Title: Marginal Structural Models with Latent Class Growth Analysis of
Treatment Trajectories
Description: Implements marginal structural models combined with a latent class growth analysis framework for assessing the causal effect of treatment trajectories. Based on the approach described in "Marginal Structural Models with Latent Class Growth Analysis of Treatment Trajectories" Diop, A., Sirois, C., Guertin, J.R., Schnitzer, M.E., Candas, B., Cossette, B., Poirier, P., Brophy, J., Mésidor, M., Blais, C. and Hamel, D., (2023) <doi:10.1177/09622802231202384>.
Author: Awa Diop [aut, cre],
Denis Talbot [aut]
Maintainer: Awa Diop <awa.diop.2@ulaval.ca>
Diff between trajmsm versions 0.1.1 dated 2024-09-08 and 0.1.2 dated 2024-09-16
DESCRIPTION | 9 - MD5 | 16 +-- R/pltmle.R | 230 +++++++++++++++++++++++++------------------------- R/trajhrmsm_pltmle.R | 13 +- R/trajmsm_ipw.R | 2 R/trajmsm_pltmle.R | 9 + man/pltmle.Rd | 9 + man/trajmsm_ipw.Rd | 2 man/trajmsm_pltmle.Rd | 10 +- 9 files changed, 158 insertions(+), 142 deletions(-)
Title: Likelihood Based Inference
Description: Maximum likelihood estimation and likelihood ratio test are essential for modern statistics. This package supports in calculating likelihood based inference.
Reference: Pawitan Y. (2001, ISBN:0-19-850765-8).
Author: Kyun-Seop Bae [aut, cre, cph]
Maintainer: Kyun-Seop Bae <k@acr.kr>
Diff between LBI versions 0.1.3 dated 2024-08-18 and 0.1.4 dated 2024-09-16
LBI-0.1.3/LBI/inst/doc/LBI_0.1.3.pdf |only LBI-0.1.4/LBI/DESCRIPTION | 6 +++--- LBI-0.1.4/LBI/MD5 | 10 +++++----- LBI-0.1.4/LBI/R/LInorm.R | 14 +++++++------- LBI-0.1.4/LBI/inst/NEWS.Rd | 6 ++++++ LBI-0.1.4/LBI/inst/doc/LBI_0.1.4.pdf |only LBI-0.1.4/LBI/man/LInorm.Rd | 8 ++++---- 7 files changed, 25 insertions(+), 19 deletions(-)
Title: Bayesian Variable Selection and Model Averaging using Bayesian
Adaptive Sampling
Description: Package for Bayesian Variable Selection and Model Averaging
in linear models and generalized linear models using stochastic or
deterministic sampling without replacement from posterior
distributions. Prior distributions on coefficients are
from Zellner's g-prior or mixtures of g-priors
corresponding to the Zellner-Siow Cauchy Priors or the
mixture of g-priors from Liang et al (2008)
<DOI:10.1198/016214507000001337>
for linear models or mixtures of g-priors from Li and Clyde
(2019) <DOI:10.1080/01621459.2018.1469992> in generalized linear models.
Other model selection criteria include AIC, BIC and Empirical Bayes
estimates of g. Sampling probabilities may be updated based on the sampled
models using sampling w/out replacement or an efficient MCMC algorithm which
samples models using a tree structure of the model space
as an efficient hash table. See Clyde, Ghosh and Littman (2010)
<DOI:10.1198/jcgs.2010.09049> for details on the sampling algorithms.
Uniform prior [...truncated...]
Author: Merlise Clyde [aut, cre, cph] ,
Michael Littman [ctb],
Joyee Ghosh [ctb],
Yingbo Li [ctb],
Betsy Bersson [ctb],
Don van de Bergh [ctb],
Quanli Wang [ctb]
Maintainer: Merlise Clyde <clyde@duke.edu>
Diff between BAS versions 1.7.1 dated 2023-12-06 and 1.7.2 dated 2024-09-16
DESCRIPTION | 13 - MD5 | 131 +++++++++-------- NEWS.md | 11 + R/BAS-package.R | 8 - R/bas_glm.R | 60 -------- R/bas_lm.R | 127 +++++++++++------ R/plot.R | 12 - build/partial.rdb |binary build/vignette.rds |binary inst/doc/BAS-vignette.html | 136 +++++++++--------- man/BAS.Rd | 6 man/CCH.Rd | 2 man/EB.local.Rd | 2 man/IC.prior.Rd | 2 man/Jeffreys.Rd | 2 man/TG.Rd | 2 man/bas.lm.Rd | 22 ++ man/beta.binomial.Rd | 2 man/beta.prime.Rd | 2 man/coef.Rd | 2 man/confint.coef.Rd | 2 man/confint.pred.Rd | 2 man/diagnostics.Rd | 2 man/fitted.Rd | 4 man/force.heredity.bas.Rd | 2 man/g.prior.Rd | 2 man/image.bas.Rd | 2 man/intrinsic.Rd | 2 man/plot.confint.Rd | 2 man/robust.Rd | 2 man/summary.Rd | 2 man/tCCH.Rd | 2 man/testBF.prior.Rd | 2 man/tr.beta.binomial.Rd | 2 man/tr.poisson.Rd | 2 man/tr.power.prior.Rd | 2 man/uniform.Rd | 2 man/update.Rd | 2 man/variable.names.pred.bas.Rd | 6 src/E_ZS.c | 4 src/MH-funs.c |only src/ZS_approx_null_np.c | 4 src/amcmc-funs.c |only src/bas.h | 19 ++ src/bayesreg.c | 6 src/cch.c | 4 src/dch1up.f |only src/family.c | 13 + src/glm_mcmc.c | 64 ++++++-- src/glm_mcmcbas.c | 81 ++++++++--- src/glm_sampleworep.c | 60 ++++++-- src/hg_approx_null_np.c | 5 src/hypergeometric1F1.c | 2 src/init.c | 2 src/lm_amcmc.c |only src/lm_deterministic.c | 2 src/lm_mcmc.c | 63 ++++++-- src/lm_mcmcbas.c | 60 ++++++-- src/lm_sampleworep.c | 57 +++++-- src/mem.c | 2 src/model_probabilities.c | 34 ++++ src/tree_structures.c | 257 +++++++++++++---------------------- tests/testthat/Rplots.pdf |binary tests/testthat/test-amcmc.R |only tests/testthat/test-bas-glm.R | 53 ++++++- tests/testthat/test-bas-lm-lowrank.R | 3 tests/testthat/test-bas-lm.R | 27 ++- tests/testthat/test-family.R |only tests/testthat/test-logit-BIC-coef.R |only tests/testthat/test-plot.R | 4 70 files changed, 857 insertions(+), 555 deletions(-)
Title: Causal Inference using Bayesian Additive Regression Trees
Description: Contains a variety of methods to generate typical causal inference estimates using Bayesian Additive Regression Trees (BART) as the underlying regression model (Hill (2012) <doi:10.1198/jcgs.2010.08162>).
Author: Vincent Dorie [aut, cre] ,
Jennifer Hill [aut]
Maintainer: Vincent Dorie <vdorie@gmail.com>
Diff between bartCause versions 1.0-8 dated 2024-05-01 and 1.0-9 dated 2024-09-16
DESCRIPTION | 8 ++++---- MD5 | 16 ++++++++-------- R/bartc.R | 4 ++-- R/responseFit.R | 4 +++- R/summary.R | 2 +- build/partial.rdb |binary man/bartc.Rd | 12 ++++++------ man/plot.Rd | 2 +- tests/testthat/test-09-binary.R | 5 +++-- 9 files changed, 28 insertions(+), 25 deletions(-)
Title: Financial Time Series Objects (Rmetrics)
Description: 'S4' classes and various tools for financial time series:
Basic functions such as scaling and sorting, subsetting,
mathematical operations and statistical functions.
Author: Diethelm Wuertz [aut] ,
Tobias Setz [aut],
Yohan Chalabi [aut],
Martin Maechler [ctb] ,
Georgi N. Boshnakov [cre, aut]
Maintainer: Georgi N. Boshnakov <georgi.boshnakov@manchester.ac.uk>
Diff between timeSeries versions 4032.109 dated 2024-01-14 and 4041.110 dated 2024-09-16
DESCRIPTION | 6 MD5 | 18 NAMESPACE | 32 NEWS.md | 7 R/methods-as.R | 24 build/vignette.rds |binary inst/doc/timeSeriesPlot.R | 1438 ++++++++++++++++++++--------------------- inst/doc/timeSeriesPlot.pdf |binary inst/doc/timeSeriesRefCard.pdf |binary inst/pkgdown.yml | 2 10 files changed, 769 insertions(+), 758 deletions(-)
Title: Helper Functions for Working with 'REDCap' Data
Description: Helper functions for processing 'REDCap' data in R. 'REDCap' is a
web-enabled application for building and managing surveys and databases
developed at Vanderbilt University.
