR/inst/test-data/super-wide-3 |only REDCapR-1.2.0/REDCapR/inst/test-data/super-wide-metadata |only REDCapR-1.2.0/REDCapR/inst/test-data/validation-types-v1 |only REDCapR-1.2.0/REDCapR/inst/test-data/vignette-repeating |only REDCapR-1.3.0/REDCapR/DESCRIPTION | 9 REDCapR-1.3.0/REDCapR/LICENSE | 4 REDCapR-1.3.0/REDCapR/MD5 | 767 - REDCapR-1.3.0/REDCapR/NAMESPACE | 108 REDCapR-1.3.0/REDCapR/NEWS.md | 12 REDCapR-1.3.0/REDCapR/R/REDCapR-package.R | 132 REDCapR-1.3.0/REDCapR/R/constant.R | 462 REDCapR-1.3.0/REDCapR/R/create-batch-glossary.R | 208 REDCapR-1.3.0/REDCapR/R/helpers-testing.R | 146 REDCapR-1.3.0/REDCapR/R/kernel-api.R | 238 REDCapR-1.3.0/REDCapR/R/metadata-utilities.R | 270 REDCapR-1.3.0/REDCapR/R/project-dag-write.R | 363 REDCapR-1.3.0/REDCapR/R/project-delete-multiple-arm.R | 219 REDCapR-1.3.0/REDCapR/R/project-delete-single-arm.R | 223 REDCapR-1.3.0/REDCapR/R/project-simple.R | 332 REDCapR-1.3.0/REDCapR/R/redcap-arm-export.R | 372 REDCapR-1.3.0/REDCapR/R/redcap-column-sanitize.R | 128 REDCapR-1.3.0/REDCapR/R/redcap-dag-read.R | 334 REDCapR-1.3.0/REDCapR/R/redcap-delete.R | 432 REDCapR-1.3.0/REDCapR/R/redcap-event-instruments.R | 366 REDCapR-1.3.0/REDCapR/R/redcap-event-read.R | 368 REDCapR-1.3.0/REDCapR/R/redcap-file-download-oneshot.R | 520 REDCapR-1.3.0/REDCapR/R/redcap-file-upload-oneshot.R | 400 REDCapR-1.3.0/REDCapR/R/redcap-instrument-download.R | 464 REDCapR-1.3.0/REDCapR/R/redcap-instruments.R | 332 REDCapR-1.3.0/REDCapR/R/redcap-log-read.R | 446 REDCapR-1.3.0/REDCapR/R/redcap-metadata-coltypes.R | 1025 - REDCapR-1.3.0/REDCapR/R/redcap-metadata-read.R | 438 REDCapR-1.3.0/REDCapR/R/redcap-metadata-write.R | 316 REDCapR-1.3.0/REDCapR/R/redcap-next-free-record-name.R | 284 REDCapR-1.3.0/REDCapR/R/redcap-project-info-read.R | 604 - REDCapR-1.3.0/REDCapR/R/redcap-project.R | 266 REDCapR-1.3.0/REDCapR/R/redcap-read-eav-oneshot.R | 708 - REDCapR-1.3.0/REDCapR/R/redcap-read-oneshot-eav.R | 818 - REDCapR-1.3.0/REDCapR/R/redcap-read-oneshot.R | 808 - REDCapR-1.3.0/REDCapR/R/redcap-read.R | 1232 +- REDCapR-1.3.0/REDCapR/R/redcap-report.R | 498 REDCapR-1.3.0/REDCapR/R/redcap-survey-link-export-oneshot.R | 342 REDCapR-1.3.0/REDCapR/R/redcap-users-export.R | 450 REDCapR-1.3.0/REDCapR/R/redcap-variables.R | 346 REDCapR-1.3.0/REDCapR/R/redcap-version.R | 218 REDCapR-1.3.0/REDCapR/R/redcap-write-oneshot.R | 406 REDCapR-1.3.0/REDCapR/R/redcap-write.R | 424 REDCapR-1.3.0/REDCapR/R/retrieve-credential.R | 796 - REDCapR-1.3.0/REDCapR/R/sanitize-token.R | 198 REDCapR-1.3.0/REDCapR/R/skippers.R | 14 REDCapR-1.3.0/REDCapR/R/utilities.R | 236 REDCapR-1.3.0/REDCapR/R/validate.R | 830 - REDCapR-1.3.0/REDCapR/README.md | 190 REDCapR-1.3.0/REDCapR/build/vignette.rds |binary 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REDCapR-1.3.0/REDCapR/inst/doc/workflow-read.R | 210 REDCapR-1.3.0/REDCapR/inst/doc/workflow-read.Rmd | 864 - REDCapR-1.3.0/REDCapR/inst/doc/workflow-read.html | 4411 +++---- REDCapR-1.3.0/REDCapR/inst/doc/workflow-write.R | 34 REDCapR-1.3.0/REDCapR/inst/doc/workflow-write.Rmd | 836 - REDCapR-1.3.0/REDCapR/inst/doc/workflow-write.html | 1555 +- REDCapR-1.3.0/REDCapR/inst/misc/bad.credentials | 16 REDCapR-1.3.0/REDCapR/inst/misc/conflicting-rows.credentials | 16 REDCapR-1.3.0/REDCapR/inst/misc/dev-2.credentials |only REDCapR-1.3.0/REDCapR/inst/misc/example.credentials | 74 REDCapR-1.3.0/REDCapR/inst/misc/out-of-order.credentials | 16 REDCapR-1.3.0/REDCapR/inst/misc/plugin-redirection.yml |only REDCapR-1.3.0/REDCapR/inst/misc/project-redirection.yml |only REDCapR-1.3.0/REDCapR/inst/misc/skeleton.credentials | 38 REDCapR-1.3.0/REDCapR/inst/misc/validation-transformation.yml | 280 REDCapR-1.3.0/REDCapR/inst/misc/vignette.css | 72 REDCapR-1.3.0/REDCapR/inst/misc/zero-rows.credentials | 12 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REDCapR-1.3.0/REDCapR/inst/test-data/specific-redcapr/instruments/default.R | 12 REDCapR-1.3.0/REDCapR/inst/test-data/specific-redcapr/log-read/2024-10-11.R |only REDCapR-1.3.0/REDCapR/inst/test-data/specific-redcapr/metadata-coltypes/longitudinal.R | 254 REDCapR-1.3.0/REDCapR/inst/test-data/specific-redcapr/metadata-coltypes/problematic-dictionary.R | 18 REDCapR-1.3.0/REDCapR/inst/test-data/specific-redcapr/metadata-coltypes/repeating-instruments.R | 34 REDCapR-1.3.0/REDCapR/inst/test-data/specific-redcapr/metadata-coltypes/simple.R | 54 REDCapR-1.3.0/REDCapR/inst/test-data/specific-redcapr/metadata-coltypes/validation-types.R | 108 REDCapR-1.3.0/REDCapR/inst/test-data/specific-redcapr/metadata-read/normal-filter-form-all-three.R | 96 REDCapR-1.3.0/REDCapR/inst/test-data/specific-redcapr/metadata-read/normal-filter-form-demographics.R | 64 REDCapR-1.3.0/REDCapR/inst/test-data/specific-redcapr/metadata-read/normal-filter-form-health.R | 50 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Title: Quantitative Evaluation of the Native Fertility of Tropical
Soils
Description: An implementation of the QUEFTS (Quantitative Evaluation of the Native Fertility of Tropical Soils) model. The model (1) estimates native nutrient (N, P, K) supply of soils from a few soil chemical properties; and (2) computes crop yield given that supply, crop parameters, fertilizer application, and crop attainable yield. See Janssen et al. (1990) <doi:10.1016/0016-7061(90)90021-Z> for the technical details and Sattari et al. (2014) <doi:10.1016/j.fcr.2013.12.005> for a recent evaluation and improvements.
Author: Robert J. Hijmans [cre, aut],
Pieter Pypers [ctb, aut],
Joost Wolff [ctb]
Maintainer: Robert J. Hijmans <r.hijmans@gmail.com>
Diff between Rquefts versions 1.2-3 dated 2023-10-24 and 1.2-4 dated 2024-10-23
DESCRIPTION | 8 MD5 | 52 ++--- NAMESPACE | 14 - R/RcppExports.R | 14 - R/a_generic_functions.R | 126 +++++++------- R/fcc.R | 244 +++++++++++++-------------- R/ferti_funs.R | 104 +++++------ R/nutSupply.R | 264 ++++++++++++++--------------- R/rquefts.R | 270 +++++++++++++++--------------- R/spatial.R | 134 +++++++-------- R/zzz.R | 2 build/partial.rdb |binary inst/extdata/fertilizers.csv | 60 +++--- inst/extdata/old_quefts_crop_pars.csv | 58 +++--- inst/extdata/quefts_crop_pars.csv | 58 +++--- man/Rquefts-package.Rd | 46 ++--- man/batch.Rd | 92 +++++----- man/fertApp.Rd | 88 ++++----- man/fertilizer.Rd | 76 ++++---- man/nutSupply.Rd | 98 +++++------ man/predict.Rd | 124 +++++++------- man/quefts.Rd | 300 ++++++++++++++++------------------ man/quefts_biom.Rd | 76 ++++---- man/quefts_crop.Rd | 80 ++++----- man/quefts_fert.Rd | 68 +++---- man/quefts_soil.Rd | 74 ++++---- man/revSupply.Rd | 104 +++++------ 27 files changed, 1316 insertions(+), 1318 deletions(-)
Title: Count Regression Models Based on the Bell Distribution
Description: Bell regression models for count data with overdispersion. The implemented models account for ordinary and zero-inflated regression models under both frequentist and Bayesian approaches. Theoretical details regarding the models implemented in the package can be found in Castellares et al. (2018) <doi:10.1016/j.apm.2017.12.014> and Lemonte et al. (2020) <doi:10.1080/02664763.2019.1636940>.
Author: Fabio Demarqui [aut, cre, cph]
,
Marcos Prates [ctb] ,
Fredy Caceres [ctb],
Andrew Johnson [ctb]
Maintainer: Fabio Demarqui <fndemarqui@est.ufmg.br>
Diff between bellreg versions 0.0.2.1 dated 2024-06-17 and 0.0.2.2 dated 2024-10-23
bellreg-0.0.2.1/bellreg/man/Bell.Rd |only bellreg-0.0.2.2/bellreg/DESCRIPTION | 8 bellreg-0.0.2.2/bellreg/MD5 | 34 +- bellreg-0.0.2.2/bellreg/NAMESPACE | 4 bellreg-0.0.2.2/bellreg/NEWS.md | 5 bellreg-0.0.2.2/bellreg/R/bell.R |only bellreg-0.0.2.2/bellreg/R/belldist.R | 15 bellreg-0.0.2.2/bellreg/R/bellreg-package.R | 2 bellreg-0.0.2.2/bellreg/R/bellreg.R | 2 bellreg-0.0.2.2/bellreg/README.md | 10 bellreg-0.0.2.2/bellreg/build/partial.rdb |binary bellreg-0.0.2.2/bellreg/build/vignette.rds |binary bellreg-0.0.2.2/bellreg/inst/doc/bellreg.html | 99 +++--- bellreg-0.0.2.2/bellreg/inst/doc/zibellreg.html | 127 ++++---- bellreg-0.0.2.2/bellreg/inst/stan/bellreg.stan | 5 bellreg-0.0.2.2/bellreg/inst/stan/zibellreg.stan | 2 bellreg-0.0.2.2/bellreg/man/Belldist.Rd |only bellreg-0.0.2.2/bellreg/man/bell.Rd |only bellreg-0.0.2.2/bellreg/src/stanExports_bellreg.h | 301 ++++++++++---------- bellreg-0.0.2.2/bellreg/src/stanExports_zibellreg.h | 4 20 files changed, 325 insertions(+), 293 deletions(-)
Title: Multivariate Normal Hypothesis Testing
Description: Hypothesis testing of the parameters of multivariate normal distributions, including the testing of a single mean vector, two mean vectors, multiple mean vectors, a single covariance matrix, multiple covariance matrices, a mean and a covariance matrix simultaneously, and the testing of independence of multivariate normal random vectors. Huixuan, Gao (2005, ISBN:9787301078587), "Applied Multivariate Statistical Analysis".
Author: Xifeng Zhang [aut, cre]
Maintainer: Xifeng Zhang <cnxifeng9819@163.com>
Diff between MNormTest versions 1.1.0 dated 2024-10-22 and 1.1.1 dated 2024-10-23
DESCRIPTION | 6 +++--- MD5 | 18 +++++++++--------- NEWS.md | 8 +++++--- tests/testthat/test-covTest.multi.R | 2 +- tests/testthat/test-covTest.single.R | 6 +++--- tests/testthat/test-indTest.multi.R | 4 ++-- tests/testthat/test-meanTest.multi.R | 2 +- tests/testthat/test-meanTest.single.R | 4 ++-- tests/testthat/test-meanTest.two.R | 6 +++--- tests/testthat/test-meancov.Test.R | 2 +- 10 files changed, 30 insertions(+), 28 deletions(-)
Title: The Lawson-Hanson Algorithm for Non-Negative Least Squares
(NNLS)
Description: An R interface to the Lawson-Hanson implementation of an
algorithm for non-negative least squares (NNLS). Also allows
the combination of non-negative and non-positive constraints.
Author: Katharine M. Mullen [aut],
Ivo H. M. van Stokkum [aut],
Katharine Mullen [cre]
Maintainer: Katharine Mullen <mullenkate@gmail.com>
Diff between nnls versions 1.5 dated 2023-09-11 and 1.6 dated 2024-10-23
DESCRIPTION | 22 +++++++++++++++++----- MD5 | 8 ++++---- NEWS | 4 ++++ src/lawson_hanson_nnls.f | 11 +++++++++-- src/nnnpls.f | 13 +++++++++++-- 5 files changed, 45 insertions(+), 13 deletions(-)
Title: Design and Analysis of Mixture Experiments
Description: Functions for creating designs for mixture experiments, making ternary contour plots, and making mixture effect plots.
Author: John Lawson [aut, cre],
Cameron Willden [aut],
Greg Piepel [ctb]
Maintainer: John Lawson <lawson@byu.edu>
Diff between mixexp versions 1.2.7 dated 2022-05-27 and 1.2.7.1 dated 2024-10-23
DESCRIPTION | 13 +++++-------- MD5 | 5 +++-- src/cnvrt.f | 3 ++- src/init.c |only 4 files changed, 10 insertions(+), 11 deletions(-)
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2024-01-08 1.2.0
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2024-06-21 0.4.4.3
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2021-10-26 1.2.5
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2023-09-08 2.2-7
2023-06-02 2.2-6
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2024-05-14 0.1.3
Title: Classification Models with Copula Functions
Description: Provides several classifiers based on probabilistic models. These classifiers allow to model the dependence structure of continuous features through bivariate copula functions and graphical models, see Salinas-Gutiérrez et al. (2014) <doi:10.1007/s00180-013-0457-y>.
Author: Rogelio Salinas Gutierrez [aut, cre, cph]
,
Angelica Hernandez Quintero [aut, cph]
,
Pedro Abraham Montoya Calzada [aut, cph]
,
Carlos Alberto Lopez Hernandez [aut, cph]
,
Juan Manuel Marquez Romero [aut, cph]
Maintainer: Rogelio Salinas Gutierrez <rsalinas@correo.uaa.mx>
Diff between MLCOPULA versions 1.0.0 dated 2024-06-06 and 1.0.1 dated 2024-10-23
DESCRIPTION | 6 +++--- MD5 | 40 +++++++++++++++++++++++----------------- NAMESPACE | 1 + R/aux_mi_report.R |only R/classification_report.R |only R/copulaClassifier.R | 3 ++- R/copulaPredict.R | 5 +++-- R/join_all.R | 14 ++++++++------ R/join_amh.R | 14 ++++++++------ R/join_clayton.R | 12 +++++++----- R/join_frank.R | 12 +++++++----- R/join_gaussian.R | 13 +++++++------ R/join_grid.R | 13 ++++++++----- R/join_gumbel.R | 13 ++++++++----- R/join_joe.R | 14 ++++++++------ R/mi_cop.R | 2 +- R/mi_gaussian.R |only R/mi_report.R |only R/train_independent.R |only R/train_normal.R | 2 +- build/partial.rdb |binary man/classification_report.Rd |only man/copulaClassifier.Rd | 42 +++++++++++++++++++++--------------------- man/copulaPredict.Rd | 16 ++++++++++------ 24 files changed, 126 insertions(+), 96 deletions(-)
Title: Construct and Visualize TDA Mapper Graphs
Description: Topological data analysis (TDA) is a method of data analysis that
uses techniques from topology to analyze high-dimensional data. Here we
implement Mapper, an algorithm from this area developed by Singh, Mémoli and
Carlsson (2007) which generalizes the concept of a
Reeb graph <https://en.wikipedia.org/wiki/Reeb_graph>.
Author: George Clare Kennedy [aut, cre]
Maintainer: George Clare Kennedy <george-clarekennedy@uiowa.edu>
Diff between mappeR versions 1.1.0 dated 2024-10-16 and 1.2.0 dated 2024-10-23
mappeR-1.1.0/mappeR/R/arboretum.R |only mappeR-1.1.0/mappeR/R/viewmaster-hub.R |only mappeR-1.1.0/mappeR/R/watering_hole.R |only mappeR-1.1.0/mappeR/man/get_single_linkage_clusters.Rd |only mappeR-1.1.0/mappeR/man/run_slink.Rd |only mappeR-1.2.0/mappeR/DESCRIPTION | 11 mappeR-1.2.0/mappeR/MD5 | 68 +-- mappeR-1.2.0/mappeR/NEWS.md | 5 mappeR-1.2.0/mappeR/R/art_studio.R | 16 mappeR-1.2.0/mappeR/R/baskin_robbins.R |only mappeR-1.2.0/mappeR/R/cartography_chamber.R | 266 +++--------- mappeR-1.2.0/mappeR/R/cluster_factory.R |only mappeR-1.2.0/mappeR/R/quilting_hut.R | 25 - mappeR-1.2.0/mappeR/R/stats_hub.R |only mappeR-1.2.0/mappeR/R/viewmaster-library.R |only mappeR-1.2.0/mappeR/README.md | 9 mappeR-1.2.0/mappeR/man/compute_tightness.Rd | 7 mappeR-1.2.0/mappeR/man/convert_to_clusters.Rd | 2 mappeR-1.2.0/mappeR/man/create_1D_mapper_object.Rd | 8 mappeR-1.2.0/mappeR/man/create_ball_mapper_object.Rd | 2 mappeR-1.2.0/mappeR/man/create_bins.Rd | 6 mappeR-1.2.0/mappeR/man/create_clusterball_mapper_object.Rd | 4 mappeR-1.2.0/mappeR/man/create_mapper_object.Rd | 10 mappeR-1.2.0/mappeR/man/create_single_bin.Rd | 6 mappeR-1.2.0/mappeR/man/cut_dendrogram.Rd | 7 mappeR-1.2.0/mappeR/man/eccentricity_filter.Rd | 2 mappeR-1.2.0/mappeR/man/get_bin_vector.Rd | 2 mappeR-1.2.0/mappeR/man/get_cluster_sizes.Rd | 4 mappeR-1.2.0/mappeR/man/get_cluster_tightness_vector.Rd | 8 mappeR-1.2.0/mappeR/man/get_clustered_data.Rd | 2 mappeR-1.2.0/mappeR/man/get_clusters.Rd | 4 mappeR-1.2.0/mappeR/man/get_edge_weights.Rd | 7 mappeR-1.2.0/mappeR/man/get_hierarchical_clusters.Rd |only mappeR-1.2.0/mappeR/man/get_tallest_branch.Rd | 2 mappeR-1.2.0/mappeR/man/mappeR-package.Rd | 2 mappeR-1.2.0/mappeR/man/process_dendrograms.Rd | 7 mappeR-1.2.0/mappeR/man/run_cluster_machine.Rd | 4 mappeR-1.2.0/mappeR/man/run_link.Rd |only mappeR-1.2.0/mappeR/man/subset_dists.Rd | 2 mappeR-1.2.0/mappeR/tests/testthat/Rplots.pdf |only mappeR-1.2.0/mappeR/tests/testthat/test-inputs.R | 10 41 files changed, 225 insertions(+), 283 deletions(-)
Title: Data Menu for Radiant: Business Analytics using R and Shiny
Description: The Radiant Data menu includes interfaces for loading, saving,
viewing, visualizing, summarizing, transforming, and combining data. It also
contains functionality to generate reproducible reports of the analyses
conducted in the application.