Author: Raymond Balise [aut, cre] ,
Gabriel Odom [aut] ,
Anna Calderon [aut] ,
Layla Bouzoubaa [aut] ,
Wayne DeFreitas [aut] ,
Lauren Nahodyl [ctb] ,
Kyle Grealis [aut]
Maintainer: Raymond Balise <balise@miami.edu>
Diff between tidyREDCap versions 1.1.1 dated 2023-05-29 and 1.1.2 dated 2024-09-16
DESCRIPTION | 8 +- MD5 | 44 ++++++------- NEWS.md | 15 ++++ R/drop_labels.R | 1 R/import_instruments.R | 11 ++- R/make_choose_all_table.R | 12 ++- R/make_instrument_auto.R | 2 build/vignette.rds |binary inst/doc/dropLabels.R | 2 inst/doc/dropLabels.html | 28 ++++---- inst/doc/import_instruments.R | 2 inst/doc/import_instruments.html | 28 ++++---- inst/doc/makeBinaryWord.R | 2 inst/doc/makeBinaryWord.html | 102 +++++++++++++++---------------- inst/doc/makeChooseAllTable.R | 2 inst/doc/makeChooseAllTable.html | 86 +++++++++++++------------- inst/doc/makeChooseOneTable.R | 2 inst/doc/makeChooseOneTable.html | 68 ++++++++++---------- inst/doc/makeInstrument.R | 2 inst/doc/makeInstrument.html | 48 +++++++------- inst/doc/useAPI.R | 2 inst/doc/useAPI.html | 56 ++++++++--------- tests/testthat/test-import_instruments.R | 15 +++- 23 files changed, 286 insertions(+), 252 deletions(-)
Title: Stochastic Blockmodels
Description: A collection of tools and functions to adjust a variety of stochastic blockmodels (SBM).
Supports at the moment Simple, Bipartite, 'Multipartite' and Multiplex SBM (undirected or directed with Bernoulli, Poisson or Gaussian emission laws on the edges, and possibly covariate for Simple and Bipartite SBM). See Léger (2016) <doi:10.48550/arXiv.1602.07587>, 'Barbillon et al.' (2020) <doi:10.1111/rssa.12193> and 'Bar-Hen et al.' (2020) <doi:10.48550/arXiv.1807.10138>.
Author: Julien Chiquet [aut, cre] ,
Sophie Donnet [aut] ,
grossBM team [ctb],
Pierre Barbillon [aut]
Maintainer: Julien Chiquet <julien.chiquet@inrae.fr>
Diff between sbm versions 0.4.6 dated 2024-01-31 and 0.4.7 dated 2024-09-16
sbm-0.4.6/sbm/tests/spelling.Rout.save |only sbm-0.4.7/sbm/DESCRIPTION | 13 sbm-0.4.7/sbm/MD5 | 33 +- sbm-0.4.7/sbm/NEWS.md | 6 sbm-0.4.7/sbm/R/R6Class-BipartiteSBM_fit.R | 87 +++--- sbm-0.4.7/sbm/R/estimate.R | 6 sbm-0.4.7/sbm/README.md | 5 sbm-0.4.7/sbm/build/partial.rdb |binary sbm-0.4.7/sbm/build/vignette.rds |binary sbm-0.4.7/sbm/inst/WORDLIST | 2 sbm-0.4.7/sbm/inst/doc/Multipartite_EcologicalNetwork.html | 19 - sbm-0.4.7/sbm/inst/doc/MultiplexNetwork_principle.html | 23 - sbm-0.4.7/sbm/inst/doc/Multiplex_allianceNwar_case_study.html | 36 +- sbm-0.4.7/sbm/inst/doc/SBM_fungus_tree_network.html | 77 ++--- sbm-0.4.7/sbm/man/estimateSimpleSBM.Rd | 6 sbm-0.4.7/sbm/man/sbm-package.Rd | 2 sbm-0.4.7/sbm/tests/testthat/Rplots.pdf |binary sbm-0.4.7/sbm/tests/testthat/test-BipartiteSBM_fit.R | 141 ++++------ 18 files changed, 228 insertions(+), 228 deletions(-)
Title: JSON for R
Description: Converts R object into JSON objects and vice-versa.
Author: Alex Couture-Beil [aut, cre]
Maintainer: Alex Couture-Beil <rjson_pkg@mofo.ca>
Diff between rjson versions 0.2.22 dated 2024-08-19 and 0.2.23 dated 2024-09-16
DESCRIPTION | 8 ++++---- MD5 | 4 ++-- inst/doc/json_rpc_server.pdf |binary 3 files changed, 6 insertions(+), 6 deletions(-)
Title: Pediatric Blood Pressure
Description: Data and utilities for estimating pediatric blood pressure
percentiles by sex, age, and optionally height (stature) as described in
Martin et.al. (2022) <doi:10.1001/jamanetworkopen.2022.36918>.
Blood pressure percentiles for children under one year of age come from Gemelli
et.al. (1990) <doi:10.1007/BF02171556>. Estimates of blood pressure
percentiles for children at least one year of age are informed by
data from the National Heart, Lung, and Blood Institute (NHLBI) and the
Centers for Disease Control and Prevention (CDC)
<doi:10.1542/peds.2009-2107C> or from Lo et.al. (2013)
<doi:10.1542/peds.2012-1292>. The flowchart for selecting the informing
data source comes from Martin et.al. (2022)
<doi:10.1542/hpeds.2021-005998>.
Author: Peter DeWitt [aut, cre] ,
Blake Martin [ctb] ,
David Albers [ctb] ,
Tell Bennett [ctb]
Maintainer: Peter DeWitt <peter.dewitt@cuanschutz.edu>
Diff between pedbp versions 2.0.0 dated 2024-04-23 and 2.0.1 dated 2024-09-16
DESCRIPTION | 13 ++++++----- MD5 | 36 +++++++++++++++---------------- NEWS.md | 7 ++++++ README.md | 30 +++++++++++++------------- build/partial.rdb |binary build/vignette.rds |binary data/bp_parameters.rda |binary inst/doc/bp-distributions.R | 2 - inst/doc/bp-distributions.Rmd | 2 - inst/shinyapps/pedbp/server.R | 18 +++++++++------ inst/shinyapps/pedbp/ui.R | 8 +++--- tests/test-bp-by-source.R | 2 - tests/test-bp_chart.R | 20 ++++++++--------- tests/test-bp_distributions.R | 12 +++++----- tests/test-cppBP.R | 34 ++++++++++++++--------------- tests/test-cppPGSF.R | 47 +++++++++++++++++++---------------------- tests/test-est_norm.R | 18 +++++++-------- tests/test-gs_chart.R | 6 ++--- vignettes/bp-distributions.Rmd | 2 - 19 files changed, 133 insertions(+), 124 deletions(-)
Title: PEDALFAST Data
Description: Data files and documentation for PEDiatric vALidation oF vAriableS
in TBI (PEDALFAST). The data was used in "Functional Status Scale in
Children With Traumatic Brain Injury: A Prospective Cohort Study" by Bennett,
Dixon, et al (2016) <doi:10.1097/PCC.0000000000000934>.
Author: Peter DeWitt [aut, cre] ,
Tell Bennett [aut]
Maintainer: Peter DeWitt <peter.dewitt@cuanschutz.edu>
Diff between pedalfast.data versions 1.0.1 dated 2023-11-10 and 1.0.2 dated 2024-09-16
DESCRIPTION | 16 MD5 | 26 NEWS.md | 4 build/vignette.rds |binary data/pedalfast.rda |binary data/pedalfast_metadata.rda |binary inst/doc/datasets.R | 310 +++- inst/doc/datasets.Rmd | 475 +++++- inst/doc/datasets.html | 3051 ++++++++++++++++++++++++++++---------------- inst/doc/fss.R | 24 inst/doc/fss.Rmd | 36 inst/doc/fss.html | 814 +++++------ vignettes/datasets.Rmd | 475 +++++- vignettes/fss.Rmd | 36 14 files changed, 3378 insertions(+), 1889 deletions(-)
More information about pedalfast.data at CRAN
Permanent link
Title: Statistical Inference for Unsupervised Learning
Description: Test for association between the observed data and their estimated latent variables. The jackstraw package provides a resampling strategy and testing scheme to estimate statistical significance of association between the observed data and their latent variables. Depending on the data type and the analysis aim, the latent variables may be estimated by principal component analysis (PCA), factor analysis (FA), K-means clustering, and related unsupervised learning algorithms. The jackstraw methods learn over-fitting characteristics inherent in this circular analysis, where the observed data are used to estimate the latent variables and used again to test against that estimated latent variables. When latent variables are estimated by PCA, the jackstraw enables statistical testing for association between observed variables and latent variables, as estimated by low-dimensional principal components (PCs). This essentially leads to identifying variables that are significantly associated with PC [...truncated...]
Author: Neo Christopher Chung [aut, cre]
,
John D. Storey [aut] ,
Wei Hao [aut],
Alejandro Ochoa [aut]
Maintainer: Neo Christopher Chung <nchchung@gmail.com>
Diff between jackstraw versions 1.3.15 dated 2024-08-30 and 1.3.17 dated 2024-09-16
DESCRIPTION | 12 MD5 | 52 +- NEWS.md | 18 R/empPvals.R | 25 - R/find_k.R | 2 R/jackstraw_MiniBatchKmeans.R | 12 R/jackstraw_alstructure.R | 19 R/jackstraw_cluster.R | 46 +- R/jackstraw_irlba.R | 14 R/jackstraw_kmeans.R | 12 R/jackstraw_kmeanspp.R | 10 R/jackstraw_lfa.R | 29 + R/jackstraw_pam.R | 16 R/jackstraw_pca.R | 16 R/jackstraw_rpca.R | 12 R/jackstraw_subspace.R | 44 +- R/likelihood.R | 12 R/pip.R | 12 README.md | 20 - man/efron_Rsq.Rd | 2 man/jackstraw_alstructure.Rd | 1 man/jackstraw_lfa.Rd | 18 man/jackstraw_pca.Rd | 2 man/permutationPA.Rd | 2 man/pip.Rd | 3 man/pseudo_Rsq.Rd | 2 tests/testthat/test-jackstraw.R | 762 ++++++++++++++++++++-------------------- 27 files changed, 642 insertions(+), 533 deletions(-)
Title: Interface to 'LMDB'
Description: Key-value store, implemented as a wrapper around 'LMDB';
the "lightning memory-mapped database" <https://www.symas.com/lmdb>.