Author: Vincent Nijs [aut, cre],
Niklas von Hertzen [aut]
Maintainer: Vincent Nijs <radiant@rady.ucsd.edu>
Diff between radiant.data versions 1.6.6 dated 2024-05-14 and 1.6.7 dated 2024-10-23
DESCRIPTION | 30 +++++++++++++++--------------- MD5 | 20 ++++++++++---------- NEWS.md | 4 ++++ README.md | 9 ++++----- inst/app/global.R | 2 ++ inst/app/tools/app/about.md | 2 +- inst/app/tools/app/tutorials.md | 2 +- inst/app/tools/data/manage.R | 2 -- inst/app/tools/help/report_rmd.Rmd | 2 ++ inst/app/tools/help/report_rmd.md | 2 ++ inst/app/www/style.css | 4 ++-- 11 files changed, 43 insertions(+), 36 deletions(-)
Title: Simulating Nonhomogeneous Poisson Point Processes
Description: Simulates events from one dimensional nonhomogeneous Poisson point processes (NHPPPs) as per Trikalinos and Sereda (2024, <doi:10.48550/arXiv.2402.00358>). Functions are based on three algorithms that provably sample from a target NHPPP: the time-transformation of a homogeneous Poisson process (of intensity one) via the inverse of the integrated intensity function (Cinlar E, "Theory of stochastic processes" (1975, ISBN:0486497996)); the generation of a Poisson number of order statistics from a fixed density function; and the thinning of a majorizing NHPPP via an acceptance-rejection scheme (Lewis PAW, Shedler, GS (1979) <doi:10.1002/nav.3800260304>).
Author: Thomas Trikalinos [aut, cre, cph]
,
Yuliia Sereda [aut]
Maintainer: Thomas Trikalinos <thomas_trikalinos@brown.edu>
Diff between nhppp versions 0.1.4 dated 2024-05-28 and 1.0.0 dated 2024-10-23
nhppp-0.1.4/nhppp/R/vdraw_intensity_step_regular.R |only nhppp-0.1.4/nhppp/R/vdraw_intensity_step_regular_R.R |only nhppp-0.1.4/nhppp/R/vdraw_sc_step_regular_R.R |only nhppp-0.1.4/nhppp/R/vztdraw_intensity_step_regular_R.R |only nhppp-0.1.4/nhppp/R/vztdraw_sc_step_regular.R |only nhppp-0.1.4/nhppp/R/vztdraw_sc_step_regular_R.R |only nhppp-0.1.4/nhppp/man/vdraw_intensity_step_regular.Rd |only nhppp-0.1.4/nhppp/man/vdraw_intensity_step_regular_R.Rd |only nhppp-0.1.4/nhppp/man/vdraw_sc_step_regular_R.Rd |only nhppp-0.1.4/nhppp/man/vztdraw_intensity_step_regular_R.Rd |only nhppp-0.1.4/nhppp/man/vztdraw_sc_step_regular.Rd |only nhppp-0.1.4/nhppp/man/vztdraw_sc_step_regular_R.Rd |only nhppp-0.1.4/nhppp/tests/testthat/test-ppp_n.R |only nhppp-0.1.4/nhppp/tests/testthat/test-ppp_orderstat.R |only nhppp-0.1.4/nhppp/tests/testthat/test-ppp_sequential.R |only nhppp-0.1.4/nhppp/tests/testthat/test-vdraw_intensity_step_regular_R.R |only nhppp-0.1.4/nhppp/tests/testthat/test-vztdraw_intensity_step_regular_R.R |only nhppp-0.1.4/nhppp/tests/testthat/test-vztdraw_sc_step_regular_R.R |only nhppp-1.0.0/nhppp/DESCRIPTION | 17 nhppp-1.0.0/nhppp/MD5 | 293 +++++----- nhppp-1.0.0/nhppp/NAMESPACE | 19 nhppp-1.0.0/nhppp/NEWS.md | 6 nhppp-1.0.0/nhppp/R/data.R |only nhppp-1.0.0/nhppp/R/draw.R | 63 +- nhppp-1.0.0/nhppp/R/draw_cumulative_intensity.R |only nhppp-1.0.0/nhppp/R/draw_cumulative_intensity_inversion.R | 35 - nhppp-1.0.0/nhppp/R/draw_cumulative_intensity_orderstats.R | 33 - nhppp-1.0.0/nhppp/R/draw_intensity.R | 105 +-- nhppp-1.0.0/nhppp/R/draw_intensity_line.R |only nhppp-1.0.0/nhppp/R/draw_intensity_step.R | 28 nhppp-1.0.0/nhppp/R/draw_sc_linear.R | 38 - nhppp-1.0.0/nhppp/R/draw_sc_loglinear.R | 30 - nhppp-1.0.0/nhppp/R/draw_sc_step.R | 35 - nhppp-1.0.0/nhppp/R/draw_sc_step_regular.R | 22 nhppp-1.0.0/nhppp/R/matrix_cumsum_columns.R | 3 nhppp-1.0.0/nhppp/R/matrix_cumsum_columns_inplace.R | 3 nhppp-1.0.0/nhppp/R/matrix_diff_columns.R | 3 nhppp-1.0.0/nhppp/R/matrix_diff_columns_inplace.R | 3 nhppp-1.0.0/nhppp/R/ppp.R |only nhppp-1.0.0/nhppp/R/ppp2.R |only nhppp-1.0.0/nhppp/R/ppp_exactly_n.R |only nhppp-1.0.0/nhppp/R/ppp_n.R | 6 nhppp-1.0.0/nhppp/R/ppp_next_n.R | 12 nhppp-1.0.0/nhppp/R/ppp_orderstat.R | 5 nhppp-1.0.0/nhppp/R/ppp_sequential.R | 6 nhppp-1.0.0/nhppp/R/utils-calculus.R | 1 nhppp-1.0.0/nhppp/R/utils-helper.R | 29 nhppp-1.0.0/nhppp/R/utils-invert_bijection.R | 2 nhppp-1.0.0/nhppp/R/utils-linear.R | 95 +-- nhppp-1.0.0/nhppp/R/utils-rngstream.R | 14 nhppp-1.0.0/nhppp/R/utils-vectorized.R | 7 nhppp-1.0.0/nhppp/R/vdraw.R | 103 ++- nhppp-1.0.0/nhppp/R/vdraw_cumulative_intensity.R |only nhppp-1.0.0/nhppp/R/vdraw_intensity.R |only nhppp-1.0.0/nhppp/R/vdraw_intensity_step_regular_cpp.R | 92 +-- nhppp-1.0.0/nhppp/R/vdraw_intensity_step_regular_forcezt.R |only nhppp-1.0.0/nhppp/R/vdraw_sc_step_regular.R | 91 +-- nhppp-1.0.0/nhppp/R/vdraw_sc_step_regular_cpp.R | 88 +-- nhppp-1.0.0/nhppp/R/vztdraw_intensity.R |only nhppp-1.0.0/nhppp/R/vztdraw_intensity_step_regular.R | 144 +++- nhppp-1.0.0/nhppp/R/vztdraw_sc_step_regular_cpp.R | 92 +-- nhppp-1.0.0/nhppp/R/ztdraw_cumulative_intensity.R | 28 nhppp-1.0.0/nhppp/R/ztdraw_intensity.R | 100 +-- nhppp-1.0.0/nhppp/R/ztdraw_intensity_line.R |only nhppp-1.0.0/nhppp/R/ztdraw_intensity_step.R | 28 nhppp-1.0.0/nhppp/R/ztdraw_sc_linear.R | 39 - nhppp-1.0.0/nhppp/R/ztdraw_sc_loglinear.R | 37 - nhppp-1.0.0/nhppp/R/ztppp.R | 12 nhppp-1.0.0/nhppp/README.md | 47 - nhppp-1.0.0/nhppp/build/partial.rdb |binary nhppp-1.0.0/nhppp/build/vignette.rds |only nhppp-1.0.0/nhppp/data |only nhppp-1.0.0/nhppp/inst/doc |only nhppp-1.0.0/nhppp/man/Lambda_exp_form.Rd | 11 nhppp-1.0.0/nhppp/man/Lambda_inv_exp_form.Rd | 11 nhppp-1.0.0/nhppp/man/Lambda_inv_linear_form.Rd | 11 nhppp-1.0.0/nhppp/man/Lambda_linear_form.Rd | 11 nhppp-1.0.0/nhppp/man/annual_mortality_rates_2015.Rd |only nhppp-1.0.0/nhppp/man/check_ppp_sample_validity.Rd | 12 nhppp-1.0.0/nhppp/man/check_ppp_vector_validity.Rd | 1 nhppp-1.0.0/nhppp/man/compare_ppp_vectors.Rd | 1 nhppp-1.0.0/nhppp/man/draw.Rd | 32 - nhppp-1.0.0/nhppp/man/draw_cumulative_intensity.Rd |only nhppp-1.0.0/nhppp/man/draw_cumulative_intensity_inversion.Rd | 17 nhppp-1.0.0/nhppp/man/draw_cumulative_intensity_orderstats.Rd | 17 nhppp-1.0.0/nhppp/man/draw_intensity.Rd | 40 - nhppp-1.0.0/nhppp/man/draw_intensity_line.Rd |only nhppp-1.0.0/nhppp/man/draw_intensity_step.Rd | 21 nhppp-1.0.0/nhppp/man/draw_sc_linear.Rd | 18 nhppp-1.0.0/nhppp/man/draw_sc_loglinear.Rd | 18 nhppp-1.0.0/nhppp/man/draw_sc_step.Rd | 14 nhppp-1.0.0/nhppp/man/draw_sc_step_regular.Rd | 10 nhppp-1.0.0/nhppp/man/expect_no_error.Rd | 1 nhppp-1.0.0/nhppp/man/inverse_with_uniroot.Rd | 1 nhppp-1.0.0/nhppp/man/inverse_with_uniroot_sorted.Rd | 1 nhppp-1.0.0/nhppp/man/make_cumulative_Lambda_matrix.Rd | 1 nhppp-1.0.0/nhppp/man/make_lambda_matrix.Rd | 1 nhppp-1.0.0/nhppp/man/make_range_t_matrix.Rd | 1 nhppp-1.0.0/nhppp/man/mat_cumsum_columns.Rd | 1 nhppp-1.0.0/nhppp/man/mat_cumsum_columns_with_scalar_ceiling.Rd | 1 nhppp-1.0.0/nhppp/man/mat_cumsum_columns_with_vector_ceiling.Rd | 1 nhppp-1.0.0/nhppp/man/mat_diff_columns.Rd | 1 nhppp-1.0.0/nhppp/man/matrix_cumsum_columns.Rd |only nhppp-1.0.0/nhppp/man/matrix_cumsum_columns_inplace.Rd |only nhppp-1.0.0/nhppp/man/matrix_diff_columns.Rd |only nhppp-1.0.0/nhppp/man/matrix_diff_columns_inplace.Rd |only nhppp-1.0.0/nhppp/man/nhppp-package.Rd | 1 nhppp-1.0.0/nhppp/man/ppp.Rd |only nhppp-1.0.0/nhppp/man/ppp2.Rd |only nhppp-1.0.0/nhppp/man/ppp_exactly_n.Rd |only nhppp-1.0.0/nhppp/man/ppp_n.Rd | 4 nhppp-1.0.0/nhppp/man/ppp_next_n.Rd | 4 nhppp-1.0.0/nhppp/man/ppp_orderstat.Rd | 4 nhppp-1.0.0/nhppp/man/ppp_sequential.Rd | 4 nhppp-1.0.0/nhppp/man/read_code.Rd | 1 nhppp-1.0.0/nhppp/man/rng_stream_rexp.Rd | 1 nhppp-1.0.0/nhppp/man/rng_stream_rpois.Rd | 1 nhppp-1.0.0/nhppp/man/rng_stream_runif.Rd | 1 nhppp-1.0.0/nhppp/man/rng_stream_rztpois.Rd | 1 nhppp-1.0.0/nhppp/man/rztpois.Rd | 7 nhppp-1.0.0/nhppp/man/simpson_num_integr.Rd | 1 nhppp-1.0.0/nhppp/man/vdraw.Rd | 59 +- nhppp-1.0.0/nhppp/man/vdraw_cumulative_intensity.Rd |only nhppp-1.0.0/nhppp/man/vdraw_intensity.Rd |only nhppp-1.0.0/nhppp/man/vdraw_intensity_step_regular_cpp.Rd | 49 - nhppp-1.0.0/nhppp/man/vdraw_intensity_step_regular_forcezt.Rd |only nhppp-1.0.0/nhppp/man/vdraw_sc_step_regular.Rd | 46 + nhppp-1.0.0/nhppp/man/vdraw_sc_step_regular_cpp.Rd | 37 - nhppp-1.0.0/nhppp/man/vztdraw_intensity.Rd |only nhppp-1.0.0/nhppp/man/vztdraw_intensity_step_regular.Rd | 49 - nhppp-1.0.0/nhppp/man/vztdraw_sc_step_regular_cpp.Rd | 34 - nhppp-1.0.0/nhppp/man/ztdraw_cumulative_intensity.Rd | 18 nhppp-1.0.0/nhppp/man/ztdraw_intensity.Rd | 40 - nhppp-1.0.0/nhppp/man/ztdraw_intensity_line.Rd |only nhppp-1.0.0/nhppp/man/ztdraw_intensity_step.Rd | 21 nhppp-1.0.0/nhppp/man/ztdraw_sc_linear.Rd | 18 nhppp-1.0.0/nhppp/man/ztdraw_sc_loglinear.Rd | 22 nhppp-1.0.0/nhppp/man/ztppp.Rd | 10 nhppp-1.0.0/nhppp/tests/testthat/test-draw.R | 11 nhppp-1.0.0/nhppp/tests/testthat/test-draw_cumulative_intensity.R |only nhppp-1.0.0/nhppp/tests/testthat/test-draw_cumulative_intensity_inversion.R | 40 - nhppp-1.0.0/nhppp/tests/testthat/test-draw_cumulative_intensity_orderstats.R | 13 nhppp-1.0.0/nhppp/tests/testthat/test-draw_intensity.R | 44 - nhppp-1.0.0/nhppp/tests/testthat/test-draw_intensity_line.R |only nhppp-1.0.0/nhppp/tests/testthat/test-draw_intensity_step.R | 11 nhppp-1.0.0/nhppp/tests/testthat/test-draw_sc_linear.R | 24 nhppp-1.0.0/nhppp/tests/testthat/test-draw_sc_loglinear.R | 6 nhppp-1.0.0/nhppp/tests/testthat/test-draw_sc_step.R | 22 nhppp-1.0.0/nhppp/tests/testthat/test-draw_sc_step_regular.R | 21 nhppp-1.0.0/nhppp/tests/testthat/test-ppp.R |only nhppp-1.0.0/nhppp/tests/testthat/test-ppp2.R |only nhppp-1.0.0/nhppp/tests/testthat/test-ppp_agreement.R | 164 ++--- nhppp-1.0.0/nhppp/tests/testthat/test-ppp_exactly_n.R |only nhppp-1.0.0/nhppp/tests/testthat/test-ppp_next_n.R | 13 nhppp-1.0.0/nhppp/tests/testthat/test-utils-linear.R | 20 nhppp-1.0.0/nhppp/tests/testthat/test-utils-rng_stream.R | 6 nhppp-1.0.0/nhppp/tests/testthat/test-vdraw_cumulative_intensity.R |only nhppp-1.0.0/nhppp/tests/testthat/test-vdraw_intensity_step_regular_cpp.R | 59 +- nhppp-1.0.0/nhppp/tests/testthat/test-vdraw_intensity_step_regular_forcezt.R |only nhppp-1.0.0/nhppp/tests/testthat/test-vdraw_sc_step_regular.R | 90 ++- nhppp-1.0.0/nhppp/tests/testthat/test-vdraw_sc_step_regular_cpp.R | 76 +- nhppp-1.0.0/nhppp/tests/testthat/test-vztdraw_intensity_step_regular.R |only nhppp-1.0.0/nhppp/tests/testthat/test-vztdraw_sc_step_regular_cpp.R | 46 + nhppp-1.0.0/nhppp/tests/testthat/test-ztdraw_cumulative_intensity.R | 17 nhppp-1.0.0/nhppp/tests/testthat/test-ztdraw_intensity.R | 93 --- nhppp-1.0.0/nhppp/tests/testthat/test-ztdraw_intensity_line.R |only nhppp-1.0.0/nhppp/tests/testthat/test-ztdraw_intensity_step.R | 11 nhppp-1.0.0/nhppp/tests/testthat/test-ztdraw_sc_linear.R | 8 nhppp-1.0.0/nhppp/tests/testthat/test-ztdraw_sc_loglinear.R | 8 nhppp-1.0.0/nhppp/tests/testthat/test-ztnhppp_agreement.R | 80 +- nhppp-1.0.0/nhppp/tests/testthat/test-ztppp.R | 9 nhppp-1.0.0/nhppp/vignettes |only 172 files changed, 1761 insertions(+), 1633 deletions(-)
Title: Weighted Mean SHAP for Feature Selection in ML Grid and Ensemble
Description: This R package introduces Weighted Mean SHapley Additive exPlanations (WMSHAP),
an innovative method for calculating SHAP values for a grid of fine-tuned base-learner machine
learning models as well as stacked ensembles, a method not previously available due to the
common reliance on single best-performing models. By integrating the weighted mean
SHAP values from individual base-learners comprising the ensemble or individual
base-learners in a tuning grid search, the package weights SHAP contributions
according to each model's performance, assessed by multiple either R squared
(for both regression and classification models). alternatively, this software
also offers weighting SHAP values based on the area under the precision-recall
curve (AUCPR), the area under the curve (AUC), and F2 measures for binary classifiers.
It further extends this framework to implement weighted confidence intervals for
weighted mean SHAP values, offering a more comprehensive and robust feature importance
eval [...truncated...]
Author: E. F. Haghish [aut, cre, cph]
Maintainer: E. F. Haghish <haghish@hotmail.com>
Diff between shapley versions 0.3 dated 2024-05-30 and 0.4 dated 2024-10-22
DESCRIPTION | 6 ++-- MD5 | 20 +++++++++----- NAMESPACE | 6 ++++ R/shapley.R | 23 ++++++++++------ R/shapley.domain.R |only R/shapley.feature.selection.R | 59 +++++++++++++++++++++++------------------- R/shapley.row.plot.R |only README.md | 58 ++++++++++++++++++++++++++++++++++++++--- man/figures/domain.png |only man/figures/row_index.png |only man/figures/shapley.png |only man/figures/shapleylow.png |only man/shapley.Rd | 8 ++++- man/shapley.domain.Rd |only man/shapley.row.plot.Rd |only 15 files changed, 132 insertions(+), 48 deletions(-)
Title: Data Validation and Organization of Metadata for Local and
Remote Tables
Description: Validate data in data frames, 'tibble' objects, 'Spark'
'DataFrames', and database tables. Validation pipelines can be made using
easily-readable, consecutive validation steps. Upon execution of the
validation plan, several reporting options are available. User-defined
thresholds for failure rates allow for the determination of appropriate
reporting actions. Many other workflows are available including an
information management workflow, where the aim is to record, collect, and
generate useful information on data tables.
Author: Richard Iannone [aut, cre] ,
Mauricio Vargas [aut] ,
June Choe [aut]
Maintainer: Richard Iannone <rich@posit.co>
Diff between pointblank versions 0.12.1 dated 2024-03-25 and 0.12.2 dated 2024-10-22
DESCRIPTION | 14 ++--- MD5 | 60 +++++++++++------------ NEWS.md | 32 ++++++++++++ R/action_levels.R | 2 R/col_schema_match.R | 2 R/column_roles.R | 4 - R/create_agent.R | 2 R/create_multiagent.R | 2 R/datasets.R | 16 +----- R/get_agent_report.R | 64 ++++++++++++++++++------ R/get_multiagent_report.R | 2 R/get_sundered_data.R | 8 +++ R/has_columns.R | 11 ++-- R/info_add.R | 42 +++++++++------- R/interrogate.R | 49 +++++++++++++++--- R/logging.R | 9 --- R/scan_data.R | 24 +-------- R/steps_and_briefs.R | 3 - R/table_transformers.R | 26 --------- R/tbl_from_db.R | 64 ++---------------------- R/tbl_from_file.R | 16 ------ R/utils.R | 99 +++++++++++++++++++++++++++++++++----- R/validate_rmd.R | 16 +----- R/yaml_write.R | 9 +-- man/action_levels.Rd | 2 man/create_agent.Rd | 2 man/interrogate.Rd | 10 +++ man/snip_list.Rd | 7 ++ tests/testthat/test-has_columns.R | 11 +++- tests/testthat/test-snip_fns.R | 24 +++++++++ tests/testthat/test-x_list.R | 4 - 31 files changed, 375 insertions(+), 261 deletions(-)
Title: Nonlinear Mixed Effects Models in Population PK/PD, Estimation
Routines
Description: Fit and compare nonlinear mixed-effects models in
differential equations with flexible dosing information commonly seen
in pharmacokinetics and pharmacodynamics (Almquist, Leander, and
Jirstrand 2015 <doi:10.1007/s10928-015-9409-1>). Differential equation
solving is by compiled C code provided in the 'rxode2' package (Wang,
Hallow, and James 2015 <doi:10.1002/psp4.12052>).
Author: Matthew Fidler [aut, cre] ,
Yuan Xiong [aut],
Rik Schoemaker [aut] ,
Justin Wilkins [aut] ,
Wenping Wang [aut],
Robert Leary [ctb],
Mason McComb [ctb] ,
Vipul Mann [aut],
Mirjam Trame [ctb],
Mahmoud Abdelwahab [ctb],
Teun Post [ctb],
Richard Hooijmai [...truncated...]
Maintainer: Matthew Fidler <matthew.fidler@gmail.com>
Diff between nlmixr2est versions 3.0.0 dated 2024-09-18 and 3.0.1 dated 2024-10-22
DESCRIPTION | 6 - MD5 | 84 ++++++++++++------------ NAMESPACE | 1 NEWS.md | 24 +++++++ R/addCwres.R | 4 - R/focei.R | 114 +++++++++++++++++++++++---------- R/mu2.R | 130 +++++++++++++++++++++++++++++++++++++- R/nlm.R | 8 -- R/nlmShared.R | 6 - R/nlme.R | 16 +--- R/nlminb.R | 2 R/nlmixr2.R | 48 ++++++-------- R/nlmixr2Est.R | 20 ++--- R/nlmixr2_md5.R | 2 R/nlmixr2global.R |only R/nlmixr2output.R | 12 +-- R/nls.R | 18 ++--- R/nmObjGet.R | 6 - R/npde.R | 4 - R/preProcessModel.R | 4 - R/resid.R | 4 - R/rxsolve.R | 44 ++++++------ R/saemControl.R | 2 R/saemRxUiGetModel.R | 3 R/saem_fit.R | 2 R/sharedControl.R | 2 R/timing.R | 87 +++++++++++-------------- R/validate.R | 4 - R/vpc.R | 13 +-- R/zzz.R | 2 src/inner.cpp | 10 ++ src/scale.h | 88 ++++++++++++++++++------- tests/testthat/test-augpred.R | 14 ++-- tests/testthat/test-cov-focei.R | 26 +++++++ tests/testthat/test-fix-cov.R | 22 +++--- tests/testthat/test-fix-eta.R | 6 + tests/testthat/test-focei-1.R |only tests/testthat/test-focei-char.R | 8 +- tests/testthat/test-focei-inner.R | 14 +++- tests/testthat/test-focei-llik.R | 25 +++---- tests/testthat/test-ini-ui.R | 4 - tests/testthat/test-nlm.R | 20 +++-- tests/testthat/test-nls.R | 32 ++++++++- tests/testthat/test-saem-mu.R | 37 ++++++++++ 44 files changed, 657 insertions(+), 321 deletions(-)
Title: Safely Access the RStudio API
Description: Access the RStudio API (if available) and provide informative error
messages when it's not.
Author: Kevin Ushey [aut, cre],
JJ Allaire [aut],
Hadley Wickham [aut],
Gary Ritchie [aut],
RStudio [cph]
Maintainer: Kevin Ushey <kevin@rstudio.com>
Diff between rstudioapi versions 0.17.0 dated 2024-10-16 and 0.17.1 dated 2024-10-22
DESCRIPTION | 6 +++--- MD5 | 6 +++--- NEWS.md | 6 ++++++ R/code.R | 4 +++- 4 files changed, 15 insertions(+), 7 deletions(-)
Title: Spatially-Clustered Data Analysis
Description: Contains functions for statistical data analysis based on spatially-clustered techniques.
The package allows estimating the spatially-clustered spatial regression models presented in Cerqueti, Maranzano \& Mattera (2024), "Spatially-clustered spatial autoregressive models
with application to agricultural market concentration in Europe", arXiv preprint 2407.15874 <doi:10.48550/arXiv.2407.15874>.
Specifically, the current release allows the estimation of the spatially-clustered linear regression model (SCLM), the spatially-clustered spatial autoregressive model (SCSAR),
the spatially-clustered spatial Durbin model (SCSEM), and the spatially-clustered linear regression model with spatially-lagged exogenous covariates (SCSLX).
From release 0.0.2, the library contains functions to estimate spatial clustering based on Adiajacent Matrix K-Means (AMKM) as described in Zhou, Liu \& Zhu (2019), "Weighted adjacent matrix for K-means clustering", Multimedia Tools and Applications, 78 [...truncated...]
Author: Paolo Maranzano [aut, cre, cph]
,
Raffaele Mattera [aut, cph] ,
Camilla Lionetti [aut, cph],
Francesco Caccia [aut, cph]
Maintainer: Paolo Maranzano <pmaranzano.ricercastatistica@gmail.com>
Diff between SCDA versions 0.0.1 dated 2024-10-14 and 0.0.2 dated 2024-10-22
DESCRIPTION | 25 ++++++++++++++++++------- MD5 | 10 ++++++---- NAMESPACE | 9 ++++++++- R/SCSR_InfoCrit.R | 2 ++ R/SC_AMKM.R |only man/SCSR_InfoCrit.Rd | 5 +++++ man/SC_AMKM.Rd |only 7 files changed, 39 insertions(+), 12 deletions(-)
Title: 'Lua'-Filters for R Markdown
Description: A collection of 'Lua' filters that extend the functionality
of R Markdown templates (e.g., count words or post-process citations).
Author: Frederik Aust [aut, cre] ,
Marius Barth [ctb]
Maintainer: Frederik Aust <frederik.aust@uni-koeln.de>
Diff between rmdfiltr versions 0.1.4 dated 2024-10-16 and 0.1.5 dated 2024-10-22
DESCRIPTION | 6 +++--- MD5 | 12 ++++++------ NEWS.md | 4 ++++ R/replace_doi.R | 2 +- inst/doc/doi2cite.html | 4 ++-- inst/doc/replace_ampersands.html | 2 +- inst/doc/wordcount.html | 6 +++--- 7 files changed, 20 insertions(+), 16 deletions(-)
Title: Analyze Nominal Response Data with the Multinomial-Poisson Trick
Description: Dichotomous responses having two categories can be analyzed
with stats::glm() or lme4::glmer() using the family=binomial option.
Unfortunately, polytomous responses with three or more unordered
categories cannot be analyzed similarly because there is no analogous
family=multinomial option. For between-subjects data,
nnet::multinom() can address this need, but it cannot handle random
factors and therefore cannot handle repeated measures. To address this
gap, we transform nominal response data into counts for each categorical
alternative. These counts are then analyzed using (mixed) Poisson regression
as per Baker (1994) <doi:10.2307/2348134>. Omnibus analyses of variance can be
run along with post hoc pairwise comparisons. For users wishing to analyze nominal
responses from surveys or experiments, the functions in this package essentially
act as though stats::glm() or lme4::glmer() had a family=multinomial option.
Author: Jacob O. Wobbrock [aut, cre, cph]
Maintainer: Jacob O. Wobbrock <wobbrock@uw.edu>
Diff between multpois versions 0.1.0 dated 2024-10-16 and 0.2.0 dated 2024-10-22
DESCRIPTION | 21 +-- MD5 | 40 ++--- NAMESPACE | 3 NEWS.md | 15 ++ R/Anova.mp.R | 113 +++++++++++++--- R/glm.mp.R | 33 +++- R/glm.mp.con.R | 44 ++++-- R/glmer.mp.R | 33 +++- R/glmer.mp.con.R | 43 ++++-- inst/WORDLIST | 1 inst/doc/multpois.html | 4 man/Anova.mp.Rd | 16 +- man/glm.mp.Rd | 6 man/glm.mp.con.Rd | 7 - man/glmer.mp.Rd | 6 man/glmer.mp.con.Rd | 7 - tests/testthat/test-Anova.mp.R | 254 ++++++++++++++++++++++++++++++++++--- tests/testthat/test-glm.mp.R | 43 +++++- tests/testthat/test-glm.mp.con.R | 27 ++- tests/testthat/test-glmer.mp.R | 35 ++++- tests/testthat/test-glmer.mp.con.R | 23 ++- 21 files changed, 637 insertions(+), 137 deletions(-)
Title: Most Probable Number and Other Microbial Enumeration Techniques
Description: Calculates the Most Probable Number (MPN) to quantify the
concentration (density) of microbes in serial dilutions of a laboratory
sample (described in Jarvis, 2010 <doi:10.1111/j.1365-2672.2010.04792.x>).
Also calculates the Aerobic Plate Count (APC) for similar microbial
enumeration experiments.
Author: Martine Ferguson [aut] ,
John Ihrie [cre, aut]
Maintainer: John Ihrie <John.Ihrie@fda.hhs.gov>
Diff between MPN versions 0.3.0 dated 2019-03-20 and 0.4.0 dated 2024-10-22
DESCRIPTION | 16 MD5 | 41 +- NEWS.md | 12 R/MPN.R | 17 - R/checkInputs.R | 16 R/f_apc.R | 21 - R/f_mpn.R | 47 +- R/helpers_APC.R | 12 R/helpers_MPN.R | 17 - build/vignette.rds |binary inst/doc/a_mpn-vignette.R | 16 inst/doc/a_mpn-vignette.Rmd | 38 -- inst/doc/a_mpn-vignette.html | 710 +++++++++++++++++++++++++++++++------------ inst/doc/b_apc-vignette.R | 12 inst/doc/b_apc-vignette.Rmd | 3 inst/doc/b_apc-vignette.html | 562 +++++++++++++++++++++++++--------- man/MPN-package.Rd |only man/apc.Rd | 24 - man/mpn.Rd | 47 +- tests/testthat/test_mpn.R | 13 vignettes/a_mpn-vignette.Rmd | 38 -- vignettes/b_apc-vignette.Rmd | 3 22 files changed, 1136 insertions(+), 529 deletions(-)
Title: Port of 'Dparser' Package
Description: A Scannerless GLR parser/parser generator. Note that GLR standing for "generalized LR", where L stands for "left-to-right" and
R stands for "rightmost (derivation)". For more information see <https://en.wikipedia.org/wiki/GLR_parser>. This parser is based on the Tomita
(1987) algorithm. (Paper can be found at <https://aclanthology.org/P84-1073.pdf>).
The original 'dparser' package documentation can be found at <https://dparser.sourceforge.net/>. This allows you to add mini-languages to R (like
rxode2's ODE mini-language Wang, Hallow, and James 2015 <DOI:10.1002/psp4.12052>) or to parse other languages like 'NONMEM' to automatically translate
them to R code. To use this in your code, add a LinkingTo dparser in your DESCRIPTION file and instead of using #include <dparse.h> use
#include <dparser.h>. This also provides a R-based port of the make_dparser <https://dparser.sourceforge.net/d/make_dparser.cat> command called
mkdparser(). Addition [...truncated...]
Author: Matthew Fidler [aut, cre],
John Plevyak [aut, cph]
Maintainer: Matthew Fidler <matthew.fidler@gmail.com>
Diff between dparser versions 1.3.1-12 dated 2024-09-17 and 1.3.1-13 dated 2024-10-22
DESCRIPTION | 6 +++--- MD5 | 8 ++++---- NEWS.md | 5 +++++ src/Makevars | 4 +--- src/rdparse.c | 9 ++++----- 5 files changed, 17 insertions(+), 15 deletions(-)
Title: The Tidymodels Extension for Time Series Modeling
Description: The time series forecasting framework for use with the 'tidymodels' ecosystem.
Models include ARIMA, Exponential Smoothing, and additional time series models
from the 'forecast' and 'prophet' packages. Refer to "Forecasting Principles & Practice, Second edition"
(<https://otexts.com/fpp2/>).
Refer to "Prophet: forecasting at scale"
(<https://research.facebook.com/blog/2017/02/prophet-forecasting-at-scale/>.).
Author: Matt Dancho [aut, cre],
Business Science [cph]
Maintainer: Matt Dancho <mdancho@business-science.io>
Diff between modeltime versions 1.3.0 dated 2024-07-29 and 1.3.1 dated 2024-10-22
DESCRIPTION | 8 - MD5 | 34 ++--- NAMESPACE | 2 NEWS.md | 9 + R/dials-adam_params.R | 47 ++++++++ R/dials-arima_params.R | 2 R/parsnip-adam.R | 57 +++++---- R/parsnip-arima_boost.R | 11 - R/parsnip-prophet_boost.R | 3 R/utils-control-par.R | 57 +++++++++ inst/doc/getting-started-with-modeltime.html | 149 ++++++++++++-------------- man/adam_params.Rd | 37 ++++++ man/arima_boost.Rd | 11 - man/arima_params.Rd | 2 man/parallel_start.Rd | 11 + man/prophet_boost.Rd | 3 tests/testthat/test-algo-adam_reg-Adam.R | 12 +- tests/testthat/test-algo-adam_reg-auto_adam.R | 12 +- 18 files changed, 311 insertions(+), 156 deletions(-)
Title: Clustering and Visualizing Distance Matrices
Description: Defines the classes used to explore, cluster and
visualize distance matrices, especially those arising from binary
data. See Abrams and colleagues, 2021, <doi:10.1093/bioinformatics/btab037>.
Author: Kevin R. Coombes [aut, cre],
Caitlin E. Coombes [aut]
Maintainer: Kevin R. Coombes <krc@silicovore.com>
Diff between Mercator versions 1.1.4 dated 2024-04-28 and 1.1.5 dated 2024-10-22
DESCRIPTION | 20 + MD5 | 26 +- NAMESPACE | 3 build/vignette.rds |binary data/CML1000.rda |binary data/CML500.rda |binary data/fakedata.rda |binary data/lgfFeatures.rda |binary inst/doc/mercVis.html | 422 ++++++++++++++++++++--------------- inst/doc/mercator.html | 590 ++++++++++++++++++++++++++++++------------------- inst/doc/umap-som.html | 383 ++++++++++++++++++------------- man/Mercator-class.Rd | 10 man/coloring.Rd | 5 man/threshLGF.Rd | 13 - 14 files changed, 880 insertions(+), 592 deletions(-)
Title: Class-Agnostic Time Series
Description: Time series toolkit with identical behavior for all
time series classes: 'ts','xts', 'data.frame', 'data.table', 'tibble', 'zoo',
'timeSeries', 'tsibble', 'tis' or 'irts'. Also converts reliably between these classes.
Author: Christoph Sax [aut, cre] ,
Cathy Chamberlin [rev],
Nunes Matt [rev]
Maintainer: Christoph Sax <christoph.sax@gmail.com>
Diff between tsbox versions 0.4.1 dated 2023-05-08 and 0.4.2 dated 2024-10-22
DESCRIPTION | 8 - MD5 | 20 +-- NEWS.md | 9 + R/convert_exact.R | 6 - R/ts_ggplot.R | 19 +-- README.md | 2 build/vignette.rds |binary inst/doc/convert.html | 76 ++++++------- inst/doc/ts-functions.html | 64 +++++------ inst/doc/tsbox.html | 250 ++++++++++++++++++++++----------------------- man/tsbox-package.Rd | 9 + 11 files changed, 244 insertions(+), 219 deletions(-)
Title: Bayesian Variable Selection and Model Choice for Generalized
Additive Mixed Models
Description: Bayesian variable selection, model choice, and regularized
estimation for (spatial) generalized additive mixed regression models
via stochastic search variable selection with spike-and-slab priors.
Author: Fabian Scheipl [aut, cre],
Bettina Gruen [ctb]
Maintainer: Fabian Scheipl <fabian.scheipl@stat.uni-muenchen.de>
Diff between spikeSlabGAM versions 1.1-19 dated 2022-06-10 and 1.1-20 dated 2024-10-22
DESCRIPTION | 8 - MD5 | 18 ++-- build/vignette.rds |binary inst/CITATION | 8 - inst/doc/UsingSpikeSlabGAM-wrapper.pdf |binary src/sampler.c | 114 ++++++++++++++-------------- src/updaters.h | 52 ++++++------ src/utils.h | 29 +++---- vignettes/UsingSpikeSlabGAM-precompiled.pdf |binary vignettes/precompile-vignette.R | 3 10 files changed, 116 insertions(+), 116 deletions(-)
Title: A Soil Survey Toolkit
Description: Miscellaneous soil data management, summary, visualization, and conversion utilities to support soil survey.
Author: Dylan Beaudette [cre, aut],
Jay Skovlin [aut],
Stephen Roecker [aut],
Andrew Brown [aut],
USDA-NRCS Soil Survey Staff [ctb]
Maintainer: Dylan Beaudette <dylan.beaudette@usda.gov>
Diff between sharpshootR versions 2.3.1 dated 2024-05-29 and 2.3.2 dated 2024-10-22
DESCRIPTION | 10 +++---- MD5 | 38 ++++++++++++++--------------- NEWS.md | 4 +++ R/FFD.R | 9 +++++- R/PCP_plot.R | 2 - R/component.adj.matrix.R | 2 - R/plotGeomorphCrossSection.R | 38 +++++++++++++++++++++++++++-- R/plotSoilRelationGraph.R | 2 - R/plotWB_lines.R | 2 - R/prepare_SSURGO_hydro_data.R | 20 ++++++++------- build/vignette.rds |binary data/OSDexamples.rda |binary man/FFD.Rd | 2 - man/OSDexamples.Rd | 2 - man/PCP_plot.Rd | 2 - man/component.adj.matrix.Rd | 2 - man/plotSoilRelationGraph.Rd | 2 - man/prepare_SSURGO_hydro_data.Rd | 1 tests/testthat/Rplots.pdf |binary tests/testthat/test-component.adj.matrix.R | 2 + 20 files changed, 94 insertions(+), 46 deletions(-)
Title: B Cell Receptor Phylogenetics Toolkit
Description: Provides a set of functions for inferring, visualizing, and analyzing B cell phylogenetic trees.
Provides methods to 1) reconstruct unmutated ancestral sequences,
2) build B cell phylogenetic trees using multiple methods,
3) visualize trees with metadata at the tips,
4) reconstruct intermediate sequences,
5) detect biased ancestor-descendant relationships among metadata types
Workflow examples available at documentation site (see URL).
Citations:
Hoehn et al (2022) <doi:10.1371/journal.pcbi.1009885>,
Hoehn et al (2021) <doi:10.1101/2021.01.06.425648>.
Author: Kenneth Hoehn [aut, cre],
Cole Jensen [ctb],
Susanna Marquez [ctb],
Jason Vander Heiden [ctb],
Steven Kleinstein [aut, cph]
Maintainer: Kenneth Hoehn <kenneth.b.hoehn@dartmouth.edu>
Diff between dowser versions 2.2.0 dated 2024-05-09 and 2.3 dated 2024-10-22
DESCRIPTION | 16 MD5 | 60 - NAMESPACE | 5 NEWS.md | 18 R/Clones.R | 100 +- R/Dowser.R | 4 R/Germlines.R | 59 + R/Plotting.R | 16 R/Statistics.R | 1339 ++++++++++++++--------------- R/TreeFunctions.R | 473 +++++++--- inst/CITATION | 13 inst/doc/Building-Trees-Vignette.pdf |binary inst/doc/Discrete-Trait-Vignette.pdf |binary inst/doc/Germlines-Vignette.pdf |binary inst/doc/Measurable-Evolution.pdf |binary inst/doc/Plotting-Trees-Vignette.pdf |binary inst/doc/Quickstart-Vignette.pdf |binary inst/doc/Resolve-Light-Chains-Vignette.pdf |binary inst/doc/Sequences-Vignette.R | 11 inst/doc/Sequences-Vignette.Rmd | 20 inst/doc/Sequences-Vignette.pdf |binary man/buildRAxML.Rd | 6 man/correlationTest.Rd | 2 man/createGermlines.Rd | 6 man/dfToFasta.Rd |only man/dowser.Rd | 25 man/exportTrees.Rd |only man/getAllSeqs.Rd |only man/getTrees.Rd | 5 man/plotTrees.Rd | 5 man/resolveLightChains.Rd | 5 man/writeCloneSequences.Rd |only vignettes/Sequences-Vignette.Rmd | 20 33 files changed, 1332 insertions(+), 876 deletions(-)
Title: Thematic Cartography
Description: Create and integrate thematic maps in your workflow. This package
helps to design various cartographic representations such as proportional
symbols, choropleth or typology maps. It also offers several functions to
display layout elements that improve the graphic presentation of maps
(e.g. scale bar, north arrow, title, labels). 'mapsf' maps 'sf' objects on
'base' graphics.