'LMDB' is a transactional key value store that uses a memory map
for efficient access. This package wraps the entire 'LMDB'
interface (except duplicated keys), and provides objects for
transactions and cursors.
Author: Rich FitzJohn [aut, cre],
Howard Chu [aut, cph],
Symas Corporation [cph],
Martin Hedenfalk [aut, cph],
The OpenLDAP Foundation [cph]
Maintainer: Rich FitzJohn <rich.fitzjohn@gmail.com>
Diff between thor versions 1.1.5 dated 2023-11-29 and 1.1.6 dated 2024-09-16
DESCRIPTION | 6 - MD5 | 10 +- build/vignette.rds |binary inst/doc/thor.html | 8 +- src/thor.c | 190 ++++++++++++++++++++++++++--------------------------- src/util.c | 40 +++++------ 6 files changed, 127 insertions(+), 127 deletions(-)
Title: Value Added in Exports and Other Input-Output Table Analysis
Tools
Description: Analysis of trade in value added with international
input-output tables. Includes commands for easy data extraction,
matrix manipulation, decomposition of value added in gross exports and
calculation of value added indicators, with full geographical and
sector customization. Decomposition methods include Borin and Mancini
(2023) <doi:10.1080/09535314.2022.2153221>, Miroudot and Ye (2021)
<doi:10.1080/09535314.2020.1730308>, Wang et al. (2013)
<https://econpapers.repec.org/paper/nbrnberwo/19677.htm> and Koopman
et al. (2014) <doi:10.1257/aer.104.2.459>.
Author: Enrique Feas [aut, cre]
Maintainer: Enrique Feas <efeas@runbox.com>
Diff between exvatools versions 0.8.0 dated 2024-04-05 and 0.9.0 dated 2024-09-16
DESCRIPTION | 8 +-- MD5 | 36 ++++++------- NEWS.md | 11 ++++ R/extract_figaro.R | 55 +++++++++++++++++++- R/extract_mrio.R | 125 +++++++++++++++++++++++++++++++++------------- R/get_exvadec_bkdown.R | 22 ++++++-- R/make_exvadec.R | 27 +++++++--- R/make_exvadec_bm_src.R | 128 ++++++++++++++++++++++++++++++++++++++++-------- R/make_wio.R | 40 +++++++++------ R/matrix_extract.R | 83 ++++++++++++++++++------------- R/sysdata.rda |binary R/utils-validators.R | 16 +++--- build/vignette.rds |binary inst/doc/exvatools.R | 2 inst/doc/exvatools.Rmd | 2 inst/doc/exvatools.html | 15 ++--- man/make_exvadec.Rd | 22 ++++++-- man/make_wio.Rd | 34 +++++++----- vignettes/exvatools.Rmd | 2 19 files changed, 450 insertions(+), 178 deletions(-)
Title: Probabilistic Knowledge Structures
Description: Fitting and testing probabilistic knowledge structures,
especially the basic local independence model (BLIM, Doignon & Flamagne,
1999) and the simple learning model (SLM), using the minimum discrepancy
maximum likelihood (MDML) method (Heller & Wickelmaier, 2013
<doi:10.1016/j.endm.2013.05.145>).
Author: Florian Wickelmaier [aut, cre],
Juergen Heller [aut],
Julian Mollenhauer [aut],
Pasquale Anselmi [ctb],
Debora de Chiusole [ctb],
Andrea Brancaccio [ctb],
Luca Stefanutti [ctb]
Maintainer: Florian Wickelmaier <wickelmaier@web.de>
Diff between pks versions 0.6-0 dated 2023-07-07 and 0.6-1 dated 2024-09-16
ChangeLog | 4 + DESCRIPTION | 12 ++--- MD5 | 22 +++++----- build/partial.rdb |binary build/vignette.rds |binary data/DoignonFalmagne7.rda |binary data/Taagepera.rda |binary data/endm.rda |binary inst/doc/EstimationStepByStep.Rnw | 80 +++++++++++++++++++------------------ inst/doc/EstimationStepByStep.pdf |binary man/schoolarithm.Rd | 2 vignettes/EstimationStepByStep.Rnw | 80 +++++++++++++++++++------------------ 12 files changed, 106 insertions(+), 94 deletions(-)
Title: Probability Distributions as S3 Objects
Description: Tools to create and manipulate probability distributions
using S3. Generics pdf(), cdf(), quantile(), and random() provide
replacements for base R's d/p/q/r style functions. Functions and
arguments have been named carefully to minimize confusion for students
in intro stats courses. The documentation for each distribution
contains detailed mathematical notes.
Author: Alex Hayes [aut, cre] ,
Ralph Moller-Trane [aut],
Emil Hvitfeldt [ctb] ,
Daniel Jordan [aut],
Paul Northrop [aut],
Moritz N. Lang [aut] ,
Achim Zeileis [aut] ,
Bruna Wundervald [ctb],
Alessandro Gasparini [ctb]
Maintainer: Alex Hayes <alexpghayes@gmail.com>
Diff between distributions3 versions 0.2.1 dated 2022-09-07 and 0.2.2 dated 2024-09-16
distributions3-0.2.1/distributions3/R/distributions_package.R |only distributions3-0.2.2/distributions3/DESCRIPTION | 14 distributions3-0.2.2/distributions3/MD5 | 255 ++--- distributions3-0.2.2/distributions3/NAMESPACE | 22 distributions3-0.2.2/distributions3/NEWS.md | 39 distributions3-0.2.2/distributions3/R/Bernoulli.R | 12 distributions3-0.2.2/distributions3/R/Beta.R | 12 distributions3-0.2.2/distributions3/R/Binomial.R | 12 distributions3-0.2.2/distributions3/R/Categorical.R | 6 distributions3-0.2.2/distributions3/R/Cauchy.R | 12 distributions3-0.2.2/distributions3/R/ChiSquare.R | 12 distributions3-0.2.2/distributions3/R/Erlang.R | 6 distributions3-0.2.2/distributions3/R/Exponential.R | 18 distributions3-0.2.2/distributions3/R/FisherF.R | 10 distributions3-0.2.2/distributions3/R/Frechet.R | 8 distributions3-0.2.2/distributions3/R/Gamma.R | 12 distributions3-0.2.2/distributions3/R/GeneralisedExtremeValue.R | 8 distributions3-0.2.2/distributions3/R/GeneralisedPareto.R | 8 distributions3-0.2.2/distributions3/R/Geometric.R | 8 distributions3-0.2.2/distributions3/R/Gumbel.R | 8 distributions3-0.2.2/distributions3/R/HurdleNegativeBinomial.R | 18 distributions3-0.2.2/distributions3/R/HurdlePoisson.R | 18 distributions3-0.2.2/distributions3/R/HyperGeometric.R | 8 distributions3-0.2.2/distributions3/R/LogNormal.R | 8 distributions3-0.2.2/distributions3/R/Logistic.R | 8 distributions3-0.2.2/distributions3/R/Multinomial.R | 6 distributions3-0.2.2/distributions3/R/NegativeBinomial.R | 18 distributions3-0.2.2/distributions3/R/Normal.R | 8 distributions3-0.2.2/distributions3/R/Poisson.R | 14 distributions3-0.2.2/distributions3/R/PoissonBinomial.R |only distributions3-0.2.2/distributions3/R/ReversedWeibull.R | 8 distributions3-0.2.2/distributions3/R/StudentsT.R | 10 distributions3-0.2.2/distributions3/R/Tukey.R | 8 distributions3-0.2.2/distributions3/R/Uniform.R | 8 distributions3-0.2.2/distributions3/R/Weibull.R | 10 distributions3-0.2.2/distributions3/R/ZINegativeBinomial.R | 14 distributions3-0.2.2/distributions3/R/ZIPoisson.R | 14 distributions3-0.2.2/distributions3/R/ZTNegativeBinomial.R | 17 distributions3-0.2.2/distributions3/R/ZTPoisson.R | 17 distributions3-0.2.2/distributions3/R/distributions3-package.R |only distributions3-0.2.2/distributions3/R/methods.R | 43 distributions3-0.2.2/distributions3/R/plot.R | 8 distributions3-0.2.2/distributions3/R/prodist.R | 62 - distributions3-0.2.2/distributions3/R/simulate.default.R |only distributions3-0.2.2/distributions3/R/tibble-vctrs.R |only distributions3-0.2.2/distributions3/R/utils.R | 17 distributions3-0.2.2/distributions3/README.md | 34 distributions3-0.2.2/distributions3/build/partial.rdb |binary distributions3-0.2.2/distributions3/build/vignette.rds |binary distributions3-0.2.2/distributions3/inst/doc/intro-to-hypothesis-testing.R | 6 distributions3-0.2.2/distributions3/inst/doc/intro-to-hypothesis-testing.html | 16 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Title: Model BIC Posterior Probability
Description: Fits the neighboring models of a fitted
structural equation model and assesses the model
uncertainty of the fitted model based on BIC posterior
probabilities, using the method presented in
Wu, Cheung, and Leung (2020)
<doi:10.1080/00273171.2019.1574546>.