Author: Timothee Giraud [cre, aut] ,
Hugues Pecout [ctb] ,
Ronan Ysebaert [ctb] ,
Ian Fellows [cph] ,
Jim Lemon [cph]
Maintainer: Timothee Giraud <timothee.giraud@cnrs.fr>
Diff between mapsf versions 0.11.0 dated 2024-07-29 and 0.12.0 dated 2024-10-22
DESCRIPTION | 9 - MD5 | 68 ++++++----- NAMESPACE | 2 NEWS.md | 16 ++ R/mf_annotation.R | 4 R/mf_arrow.R | 196 ++++++++++++++++++++----------- R/mf_credits.R | 2 R/mf_get_borders.R |only R/mf_get_breaks.R | 239 +++++++++++++++++++++++---------------- R/mf_get_pencil.R |only R/mf_grad.R | 2 R/mf_init.R | 1 R/mf_inset.R | 9 - R/mf_legend.R | 17 +- R/mf_map.R | 6 R/mf_map_utils.R | 18 ++ R/mf_scale.R | 3 R/mf_title.R | 8 - R/package.R | 3 inst/doc/mapsf.html | 20 +-- inst/tinytest/test_arrow.R | 4 inst/tinytest/test_background.R | 2 inst/tinytest/test_breaks.R | 5 inst/tinytest/test_get_borders.R |only inst/tinytest/test_get_pencil.R |only inst/tinytest/test_inset.R | 1 inst/tinytest/test_map_c.R | 2 man/figures/example1-1.png |binary man/figures/mtq.png |binary man/mapsf.Rd | 3 man/mf_arrow.Rd | 17 ++ man/mf_get_borders.Rd |only man/mf_get_breaks.Rd | 37 ++++-- man/mf_get_pencil.Rd |only man/mf_init.Rd | 1 man/mf_inset_on.Rd | 3 man/mf_legend.Rd | 18 +- man/mf_map.Rd | 5 38 files changed, 446 insertions(+), 275 deletions(-)
Title: Allelic Series Test
Description: Implementation of gene-level rare variant association tests targeting allelic series: genes where increasingly deleterious mutations have increasingly large phenotypic effects. The COding-variant Allelic Series Test (COAST) operates on the benign missense variants (BMVs), deleterious missense variants (DMVs), and protein truncating variants (PTVs) within a gene. COAST uses a set of adjustable weights that tailor the test towards rejecting the null hypothesis for genes where the average magnitude of effect increases monotonically from BMVs to DMVs to PTVs. See McCaw ZR, O’Dushlaine C, Somineni H, Bereket M, Klein C, Karaletsos T, Casale FP, Koller D, Soare TW. (2023) "An allelic series rare variant association test for candidate gene discovery" <doi:10.1016/j.ajhg.2023.07.001>.
Author: Zachary McCaw [aut, cre] ,
Christoph Klein [ctb] ,
Jianhui Gao [ctb] ,
insitro [cph]
Maintainer: Zachary McCaw <zmccaw@insitro.com>
Diff between AllelicSeries versions 0.0.4.1 dated 2023-10-06 and 0.1.0.2 dated 2024-10-22
DESCRIPTION | 20 +- MD5 | 80 ++++++--- NAMESPACE | 14 + NEWS.md |only R/RcppExports.R | 102 ++++++++++++ R/allelic_series_sumstats.R |only R/allelic_series_test.R | 107 ++++++++++--- R/class.R |only R/generate_data.R | 17 +- R/generate_sumstats.R |only R/input_checks.R | 95 +++++++++++ R/skat.R |only R/utilities.R | 23 ++ build/partial.rdb |binary build/vignette.rds |binary inst/doc/coast.R | 27 ++- inst/doc/coast.Rmd | 24 ++ inst/doc/coast.html | 210 +++++++++++++++----------- man/ASBT.Rd | 7 man/ASBTSS.Rd |only man/ASKAT.Rd | 3 man/ASKATSS.Rd |only man/Aggregator.Rd | 5 man/AllelicSeries-package.Rd | 3 man/BaselineSS.Rd |only man/COAST-class.Rd |only man/COAST-method.Rd |only man/COAST.Rd | 10 + man/COASTSS.Rd |only man/CalcSumstats.Rd |only man/CheckInputsSS.Rd |only man/CorCpp.Rd |only man/Counts.Rd |only man/DGP.Rd | 9 - man/DfOrNULL-class.Rd |only man/GenomicControl.Rd |only man/OLS.Rd | 9 - man/SumCountSS.Rd |only man/isPD.Rd |only man/print.COAST.Rd |only src/RcppExports.cpp | 122 +++++++++++++++ src/counting.cpp |only src/lm.cpp | 16 + src/score.cpp | 2 src/skat.cpp |only src/sumstats.cpp |only tests/testthat/test-allelic_series.R | 80 ++++++++- tests/testthat/test-allelic_series_sumstats.R |only tests/testthat/test-binary.R | 11 - tests/testthat/test-counts.R |only tests/testthat/test-data_generation.R | 36 ++++ tests/testthat/test-score_test.R | 8 tests/testthat/test-utils.R |only vignettes/coast.Rmd | 24 ++ 54 files changed, 876 insertions(+), 188 deletions(-)
Title: A Tool for Automating the Statistical Disclosure Control of
Research Outputs
Description: Assists researchers and output checkers by distinguishing between research output that is safe to publish, output that requires further analysis, and output that cannot be published because of substantial disclosure risk. A paper about the tool was presented at the UNECE Expert Meeting on Statistical Data Confidentiality 2023; see <https://uwe-repository.worktribe.com/output/11060964>.
Author: Jim Smith [cre, ctb] ,
Maha Albashir [aut, ctb],
Richard John Preen [aut, ctb]
Maintainer: Jim Smith <James.Smith@uwe.ac.uk>
Diff between acro versions 0.1.2 dated 2024-08-19 and 0.1.3 dated 2024-10-22
DESCRIPTION | 12 ++++---- MD5 | 10 +++--- NEWS.md | 4 ++ R/create_virtualenv.R | 6 ++-- README.md | 66 +++++++++++++++++++++++++++------------------- tests/testthat/Rplots.pdf |binary 6 files changed, 57 insertions(+), 41 deletions(-)
Title: Download Flight and Airport Data from Brazil
Description: Download flight and airport data from Brazil’s Civil Aviation Agency
(ANAC) <https://www.gov.br/anac/pt-br>. The data covers detailed
information on aircraft, airports, and airport operations registered
with ANAC. It also includes data on airfares, all international
flights to and from Brazil, and domestic flights within the country.
Author: Rafael H. M. Pereira [aut, cre]
,
Ipea - Institute for Applied Economic Research [cph, fnd]
Maintainer: Rafael H. M. Pereira <rafa.pereira.br@gmail.com>
Diff between flightsbr versions 0.5.0 dated 2024-09-18 and 1.0.0 dated 2024-10-22
DESCRIPTION | 16 +- MD5 | 81 +++++------ NAMESPACE | 2 NEWS.md | 21 ++ R/flightsbr.R | 5 R/latest_flights_date.R | 29 +++- R/read_aircrafts.R | 10 + R/read_airfares.R | 96 +++---------- R/read_airport_movements.R | 9 + R/read_airports.R | 38 ++--- R/read_flights.R | 11 + R/utils.R | 80 ++++++++++- R/utils_aircrafts.R | 22 +-- R/utils_airfares.R | 148 ++++++++++++++------- R/utils_airport_movement.R | 14 - R/utils_flightst.R | 24 +-- README.md | 17 +- inst/doc/airports.R | 15 +- inst/doc/airports.Rmd | 15 +- inst/doc/airports.html | 35 +++- inst/doc/flights.R | 32 ++-- inst/doc/flights.Rmd | 36 ++--- inst/doc/flights.html | 91 ++++++------ inst/doc/intro_flightsbr.R | 10 - inst/doc/intro_flightsbr.Rmd | 21 +- inst/doc/intro_flightsbr.html | 20 +- man/altitude_to_numeric.Rd |only man/check_input_date_format.Rd |only man/download_airfares_data.Rd | 21 +- man/get_airfares_url.Rd | 9 - man/latest_airfares_date.Rd |only man/latest_flights_date.Rd | 4 man/read_airfares.Rd | 7 man/read_airports.Rd | 2 tests/testthat/test_get_airfares_dates_available.R | 50 +++---- tests/testthat/test_read_aircrafts.R | 5 tests/testthat/test_read_airfares.R | 137 ++++++++++--------- tests/testthat/test_read_airport_movements.R | 5 tests/testthat/test_read_airports.R | 1 tests/testthat/test_read_flights.R | 7 vignettes/airports.Rmd | 15 +- vignettes/flights.Rmd | 36 ++--- vignettes/intro_flightsbr.Rmd | 21 +- 43 files changed, 744 insertions(+), 474 deletions(-)
Title: Linguistic Fuzzy Logic
Description: Various algorithms related to linguistic fuzzy logic: mining for linguistic fuzzy association
rules, composition of fuzzy relations, performing perception-based logical deduction (PbLD),
and forecasting time-series using fuzzy rule-based ensemble (FRBE). The package also contains basic
fuzzy-related algebraic functions capable of handling missing values in different styles (Bochvar,
Sobocinski, Kleene etc.), computation of Sugeno integrals and fuzzy transform.
Author: Michal Burda [aut, cre]
Maintainer: Michal Burda <michal.burda@osu.cz>
Diff between lfl versions 2.2.0 dated 2022-09-08 and 2.2.1 dated 2024-10-22
lfl-2.2.0/lfl/man/lfl.Rd |only lfl-2.2.1/lfl/DESCRIPTION | 13 ++-- lfl-2.2.1/lfl/MD5 | 42 +++++++------- lfl-2.2.1/lfl/NAMESPACE | 1 lfl-2.2.1/lfl/NEWS.md | 10 +++ lfl-2.2.1/lfl/R/defuzz.R | 82 ++++++++++++++++++++--------- lfl-2.2.1/lfl/R/fcut.R | 1 lfl-2.2.1/lfl/R/ft.R | 2 lfl-2.2.1/lfl/R/lfl-package.R | 6 +- lfl-2.2.1/lfl/R/mult.R | 2 lfl-2.2.1/lfl/R/quantifier.R | 16 ++--- lfl-2.2.1/lfl/build/vignette.rds |binary lfl-2.2.1/lfl/inst/CITATION | 4 - lfl-2.2.1/lfl/man/defuzz.Rd | 14 +++- lfl-2.2.1/lfl/man/ft.Rd | 2 lfl-2.2.1/lfl/man/horizon.Rd | 4 - lfl-2.2.1/lfl/man/lcut.Rd | 8 +- lfl-2.2.1/lfl/man/lfl-package.Rd |only lfl-2.2.1/lfl/man/lingexpr.Rd | 4 - lfl-2.2.1/lfl/man/quantifier.Rd | 2 lfl-2.2.1/lfl/src/Makevars.in | 3 - lfl-2.2.1/lfl/src/Makevars.win | 3 - lfl-2.2.1/lfl/tests/testthat/test-defuzz.R | 6 ++ 23 files changed, 137 insertions(+), 88 deletions(-)
Title: Sound Synthesis and Acoustic Analysis
Description: Performs parametric synthesis of sounds with harmonic and noise
components such as animal vocalizations or human voice. Also offers tools
for audio manipulation and acoustic analysis, including pitch tracking,
spectral analysis, audio segmentation, pitch and formant shifting, etc.
Includes four interactive web apps for synthesizing and annotating audio,
manually correcting pitch contours, and measuring formant frequencies.
Reference: Anikin (2019) <doi:10.3758/s13428-018-1095-7>.
Author: Andrey Anikin [aut, cre]
Maintainer: Andrey Anikin <andrey.anikin@cogsci.se>
Diff between soundgen versions 2.7.0 dated 2024-09-11 and 2.7.1 dated 2024-10-22
soundgen-2.7.0/soundgen/man/getLoudnessPerFrame.Rd |only soundgen-2.7.0/soundgen/man/getVocalFry.Rd |only soundgen-2.7.0/soundgen/man/getVocalFry_per_epoch.Rd |only soundgen-2.7.0/soundgen/man/isCentral.localMax.Rd |only soundgen-2.7.0/soundgen/man/subhToHarm.Rd |only soundgen-2.7.1/soundgen/DESCRIPTION | 8 soundgen-2.7.1/soundgen/MD5 | 251 ++--- soundgen-2.7.1/soundgen/NAMESPACE | 2 soundgen-2.7.1/soundgen/NEWS | 15 soundgen-2.7.1/soundgen/R/SSM.R | 220 ++--- soundgen-2.7.1/soundgen/R/am.R | 214 ++++ soundgen-2.7.1/soundgen/R/amplitude.R | 282 +----- soundgen-2.7.1/soundgen/R/analyze.R | 95 +- soundgen-2.7.1/soundgen/R/analyze_utilities.R | 298 ------ soundgen-2.7.1/soundgen/R/audSpec.R | 30 soundgen-2.7.1/soundgen/R/compareSounds.R | 4 soundgen-2.7.1/soundgen/R/detectNLP.R | 28 soundgen-2.7.1/soundgen/R/duration.R | 22 soundgen-2.7.1/soundgen/R/filters.R | 8 soundgen-2.7.1/soundgen/R/formants.R | 57 - soundgen-2.7.1/soundgen/R/formants_utilities.R | 122 ++ soundgen-2.7.1/soundgen/R/invertModulSpec.R | 2 soundgen-2.7.1/soundgen/R/invertSpectrogram.R | 29 soundgen-2.7.1/soundgen/R/io.R | 43 - soundgen-2.7.1/soundgen/R/loudness.R | 6 soundgen-2.7.1/soundgen/R/loudness_utilities.R | 58 - soundgen-2.7.1/soundgen/R/matchPars.R | 107 -- soundgen-2.7.1/soundgen/R/math.R | 557 ++++++++----- soundgen-2.7.1/soundgen/R/modulationSpectrum.R | 60 + soundgen-2.7.1/soundgen/R/modulationSpectrum_utilities.R | 89 +- soundgen-2.7.1/soundgen/R/morph.R | 22 soundgen-2.7.1/soundgen/R/morph_utilities.R | 23 soundgen-2.7.1/soundgen/R/naiveBayes.R | 4 soundgen-2.7.1/soundgen/R/noiseRemoval.R | 5 soundgen-2.7.1/soundgen/R/optimize.R | 9 soundgen-2.7.1/soundgen/R/phasegram.R | 86 +- soundgen-2.7.1/soundgen/R/pitchDescriptives.R | 22 soundgen-2.7.1/soundgen/R/pitchTrackers.R | 128 +- soundgen-2.7.1/soundgen/R/pitch_postprocessing.R | 213 ++-- soundgen-2.7.1/soundgen/R/postprocessing.R | 32 soundgen-2.7.1/soundgen/R/prosody.R | 6 soundgen-2.7.1/soundgen/R/resample.R | 23 soundgen-2.7.1/soundgen/R/rolloff.R | 28 soundgen-2.7.1/soundgen/R/segment.R | 51 - soundgen-2.7.1/soundgen/R/segment_utilities.R | 10 soundgen-2.7.1/soundgen/R/shiftFormants.R | 2 soundgen-2.7.1/soundgen/R/shiftPitch.R | 31 soundgen-2.7.1/soundgen/R/smoothContours.R | 102 +- soundgen-2.7.1/soundgen/R/soundgen.R | 119 +- soundgen-2.7.1/soundgen/R/soundgen_utilities.R | 229 +++-- soundgen-2.7.1/soundgen/R/source.R | 99 +- soundgen-2.7.1/soundgen/R/spectralDescr.R | 379 +++++++- soundgen-2.7.1/soundgen/R/spectrogram.R | 518 ++++++------ soundgen-2.7.1/soundgen/R/subharmonics.R | 72 - soundgen-2.7.1/soundgen/R/surprisal.R | 25 soundgen-2.7.1/soundgen/R/timeStretch.R | 2 soundgen-2.7.1/soundgen/R/vtl.R | 25 soundgen-2.7.1/soundgen/data/detectNLP_training_nonv.rda |binary soundgen-2.7.1/soundgen/data/detectNLP_training_synth.rda |binary soundgen-2.7.1/soundgen/inst/shiny/annotation_app/server.R | 2 soundgen-2.7.1/soundgen/inst/shiny/formant_app/server.R | 2 soundgen-2.7.1/soundgen/inst/shiny/pitch_app/server.R | 2 soundgen-2.7.1/soundgen/inst/shiny/soundgen_main/server.R | 16 soundgen-2.7.1/soundgen/man/Mode.Rd | 3 soundgen-2.7.1/soundgen/man/addAM.Rd | 2 soundgen-2.7.1/soundgen/man/addFormants.Rd | 12 soundgen-2.7.1/soundgen/man/addPitchCands.Rd | 19 soundgen-2.7.1/soundgen/man/addSubh.Rd |only soundgen-2.7.1/soundgen/man/addSubh_per_epoch.Rd |only soundgen-2.7.1/soundgen/man/addVectors.Rd | 4 soundgen-2.7.1/soundgen/man/analyze.Rd | 8 soundgen-2.7.1/soundgen/man/analyzeFrame.Rd | 6 soundgen-2.7.1/soundgen/man/audSpectrogram.Rd | 20 soundgen-2.7.1/soundgen/man/bandpass.Rd | 6 soundgen-2.7.1/soundgen/man/clumper.Rd | 10 soundgen-2.7.1/soundgen/man/compareSounds.Rd | 2 soundgen-2.7.1/soundgen/man/convertStringToFormants.Rd | 8 soundgen-2.7.1/soundgen/man/detectNLP.Rd | 21 soundgen-2.7.1/soundgen/man/divideIntoSyllables.Rd | 12 soundgen-2.7.1/soundgen/man/dot-addAM.Rd | 2 soundgen-2.7.1/soundgen/man/dot-addFormants.Rd | 14 soundgen-2.7.1/soundgen/man/dot-analyze.Rd | 2 soundgen-2.7.1/soundgen/man/dot-audSpectrogram.Rd | 10 soundgen-2.7.1/soundgen/man/dot-getSurprisal.Rd | 6 soundgen-2.7.1/soundgen/man/dot-spectrogram.Rd | 14 soundgen-2.7.1/soundgen/man/drawFreqAxis.Rd |only soundgen-2.7.1/soundgen/man/filled.contour.mod.Rd | 3 soundgen-2.7.1/soundgen/man/findElbow.Rd | 2 soundgen-2.7.1/soundgen/man/findInflections.Rd | 3 soundgen-2.7.1/soundgen/man/findPeaks.Rd |only soundgen-2.7.1/soundgen/man/findZeroCrossing.Rd | 2 soundgen-2.7.1/soundgen/man/flatEnv.Rd | 6 soundgen-2.7.1/soundgen/man/getAM.Rd | 5 soundgen-2.7.1/soundgen/man/getFeatureFlux.Rd | 2 soundgen-2.7.1/soundgen/man/getFrameBank.Rd | 1 soundgen-2.7.1/soundgen/man/getHNR.Rd | 25 soundgen-2.7.1/soundgen/man/getPeakFreq.Rd | 13 soundgen-2.7.1/soundgen/man/getSHR.Rd |only soundgen-2.7.1/soundgen/man/getSigmoid.Rd | 12 soundgen-2.7.1/soundgen/man/getSmoothSpectrum.Rd | 5 soundgen-2.7.1/soundgen/man/getSpectralFlux.Rd | 2 soundgen-2.7.1/soundgen/man/getSurprisal.Rd | 6 soundgen-2.7.1/soundgen/man/harmHeight.Rd | 1 soundgen-2.7.1/soundgen/man/hz2mel.Rd | 2 soundgen-2.7.1/soundgen/man/identifyAndPlay.Rd | 15 soundgen-2.7.1/soundgen/man/interpolMatrix.Rd | 2 soundgen-2.7.1/soundgen/man/log01.Rd | 3 soundgen-2.7.1/soundgen/man/matchLengths.Rd | 3 soundgen-2.7.1/soundgen/man/medianSmoother.Rd | 11 soundgen-2.7.1/soundgen/man/modulationSpectrum.Rd | 7 soundgen-2.7.1/soundgen/man/modulationSpectrumFragment.Rd | 1 soundgen-2.7.1/soundgen/man/morph.Rd | 2 soundgen-2.7.1/soundgen/man/msToSpec.Rd | 8 soundgen-2.7.1/soundgen/man/na.trim.Rd |only soundgen-2.7.1/soundgen/man/normalizeFolder.Rd | 8 soundgen-2.7.1/soundgen/man/phasePropagate.Rd | 2 soundgen-2.7.1/soundgen/man/plotSpec.Rd | 6 soundgen-2.7.1/soundgen/man/plotUnrasterized.Rd |only soundgen-2.7.1/soundgen/man/prosody.Rd | 2 soundgen-2.7.1/soundgen/man/reportTime.Rd | 2 soundgen-2.7.1/soundgen/man/resample.Rd | 18 soundgen-2.7.1/soundgen/man/rnorm_truncated.Rd | 7 soundgen-2.7.1/soundgen/man/rnorm_truncated2.Rd |only soundgen-2.7.1/soundgen/man/sampleModif.Rd | 2 soundgen-2.7.1/soundgen/man/segment.Rd | 2 soundgen-2.7.1/soundgen/man/semitonesToHz.Rd | 3 soundgen-2.7.1/soundgen/man/soundgen.Rd | 23 soundgen-2.7.1/soundgen/man/specToMS.Rd | 7 soundgen-2.7.1/soundgen/man/specToMS_1D.Rd | 16 soundgen-2.7.1/soundgen/man/spectrogram.Rd | 34 soundgen-2.7.1/soundgen/man/switchColorTheme.Rd | 10 soundgen-2.7.1/soundgen/man/wiggleAnchors.Rd | 4 soundgen-2.7.1/soundgen/man/wigglePars.Rd | 2 133 files changed, 2926 insertions(+), 2439 deletions(-)
More information about MonotoneHazardRatio at CRAN
Permanent link
Title: Download and Display Map Tiles
Description: To create maps from tiles, 'maptiles' downloads, composes and
displays tiles from a large number of providers (e.g. 'OpenStreetMap',
'Stadia', 'Esri', 'CARTO', or 'Thunderforest').
Author: Timothee Giraud [cre, aut] ,
Diego Hernangomez [ctb] ,
Robert J. Hijmans [ctb] ,
Hugh A. Graham [ctb]
Maintainer: Timothee Giraud <timothee.giraud@cnrs.fr>
Diff between maptiles versions 0.7.0 dated 2024-01-11 and 0.8.0 dated 2024-10-22
DESCRIPTION | 8 ++-- MD5 | 34 +++++++++-------- NAMESPACE | 2 - NEWS.md | 11 +++++ R/create_provider.R | 15 ++++--- R/get_providers.R |only R/get_tiles.R | 33 +++++++++------- R/plot_tiles.R | 12 ++++-- R/providers.R | 43 ++++++++++----------- R/utils.R | 76 +++++++++++++++++++++----------------- README.md | 18 +++++---- inst/tinytest/test_maptiles.R | 19 +-------- man/create_provider.Rd | 15 ++++--- man/figures/README-example-1.png |binary man/figures/README-example2-1.png |binary man/figures/README-front.png |binary man/get_providers.Rd |only man/get_tiles.Rd | 12 +++--- man/maptiles.Rd | 2 - 19 files changed, 158 insertions(+), 142 deletions(-)
More information about cpp11tesseract at CRAN
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Title: Small Count Rounding of Tabular Data
Description: A statistical disclosure control tool to protect frequency tables in cases where small values are sensitive. The function PLSrounding() performs small count rounding of necessary inner cells so that all small frequencies of cross-classifications to be published (publishable cells) are rounded. This is equivalent to changing micro data since frequencies of unique combinations are changed. Thus, additivity and consistency are guaranteed. The methodology is described in Langsrud and Heldal (2018) <https://www.researchgate.net/publication/327768398_An_Algorithm_for_Small_Count_Rounding_of_Tabular_Data>.
Author: Oeyvind Langsrud [aut, cre],
Johan Heldal [aut]
Maintainer: Oeyvind Langsrud <oyl@ssb.no>
Diff between SmallCountRounding versions 1.0.5 dated 2024-09-05 and 1.0.8 dated 2024-10-22
DESCRIPTION | 13 +- MD5 | 25 ++-- NAMESPACE | 6 + NEWS.md | 32 +++++ R/Extend0fromModelMatrixInput.R |only R/PLSrounding.R | 126 +++++++++++++++++++---- R/PLSroundingFits.R | 89 +++++++++++----- R/RoundViaDummy.R | 99 ++++++++++++++++-- inst/doc/Introduction_to_SmallCountRounding.html | 4 man/FormulaSelection.PLSrounded.Rd |only man/PLSrounding.Rd | 40 +++++++ man/PLSroundingFits.Rd | 27 ++++ man/RoundViaDummy.Rd | 27 ++++ tests/testthat/test-PLSrounding.R | 36 ++++++ tests/testthat/test-PLSroundingFits.R |only 15 files changed, 446 insertions(+), 78 deletions(-)
More information about SmallCountRounding at CRAN
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Title: Raster Randomization for Null Hypothesis Testing
Description: Randomization of presence/absence species distribution raster
data with or without including spatial structure for calculating
standardized effect sizes and testing null hypothesis. The
randomization algorithms are based on classical algorithms for
matrices (Gotelli 2000, <doi:10.2307/177478>) implemented for raster
data.
Author: Neander Marcel Heming [aut, cre, cph]
,
Flavio M. M. Mota [aut] ,
Gabriela Alves-Ferreira [aut]
Maintainer: Neander Marcel Heming <neanderh@yahoo.com.br>
Diff between SESraster versions 0.7.0 dated 2023-08-10 and 0.7.1 dated 2024-10-22
DESCRIPTION | 8 ++-- MD5 | 22 ++++++------ NEWS.md | 11 +++++- R/SESraster.R | 26 ++++++++++---- inst/doc/SES.R | 20 +++++------ inst/doc/SES.html | 59 +++++++++++++++++++-------------- inst/doc/null-models.R | 2 - inst/doc/null-models.html | 66 +++++++++++++++++++------------------- inst/doc/spatial-null-models.R | 36 ++++++++++---------- inst/doc/spatial-null-models.html | 30 ++++++++--------- man/SESraster.Rd | 3 + tests/testthat/test-SESraster.R | 24 ++++++------- 12 files changed, 167 insertions(+), 140 deletions(-)
Title: Quantile Regression
Description: Estimation and inference methods for models for conditional quantile functions:
Linear and nonlinear parametric and non-parametric (total variation penalized) models
for conditional quantiles of a univariate response and several methods for handling
censored survival data. Portfolio selection methods based on expected shortfall
risk are also now included. See Koenker, R. (2005) Quantile Regression, Cambridge U. Press,
<doi:10.1017/CBO9780511754098> and Koenker, R. et al. (2017) Handbook of Quantile Regression,
CRC Press, <doi:10.1201/9781315120256>.
Author: Roger Koenker [cre, aut],
Stephen Portnoy [ctb] ,
Pin Tian Ng [ctb] ,
Blaise Melly [ctb] ,
Achim Zeileis [ctb] ,
Philip Grosjean [ctb] ,
Cleve Moler [ctb] ,
Yousef Saad [ctb] ,
Victor Chernozhukov [ctb] ,
Ivan Fernandez-Val [ctb] ,
Brian D Ripley [tr [...truncated...]
Maintainer: Roger Koenker <rkoenker@illinois.edu>
Diff between quantreg versions 5.98 dated 2024-05-26 and 5.99 dated 2024-10-22
DESCRIPTION | 6 MD5 | 18 - R/anova.R | 8 R/crq.R | 2 R/quantreg.R | 8 R/table.R | 4 build/vignette.rds |binary inst/ChangeLog | 10 src/chlfct.f | 12 - src/cholesky.f | 549 ++++++++++++++++++++++++++++------------------------- 10 files changed, 340 insertions(+), 277 deletions(-)
Title: A Package for Graphical Modelling in R
Description: The 'gRbase' package provides graphical modelling features
used by e.g. the packages 'gRain', 'gRim' and 'gRc'. 'gRbase' implements
graph algorithms including (i) maximum cardinality search (for marked
and unmarked graphs).
(ii) moralization, (iii) triangulation, (iv) creation of junction tree.
'gRbase' facilitates array operations,
'gRbase' implements functions for testing for conditional independence.
'gRbase' illustrates how hierarchical log-linear models may be
implemented and describes concept of graphical meta
data.
The facilities of the package are documented in the book by Højsgaard,
Edwards and Lauritzen (2012,
<doi:10.1007/978-1-4614-2299-0>) and in the paper by
Dethlefsen and Højsgaard, (2005, <doi:10.18637/jss.v014.i17>).
Please see 'citation("gRbase")' for citation details.
Author: Soeren Hoejsgaard [aut, cre]
Maintainer: Soeren Hoejsgaard <sorenh@math.aau.dk>
Diff between gRbase versions 2.0.2 dated 2024-06-05 and 2.0.3 dated 2024-10-22
gRbase-2.0.2/gRbase/R/DATA_cad.R |only gRbase-2.0.2/gRbase/R/grbase_check_functions.R |only gRbase-2.0.2/gRbase/R/yyy_prim.R |only gRbase-2.0.2/gRbase/vignettes/obsolete_vignette |only gRbase-2.0.3/gRbase/DESCRIPTION | 14 gRbase-2.0.3/gRbase/MD5 | 183 ++++------ gRbase-2.0.3/gRbase/NAMESPACE | 6 gRbase-2.0.3/gRbase/NEWS | 9 gRbase-2.0.3/gRbase/R/DATA_grbase.R | 119 +++++- gRbase-2.0.3/gRbase/R/NAMESPACE_grbase.R | 4 gRbase-2.0.3/gRbase/R/api_array_cell.R | 8 gRbase-2.0.3/gRbase/R/api_array_parray.R | 2 gRbase-2.0.3/gRbase/R/api_array_simulate.R | 9 gRbase-2.0.3/gRbase/R/api_array_tabX.R | 61 --- gRbase-2.0.3/gRbase/R/api_array_tab_create.R | 23 - gRbase-2.0.3/gRbase/R/api_array_tableX_bristol.R | 2 gRbase-2.0.3/gRbase/R/graph_coerce.R | 8 gRbase-2.0.3/gRbase/R/graph_coerce_list.R | 28 - gRbase-2.0.3/gRbase/R/graph_coerce_xxx2yyy.R | 103 ----- gRbase-2.0.3/gRbase/R/graph_create_ugdag.R | 28 - gRbase-2.0.3/gRbase/R/graph_iplot.R | 21 - gRbase-2.0.3/gRbase/R/graph_is.R | 33 - gRbase-2.0.3/gRbase/R/graph_mcs.R | 7 gRbase-2.0.3/gRbase/R/graph_moralize.R | 13 gRbase-2.0.3/gRbase/R/graph_querygraph.R | 29 - gRbase-2.0.3/gRbase/R/graph_rip.R | 43 -- gRbase-2.0.3/gRbase/R/graph_topo_sort.R | 7 gRbase-2.0.3/gRbase/R/graph_triangulate.R | 63 --- gRbase-2.0.3/gRbase/R/graph_utilities.R | 6 gRbase-2.0.3/gRbase/R/grbase_utilities.R | 102 +++-- gRbase-2.0.3/gRbase/R/igraph_mintriang.R | 64 --- gRbase-2.0.3/gRbase/R/igraph_mpd.R | 25 - gRbase-2.0.3/gRbase/R/xxx_downstream_depends.R | 18 gRbase-2.0.3/gRbase/R/zzz.R | 30 - gRbase-2.0.3/gRbase/README.md | 29 + gRbase-2.0.3/gRbase/build/vignette.rds |binary gRbase-2.0.3/gRbase/inst/doc/arrays.R | 19 - gRbase-2.0.3/gRbase/inst/doc/arrays.html | 183 +++++----- gRbase-2.0.3/gRbase/inst/doc/arrays.rmd | 170 ++++----- gRbase-2.0.3/gRbase/inst/doc/graphs.html | 74 ++-- gRbase-2.0.3/gRbase/man/array-simulate.Rd | 5 gRbase-2.0.3/gRbase/man/data-BodyFat.Rd | 1 gRbase-2.0.3/gRbase/man/data-Nutrimouse.Rd | 1 gRbase-2.0.3/gRbase/man/data-ashtrees.Rd | 1 gRbase-2.0.3/gRbase/man/data-breastcancer.Rd | 1 gRbase-2.0.3/gRbase/man/data-carcass.Rd | 1 gRbase-2.0.3/gRbase/man/data-chestSim.Rd | 1 gRbase-2.0.3/gRbase/man/data-dietox.Rd | 1 gRbase-2.0.3/gRbase/man/data-dumping.Rd | 1 gRbase-2.0.3/gRbase/man/data-lizard.Rd | 1 gRbase-2.0.3/gRbase/man/data-mathmark.Rd | 1 gRbase-2.0.3/gRbase/man/data-mildew.Rd | 1 gRbase-2.0.3/gRbase/man/data-milkcomp.Rd | 1 gRbase-2.0.3/gRbase/man/data-personality.Rd | 1 gRbase-2.0.3/gRbase/man/data-rats.Rd | 1 gRbase-2.0.3/gRbase/man/data-reinis.Rd | 1 gRbase-2.0.3/gRbase/man/data-wine.Rd | 1 gRbase-2.0.3/gRbase/man/data_cad.Rd | 3 gRbase-2.0.3/gRbase/man/graph-coerce-api.Rd | 1 gRbase-2.0.3/gRbase/man/graph-coerce.Rd | 1 gRbase-2.0.3/gRbase/man/graph-create.Rd | 6 gRbase-2.0.3/gRbase/man/graph-edgeList.Rd | 2 gRbase-2.0.3/gRbase/man/graph-mcs.Rd | 3 gRbase-2.0.3/gRbase/man/graph-min-triangulate.Rd | 6 gRbase-2.0.3/gRbase/man/graph-moralize.Rd | 5 gRbase-2.0.3/gRbase/man/graph-mpd.Rd | 8 gRbase-2.0.3/gRbase/man/graph-rip.Rd | 4 gRbase-2.0.3/gRbase/man/graph-triangulate.Rd | 10 gRbase-2.0.3/gRbase/man/graph_iplot.Rd | 2 gRbase-2.0.3/gRbase/man/graph_is.Rd | 10 gRbase-2.0.3/gRbase/man/graph_topo_sort.Rd | 5 gRbase-2.0.3/gRbase/man/internal.Rd | 8 gRbase-2.0.3/gRbase/vignettes/arrays.rmd | 170 ++++----- gRbase-2.0.3/gRbase/vignettes/fig/GRAPHsamelay-1.png |binary gRbase-2.0.3/gRbase/vignettes/fig/GRAPHunnamed-chunk-17-1.png |binary gRbase-2.0.3/gRbase/vignettes/fig/GRAPHunnamed-chunk-20-1.png |binary gRbase-2.0.3/gRbase/vignettes/fig/GRAPHunnamed-chunk-24-1.png |binary gRbase-2.0.3/gRbase/vignettes/fig/GRAPHunnamed-chunk-25-1.png |binary gRbase-2.0.3/gRbase/vignettes/fig/GRAPHunnamed-chunk-28-1.png |binary gRbase-2.0.3/gRbase/vignettes/fig/GRAPHunnamed-chunk-29-1.png |binary gRbase-2.0.3/gRbase/vignettes/fig/GRAPHunnamed-chunk-30-1.png |binary gRbase-2.0.3/gRbase/vignettes/fig/GRAPHunnamed-chunk-39-1.png |binary gRbase-2.0.3/gRbase/vignettes/fig/GRAPHunnamed-chunk-4-1.png |binary gRbase-2.0.3/gRbase/vignettes/fig/GRAPHunnamed-chunk-44-1.png |binary gRbase-2.0.3/gRbase/vignettes/fig/GRAPHunnamed-chunk-47-1.png |binary gRbase-2.0.3/gRbase/vignettes/fig/GRAPHunnamed-chunk-49-1.png |binary gRbase-2.0.3/gRbase/vignettes/fig/GRAPHunnamed-chunk-52-1.png |binary gRbase-2.0.3/gRbase/vignettes/fig/GRAPHunnamed-chunk-53-1.png |binary gRbase-2.0.3/gRbase/vignettes/fig/GRAPHunnamed-chunk-58-1.png |binary gRbase-2.0.3/gRbase/vignettes/fig/GRAPHunnamed-chunk-6-1.png |binary 90 files changed, 722 insertions(+), 1086 deletions(-)
Title: Confidence Interval Post-Selection of Variable
Description: Calculates confidence intervals after variable selection using repeated data splits. The package offers methods to address the challenges of post-selection inference, ensuring more accurate confidence intervals in models involving variable selection. The two main functions are 'lmps', which records the different models selected across multiple data splits as well as the corresponding coefficient estimates, and 'cips', which takes the lmps object as input to select variables and perform inferences using two types of voting.
Author: Boubacar DIALLO [aut, cre]
Maintainer: Boubacar DIALLO <boubacar.diallo0@yahoo.com>
Diff between CIpostSelect versions 0.2.0 dated 2024-10-04 and 0.2.1 dated 2024-10-22
CIpostSelect-0.2.0/CIpostSelect/man/predict.CIps.Rd |only CIpostSelect-0.2.1/CIpostSelect/DESCRIPTION | 6 CIpostSelect-0.2.1/CIpostSelect/MD5 | 9 CIpostSelect-0.2.1/CIpostSelect/NAMESPACE | 1 CIpostSelect-0.2.1/CIpostSelect/R/uneFonction.R | 686 ++++++++++++++++++-- CIpostSelect-0.2.1/CIpostSelect/man/CIps.Rd | 2 6 files changed, 643 insertions(+), 61 deletions(-)
Title: Breaks for Additive Season and Trend
Description: Decomposition of time series into
trend, seasonal, and remainder components with methods for detecting and
characterizing abrupt changes within the trend and seasonal components. 'BFAST'
can be used to analyze different types of satellite image time series and can
be applied to other disciplines dealing with seasonal or non-seasonal time
series, such as hydrology, climatology, and econometrics. The algorithm can be
extended to label detected changes with information on the parameters of the
fitted piecewise linear models. 'BFAST' monitoring functionality is described
in Verbesselt et al. (2010) <doi:10.1016/j.rse.2009.08.014>. 'BFAST monitor'
provides functionality to detect disturbance in near real-time based on 'BFAST'-
type models, and is described in Verbesselt et al. (2012) <doi:10.1016/j.rse.2012.02.022>.
'BFAST Lite' approach is a flexible approach that handles missing data
without interpolation, and will be described in an upcoming paper.
Furthermore, different mode [...truncated...]
Author: Jan Verbesselt [aut],
Dainius Masiliūnas [aut, cre] ,
Achim Zeileis [aut],
Rob Hyndman [ctb],
Marius Appel [aut],
Martin Jung [ctb],
Andrei Mîrț [ctb] ,
Paulo Negri Bernardino [ctb],
Dongdong Kong [ctb]
Maintainer: Dainius Masiliūnas <pastas4@gmail.com>
Diff between bfast versions 1.6.1 dated 2021-05-10 and 1.7.0 dated 2024-10-22
bfast-1.6.1/bfast/inst/extdata/modisraster.grd |only bfast-1.6.1/bfast/inst/extdata/modisraster.gri |only bfast-1.7.0/bfast/DESCRIPTION | 23 +-- bfast-1.7.0/bfast/MD5 | 49 +++--- bfast-1.7.0/bfast/NAMESPACE | 2 bfast-1.7.0/bfast/NEWS | 21 ++ bfast-1.7.0/bfast/R/bfast-package.R | 10 - bfast-1.7.0/bfast/R/bfast.R | 30 ++-- bfast-1.7.0/bfast/R/bfastlite.R | 67 ++++++--- bfast-1.7.0/bfast/R/bfastpp.R | 4 bfast-1.7.0/bfast/R/bfastts.R | 20 -- bfast-1.7.0/bfast/R/history_roc.R | 13 - bfast-1.7.0/bfast/R/plot.bfast.R | 2 bfast-1.7.0/bfast/build/partial.rdb |binary bfast-1.7.0/bfast/inst/CITATION | 79 +++++----- bfast-1.7.0/bfast/inst/REFERENCES.bib | 16 +- bfast-1.7.0/bfast/inst/extdata/modisraster.tif |only bfast-1.7.0/bfast/man/bfast.Rd | 8 - bfast-1.7.0/bfast/man/bfastlite.Rd | 65 ++++++++ bfast-1.7.0/bfast/man/bfastmonitor.Rd | 26 +-- bfast-1.7.0/bfast/man/bfastts.Rd | 14 - bfast-1.7.0/bfast/man/dates.Rd | 2 bfast-1.7.0/bfast/man/harvest.Rd | 2 bfast-1.7.0/bfast/man/modisraster.Rd | 4 bfast-1.7.0/bfast/man/plot.bfast.Rd | 2 bfast-1.7.0/bfast/man/simts.Rd | 2 bfast-1.7.0/bfast/tests/Examples/bfast-Ex.Rout.save | 145 +++----------------- 27 files changed, 312 insertions(+), 294 deletions(-)
Title: Calculation of the Integrated Flow of Particles Between Polygons
Description: Calculate the flow of particles between polygons by two integration methods:
integration by a cubature method and integration on a grid of points.