Author: Shu Fai Cheung [aut, cre] ,
Huiping Wu [aut],
Shing On Leung [aut] ,
Ivan Jacob Agaloos Pesigan [ctb]
Maintainer: Shu Fai Cheung <shufai.cheung@gmail.com>
Diff between modelbpp versions 0.1.3 dated 2024-02-20 and 0.1.5 dated 2024-09-16
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Title: Multivariate Normal Mixture Models and Mixtures of Generalized
Linear Mixed Models Including Model Based Clustering
Description: Contains a mixture of statistical methods including the MCMC methods to analyze normal mixtures. Additionally, model based clustering methods are implemented to perform classification based on (multivariate) longitudinal (or otherwise correlated) data. The basis for such clustering is a mixture of multivariate generalized linear mixed models. The package is primarily related to the publications Komárek (2009, Comp. Stat. and Data Anal.) <doi:10.1016/j.csda.2009.05.006> and Komárek and Komárková (2014, J. of Stat. Soft.) <doi:10.18637/jss.v059.i12>. It also implements methods published in Komárek and Komárková (2013, Ann. of Appl. Stat.) <doi:10.1214/12-AOAS580>, Hughes, Komárek, Bonnett, Czanner, García-Fiñana (2017, Stat. in Med.) <doi:10.1002/sim.7397>, Jaspers, Komárek, Aerts (2018, Biom. J.) <doi:10.1002/bimj.201600253> and Hughes, Komárek, Czanner, García-Fiñana (2018, Stat. Meth. in Med. Res) <doi:10.1177/0962280216674496>.
Author: Arnost Komarek [aut, cre]
Maintainer: Arnost Komarek <arnost.komarek@mff.cuni.cz>
Diff between mixAK versions 5.7 dated 2023-12-14 and 5.8 dated 2024-09-16
DESCRIPTION | 10 MD5 | 206 +++++------ NEWS | 5 build/partial.rdb |binary data/Acidity.rda |binary data/Enzyme.rda |binary data/Galaxy.rda |binary inst/CITATION | 2 src/AK_LAPACK.cpp | 57 +-- src/AK_LAPACK.h | 2 src/Dist_MVN.cpp | 7 src/Dist_MVN.h | 3 src/Dist_MVT.cpp | 5 src/Dist_MVT.h | 1 src/Dist_TMVN.cpp | 20 - src/Dist_TMVN.h | 1 src/Dist_TNorm.cpp | 2 src/Dist_TNorm.h | 1 src/Dist_Wishart.cpp | 9 src/Dist_Wishart.h | 1 src/Dist_mixMVN.cpp | 5 src/Dist_mixMVN.h | 1 src/GLMM_Deviance.cpp | 21 - src/GLMM_Deviance.h | 1 src/GLMM_Deviance2.cpp | 21 - src/GLMM_Deviance2.h | 1 src/GLMM_MCMC.cpp | 416 +++++++++++------------ src/GLMM_MCMC.h | 2 src/GLMM_NMixRelabel.cpp | 294 ++++++++-------- src/GLMM_NMixRelabel.h | 2 src/GLMM_PED.cpp | 510 ++++++++++++++--------------- src/GLMM_PED.h | 2 src/GLMM_dY_meanY.cpp | 4 src/GLMM_dY_meanY.h | 1 src/GLMM_eta_fixed_random2eta_meanY.cpp | 2 src/GLMM_eta_fixed_random2eta_meanY.h | 1 src/GLMM_linear_predictors.cpp | 4 src/GLMM_linear_predictors.h | 1 src/GLMM_longitDA.cpp | 108 +++--- src/GLMM_longitDA.h | 2 src/GLMM_longitDA2.cpp | 206 +++++------ src/GLMM_longitDA2.h | 2 src/GLMM_longitPred_nmix_gauss.cpp | 4 src/GLMM_longitPred_nmix_gauss.h | 1 src/GLMM_newData.cpp | 4 src/GLMM_newData.h | 1 src/GLMM_updateFixEf.cpp | 6 src/GLMM_updateFixEf.h | 1 src/GLMM_updateRanEf.cpp | 10 src/GLMM_updateRanEf.h | 1 src/GLMM_updateRanEf_QR.cpp | 2 src/GLMM_updateRanEf_QR.h | 1 src/MCMC_Moments_NormalApprox.cpp | 2 src/MCMC_Moments_NormalApprox.h | 1 src/MCMC_Moments_NormalApprox_QR.cpp | 4 src/MCMC_Moments_NormalApprox_QR.h | 1 src/MCMC_loglik_Zwork1_stres.cpp | 22 - src/MCMC_loglik_Zwork1_stres.h | 1 src/Misc_generatePermutations.cpp | 2 src/Misc_generatePermutations.h | 1 src/NMix_ChainsDerived.cpp | 2 src/NMix_ChainsDerived.h | 1 src/NMix_Deviance.cpp | 4 src/NMix_Deviance.h | 1 src/NMix_MCMC.cpp | 218 ++++++------ src/NMix_MCMC.h | 2 src/NMix_NMixRelabel.cpp | 120 +++--- src/NMix_NMixRelabel.h | 2 src/NMix_PED.cpp | 4 src/NMix_PED.h | 1 src/NMix_PredCDFMarg.cpp | 2 src/NMix_PredCDFMarg.h | 1 src/NMix_PredCondDensCDFMarg.cpp | 18 - src/NMix_PredCondDensCDFMarg.h | 2 src/NMix_PredCondDensJoint2.cpp | 8 src/NMix_PredCondDensJoint2.h | 1 src/NMix_PredDA.cpp | 52 +- src/NMix_PredDA.h | 1 src/NMix_PredDensJoint2.cpp | 6 src/NMix_PredDensJoint2.h | 1 src/NMix_PredDensMarg.cpp | 2 src/NMix_PredDensMarg.h | 1 src/NMix_RJMCMC_logJacLambdaVSigma.cpp | 4 src/NMix_RJMCMC_logJacLambdaVSigma.h | 1 src/NMix_RJMCMC_logJac_part3.cpp | 2 src/NMix_RJMCMC_logJac_part3.h | 1 src/NMix_RJMCMCbirth.cpp | 4 src/NMix_RJMCMCbirth.h | 1 src/NMix_RJMCMCcombine.cpp | 18 - src/NMix_RJMCMCcombine.h | 1 src/NMix_RJMCMCsplit.cpp | 22 - src/NMix_RJMCMCsplit.h | 1 src/NMix_Utils.cpp | 12 src/NMix_Utils.h | 1 src/NMix_fullCondMean_WeightsMeansVars.cpp | 4 src/NMix_fullCondMean_WeightsMeansVars.h | 1 src/NMix_updateMeansVars.cpp | 22 - src/NMix_updateMeansVars.h | 1 src/Rand_RotationMatrix.cpp | 4 src/Rand_RotationMatrix.h | 1 src/Stat_BLA.cpp | 2 src/Stat_BLA.h | 1 src/Stat_Quantile.cpp | 14 src/Stat_Quantile.h | 2 104 files changed, 1322 insertions(+), 1252 deletions(-)
Title: Comprehensive Single-Cell Annotation and Transcriptomic Analysis
Toolkit
Description: Provides a comprehensive toolkit for single-cell annotation with the 'CellMarker2.0' database (see Xia Li, Peng Wang, Yunpeng Zhang (2023) <doi: 10.1093/nar/gkac947>). Streamlines biological label assignment in single-cell RNA-seq data and facilitates transcriptomic analysis, including preparation of TCGA<https://portal.gdc.cancer.gov/> and GEO<https://www.ncbi.nlm.nih.gov/geo/> datasets, differential expression analysis and visualization of enrichment analysis results. Additional utility functions support various bioinformatics workflows. See Wei Cui (2024) <doi: 10.1101/2024.09.14.609619> for more details.
Author: Wei Cui [aut, cre, cph]
Maintainer: Wei Cui <m2c.w@outlook.com>
Diff between easybio versions 1.0.1 dated 2024-09-08 and 1.1.0 dated 2024-09-16
easybio-1.0.1/easybio/data/CHOL.DEGs.rda |only easybio-1.0.1/easybio/man/CHOL.DEGs.Rd |only easybio-1.1.0/easybio/DESCRIPTION | 10 easybio-1.1.0/easybio/MD5 | 71 +- easybio-1.1.0/easybio/NEWS.md | 26 easybio-1.1.0/easybio/R/Artist.R | 153 ++++- easybio-1.1.0/easybio/R/easybio-package.R | 2 easybio-1.1.0/easybio/R/limma.R | 6 easybio-1.1.0/easybio/R/ora.R | 5 easybio-1.1.0/easybio/R/prepare.R | 48 + easybio-1.1.0/easybio/R/sc.R | 18 easybio-1.1.0/easybio/R/uniprot.R | 2 easybio-1.1.0/easybio/README.md | 35 + easybio-1.1.0/easybio/data/CHOL_DEGs.rda |only easybio-1.1.0/easybio/inst/CITATION |only easybio-1.1.0/easybio/inst/doc/example-bulk-rna-seq-workflow.R | 60 +- easybio-1.1.0/easybio/inst/doc/example-bulk-rna-seq-workflow.Rmd | 285 +++++----- easybio-1.1.0/easybio/inst/doc/example-bulk-rna-seq-workflow.html | 191 +++--- easybio-1.1.0/easybio/inst/doc/example-single-cell-annotation.R | 2 easybio-1.1.0/easybio/inst/doc/example-single-cell-annotation.Rmd | 196 +++--- easybio-1.1.0/easybio/inst/doc/example-single-cell-annotation.html | 2 easybio-1.1.0/easybio/inst/example-bulk-rna-seq.R |only easybio-1.1.0/easybio/man/Artist.Rd | 210 ++++++- easybio-1.1.0/easybio/man/CHOL_DEGs.Rd |only easybio-1.1.0/easybio/man/dprocess_dgeList.Rd | 54 - easybio-1.1.0/easybio/man/pbmc.markers.Rd | 20 easybio-1.1.0/easybio/man/plotMarkerDistribution.Rd | 42 - easybio-1.1.0/easybio/man/plotPossibleCell.Rd | 40 - easybio-1.1.0/easybio/man/plotRank.Rd | 38 - easybio-1.1.0/easybio/man/prepare_geo.Rd | 64 -- easybio-1.1.0/easybio/man/prepare_tcga.Rd | 36 - easybio-1.1.0/easybio/man/theme_publication.Rd | 58 +- easybio-1.1.0/easybio/man/tuneParameters.Rd | 46 - easybio-1.1.0/easybio/man/uniprot_id_map.Rd | 52 - easybio-1.1.0/easybio/tests/testthat.R | 24 easybio-1.1.0/easybio/tests/testthat/test-finsert.R | 52 - easybio-1.1.0/easybio/vignettes/example-bulk-rna-seq-workflow.Rmd | 285 +++++----- easybio-1.1.0/easybio/vignettes/example-single-cell-annotation.Rmd | 196 +++--- easybio-1.1.0/easybio/vignettes/limmaFilter.png |only easybio-1.1.0/easybio/vignettes/limmaNorm.png |only easybio-1.1.0/easybio/vignettes/ora.png |only 41 files changed, 1449 insertions(+), 880 deletions(-)
Title: Innovative Complex Split Procedures in Random Forests Through
Candidate Split Sampling
Description: Implementations of three diversity forest (DF) (Hornung, 2022,
<doi:10.1007/s42979-021-00920-1>) variants.
The DF algorithm is a split-finding approach that allows complex split procedures to
be realized in random forest variants.
The three DF variants implemented are:
1. interaction forests (IFs) (Hornung & Boulesteix, 2022, <doi:10.1016/j.csda.2022.107460>):
Model quantitative and qualitative interaction effects using bivariable splitting.
Come with the Effect Importance Measure (EIM), which can be used to identify variable
pairs that have well-interpretable quantitative and qualitative interaction effects
with high predictive relevance.
2. multi forests (MuFs) (Hornung & Hapfelmeier, 2024, <doi:10.48550/arXiv.2409.08925>):
Model multi-class outcomes using multi-way and binary splitting. Come with two
variable importance measures (VIMs): The multi-class VIM measures the degree to which
the variables are specifically associated with one or more outcome classe [...truncated...]
Author: Roman Hornung [aut, cre],
Marvin N. Wright [ctb, cph]
Maintainer: Roman Hornung <hornung@ibe.med.uni-muenchen.de>
Diff between diversityForest versions 0.4.0 dated 2023-03-08 and 0.5.0 dated 2024-09-16
diversityForest-0.4.0/diversityForest/NEWS |only diversityForest-0.4.0/diversityForest/inst/NEWS.Rd |only diversityForest-0.5.0/diversityForest/DESCRIPTION | 61 diversityForest-0.5.0/diversityForest/MD5 | 103 diversityForest-0.5.0/diversityForest/NAMESPACE | 29 diversityForest-0.5.0/diversityForest/NEWS.md |only diversityForest-0.5.0/diversityForest/R/RcppExports.R | 4 diversityForest-0.5.0/diversityForest/R/ctg.R |only diversityForest-0.5.0/diversityForest/R/diversityForest-package.R | 33 diversityForest-0.5.0/diversityForest/R/divfor.R | 3 diversityForest-0.5.0/diversityForest/R/hars.R |only diversityForest-0.5.0/diversityForest/R/interactionfor.R | 8 diversityForest-0.5.0/diversityForest/R/multifor.R |only diversityForest-0.5.0/diversityForest/R/plot.multifor.R |only diversityForest-0.5.0/diversityForest/R/plotMcl.R |only diversityForest-0.5.0/diversityForest/R/plotVar.R |only diversityForest-0.5.0/diversityForest/R/predict.divfor.R | 4 diversityForest-0.5.0/diversityForest/R/predict.interactionfor.R | 4 diversityForest-0.5.0/diversityForest/R/predict.multifor.R |only diversityForest-0.5.0/diversityForest/R/predictions.R | 32 diversityForest-0.5.0/diversityForest/R/print.R | 364 +- diversityForest-0.5.0/diversityForest/R/timepoints.R | 2 diversityForest-0.5.0/diversityForest/R/zoo.R | 4 diversityForest-0.5.0/diversityForest/build/partial.rdb |binary diversityForest-0.5.0/diversityForest/data/ctg.rda |only diversityForest-0.5.0/diversityForest/data/hars.rda |only diversityForest-0.5.0/diversityForest/man/ctg.Rd |only diversityForest-0.5.0/diversityForest/man/diversityForest-package.Rd | 33 diversityForest-0.5.0/diversityForest/man/hars.Rd |only diversityForest-0.5.0/diversityForest/man/interactionfor.Rd | 2 diversityForest-0.5.0/diversityForest/man/multifor.Rd |only diversityForest-0.5.0/diversityForest/man/plot.multifor.Rd |only diversityForest-0.5.0/diversityForest/man/plotMcl.Rd |only diversityForest-0.5.0/diversityForest/man/plotVar.Rd |only diversityForest-0.5.0/diversityForest/man/predict.multifor.Rd |only diversityForest-0.5.0/diversityForest/man/predictions.divfor.Rd |only diversityForest-0.5.0/diversityForest/man/predictions.divfor.prediction.Rd |only diversityForest-0.5.0/diversityForest/man/zoo.Rd | 4 diversityForest-0.5.0/diversityForest/src/Data.cpp | 39 diversityForest-0.5.0/diversityForest/src/Data.h | 1 diversityForest-0.5.0/diversityForest/src/Forest.cpp | 436 -- diversityForest-0.5.0/diversityForest/src/Forest.h | 29 diversityForest-0.5.0/diversityForest/src/ForestClassification.cpp | 269 - diversityForest-0.5.0/diversityForest/src/ForestClassification.h | 65 diversityForest-0.5.0/diversityForest/src/ForestProbability.cpp | 246 - diversityForest-0.5.0/diversityForest/src/ForestProbability.h | 59 diversityForest-0.5.0/diversityForest/src/ForestRegression.cpp | 102 diversityForest-0.5.0/diversityForest/src/ForestRegression.h | 4 diversityForest-0.5.0/diversityForest/src/ForestSurvival.cpp | 145 diversityForest-0.5.0/diversityForest/src/ForestSurvival.h | 4 diversityForest-0.5.0/diversityForest/src/Hungarian.cpp |only diversityForest-0.5.0/diversityForest/src/Hungarian.h |only diversityForest-0.5.0/diversityForest/src/RcppExports.cpp | 9 diversityForest-0.5.0/diversityForest/src/Tree.cpp | 160 diversityForest-0.5.0/diversityForest/src/Tree.h | 12 diversityForest-0.5.0/diversityForest/src/TreeClassification.cpp | 1653 +++++++++- diversityForest-0.5.0/diversityForest/src/TreeClassification.h | 60 diversityForest-0.5.0/diversityForest/src/TreeProbability.cpp | 1649 +++++++++ diversityForest-0.5.0/diversityForest/src/TreeProbability.h | 56 diversityForest-0.5.0/diversityForest/src/TreeRegression.cpp | 5 diversityForest-0.5.0/diversityForest/src/divforCpp.cpp | 362 +- diversityForest-0.5.0/diversityForest/src/globals.h | 5 diversityForest-0.5.0/diversityForest/src/utility.cpp | 27 diversityForest-0.5.0/diversityForest/src/utility.h | 9 64 files changed, 4670 insertions(+), 1426 deletions(-)
More information about diversityForest at CRAN
Permanent link
Title: Phase I/II CRM Based Drug Combination Design
Description: Implements the adaptive designs for integrated phase I/II trials of drug combinations via continual reassessment method (CRM) to evaluate toxicity and efficacy simultaneously for each enrolled patient cohort based on Bayesian inference. It supports patients assignment guidance in a single trial using current enrolled data, as well as conducting extensive simulation studies to evaluate operating characteristics before the trial starts. It includes various link functions such as empiric, one-parameter logistic, two-parameter logistic, and hyperbolic tangent, as well as considering multiple prior distributions of the parameters like normal distribution, gamma distribution and exponential distribution to accommodate diverse clinical scenarios. Method using Bayesian framework with empiric link function is described in: Wages and Conaway (2014) <doi:10.1002/sim.6097>.