Annie Bouvier, Kien Kieu, Kasia Adamczyk and Herve Monod (2009)
<doi:10.1016/j.envsoft.2008.11.006>.
Author: Annie Bouvier [aut, cph],
Kien Kieu [aut, cph],
Kasia Adamczyk [aut, cph],
Herve Monod [aut, cph],
Jean-Francois Rey [cre]
Maintainer: Jean-Francois Rey <jean-francois.rey@inrae.fr>
Diff between RCALI versions 0.3.6 dated 2024-02-16 and 0.3.7 dated 2024-10-22
RCALI-0.3.6/RCALI/tests/out.out |only RCALI-0.3.7/RCALI/DESCRIPTION | 8 ++++---- RCALI-0.3.7/RCALI/MD5 | 15 +++++++-------- RCALI-0.3.7/RCALI/src/calimacros.h | 10 +++++----- RCALI-0.3.7/RCALI/src/go.cc | 2 +- RCALI-0.3.7/RCALI/src/methodAdapt.cc | 12 ++++++------ RCALI-0.3.7/RCALI/src/methodGrid.cc | 12 ++++++------ RCALI-0.3.7/RCALI/src/readPoly.cc | 6 +++--- RCALI-0.3.7/RCALI/src/util.cc | 2 +- 9 files changed, 33 insertions(+), 34 deletions(-)
Title: Likelihood Analyses for Common Statistical Tests
Description: A collection of functions that calculate the log likelihood
(support) for a range of statistical tests. Where possible the likelihood
function and likelihood interval for the observed data are displayed. The
evidential approach used here is based on the book "Likelihood" by A.W.F.
Edwards (1992, ISBN-13 : 978-0801844430), "Statistical Evidence" by R.
Royall (1997, ISBN-13 : 978-0412044113), S.N. Goodman & R. Royall
(2011) <doi:10.2105/AJPH.78.12.1568>, "Understanding
Psychology as a Science" by Z. Dienes (2008, ISBN-13 : 978-0230542310),
S. Glover & P. Dixon <doi:10.3758/BF03196706>
and others. This package accompanies "Evidence-Based Statistics" by
P. Cahusac (2020, ISBN-13 : 978-1119549802)
<doi:10.1002/9781119549833>.
Author: Peter Cahusac [aut, cre]
Maintainer: Peter Cahusac <peteqsac@gmail.com>
Diff between likelihoodR versions 1.1.4 dated 2023-09-14 and 1.1.5 dated 2024-10-22
DESCRIPTION | 8 ++++---- MD5 | 4 ++-- R/L_t_test_sample_size.R | 8 ++++---- 3 files changed, 10 insertions(+), 10 deletions(-)
Title: Graphical User Interface for Seasonal Adjustment
Description: A graphical user interface to the 'seasonal' package and
'X-13ARIMA-SEATS', the U.S. Census Bureau's seasonal adjustment software.
Author: Christoph Sax [aut, cre]
Maintainer: Christoph Sax <christoph.sax@gmail.com>
Diff between seasonalview versions 0.3 dated 2017-05-04 and 1.0.0 dated 2024-10-22
seasonalview-0.3/seasonalview/NEWS |only seasonalview-1.0.0/seasonalview/DESCRIPTION | 25 ++++++------ seasonalview-1.0.0/seasonalview/MD5 | 20 ++++----- seasonalview-1.0.0/seasonalview/NEWS.md |only seasonalview-1.0.0/seasonalview/R/format_seascall.R | 2 seasonalview-1.0.0/seasonalview/R/html_summary.R | 8 +-- seasonalview-1.0.0/seasonalview/R/importable-xts.R | 6 +- seasonalview-1.0.0/seasonalview/R/seasonalview-package.R | 4 - seasonalview-1.0.0/seasonalview/README.md | 16 ++++--- seasonalview-1.0.0/seasonalview/inst/app/global.R | 3 - seasonalview-1.0.0/seasonalview/inst/app/server.R | 8 +-- seasonalview-1.0.0/seasonalview/man/seasonalview-package.Rd | 5 -- 12 files changed, 45 insertions(+), 52 deletions(-)
Title: High-Dimensional Location Testing with Normal-Reference
Approaches
Description: We provide a collection of various classical tests and latest normal-reference tests for comparing high-dimensional mean vectors including two-sample and general linear hypothesis testing (GLHT) problem. Some existing tests for two-sample problem [see Bai, Zhidong, and Hewa Saranadasa.(1996) <https://www.jstor.org/stable/24306018>; Chen, Song Xi, and Ying-Li Qin.(2010) <doi:10.1214/09-aos716>; Srivastava, Muni S., and Meng Du.(2008) <doi:10.1016/j.jmva.2006.11.002>; Srivastava, Muni S., Shota Katayama, and Yutaka Kano.(2013)<doi:10.1016/j.jmva.2012.08.014>]. Normal-reference tests for two-sample problem [see Zhang, Jin-Ting, Jia Guo, Bu Zhou, and Ming-Yen Cheng.(2020) <doi:10.1080/01621459.2019.1604366>; Zhang, Jin-Ting, Bu Zhou, Jia Guo, and Tianming Zhu.(2021) <doi:10.1016/j.jspi.2020.11.008>; Zhang, Liang, Tianming Zhu, and Jin-Ting Zhang.(2020) <doi:10.1016/j.ecosta.2019.12.002>; Zhang, Liang, Tianming Zhu, and Jin-Ting Zhang.(2023) <doi [...truncated...]
Author: Pengfei Wang [aut, cre],
Shuqi Luo [aut],
Tianming Zhu [aut],
Bu Zhou [aut]
Maintainer: Pengfei Wang <nie23.wp8738@e.ntu.edu.sg>
Diff between HDNRA versions 2.0.0 dated 2024-10-18 and 2.0.1 dated 2024-10-22
HDNRA-2.0.0/HDNRA/R/BS1996.TS.NART.R |only HDNRA-2.0.0/HDNRA/man/BS1996.TS.NART.Rd |only HDNRA-2.0.1/HDNRA/DESCRIPTION | 8 ++++---- HDNRA-2.0.1/HDNRA/MD5 | 18 +++++++++--------- HDNRA-2.0.1/HDNRA/NAMESPACE | 2 +- HDNRA-2.0.1/HDNRA/NEWS.md | 8 ++++++++ HDNRA-2.0.1/HDNRA/R/BS1996.TS.NABT.R |only HDNRA-2.0.1/HDNRA/R/RcppExports.R | 4 ++-- HDNRA-2.0.1/HDNRA/build/partial.rdb |binary HDNRA-2.0.1/HDNRA/man/BS1996.TS.NABT.Rd |only HDNRA-2.0.1/HDNRA/src/HDNRA.cpp | 2 +- HDNRA-2.0.1/HDNRA/src/RcppExports.cpp | 10 +++++----- 12 files changed, 30 insertions(+), 22 deletions(-)
Title: Encoding Coordinates into 'Google' Polylines
Description: Encodes simple feature ('sf') objects and coordinates, and decodes polylines
using the 'Google' polyline encoding algorithm (<https://developers.google.com/maps/documentation/utilities/polylinealgorithm>).
Author: David Cooley [aut, cre],
Paulo Barcelos [ctb] ,
Chris Muir [ctb]
Maintainer: David Cooley <dcooley@symbolix.com.au>
Diff between googlePolylines versions 0.8.4 dated 2023-09-05 and 0.8.5 dated 2024-10-22
googlePolylines-0.8.4/googlePolylines/inst/include |only googlePolylines-0.8.5/googlePolylines/DESCRIPTION | 12 googlePolylines-0.8.5/googlePolylines/MD5 | 4158 +++++++++- googlePolylines-0.8.5/googlePolylines/NEWS.md | 4 googlePolylines-0.8.5/googlePolylines/build/vignette.rds |binary googlePolylines-0.8.5/googlePolylines/inst/doc/sfencode.html | 86 googlePolylines-0.8.5/googlePolylines/inst/i |only googlePolylines-0.8.5/googlePolylines/src/Makevars | 2 googlePolylines-0.8.5/googlePolylines/src/Makevars.win | 2 googlePolylines-0.8.5/googlePolylines/src/RcppExports.cpp | 1 googlePolylines-0.8.5/googlePolylines/src/wkt.cpp | 6 googlePolylines-0.8.5/googlePolylines/tests/testthat/test-sfencoded.R | 13 12 files changed, 4209 insertions(+), 75 deletions(-)
More information about googlePolylines at CRAN
Permanent link
More information about flourishcharts at CRAN
Permanent link
Title: Causal Inference with Continuous (Multiple Time Point)
Interventions
Description: Estimation of counterfactual outcomes for multiple values of continuous interventions at different time points, and plotting of causal dose-response curves. Details are given in Schomaker, McIlleron, Denti, Diaz (2024) <doi:10.48550/arXiv.2305.06645>.
Author: Michael Schomaker [aut, cre]
Maintainer: Michael Schomaker <michael.schomaker@stat.uni-muenchen.de>
Diff between CICI versions 0.9.1 dated 2023-09-18 and 0.9.2 dated 2024-10-22
DESCRIPTION | 10 +++++----- MD5 | 6 +++--- R/gformula.r | 14 ++++++-------- man/CICI-package.Rd | 8 ++++---- 4 files changed, 18 insertions(+), 20 deletions(-)
Title: Exploratory Data Analysis for the 'spatstat' Family
Description: Functionality for exploratory data analysis and nonparametric analysis of
spatial data, mainly spatial point patterns,
in the 'spatstat' family of packages.
(Excludes analysis of spatial data on a linear network,
which is covered by the separate package 'spatstat.linnet'.)
Methods include quadrat counts, K-functions and their simulation envelopes, nearest neighbour distance and empty space statistics, Fry plots, pair correlation function, kernel smoothed intensity, relative risk estimation with cross-validated bandwidth selection, mark correlation functions, segregation indices, mark dependence diagnostics, and kernel estimates of covariate effects. Formal hypothesis tests of random pattern (chi-squared, Kolmogorov-Smirnov, Monte Carlo, Diggle-Cressie-Loosmore-Ford, Dao-Genton, two-stage Monte Carlo) and tests for covariate effects (Cox-Berman-Waller-Lawson, Kolmogorov-Smirnov, ANOVA) are also supported.
Author: Adrian Baddeley [aut, cre, cph]
,
Rolf Turner [aut, cph] ,
Ege Rubak [aut, cph] ,
Kasper Klitgaard Berthelsen [ctb],
Warick Brown [cph],
Achmad Choiruddin [ctb],
Jean-Francois Coeurjolly [ctb],
Ottmar Cronie [ctb],
Tilman Davies [ctb, cph],
Julian Gi [...truncated...]
Maintainer: Adrian Baddeley <Adrian.Baddeley@curtin.edu.au>
Diff between spatstat.explore versions 3.3-2 dated 2024-08-21 and 3.3-3 dated 2024-10-22
DESCRIPTION | 8 ++++---- MD5 | 24 ++++++++++++++++-------- NAMESPACE | 12 ++++++++++++ NEWS | 29 +++++++++++++++++++++++++++++ R/SmoothHeat.R |only R/blurHeat.R |only R/bw.ppl.R | 11 ++++++++--- R/densityHeat.ppp.R | 4 ++++ R/relriskHeat.R |only inst/doc/packagesizes.txt | 2 +- inst/info/packagesizes.txt | 2 +- man/SmoothHeat.Rd |only man/SmoothHeat.ppp.Rd |only man/blurHeat.Rd |only man/bw.ppl.Rd | 8 ++++---- man/bw.relriskHeatppp.Rd |only man/relriskHeat.Rd |only 17 files changed, 79 insertions(+), 21 deletions(-)
More information about spatstat.explore at CRAN
Permanent link
Title: Efficiently Retrieve and Process Satellite Imagery
Description: Downloads spatial data from spatiotemporal asset catalogs
('STAC'), computes standard spectral indices from the Awesome Spectral
Indices project (Montero et al. (2023) <doi:10.1038/s41597-023-02096-0>)
against raster data, and glues the outputs together into predictor bricks.
Methods focus on interoperability with the broader spatial ecosystem;
function arguments and outputs use classes from 'sf' and 'terra', and data
downloading functions support complex 'CQL2' queries using 'rstac'.
Author: Michael Mahoney [aut, cre] ,
Felipe Carvalho [rev] for
rOpenSci, see
<https://github.com/ropensci/software-review/issues/636>),
Michael Sumner [rev] for
rOpenSci, see
<https://github.com/ropensci/software-review/issues/636>),
Permian Global [cph, f [...truncated...]
Maintainer: Michael Mahoney <mike.mahoney.218@gmail.com>
Diff between rsi versions 0.3.0 dated 2024-10-02 and 0.3.1 dated 2024-10-22
rsi-0.3.0/rsi/tests/testthat/_snaps/get_stac_data.md |only rsi-0.3.1/rsi/DESCRIPTION | 6 rsi-0.3.1/rsi/MD5 | 27 - rsi-0.3.1/rsi/NEWS.md | 5 rsi-0.3.1/rsi/R/download.R | 1 rsi-0.3.1/rsi/R/query_and_sign.R | 2 rsi-0.3.1/rsi/README.md | 99 ----- rsi-0.3.1/rsi/inst/doc/rsi.html | 330 +++++++---------- rsi-0.3.1/rsi/man/figures/README-unnamed-chunk-3-1.png |binary rsi-0.3.1/rsi/man/figures/README-unnamed-chunk-4-1.png |binary rsi-0.3.1/rsi/man/figures/README-unnamed-chunk-5-1.png |binary rsi-0.3.1/rsi/man/figures/README-unnamed-chunk-7-1.png |binary rsi-0.3.1/rsi/man/figures/README-unnamed-chunk-8-1.png |binary rsi-0.3.1/rsi/tests/testthat/test-get_stac_data.R | 5 rsi-0.3.1/rsi/tests/testthat/test-query_and_sign.R | 3 15 files changed, 188 insertions(+), 290 deletions(-)
Title: Design and Analysis of Replication Studies
Description: Provides utilities for the design and analysis of replication
studies. Features both traditional methods based on statistical
significance and more recent methods such as the sceptical p-value;
Held L. (2020) <doi:10.1111/rssa.12493>, Held et al. (2022)
<doi:10.1214/21-AOAS1502>, Micheloud et al. (2023) <doi:10.1111/stan.12312>.
Also provides related methods including the harmonic mean chi-squared
test; Held, L. (2020) <doi:10.1111/rssc.12410>, and intrinsic
credibility; Held, L. (2019) <doi:10.1098/rsos.181534>. Contains
datasets from five large-scale replication projects.
Author: Leonhard Held [aut] ,
Samuel Pawel [cre] ,
Charlotte Micheloud [aut] ,
Florian Gerber [aut] ,
Felix Hofmann [aut]
Maintainer: Samuel Pawel <samuel.pawel@uzh.ch>
Diff between ReplicationSuccess versions 1.3.2 dated 2024-02-22 and 1.3.3 dated 2024-10-22
DESCRIPTION | 10 +++++----- MD5 | 36 +++++++++++++++++++++--------------- NAMESPACE | 3 +++ NEWS.md | 7 +++++++ R/datasets.R | 2 +- R/pEdgington.R |only R/powerEdgington.R |only R/powerSignificance.R | 2 +- R/predictionInterval.R | 2 +- R/sampleSizeEdgington.R |only R/sampleSizeSignificance.R | 2 +- README.md | 8 ++++++-- build/partial.rdb |binary build/vignette.rds |binary inst/doc/ReplicationSuccess.pdf |binary man/RProjects.Rd | 2 +- man/pEdgington.Rd |only man/powerEdgington.Rd |only man/powerSignificance.Rd | 2 +- man/predictionInterval.Rd | 2 +- man/sampleSizeEdgington.Rd |only man/sampleSizeSignificance.Rd | 2 +- 22 files changed, 50 insertions(+), 30 deletions(-)
More information about ReplicationSuccess at CRAN
Permanent link
Title: A Lightweight, Modern and Flexible Logging Utility
Description: Inspired by the the 'futile.logger' R package and 'logging'
Python module, this utility provides a flexible and extensible way of
formatting and delivering log messages with low overhead.