Author: Junying Wang [cre, aut],
Song Wu [aut],
Jie Yang [aut]
Maintainer: Junying Wang <junying.wang@stonybrook.edu>
Diff between crm12Comb versions 0.1.6 dated 2024-06-07 and 0.1.7 dated 2024-09-16
crm12Comb-0.1.6/crm12Comb/data/examples_results.rda |only crm12Comb-0.1.7/crm12Comb/DESCRIPTION | 6 +- crm12Comb-0.1.7/crm12Comb/MD5 | 26 +++++----- crm12Comb-0.1.7/crm12Comb/R/Bayesian_likelihood.R | 6 +- crm12Comb-0.1.7/crm12Comb/R/est.R | 6 +- crm12Comb-0.1.7/crm12Comb/R/get_orders.R | 2 crm12Comb-0.1.7/crm12Comb/build/partial.rdb |binary crm12Comb-0.1.7/crm12Comb/build/vignette.rds |binary crm12Comb-0.1.7/crm12Comb/data/examples_results.RData |only crm12Comb-0.1.7/crm12Comb/inst/doc/crm12Comb.R | 4 - crm12Comb-0.1.7/crm12Comb/inst/doc/crm12Comb.Rmd | 6 +- crm12Comb-0.1.7/crm12Comb/inst/doc/crm12Comb.html | 36 +++++++-------- crm12Comb-0.1.7/crm12Comb/man/doseComb_to_mat.Rd | 2 crm12Comb-0.1.7/crm12Comb/man/tanh_ExpPriorLikelihood.Rd | 2 crm12Comb-0.1.7/crm12Comb/vignettes/crm12Comb.Rmd | 6 +- 15 files changed, 51 insertions(+), 51 deletions(-)
Title: Analysis of Variance and Other Important Complementary Analyses
Description: Perform analysis of variance and other important complementary
analyses. The functions are easy to use. Performs analysis in various
designs, with balanced and unbalanced data.
Author: Emmanuel Arnhold [aut, cre]
Maintainer: Emmanuel Arnhold <emmanuelarnhold@yahoo.com.br>
Diff between easyanova versions 10.0 dated 2023-10-19 and 11.0 dated 2024-09-16
DESCRIPTION | 14 +- MD5 | 30 +++- NAMESPACE | 27 +++- R/box.plot.R |only R/ea1.R | 247 ++++++++++++++++++++++++++++++---------- R/ea2.R | 290 ++++++++++++++++++++++++++++++++++------------- R/ic.R |only R/ic.plot.R |only R/m.plot.R |only R/means.plot.R |only R/means.plotfat.R |only R/p.plot.R |only R/tab.R |only man/box.plot.Rd |only man/ea1.Rd | 94 +++++++++++---- man/ea2.Rd | 8 + man/easyanova-package.Rd | 4 man/ic.Rd |only man/ic.plot.Rd |only man/m.plot.Rd |only man/means.plot.Rd |only man/means.plotfat.Rd |only man/p.plot.Rd |only man/tab.Rd |only 24 files changed, 529 insertions(+), 185 deletions(-)
Title: Calculate Distance Measures for a Given List of Data Frames with
Factors
Description: It provides functions that calculate Mahalanobis distance, Euclidean distance, Manhattan distance and Chebyshev distance between each pair of species in a list of data frames. These metrics are fundamental in various fields, such as cluster analysis, classification, and other applications of machine learning and data mining, where assessing similarity or dissimilarity between data is crucial. The package is designed to be flexible and easily integrated into data analysis workflows, providing reliable tools for evaluating distances in multidimensional contexts.
Author: Flavio Gioia [aut, cre]
Maintainer: Flavio Gioia <flaviogioia.fg@gmail.com>
Diff between cmahalanobis versions 0.3.0 dated 2024-05-20 and 0.4.0 dated 2024-09-16
cmahalanobis-0.3.0/cmahalanobis/build |only cmahalanobis-0.3.0/cmahalanobis/inst/doc |only cmahalanobis-0.3.0/cmahalanobis/vignettes |only cmahalanobis-0.4.0/cmahalanobis/DESCRIPTION | 17 cmahalanobis-0.4.0/cmahalanobis/MD5 | 34 cmahalanobis-0.4.0/cmahalanobis/NAMESPACE | 12 cmahalanobis-0.4.0/cmahalanobis/R/cmahalanobis.R | 1088 +++++++-- cmahalanobis-0.4.0/cmahalanobis/R/zzz.R |only cmahalanobis-0.4.0/cmahalanobis/inst/rmarkdown |only cmahalanobis-0.4.0/cmahalanobis/man/cchebyshev.Rd | 70 cmahalanobis-0.4.0/cmahalanobis/man/ceuclide.Rd | 73 cmahalanobis-0.4.0/cmahalanobis/man/cmahalanobis.Rd | 55 cmahalanobis-0.4.0/cmahalanobis/man/cmanhattan.Rd | 72 cmahalanobis-0.4.0/cmahalanobis/man/generate_report_cchebyshev.Rd |only cmahalanobis-0.4.0/cmahalanobis/man/generate_report_ceuclide.Rd |only cmahalanobis-0.4.0/cmahalanobis/man/generate_report_cmahalanobis.Rd |only cmahalanobis-0.4.0/cmahalanobis/man/generate_report_cmanhattan.Rd |only cmahalanobis-0.4.0/cmahalanobis/man/pvaluesccheb.Rd |only cmahalanobis-0.4.0/cmahalanobis/man/pvaluesceucl.Rd |only cmahalanobis-0.4.0/cmahalanobis/man/pvaluescmaha.Rd |only cmahalanobis-0.4.0/cmahalanobis/man/pvaluescmanh.Rd |only cmahalanobis-0.4.0/cmahalanobis/tests/testthat/cmahalanobis.R | 1091 +++++++--- 22 files changed, 1786 insertions(+), 726 deletions(-)
Title: Nanosecond-Resolution Time Support for R
Description: Full 64-bit resolution date and time functionality with
nanosecond granularity is provided, with easy transition to and from
the standard 'POSIXct' type. Three additional classes offer interval,
period and duration functionality for nanosecond-resolution timestamps.
Author: Dirk Eddelbuettel [aut, cre] ,
Leonardo Silvestri [aut]
Maintainer: Dirk Eddelbuettel <edd@debian.org>
Diff between nanotime versions 0.3.9 dated 2024-06-21 and 0.3.10 dated 2024-09-16
nanotime-0.3.10/nanotime/ChangeLog | 31 + nanotime-0.3.10/nanotime/DESCRIPTION | 18 nanotime-0.3.10/nanotime/MD5 | 27 nanotime-0.3.10/nanotime/NAMESPACE | 2 nanotime-0.3.10/nanotime/R/nanoival.R | 2 nanotime-0.3.10/nanotime/R/nanotime.R | 11 nanotime-0.3.10/nanotime/demo/00Index | 1 nanotime-0.3.10/nanotime/inst/NEWS.Rd | 10 nanotime-0.3.10/nanotime/inst/doc/nanotime-introduction.pdf |binary nanotime-0.3.10/nanotime/inst/tinytest/test_nanoival.R | 59 - nanotime-0.3.10/nanotime/inst/tinytest/test_nanoperiod.R | 371 +++++------- nanotime-0.3.10/nanotime/inst/tinytest/test_nanotime.R | 362 +++++------ nanotime-0.3.10/nanotime/inst/tinytest/test_zoo.R | 4 nanotime-0.3.10/nanotime/man/nanotime.Rd | 1 nanotime-0.3.9/nanotime/demo/ggplot2Example.R |only 15 files changed, 458 insertions(+), 441 deletions(-)
Title: Bayesian Network Meta-Analysis of Individual and Aggregate Data
Description: Network meta-analysis and network meta-regression models for
aggregate data, individual patient data, and mixtures of both individual
and aggregate data using multilevel network meta-regression as described by
Phillippo et al. (2020) <doi:10.1111/rssa.12579>. Models are estimated in a
Bayesian framework using 'Stan'.
Author: David M. Phillippo [aut, cre]
Maintainer: David M. Phillippo <david.phillippo@bristol.ac.uk>
Diff between multinma versions 0.7.1 dated 2024-06-11 and 0.7.2 dated 2024-09-16
DESCRIPTION | 8 +++--- MD5 | 50 +++++++++++++++++++++--------------------- NEWS.md | 14 +++++++++++ R/integration.R | 2 - R/marginal_effects.R | 2 - R/nma.R | 41 ++++++++++++++++++++++++++-------- R/nma_data-class.R | 23 +++++++++++-------- R/nma_nodesplit-class.R | 2 - R/nma_summary-class.R | 11 +++++---- R/nodesplit_summary-class.R | 18 ++++++++------- R/predict.R | 11 ++++++++- R/stan_nma-class.R | 4 +-- README.md | 2 - build/partial.rdb |binary build/vignette.rds |binary inst/CITATION | 2 - man/add_integration.Rd | 2 - man/as.array.stan_nma.Rd | 2 - man/graph_conversion.Rd | 5 ++-- man/nma.Rd | 13 ++++++---- man/plot.nma_data.Rd | 18 +++++++++------ man/plot.nma_summary.Rd | 11 +++++---- man/plot.nodesplit_summary.Rd | 18 ++++++++------- man/print.nma_nodesplit_df.Rd | 2 - man/print.stan_nma.Rd | 2 - tests/testthat/test-nma.R | 41 ++++++++++++++++++++++++++++++++++ 26 files changed, 204 insertions(+), 100 deletions(-)
Title: Bayesian Survival Regression with Flexible Error and Random
Effects Distributions
Description: Contains Bayesian implementations of the Mixed-Effects Accelerated Failure Time (MEAFT) models
for censored data. Those can be not only right-censored but also interval-censored,
doubly-interval-censored or misclassified interval-censored. The methods implemented in the package
have been published in Komárek and Lesaffre (2006, Stat. Modelling) <doi:10.1191/1471082X06st107oa>,
Komárek, Lesaffre and Legrand (2007, Stat. in Medicine) <doi:10.1002/sim.3083>, Komárek and Lesaffre (2007, Stat. Sinica) <https://www3.stat.sinica.edu.tw/statistica/oldpdf/A17n27.pdf>, Komárek and Lesaffre (2008, JASA) <doi:10.1198/016214507000000563>,
García-Zattera, Jara and Komárek (2016, Biometrics) <doi:10.1111/biom.12424>.
Author: Arnost Komarek [aut, cre]
Maintainer: Arnost Komarek <arnost.komarek@mff.cuni.cz>
Diff between bayesSurv versions 3.7 dated 2023-12-18 and 3.8 dated 2024-09-16
CHANGES | 4 ++++ DESCRIPTION | 8 ++++---- MD5 | 18 +++++++++--------- inst/CITATION | 12 ++++-------- inst/doc/ex-cgd.R | 2 +- inst/doc/ex-tandmobCS.R | 2 +- inst/doc/ex-tandmobMixture.R | 2 +- inst/doc/ex-tandmobPA.R | 2 +- src/arms.cpp | 18 ++++++++++-------- src/arms.h | 2 ++ 10 files changed, 37 insertions(+), 33 deletions(-)
Title: Expected Value of Information
Description: Methods to calculate the expected value of information from a decision-analytic model. This includes the expected value of perfect information (EVPI), partial perfect information (EVPPI) and sample information (EVSI), and the expected net benefit of sampling (ENBS). A range of alternative computational methods are provided under the same user interface. See Heath et al. (2024) <doi:10.1201/9781003156109>, Jackson et al. (2022) <doi:10.1146/annurev-statistics-040120-010730>.
Author: Christopher Jackson [aut, cre],
Anna Heath [aut],
Gianluca Baio [ctb] ,
Mark Strong [ctb] ,
Kofi Placid Adragni [ctb] ,
Andrew Raim [ctb]
Maintainer: Christopher Jackson <chris.jackson@mrc-bsu.cam.ac.uk>
Diff between voi versions 1.0.2 dated 2023-11-27 and 1.0.3 dated 2024-09-16
DESCRIPTION | 12 +++--- MD5 | 48 +++++++++++++-------------- NEWS.md | 9 +++++ R/check_regression.R | 11 +++--- R/evppi.R | 10 ++++- R/evppi_mc.R | 2 + R/evppi_npreg.R | 2 + R/evsi.R | 5 ++ R/model.R | 4 ++ R/voi-package.R | 5 +- build/vignette.rds |binary inst/Chemotherapy_Book/06_figs/CEAC.pdf |binary inst/Chemotherapy_Book/06_figs/CEAF.pdf |binary inst/doc/plots.html | 8 ++-- inst/doc/voi.R | 14 ++++---- inst/doc/voi.Rmd | 8 +--- inst/doc/voi.html | 55 ++++++++++++++------------------ man/check_regression.Rd | 6 +-- man/evppi.Rd | 8 +++- man/evppivar.Rd | 2 - man/evsi.Rd | 2 + man/voi-package.Rd | 28 ++++++++++++++++ tests/testthat/test_evsi.R | 10 +++++ tests/testthat/test_heemod.R | 7 +--- vignettes/voi.Rmd | 8 +--- 25 files changed, 161 insertions(+), 103 deletions(-)
Title: Computation of Optimal Transport Plans and Wasserstein Distances
Description: Solve optimal transport problems. Compute Wasserstein distances (a.k.a. Kantorovitch, Fortet--Mourier, Mallows, Earth Mover's, or minimal L_p distances), return the corresponding transference plans, and display them graphically. Objects that can be compared include grey-scale images, (weighted) point patterns, and mass vectors.
Author: Dominic Schuhmacher [aut, cre],
Bjoern Baehre [aut] ,
Nicolas Bonneel [aut] ,
Carsten Gottschlich [aut] ,
Valentin Hartmann [aut] ,
Florian Heinemann [aut] ,
Bernhard Schmitzer [aut] ,
Joern Schrieber [aut] ,
Timo Wilm [ctb]
Maintainer: Dominic Schuhmacher <dominic.schuhmacher@mathematik.uni-goettingen.de>
Diff between transport versions 0.15-2 dated 2024-05-09 and 0.15-4 dated 2024-09-16
DESCRIPTION | 11 ++- MD5 | 36 ++++++------- NEWS | 27 ++++++++- R/RcppExports.R | 4 - R/fundament.R | 9 ++- R/unbalanced_wpp.R | 3 - build/partial.rdb |binary src/OT_SparseSimplex/sparsebasicfeasible.c | 40 +++++++------- src/OT_SparseSimplex/sparsesimplex.c | 64 +++++++++++------------ src/RcppExports.cpp | 7 +- src/aha.c | 80 ++++++++++++++--------------- src/network_simplex_simple.h | 9 ++- src/networksimplex.cpp | 11 ++- src/power_diagram.h | 6 +- src/revsimplex.c | 20 +++---- src/shortsimplex.c | 24 ++++---- src/transport_init.c | 4 - tests/testthat/_data |only tests/testthat/test-main.R | 58 --------------------- tests/testthat/test-unbalanced_wpp.R |only 20 files changed, 197 insertions(+), 216 deletions(-)
Title: Testing in Conditional Likelihood Context
Description: An implementation of hypothesis testing in an extended Rasch modeling framework,
including sample size planning procedures and power computations. Provides 4 statistical tests,
i.e., gradient test (GR), likelihood ratio test (LR), Rao score or Lagrange multiplier test (RS),
and Wald test, for testing a number of hypotheses referring to the Rasch model (RM), linear
logistic test model (LLTM), rating scale model (RSM), and partial credit model (PCM). Three
types of functions for power and sample size computations are provided. Firstly, functions to
compute the sample size given a user-specified (predetermined) deviation from the hypothesis
to be tested, the level alpha, and the power of the test. Secondly, functions to evaluate the
power of the tests given a user-specified (predetermined) deviation from the hypothesis to be
tested, the level alpha of the test, and the sample size. Thirdly, functions to evaluate the
so-called post hoc power of the tests. This is the power of the tests giv [...truncated...]
Author: Clemens Draxler [aut, cre],
Andreas Kurz [aut]
Maintainer: Clemens Draxler <clemens.draxler@umit-tirol.at>
Diff between tcl versions 0.2.0 dated 2023-05-02 and 0.2.1 dated 2024-09-16
DESCRIPTION | 10 ++++---- MD5 | 56 ++++++++++++++++++++++----------------------- R/discr_test.R | 4 +-- R/invar_test.R | 28 +++++++++++----------- R/post_hocChange.R | 16 ++++++------ R/post_hocPCM.R | 26 ++++++++++---------- R/post_hocRM.R | 28 +++++++++++----------- R/powerChange.R | 25 +++++++++++--------- R/powerPCM.R | 45 +++++++++++++++++++----------------- R/powerRM.R | 38 ++++++++++++++++-------------- R/sa_sizeChange.R | 27 ++++++++++++--------- R/sa_sizePCM.R | 37 ++++++++++++++++------------- R/sa_sizeRM.R | 33 ++++++++++++++------------ build/vignette.rds |binary inst/doc/tcl-vignette.R | 2 - inst/doc/tcl-vignette.Rmd | 2 - inst/doc/tcl-vignette.html | 4 +-- man/discr_test.Rd | 4 +-- man/invar_test.Rd | 2 - man/post_hocChange.Rd | 8 +++--- man/post_hocPCM.Rd | 8 +++--- man/post_hocRM.Rd | 8 +++--- man/powerChange.Rd | 8 +++--- man/powerPCM.Rd | 23 ++++++++---------- man/powerRM.Rd | 16 ++++++------ man/sa_sizeChange.Rd | 12 ++++----- man/sa_sizePCM.Rd | 14 +++++------ man/sa_sizeRM.Rd | 10 ++++---- vignettes/tcl-vignette.Rmd | 2 - 29 files changed, 257 insertions(+), 239 deletions(-)
Title: Search Algorithms and Loss Functions for Bayesian Clustering
Description: The SALSO algorithm is an efficient randomized greedy search method to find a point estimate for a random partition based on a loss function and posterior Monte Carlo samples. The algorithm is implemented for many loss functions, including the Binder loss and a generalization of the variation of information loss, both of which allow for unequal weights on the two types of clustering mistakes. Efficient implementations are also provided for Monte Carlo estimation of the posterior expected loss of a given clustering estimate. See Dahl, Johnson, Müller (2022) <doi:10.1080/10618600.2022.2069779>.
Author: David B. Dahl [aut, cre] ,
Devin J. Johnson [aut] ,
Peter Mueller [aut],
Alex Crichton [ctb] ,
Brendan Zabarauskas [ctb] ,
David B. Dahl [ctb] ,
David Tolnay [ctb] ,
Jim Turner [ctb] ,
Josh Stone [ctb] ,
R. Janis Goldschmidt [ctb] ,
Sean McArthur [ctb [...truncated...]
Maintainer: David B. Dahl <dahl@stat.byu.edu>
Diff between salso versions 0.3.41 dated 2024-09-06 and 0.3.42 dated 2024-09-16
DESCRIPTION | 8 ++-- MD5 | 22 +++++------ NAMESPACE | 1 NEWS | 4 ++ R/psm.R | 4 +- build/partial.rdb |binary inst/cargo.log | 9 ++-- man/psm.Rd | 3 + src/rust/Cargo.lock | 97 +++++++++++++++++++++++++++++++------------------ src/rust/Cargo.toml | 6 ++- src/rust/src/lib.rs | 3 + src/rust/vendor.tar.gz |binary 12 files changed, 98 insertions(+), 59 deletions(-)
Title: Diet Estimated Trophic Levels
Description: Estimates fractional trophic level from quantitative and qualitative diet data and calculates electivity indices in R. Borstein (2020) <doi:10.1007/s10750-020-04417-5>.