Author: Gergely Daroczi [aut, cre] ,
Hadley Wickham [aut] ,
System1 [fnd]
Maintainer: Gergely Daroczi <daroczig@rapporter.net>
Diff between logger versions 0.3.0 dated 2024-03-05 and 0.4.0 dated 2024-10-22
logger-0.3.0/logger/demo |only logger-0.3.0/logger/inst/load-packages-in-background-process.R |only logger-0.3.0/logger/man/catch_base_log.Rd |only logger-0.3.0/logger/man/fallback_namespace.Rd |only logger-0.3.0/logger/man/get_logger_definitions.Rd |only logger-0.3.0/logger/man/grayscale_by_log_level.Rd |only logger-0.3.0/logger/man/log_config_setter.Rd |only logger-0.3.0/logger/man/top_env_name.Rd |only logger-0.3.0/logger/man/validate_log_level.Rd |only logger-0.3.0/logger/man/warn_if_globalCallingHandlers_is_not_available.Rd |only logger-0.3.0/logger/tests/testthat/test-CRANSKIP-appenders.R |only logger-0.3.0/logger/tests/testthat/test-CRANSKIP-helpers.R |only logger-0.3.0/logger/tests/testthat/test-CRANSKIP-hooks.R |only logger-0.3.0/logger/tests/testthat/test-CRANSKIP-logger-namespaces.R |only logger-0.3.0/logger/tests/testthat/test-appender.R |only logger-0.3.0/logger/tests/testthat/test-layout.R |only logger-0.4.0/logger/DESCRIPTION | 44 logger-0.4.0/logger/LICENSE |only logger-0.4.0/logger/MD5 | 243 ++-- logger-0.4.0/logger/NAMESPACE | 1 logger-0.4.0/logger/NEWS.md | 25 logger-0.4.0/logger/R/appenders.R | 574 ++++------ logger-0.4.0/logger/R/color.R | 109 - logger-0.4.0/logger/R/formatters.R | 401 +++--- logger-0.4.0/logger/R/helpers.R | 301 ++--- logger-0.4.0/logger/R/hooks.R | 220 +-- logger-0.4.0/logger/R/layouts.R | 482 ++++---- logger-0.4.0/logger/R/levels.R | 119 +- logger-0.4.0/logger/R/logger-meta.R |only logger-0.4.0/logger/R/logger-package.R |only logger-0.4.0/logger/R/logger.R | 571 +++++---- logger-0.4.0/logger/R/try.R | 47 logger-0.4.0/logger/R/utils.R | 141 +- logger-0.4.0/logger/R/zzz.R | 71 - logger-0.4.0/logger/README.md | 240 ++-- logger-0.4.0/logger/build/vignette.rds |binary logger-0.4.0/logger/inst/demo-packages/logger-tester-package/DESCRIPTION | 4 logger-0.4.0/logger/inst/demo-packages/logger-tester-package/LICENSE |only logger-0.4.0/logger/inst/demo-packages/logger-tester-package/NAMESPACE | 3 logger-0.4.0/logger/inst/demo-packages/logger-tester-package/R/tester.R | 9 logger-0.4.0/logger/inst/demo-packages/logger-tester-package/man/logger_info_tester_function.Rd |only logger-0.4.0/logger/inst/doc/Intro.R | 41 logger-0.4.0/logger/inst/doc/Intro.Rmd | 41 logger-0.4.0/logger/inst/doc/Intro.html | 56 logger-0.4.0/logger/inst/doc/anatomy.R | 33 logger-0.4.0/logger/inst/doc/anatomy.Rmd | 43 logger-0.4.0/logger/inst/doc/anatomy.html | 345 ------ logger-0.4.0/logger/inst/doc/customize_logger.R | 110 - logger-0.4.0/logger/inst/doc/customize_logger.Rmd | 114 - logger-0.4.0/logger/inst/doc/customize_logger.html | 170 +- logger-0.4.0/logger/inst/doc/migration.R | 119 -- logger-0.4.0/logger/inst/doc/migration.Rmd | 120 -- logger-0.4.0/logger/inst/doc/migration.html | 161 +- logger-0.4.0/logger/inst/doc/performance.R |only logger-0.4.0/logger/inst/doc/performance.Rmd | 12 logger-0.4.0/logger/inst/doc/performance.html | 21 logger-0.4.0/logger/inst/doc/r_packages.R | 17 logger-0.4.0/logger/inst/doc/r_packages.Rmd | 18 logger-0.4.0/logger/inst/doc/r_packages.html | 6 logger-0.4.0/logger/inst/doc/write_custom_extensions.R | 3 logger-0.4.0/logger/inst/doc/write_custom_extensions.Rmd | 4 logger-0.4.0/logger/man/appender_async.Rd | 63 - logger-0.4.0/logger/man/appender_console.Rd | 12 logger-0.4.0/logger/man/appender_file.Rd | 50 logger-0.4.0/logger/man/appender_kinesis.Rd | 15 logger-0.4.0/logger/man/appender_pushbullet.Rd | 17 logger-0.4.0/logger/man/appender_slack.Rd | 15 logger-0.4.0/logger/man/appender_stdout.Rd | 12 logger-0.4.0/logger/man/appender_syslog.Rd | 14 logger-0.4.0/logger/man/appender_syslognet.Rd | 2 logger-0.4.0/logger/man/appender_tee.Rd | 28 logger-0.4.0/logger/man/appender_telegram.Rd | 18 logger-0.4.0/logger/man/colorize_by_log_level.Rd | 41 logger-0.4.0/logger/man/fail_on_missing_package.Rd | 12 logger-0.4.0/logger/man/figures/logo.png |only logger-0.4.0/logger/man/formatter_glue.Rd | 26 logger-0.4.0/logger/man/formatter_glue_or_sprintf.Rd | 43 logger-0.4.0/logger/man/formatter_glue_safe.Rd | 22 logger-0.4.0/logger/man/formatter_json.Rd | 26 logger-0.4.0/logger/man/formatter_logging.Rd | 45 logger-0.4.0/logger/man/formatter_pander.Rd | 32 logger-0.4.0/logger/man/formatter_paste.Rd | 22 logger-0.4.0/logger/man/formatter_sprintf.Rd | 22 logger-0.4.0/logger/man/get_logger_meta_variables.Rd | 76 - 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logger-0.4.0/logger/vignettes/migration.Rmd | 120 -- logger-0.4.0/logger/vignettes/performance.Rmd | 12 logger-0.4.0/logger/vignettes/r_packages.Rmd | 18 logger-0.4.0/logger/vignettes/write_custom_extensions.Rmd | 4 135 files changed, 4041 insertions(+), 3646 deletions(-)
Title: Spatially Explicit Capture-Recapture for Linear Habitats
Description: Tools for spatially explicit capture-recapture analysis of animal populations in linear habitats, extending package 'secr'.
Author: Murray Efford [aut, cre]
Maintainer: Murray Efford <murray.efford@otago.ac.nz>
Diff between secrlinear versions 1.2.2 dated 2023-10-17 and 1.2.4 dated 2024-10-22
secrlinear-1.2.2/secrlinear/vignettes/secrlinear-vignette_cache/latex/simCH_8f5f1111a8cc19494e2c1652b5a63d27.RData |only secrlinear-1.2.2/secrlinear/vignettes/secrlinear-vignette_cache/latex/simCH_8f5f1111a8cc19494e2c1652b5a63d27.rdb |only secrlinear-1.2.2/secrlinear/vignettes/secrlinear-vignette_cache/latex/simCH_8f5f1111a8cc19494e2c1652b5a63d27.rdx |only secrlinear-1.2.4/secrlinear/DESCRIPTION | 18 ++- secrlinear-1.2.4/secrlinear/MD5 | 50 +++++----- secrlinear-1.2.4/secrlinear/NAMESPACE | 4 secrlinear-1.2.4/secrlinear/NEWS | 12 ++ secrlinear-1.2.4/secrlinear/R/asgraph.R | 8 - secrlinear-1.2.4/secrlinear/R/linearkd.R |only secrlinear-1.2.4/secrlinear/R/read.linearmask.R | 12 +- secrlinear-1.2.4/secrlinear/build/partial.rdb |binary secrlinear-1.2.4/secrlinear/build/vignette.rds |binary secrlinear-1.2.4/secrlinear/data/arvicola.RData |binary secrlinear-1.2.4/secrlinear/data/glymemask.RData |binary secrlinear-1.2.4/secrlinear/inst/doc/secrlinear-vignette.R | 3 secrlinear-1.2.4/secrlinear/inst/doc/secrlinear-vignette.Rmd | 5 - secrlinear-1.2.4/secrlinear/inst/doc/secrlinear-vignette.pdf |binary secrlinear-1.2.4/secrlinear/man/edges.Rd | 1 secrlinear-1.2.4/secrlinear/man/linearkd.Rd |only secrlinear-1.2.4/secrlinear/man/linearmask.object.Rd | 2 secrlinear-1.2.4/secrlinear/man/make.line.Rd | 2 secrlinear-1.2.4/secrlinear/man/plotmethods.Rd | 6 - secrlinear-1.2.4/secrlinear/man/read.linearmask.Rd | 2 secrlinear-1.2.4/secrlinear/man/secrlinear-package.Rd | 4 secrlinear-1.2.4/secrlinear/man/showpath.Rd | 2 secrlinear-1.2.4/secrlinear/man/utility.Rd | 2 secrlinear-1.2.4/secrlinear/vignettes/secrlinear-vignette.Rmd | 5 - secrlinear-1.2.4/secrlinear/vignettes/secrlinear-vignette_cache/latex/simCH_b933fd091c93db5f7daaa1c9aa066114.RData |only secrlinear-1.2.4/secrlinear/vignettes/secrlinear-vignette_cache/latex/simCH_b933fd091c93db5f7daaa1c9aa066114.rdb |only secrlinear-1.2.4/secrlinear/vignettes/secrlinear-vignette_cache/latex/simCH_b933fd091c93db5f7daaa1c9aa066114.rdx |only 30 files changed, 83 insertions(+), 55 deletions(-)
Title: Statistical Catch-at-Age Plotting Environment
Description: Import, plot, and diagnose results from statistical
catch-at-age models, used in fisheries stock assessment.
Author: Arni Magnusson [aut, cre]
Maintainer: Arni Magnusson <thisisarni@gmail.com>
Diff between scape versions 2.3.3 dated 2020-11-23 and 2.3.5 dated 2024-10-22
scape-2.3.3/scape/NEWS |only scape-2.3.3/scape/data/x.cod.R |only scape-2.3.3/scape/data/x.ling.R |only scape-2.3.3/scape/data/x.oreo.R |only scape-2.3.3/scape/data/x.saithe.R |only scape-2.3.3/scape/data/x.sbw.R |only scape-2.3.3/scape/data/xmcmc.R |only scape-2.3.3/scape/data/xproj.R |only scape-2.3.5/scape/DESCRIPTION | 10 ++- scape-2.3.5/scape/MD5 | 73 ++++++++++++++-------------- scape-2.3.5/scape/NEWS.md |only scape-2.3.5/scape/R/estN.R | 4 - scape-2.3.5/scape/R/estSigmaI.R | 6 +- scape-2.3.5/scape/R/estSigmaR.R | 2 scape-2.3.5/scape/R/getN.R | 2 scape-2.3.5/scape/R/getSigmaI.R | 4 - scape-2.3.5/scape/R/getSigmaR.R | 2 scape-2.3.5/scape/R/plotB.R | 2 scape-2.3.5/scape/R/plotCA.R | 4 - scape-2.3.5/scape/R/plotCL.R | 4 - scape-2.3.5/scape/R/plotIndex.R | 4 - scape-2.3.5/scape/R/plotLA.R | 2 scape-2.3.5/scape/R/plotN.R | 4 - scape-2.3.5/scape/R/plotSel.R | 2 scape-2.3.5/scape/build/partial.rdb |only scape-2.3.5/scape/build/vignette.rds |binary scape-2.3.5/scape/data/x.cod.rda |only scape-2.3.5/scape/data/x.ling.rda |only scape-2.3.5/scape/data/x.oreo.rda |only scape-2.3.5/scape/data/x.saithe.rda |only scape-2.3.5/scape/data/x.sbw.rda |only scape-2.3.5/scape/data/xmcmc.rda |only scape-2.3.5/scape/data/xproj.rda |only scape-2.3.5/scape/inst/doc/dsc-vignette.pdf |binary scape-2.3.5/scape/inst/doc/gallery.pdf |binary scape-2.3.5/scape/inst/doc/mymodel.pdf |binary scape-2.3.5/scape/man/estN.Rd | 25 +++++---- scape-2.3.5/scape/man/getSigmaR.Rd | 4 - scape-2.3.5/scape/man/importCol.Rd | 9 +-- scape-2.3.5/scape/man/importMCMC.Rd | 9 +-- scape-2.3.5/scape/man/importProj.Rd | 9 +-- scape-2.3.5/scape/man/scape-package.Rd | 21 ++++---- scape-2.3.5/scape/man/x.cod.Rd | 15 +++-- scape-2.3.5/scape/man/x.ling.Rd | 14 +++-- scape-2.3.5/scape/man/x.oreo.Rd | 27 +++++----- scape-2.3.5/scape/man/xmcmc.Rd | 8 +-- 46 files changed, 146 insertions(+), 120 deletions(-)
Title: Partial Principal Component Analysis of Partitioned Large Sparse
Matrices
Description: Performs partial principal component analysis of a large sparse matrix.
The matrix may be stored as a list of matrices to be concatenated (implicitly) horizontally.
Useful application includes cases where the number of total nonzero entries exceed the capacity of
32 bit integers (e.g., with large Single Nucleotide Polymorphism data).
Author: Srika Raja [aut, cre],
Somak Dutta [aut]
Maintainer: Srika Raja <sri1919@iastate.edu>
Diff between pPCA versions 1.0 dated 2024-10-11 and 1.1 dated 2024-10-22
DESCRIPTION | 8 ++++---- MD5 | 14 ++++++++------ NAMESPACE | 2 ++ R/pPCA.r | 7 ++++--- R/pca_list.R | 49 ++++++++++++++++++++++++++++--------------------- R/pca_matrix.R | 42 +++++++++++++++++++++++++++--------------- R/print.R |only man/pPCA.Rd | 4 +++- man/print.pPCA.Rd |only 9 files changed, 76 insertions(+), 50 deletions(-)
Title: Bivariate (Two-Dimensional) Confidence Region and Frequency
Distribution
Description: Generic functions to analyze the distribution of two continuous
variables: 'conf2d' to calculate a smooth empirical confidence region, and
'freq2d' to calculate a frequency distribution.
Author: Arni Magnusson [aut, cre],
Julian Burgos [aut],
Gregory R. Warnes [ctb]
Maintainer: Arni Magnusson <thisisarni@gmail.com>
Diff between r2d2 versions 1.0.1 dated 2022-05-11 and 1.0.2 dated 2024-10-22
DESCRIPTION | 9 +++++---- MD5 | 18 +++++++++--------- NEWS.md | 10 +++++++++- build/partial.rdb |binary data/Ushape.rda |binary data/saithe.rda |binary man/conf2d.Rd | 12 ++++++------ man/freq2d.Rd | 10 +++++----- man/r2d2-package.Rd | 6 +++--- man/saithe.Rd | 2 +- 10 files changed, 38 insertions(+), 29 deletions(-)
Title: Tools to Work with Microsoft SQL Server Databases via 'RODBC'
Description: Tools that extend the functionality of the 'RODBC' package to work
with Microsoft SQL Server databases. Makes it easier to browse the database
and examine individual tables and views.
Author: Arni Magnusson [aut, cre]
Maintainer: Arni Magnusson <thisisarni@gmail.com>
Diff between MSSQL versions 1.0.0 dated 2021-03-10 and 1.0.1 dated 2024-10-22
MSSQL-1.0.0/MSSQL/NEWS |only MSSQL-1.0.1/MSSQL/DESCRIPTION | 11 +++--- MSSQL-1.0.1/MSSQL/MD5 | 44 +++++++++++++------------- MSSQL-1.0.1/MSSQL/NEWS.md |only MSSQL-1.0.1/MSSQL/R/MSSQL-package.R | 9 ++--- MSSQL-1.0.1/MSSQL/R/dbOverview.R | 7 ++-- MSSQL-1.0.1/MSSQL/R/dbStorage.R | 2 - MSSQL-1.0.1/MSSQL/R/dbTime.R | 2 - MSSQL-1.0.1/MSSQL/R/tableHead.R | 4 +- MSSQL-1.0.1/MSSQL/R/tableNcol.R | 4 +- MSSQL-1.0.1/MSSQL/R/tableNrow.R | 4 +- MSSQL-1.0.1/MSSQL/R/tableOverview.R | 5 +- MSSQL-1.0.1/MSSQL/R/tableQuote.R | 3 + MSSQL-1.0.1/MSSQL/build/vignette.rds |binary MSSQL-1.0.1/MSSQL/inst/doc/implementation.pdf |binary MSSQL-1.0.1/MSSQL/man/MSSQL-package.Rd | 5 +- MSSQL-1.0.1/MSSQL/man/dbOverview.Rd | 7 ++-- MSSQL-1.0.1/MSSQL/man/dbStorage.Rd | 2 - MSSQL-1.0.1/MSSQL/man/dbTime.Rd | 2 - MSSQL-1.0.1/MSSQL/man/tableHead.Rd | 4 +- MSSQL-1.0.1/MSSQL/man/tableNcol.Rd | 4 +- MSSQL-1.0.1/MSSQL/man/tableNrow.Rd | 4 +- MSSQL-1.0.1/MSSQL/man/tableOverview.Rd | 5 +- MSSQL-1.0.1/MSSQL/man/tableQuote.Rd | 3 + 24 files changed, 69 insertions(+), 62 deletions(-)
Title: Various R Programming Tools for Data Manipulation
Description: Various R programming tools for data manipulation, including
medical unit conversions, combining objects, character vector operations,
factor manipulation, obtaining information about R objects, generating
fixed-width format files, extracting components of date & time objects,
operations on columns of data frames, matrix operations, operations on
vectors, operations on data frames, value of last evaluated expression, and a
resample() wrapper for sample() that ensures consistent behavior for both
scalar and vector arguments.
Author: Gregory R. Warnes [aut],
Gregor Gorjanc [aut],
Arni Magnusson [aut, cre],
Liviu Andronic [aut],
Jim Rogers [aut],
Don MacQueen [aut],
Ales Korosec [aut],
Ben Bolker [ctb],
Michael Chirico [ctb],
Gabor Grothendieck [ctb],
Thomas Lumley [ctb],
Brian Ri [...truncated...]
Maintainer: Arni Magnusson <thisisarni@gmail.com>
Diff between gdata versions 3.0.0 dated 2023-10-16 and 3.0.1 dated 2024-10-22
DESCRIPTION | 10 +++++----- MD5 | 16 ++++++++-------- NEWS | 11 +++++++++++ R/ll.R | 4 ++-- build/vignette.rds |binary data/MedUnits.rda |binary inst/doc/mapLevels.pdf |binary inst/doc/unknown.pdf |binary man/is.what.Rd | 9 ++++----- 9 files changed, 30 insertions(+), 20 deletions(-)
Title: Bottom-Up Proteomics and LiP-MS Quality Control and Data
Analysis Tools
Description: Useful functions and workflows for proteomics quality control and data analysis of both limited proteolysis-coupled mass spectrometry (LiP-MS) (Feng et. al. (2014) <doi:10.1038/nbt.2999>) and regular bottom-up proteomics experiments. Data generated with search tools such as 'Spectronaut', 'MaxQuant' and 'Proteome Discover' can be easily used due to flexibility of functions.
Author: Jan-Philipp Quast [aut, cre] ,
Dina Schuster [aut] ,
ETH Zurich [cph, fnd]
Maintainer: Jan-Philipp Quast <quast@imsb.biol.ethz.ch>
Diff between protti versions 0.9.0 dated 2024-07-15 and 0.9.1 dated 2024-10-21
DESCRIPTION | 10 - MD5 | 61 +++--- NAMESPACE | 1 NEWS.md | 5 R/calculate_protein_abundance.R | 7 R/data.R | 8 R/fetch_eco.R | 3 R/fetch_mobidb.R | 2 R/try_query.R | 44 ++++ README.md | 106 +++++------ build/partial.rdb |only build/vignette.rds |binary inst/doc/data_analysis_dose_response_workflow.Rmd | 8 inst/doc/data_analysis_dose_response_workflow.html | 38 +-- inst/doc/data_analysis_single_dose_treatment_workflow.Rmd | 2 inst/doc/data_analysis_single_dose_treatment_workflow.html | 12 - inst/doc/input_preparation_workflow.Rmd | 2 inst/doc/input_preparation_workflow.html | 13 - inst/doc/protein_structure_workflow.html | 8 inst/doc/quality_control_workflow.html | 8 man/calculate_protein_abundance.Rd | 3 man/fetch_eco.Rd | 3 man/fetch_mobidb.Rd | 2 man/figures/README-volcano-1.png |binary man/ptsi_pgk.Rd | 4 man/rapamycin_10uM.Rd | 2 man/rapamycin_dose_response.Rd | 2 man/try_query.Rd | 3 tests/testthat/test-fetch_extract_and_enrichment_functions.R | 2 vignettes/data_analysis_dose_response_workflow.Rmd | 8 vignettes/data_analysis_single_dose_treatment_workflow.Rmd | 2 vignettes/input_preparation_workflow.Rmd | 2 32 files changed, 208 insertions(+), 163 deletions(-)
Title: Extracting and Visualizing Output from 'jagsUI'
Description: Tools are provided to streamline Bayesian analyses in 'JAGS' using
the 'jagsUI' package. Included are functions for extracting output in
simpler format, functions for streamlining assessment of convergence, and
functions for producing summary plots of output. Also included is a
function that provides a simple template for running 'JAGS' from 'R'.
Referenced materials can be found at <DOI:10.1214/ss/1177011136>.
Author: Matt Tyers [aut, cre]
Maintainer: Matt Tyers <matttyersstat@gmail.com>
Diff between jagshelper versions 0.3.2 dated 2024-08-19 and 0.4.0 dated 2024-10-21
DESCRIPTION | 8 - MD5 | 32 ++--- NAMESPACE | 3 NEWS.md | 4 R/caterpillar.R | 4 R/kfold.R |only README.md | 5 build/vignette.rds |binary inst/doc/jagshelper-vignette.Rmd | 6 inst/doc/jagshelper-vignette.html | 46 ++++--- man/asdf_prior_jags_out.Rd | 34 ++--- man/comparepriors.Rd | 84 ++++++------- man/jagshelper-package.Rd | 6 man/kfold.Rd |only man/plot_postpred.Rd | 240 +++++++++++++++++++------------------- man/ts_postpred.Rd | 196 +++++++++++++++---------------- tests/testthat/test_jagshelper.R | 91 ++++++++++++++ vignettes/jagshelper-vignette.Rmd | 6 18 files changed, 449 insertions(+), 316 deletions(-)
Title: 'Drat' R Archive Template
Description: Creation and use of R Repositories via helper functions
to insert packages into a repository, and to add repository information
to the current R session. Two primary types of repositories are support:
gh-pages at GitHub, as well as local repositories on either the same machine
or a local network. Drat is a recursive acronym: Drat R Archive Template.
Author: Dirk Eddelbuettel [aut, cre] ,
Felix Ernst [ctb] ,
Neal Fultz [ctb],
Colin Gillespie [ctb] ,
Christoph Stepper [ctb],
Thomas Leeper [ctb] ,
Mark van der Loo [ctb] ,
Jan Gorecki [ctb],
Joey Reid [ctb],
Arne Johannes Holmin [ctb]
Maintainer: Dirk Eddelbuettel <edd@debian.org>
Diff between drat versions 0.2.4 dated 2023-10-09 and 0.2.5 dated 2024-10-21
ChangeLog | 31 +++++++ DESCRIPTION | 36 ++++++-- MD5 | 38 ++++---- R/insertPackage.R | 22 ++++- README.md | 4 build/vignette.rds |binary inst/NEWS.Rd | 9 ++ inst/doc/CombiningDratAndTravis.html | 150 ++++++++++++++++++----------------- inst/doc/DratFAQ.html | 150 ++++++++++++++++++----------------- inst/doc/DratForPackageAuthors.html | 150 ++++++++++++++++++----------------- inst/doc/DratForPackageUsers.html | 150 ++++++++++++++++++----------------- inst/doc/DratStepByStep.html | 150 ++++++++++++++++++----------------- inst/doc/WhyDrat.html | 150 ++++++++++++++++++----------------- man/addRepo.Rd | 1 man/archivePackages.Rd | 20 +--- man/getPackageInfo.Rd | 9 +- man/initRepo.Rd | 7 - man/insertPackage.Rd | 20 ++-- man/pruneRepo.Rd | 48 +++-------- tests/skeleton_git2r.R | 2 20 files changed, 627 insertions(+), 520 deletions(-)
Title: Radiocarbon Equations
Description: Provides functions for the calibration of radiocarbon dates, as well as options to calculate different radiocarbon realms (C14 age, F14C, pMC, D14C) and estimating the effects of contamination or local reservoir offsets (Reimer and Reimer 2001 <doi:10.1017/S0033822200038339>). The methods follow long-established recommendations such as Stuiver and Polach (1977) <doi:10.1017/S0033822200003672> and Reimer et al. (2004) <doi:10.1017/S0033822200033154>. This package accompanies the data package 'rintcal'.
Author: Maarten Blaauw [aut, cre]
Maintainer: Maarten Blaauw <maarten.blaauw@qub.ac.uk>
Diff between rice versions 0.2.0 dated 2024-09-24 and 0.3.0 dated 2024-10-21
rice-0.2.0/rice/man/D14C.F14C.Rd |only rice-0.2.0/rice/man/F14C.D14C.Rd |only rice-0.2.0/rice/man/calBP.14C.Rd |only rice-0.3.0/rice/DESCRIPTION | 9 rice-0.3.0/rice/MD5 | 88 +++-- rice-0.3.0/rice/NAMESPACE | 31 +- rice-0.3.0/rice/NEWS.md | 26 + rice-0.3.0/rice/R/calc.R | 273 ++++++++---------- rice-0.3.0/rice/R/calibrate.R | 172 ++++++++--- rice-0.3.0/rice/R/plots.R | 398 +++++++++++++++----------- rice-0.3.0/rice/R/realms.R |only rice-0.3.0/rice/R/rice-package.R | 2 rice-0.3.0/rice/R/rice.R | 12 rice-0.3.0/rice/R/shroud.R |only rice-0.3.0/rice/build/partial.rdb |binary rice-0.3.0/rice/build/vignette.rds |binary rice-0.3.0/rice/data/shroud.rda |only rice-0.3.0/rice/inst/doc/rice.R | 70 +++- rice-0.3.0/rice/inst/doc/rice.Rmd | 151 +++++++--- rice-0.3.0/rice/inst/doc/rice.html | 487 ++++++++++++++++++++++----------- rice-0.3.0/rice/man/BCADtoC14.Rd |only rice-0.3.0/rice/man/BCADtoD14C.Rd |only rice-0.3.0/rice/man/BCADtoF14C.Rd |only rice-0.3.0/rice/man/BCADtocalBP.Rd |only rice-0.3.0/rice/man/BCADtopMC.Rd |only rice-0.3.0/rice/man/C14toD14C.Rd |only rice-0.3.0/rice/man/C14toF14C.Rd |only rice-0.3.0/rice/man/C14topMC.Rd |only rice-0.3.0/rice/man/D14CtoC14.Rd |only rice-0.3.0/rice/man/D14CtoF14C.Rd |only rice-0.3.0/rice/man/D14CtopMC.Rd |only rice-0.3.0/rice/man/F14C.age.Rd | 8 rice-0.3.0/rice/man/F14CtoC14.Rd |only rice-0.3.0/rice/man/F14CtoD14C.Rd |only rice-0.3.0/rice/man/F14CtopMC.Rd |only rice-0.3.0/rice/man/age.F14C.Rd | 9 rice-0.3.0/rice/man/age.pMC.Rd | 10 rice-0.3.0/rice/man/calBPtoBCAD.Rd |only rice-0.3.0/rice/man/calBPtoC14.Rd |only rice-0.3.0/rice/man/calBPtoD14C.Rd |only rice-0.3.0/rice/man/calBPtoF14C.Rd |only rice-0.3.0/rice/man/calBPtopMC.Rd |only rice-0.3.0/rice/man/caldist.Rd | 12 rice-0.3.0/rice/man/calib.t.Rd |only rice-0.3.0/rice/man/calibrate.Rd | 23 + rice-0.3.0/rice/man/contaminate.Rd | 2 rice-0.3.0/rice/man/decontaminate.Rd |only rice-0.3.0/rice/man/draw.dates.Rd | 14 rice-0.3.0/rice/man/fractions.Rd |only rice-0.3.0/rice/man/hpd.Rd | 4 rice-0.3.0/rice/man/l.calib.Rd | 9 rice-0.3.0/rice/man/older.Rd | 3 rice-0.3.0/rice/man/pMC.age.Rd | 13 rice-0.3.0/rice/man/pMCtoC14.Rd |only rice-0.3.0/rice/man/pMCtoD14C.Rd |only rice-0.3.0/rice/man/pMCtoF14C.Rd |only rice-0.3.0/rice/man/point.estimates.Rd | 5 rice-0.3.0/rice/man/pool.Rd |only rice-0.3.0/rice/man/shroud.Rd |only rice-0.3.0/rice/man/smooth.curve.Rd |only rice-0.3.0/rice/man/younger.Rd | 3 rice-0.3.0/rice/vignettes/rice.Rmd | 151 +++++++--- 62 files changed, 1274 insertions(+), 711 deletions(-)
Title: Various Methods for the Two Sample Problem
Description: The routine twosample_test() in this package runs the
two sample test using various test statistic. The p values are
found via permutation or large sample theory. The routine twosample_power() allows the
calculation of the power in various cases, and plot_power()
draws the corresponding power graphs.
Author: Wolfgang Rolke [aut, cre]
Maintainer: Wolfgang Rolke <wolfgang.rolke@upr.edu>
Diff between R2sample versions 1.1.0 dated 2023-01-23 and 2.2.0 dated 2024-10-21
R2sample-1.1.0/R2sample/R/R2sample-package.R |only R2sample-1.1.0/R2sample/man/TS_cont_cpp.Rd |only R2sample-1.1.0/R2sample/man/TS_disc_cpp.Rd |only R2sample-1.1.0/R2sample/man/bincounter_cpp.Rd |only R2sample-1.1.0/R2sample/man/chi_test_cont_cpp.Rd |only R2sample-1.1.0/R2sample/man/chi_test_disc_cpp.Rd |only R2sample-1.1.0/R2sample/man/perm_test_cpp.Rd |only R2sample-1.1.0/R2sample/man/permute_cont_cpp.Rd |only R2sample-1.1.0/R2sample/man/permute_disc_cpp.Rd |only R2sample-1.1.0/R2sample/man/power_cpp.Rd |only R2sample-1.1.0/R2sample/man/rep_cpp.Rd |only R2sample-1.1.0/R2sample/man/weights_cpp.Rd |only R2sample-1.1.0/R2sample/src/TS_cont_cpp.cpp |only R2sample-1.1.0/R2sample/src/TS_cont_cpp.h |only R2sample-1.1.0/R2sample/src/TS_disc_cpp.cpp |only R2sample-1.1.0/R2sample/src/TS_disc_cpp.h |only R2sample-1.1.0/R2sample/src/bincounter_cpp.cpp |only R2sample-1.1.0/R2sample/src/bincounter_cpp.h |only R2sample-1.1.0/R2sample/src/chi_test_cont_cpp.cpp |only R2sample-1.1.0/R2sample/src/chi_test_cont_cpp.h |only R2sample-1.1.0/R2sample/src/chi_test_disc_cpp.cpp |only R2sample-1.1.0/R2sample/src/chi_test_disc_cpp.h |only R2sample-1.1.0/R2sample/src/perm_test_cpp.cpp |only R2sample-1.1.0/R2sample/src/permute_cont_cpp.cpp |only R2sample-1.1.0/R2sample/src/permute_cont_cpp.h |only R2sample-1.1.0/R2sample/src/permute_disc_cpp.cpp |only R2sample-1.1.0/R2sample/src/permute_disc_cpp.h |only R2sample-1.1.0/R2sample/src/power_cpp.cpp |only R2sample-1.1.0/R2sample/src/rep_cpp.cpp |only R2sample-1.1.0/R2sample/src/rep_cpp.h |only R2sample-1.1.0/R2sample/src/weights_cpp.cpp |only R2sample-1.1.0/R2sample/src/weights_cpp.h |only R2sample-2.2.0/R2sample/DESCRIPTION | 13 R2sample-2.2.0/R2sample/MD5 | 121 +-- R2sample-2.2.0/R2sample/NAMESPACE | 4 R2sample-2.2.0/R2sample/NEWS.md | 6 R2sample-2.2.0/R2sample/R/RcppExports.R | 150 ++- R2sample-2.2.0/R2sample/R/asymptotic_pvalues.R |only R2sample-2.2.0/R2sample/R/chi_power.R |only R2sample-2.2.0/R2sample/R/chi_test.R |only R2sample-2.2.0/R2sample/R/extra.R |only R2sample-2.2.0/R2sample/R/plot_power.R | 26 R2sample-2.2.0/R2sample/R/power_cont_LS.R |only R2sample-2.2.0/R2sample/R/signif.digits.R |only R2sample-2.2.0/R2sample/R/twosample_power.R | 234 ++++- R2sample-2.2.0/R2sample/R/twosample_test.R | 232 +++-- R2sample-2.2.0/R2sample/R/twosample_test_adjusted_pvalue.R |only R2sample-2.2.0/R2sample/build/vignette.rds |binary R2sample-2.2.0/R2sample/inst/doc/R2sample.R | 70 + R2sample-2.2.0/R2sample/inst/doc/R2sample.Rmd | 242 ++++-- R2sample-2.2.0/R2sample/inst/doc/R2sample.html | 400 ++++++---- R2sample-2.2.0/R2sample/inst/examples |only R2sample-2.2.0/R2sample/inst/extdata |only R2sample-2.2.0/R2sample/inst/shiny-example/r2sample_shiny/server.R | 14 R2sample-2.2.0/R2sample/inst/shiny-example/r2sample_shiny/ui.R | 13 R2sample-2.2.0/R2sample/man/Cpporder.Rd |only R2sample-2.2.0/R2sample/man/TS_cont.Rd |only R2sample-2.2.0/R2sample/man/TS_disc.Rd |only R2sample-2.2.0/R2sample/man/TSw_cont.Rd |only R2sample-2.2.0/R2sample/man/TSw_disc.Rd |only R2sample-2.2.0/R2sample/man/asymptotic_pvalues.Rd |only R2sample-2.2.0/R2sample/man/bincounter.Rd |only R2sample-2.2.0/R2sample/man/chi_power.Rd |only R2sample-2.2.0/R2sample/man/chi_test.Rd |only R2sample-2.2.0/R2sample/man/perm_test_cont.Rd |only R2sample-2.2.0/R2sample/man/perm_test_disc.Rd |only R2sample-2.2.0/R2sample/man/permute_disc.Rd |only R2sample-2.2.0/R2sample/man/plot_power.Rd | 6 R2sample-2.2.0/R2sample/man/power_cont.Rd |only R2sample-2.2.0/R2sample/man/power_cont_LS.Rd |only R2sample-2.2.0/R2sample/man/power_disc.Rd |only R2sample-2.2.0/R2sample/man/repC.Rd |only R2sample-2.2.0/R2sample/man/signif.digits.Rd |only R2sample-2.2.0/R2sample/man/twosample_power.Rd | 41 - R2sample-2.2.0/R2sample/man/twosample_test.Rd | 47 - R2sample-2.2.0/R2sample/man/twosample_test_adjusted_pvalue.Rd |only R2sample-2.2.0/R2sample/man/wbincounter.Rd |only R2sample-2.2.0/R2sample/man/weights.Rd |only R2sample-2.2.0/R2sample/src/Cpporder.cpp |only R2sample-2.2.0/R2sample/src/Cpporder.h |only R2sample-2.2.0/R2sample/src/RcppExports.cpp | 205 +++-- R2sample-2.2.0/R2sample/src/TS_cont.cpp |only R2sample-2.2.0/R2sample/src/TS_cont.h |only R2sample-2.2.0/R2sample/src/TS_disc.cpp |only R2sample-2.2.0/R2sample/src/TS_disc.h |only R2sample-2.2.0/R2sample/src/TSw_cont.cpp |only R2sample-2.2.0/R2sample/src/TSw_cont.h |only R2sample-2.2.0/R2sample/src/TSw_disc.cpp |only R2sample-2.2.0/R2sample/src/bincounter.cpp |only R2sample-2.2.0/R2sample/src/bincounter.h |only R2sample-2.2.0/R2sample/src/perm_test_cont.cpp |only R2sample-2.2.0/R2sample/src/perm_test_disc.cpp |only R2sample-2.2.0/R2sample/src/permute_disc.cpp |only R2sample-2.2.0/R2sample/src/permute_disc.h |only R2sample-2.2.0/R2sample/src/power_cont.cpp |only R2sample-2.2.0/R2sample/src/power_disc.cpp |only R2sample-2.2.0/R2sample/src/repC.cpp |only R2sample-2.2.0/R2sample/src/repC.h |only R2sample-2.2.0/R2sample/src/wbincounter.cpp |only R2sample-2.2.0/R2sample/src/wbincounter.h |only R2sample-2.2.0/R2sample/src/weights.cpp |only R2sample-2.2.0/R2sample/src/weights.h |only R2sample-2.2.0/R2sample/vignettes/R2sample.Rmd | 242 ++++-- 103 files changed, 1411 insertions(+), 655 deletions(-)
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2024-10-07 0.1.2
Title: PRO-CTCAE Scoring, Analysis, and Graphical Tools
Description: A collection of tools to facilitate standardized analysis
and graphical procedures when using the National Cancer Institute’s
Patient-Reported Outcomes version of the Common Terminology Criteria for
Adverse Events (PRO-CTCAE) and other PRO measurements.
Author: Blake Langlais [aut, cre],
Brie Noble [ctb],
Mia Truman [ctb],
Molly Voss [ctb],
Amylou Dueck [aut]
Maintainer: Blake Langlais <langlais.blake@mayo.edu>
Diff between ProAE versions 1.0.1 dated 2024-06-17 and 1.0.3 dated 2024-10-21
DESCRIPTION | 34 +++++++++---- MD5 | 8 +-- R/toxFigures.R | 7 ++ inst/doc/toxAUC.html | 2 inst/doc/toxTables.html | 125 ++++++++++++++++++++++++++++++++---------------- 5 files changed, 120 insertions(+), 56 deletions(-)
Title: Markov Random Field Structure Estimator
Description: Three algorithms for estimating a Markov random field structure.Two of them are an exact version and a simulated annealing version of a penalized maximum conditional likelihood method similar to the Bayesian Information Criterion. These algorithm are described in Frondana (2016) <doi:10.11606/T.45.2018.tde-02022018-151123>.The third one is a greedy algorithm, described in Bresler (2015) <doi:10.1145/2746539.2746631).
Author: Rodrigo Carvalho [aut, cre],
Florencia Leonardi [rev, ths]
Maintainer: Rodrigo Carvalho <rodrigorsdc@gmail.com>
Diff between mrfse versions 0.4.1 dated 2022-11-16 and 0.4.2 dated 2024-10-21
DESCRIPTION | 12 ++++++------ MD5 | 11 ++++++----- README.md |only src/Makevars | 2 +- src/combination.cpp | 6 +++--- src/product.cpp | 2 +- src/util.cpp | 2 +- 7 files changed, 18 insertions(+), 17 deletions(-)
Title: Wrapper for 'lz-string' 'C++' Library
Description: Provide access to the 'lz-string'
<http://pieroxy.net/blog/pages/lz-string/index.html> 'C++' library for
Lempel-Ziv (LZ) based compression and decompression of strings.
Author: Sam Parmar [aut, cre],
Andrey Krasnov [cph] ,
Pawel Rucki [ctb]
Maintainer: Sam Parmar <parmartsam@gmail.com>
Diff between lzstring versions 0.1.2 dated 2024-05-07 and 0.1.3 dated 2024-10-21
DESCRIPTION | 17 ++++++++++++----- MD5 | 8 ++++---- NEWS.md | 8 ++++---- R/lzstringr-package.R | 2 +- README.md | 3 ++- 5 files changed, 23 insertions(+), 15 deletions(-)
Title: Statistics Norway's Miscellaneous Tools
Description: Functions used by other packages from Statistics Norway are gathered. General data manipulation functions, algorithms for statistical disclosure control (Langsrud, 2024) <doi:10.1007/978-3-031-69651-0_6> and functions for hierarchical computations by sparse model matrices are included (Langsrud, 2023) <doi:10.32614/RJ-2023-088>.
Author: Oeyvind Langsrud [aut, cre] ,
Daniel Lupp [aut] ,
Bjoern-Helge Mevik [ctb],
Vidar Norstein Klungre [rev] ,
Statistics Norway [cph]
Maintainer: Oeyvind Langsrud <oyl@ssb.no>
Diff between SSBtools versions 1.5.4 dated 2024-09-20 and 1.5.5 dated 2024-10-21
DESCRIPTION | 8 ++++---- MD5 | 10 +++++----- NAMESPACE | 1 + NEWS.md | 7 +++++++ R/FormulaSelection.R | 15 ++++++++++++++- man/FormulaSelection.Rd | 13 ++++++++++--- 6 files changed, 41 insertions(+), 13 deletions(-)
Title: Package to Patch '.dvi' or '.synctex' Files
Description: Functions to patch specials in '.dvi' files,
or entries in '.synctex' files. Works with concordance=TRUE
in Sweave, knitr or R Markdown to link sources to previews.
Author: Duncan Murdoch [aut, cre]
Maintainer: Duncan Murdoch <murdoch.duncan@gmail.com>
Diff between patchDVI versions 1.11.0 dated 2023-03-14 and 1.11.3 dated 2024-10-21
DESCRIPTION | 14 ++++++++------ MD5 | 28 ++++++++++++++-------------- NEWS.md | 6 ++++++ R/patchLog.R | 24 ++++++++++++++---------- R/patchPDF.R | 3 +-- R/patchmark.R | 41 +++++++++++++++++++++++++++++++++++++---- R/zzz.R | 10 ++++++---- build/vignette.rds |binary inst/doc/Japanese.pdf |binary inst/doc/patchDVI.Rmd | 2 +- inst/doc/patchDVI.html | 41 +++++++++++++++++++++-------------------- man/pdf_documentC.Rd | 11 ++++++++--- src/patchDVI.c | 2 +- vignettes/patchDVI.Rmd | 2 +- vignettes/patchDVI.bib | 2 +- 15 files changed, 119 insertions(+), 67 deletions(-)
Title: Estimation of Fuzzy Poverty Measures
Description: Estimates fuzzy measures of poverty and deprivation. It also estimates the sampling variance of these measures using bootstrap or jackknife repeated replications.
Author: Federico Crescenzi [aut, cre] ,
Lorenzo Mori [aut] ,
Gianni Betti [ctb]
Maintainer: Federico Crescenzi <federico.crescenzi@unitus.it>
Diff between FuzzyPovertyR versions 3.0.1 dated 2024-10-03 and 3.0.2 dated 2024-10-21
DESCRIPTION | 6 +-- MD5 | 22 ++++++------ R/eq_predicate.R | 2 - R/fm_var.R | 57 +++++++++++++++++++++++++------- R/fs_var.R | 78 +++++++++++++++++++++++++++++++++++++------- inst/doc/FuzzyPovertyR.R | 10 +++-- inst/doc/FuzzyPovertyR.Rmd | 10 +++-- inst/doc/FuzzyPovertyR.html | 23 +++++++----- man/eq_predicate.Rd | 2 - man/fm_var.Rd | 5 ++ man/fs_var.Rd | 3 + vignettes/FuzzyPovertyR.Rmd | 10 +++-- 12 files changed, 169 insertions(+), 59 deletions(-)