Author: Samuel R. Borstein [aut, cre]
Maintainer: Samuel R. Borstein <sam@borstein.com>
Diff between dietr versions 1.1.4 dated 2023-02-25 and 1.1.5-1 dated 2024-09-16
dietr-1.1.4/dietr/inst/doc/dietr-vignette.pdf |only dietr-1.1.5-1/dietr/DESCRIPTION | 22 +++-- dietr-1.1.5-1/dietr/MD5 | 35 +++++---- dietr-1.1.5-1/dietr/NEWS.md | 7 - dietr-1.1.5-1/dietr/R/ConvertFishbaseDiet.R | 10 +- dietr-1.1.5-1/dietr/R/pkgname.R | 4 - dietr-1.1.5-1/dietr/build/vignette.rds |binary dietr-1.1.5-1/dietr/inst/doc/dietr-vignette.R | 38 +++++----- dietr-1.1.5-1/dietr/inst/doc/dietr-vignette.Rmd | 4 - dietr-1.1.5-1/dietr/inst/doc/dietr-vignette.html |only dietr-1.1.5-1/dietr/man/dietr.Rd | 3 dietr-1.1.5-1/dietr/vignettes/dietr-vignette.Rmd | 4 - dietr-1.1.5-1/dietr/vignettes/dietr-vignette_files/figure-html |only dietr-1.1.5-1/dietr/vignettes/dietr-vignette_files/figure-latex/unnamed-chunk-18-1.pdf |binary dietr-1.1.5-1/dietr/vignettes/dietr-vignette_files/figure-latex/unnamed-chunk-19-1.pdf |binary dietr-1.1.5-1/dietr/vignettes/dietr-vignette_files/figure-latex/unnamed-chunk-19-2.pdf |binary dietr-1.1.5-1/dietr/vignettes/dietr-vignette_files/figure-latex/unnamed-chunk-19-3.pdf |binary dietr-1.1.5-1/dietr/vignettes/dietr-vignette_files/figure-latex/unnamed-chunk-19-4.pdf |binary 18 files changed, 67 insertions(+), 60 deletions(-)
Title: Provides 'box' Compatibility for 'languageserver'
Description: A 'box' compatible custom language parser for the 'languageserver' package to provide
completion and signature hints in code editors.
Author: Ricardo Rodrigo Basa [aut, cre],
Pavel Demin [aut],
Jakub Nowicki [aut],
Appsilon Sp. z o.o. [cph]
Maintainer: Ricardo Rodrigo Basa <opensource+rodrigo@appsilon.com>
Diff between box.lsp versions 0.1.1 dated 2024-09-10 and 0.1.2 dated 2024-09-16
DESCRIPTION | 12 +++++++----- MD5 | 8 ++++---- NEWS.md | 4 ++++ R/box_lsp.R | 7 ++++++- README.md | 30 ++++++++++++++++++++++++++++-- 5 files changed, 49 insertions(+), 12 deletions(-)
Title: Visualizing Categorical Data
Description: Visualization techniques, data sets, summary and inference
procedures aimed particularly at categorical data. Special
emphasis is given to highly extensible grid graphics. The
package was package was originally inspired by the book
"Visualizing Categorical Data" by Michael Friendly and is
now the main support package for a new book,
"Discrete Data Analysis with R" by Michael Friendly and
David Meyer (2015).
Author: David Meyer [aut, cre] ,
Achim Zeileis [aut] ,
Kurt Hornik [aut] ,
Florian Gerber [ctb],
Michael Friendly [aut]
Maintainer: David Meyer <David.Meyer@R-project.org>
Diff between vcd versions 1.4-12 dated 2023-12-29 and 1.4-13 dated 2024-09-16
DESCRIPTION | 6 ++--- MD5 | 48 ++++++++++++++++++++--------------------- build/partial.rdb |binary build/vignette.rds |binary data/Butterfly.rda |binary data/Employment.rda |binary data/Federalist.rda |binary data/HorseKicks.rda |binary data/Hospital.rda |binary data/Lifeboats.rda |binary data/MSPatients.rda |binary data/PreSex.rda |binary data/RepVict.rda |binary data/Rochdale.rda |binary data/Saxony.rda |binary data/Suicide.rda |binary data/UKSoccer.rda |binary data/WeldonDice.rda |binary data/WomenQueue.rda |binary inst/NEWS.Rd | 4 +++ inst/doc/residual-shadings.pdf |binary inst/doc/strucplot.pdf |binary man/Bundestag2005.Rd | 4 +-- man/agreementplot.Rd | 2 - man/plot.loglm.Rd | 4 +-- 25 files changed, 36 insertions(+), 32 deletions(-)
Title: Estimation, Simulation and Visualization of Hierarchical
Archimedean Copulae (HAC)
Description: Package provides the estimation of the structure and the parameters, sampling methods and structural plots of Hierarchical Archimedean Copulae (HAC).
Author: Ostap Okhrin [aut],
Alexander Ristig [aut],
Gong Chen [cre]
Maintainer: Gong Chen <gong.chen1@tu-dresden.de>
Diff between HAC versions 1.1-0 dated 2022-03-14 and 1.1-1 dated 2024-09-16
DESCRIPTION | 25 +++ MD5 | 20 +-- R/constructor.r | 2 build/partial.rdb |binary build/vignette.rds |binary inst/CITATION | 6 inst/doc/HAC.R | 334 ++++++++++++++++++++++++++--------------------------- inst/doc/HAC.Rnw | 2 inst/doc/HAC.pdf |binary man/hac.Rd | 2 vignettes/HAC.Rnw | 2 11 files changed, 203 insertions(+), 190 deletions(-)
Title: Censored Regression with Conditional Heteroscedasticity
Description: Different approaches to censored or truncated regression with
conditional heteroscedasticity are provided. First, continuous
distributions can be used for the (right and/or left censored or truncated)
response with separate linear predictors for the mean and variance.
Second, cumulative link models for ordinal data
(obtained by interval-censoring continuous data) can be employed for
heteroscedastic extended logistic regression (HXLR). In the latter type of
models, the intercepts depend on the thresholds that define the intervals.
Infrastructure for working with censored or truncated normal, logistic,
and Student-t distributions, i.e., d/p/q/r functions and distributions3
objects.
Author: Achim Zeileis [aut, cre] ,
Jakob W. Messner [aut] ,
Reto Stauffer [aut] ,
Ioannis Kosmidis [ctb] ,
Georg J. Mayr [ctb]
Maintainer: Achim Zeileis <Achim.Zeileis@R-project.org>
Diff between crch versions 1.2-0 dated 2024-08-22 and 1.2-1 dated 2024-09-16
DESCRIPTION | 8 ++++---- MD5 | 10 +++++----- NEWS.md | 9 +++++++++ man/CensoredStudentsT.Rd | 2 ++ man/TruncatedStudentsT.Rd | 2 ++ tests/Examples/crch-Ex.Rout.save | 14 ++++---------- 6 files changed, 26 insertions(+), 19 deletions(-)
Title: Bayesian Dynamic Borrowing with Flexible Baseline Hazard
Function
Description: Allows Bayesian borrowing from a historical dataset for time-to-
event data. A flexible baseline hazard function is achieved via a piecewise
exponential likelihood with time varying split points and smoothing prior on the
historic baseline hazards. The method is described in Scott and Lewin (2024)
<doi:10.48550/arXiv.2401.06082>, and the software paper is in Axillus et al.
(2024) <doi:10.48550/arXiv.2408.04327>.
Author: Darren Scott [aut, cre],
Sophia Axillus [aut]
Maintainer: Darren Scott <darren.scott@astrazeneca.com>
Diff between BayesFBHborrow versions 2.0.1 dated 2024-06-24 and 2.0.2 dated 2024-09-16
DESCRIPTION | 9 +-- MD5 | 20 +++---- R/GibbsMH.R | 112 ++++++++++++++++++++++++------------------ R/beta_updates.R | 2 R/run_mcmc.R | 45 ++++++++-------- man/BayesFBHborrow.Rd | 21 +++---- man/BayesFBHborrow.WBorrow.Rd | 18 +++--- man/GibbsMH.NoBorrow.Rd | 6 +- man/GibbsMH.Rd | 11 ++-- man/GibbsMH.WBorrow.Rd | 11 ++-- man/dot-beta_MH_RW.Rd | 2 11 files changed, 139 insertions(+), 118 deletions(-)
More information about BayesFBHborrow at CRAN
Permanent link
Title: The Composer of Plots
Description: The 'ggplot2' package provides a strong API for sequentially
building up a plot, but does not concern itself with composition of multiple
plots. 'patchwork' is a package that expands the API to allow for
arbitrarily complex composition of plots by, among others, providing
mathematical operators for combining multiple plots. Other packages that try
to address this need (but with a different approach) are 'gridExtra' and
'cowplot'.
Author: Thomas Lin Pedersen [cre, aut]
Maintainer: Thomas Lin Pedersen <thomasp85@gmail.com>
Diff between patchwork versions 1.2.0 dated 2024-01-08 and 1.3.0 dated 2024-09-16
patchwork-1.2.0/patchwork/tests/testthat/_snaps/collect_axes |only patchwork-1.2.0/patchwork/tests/testthat/test-collect_axes.R |only patchwork-1.3.0/patchwork/DESCRIPTION | 12 patchwork-1.3.0/patchwork/MD5 | 129 +-- patchwork-1.3.0/patchwork/NAMESPACE | 16 patchwork-1.3.0/patchwork/NEWS.md | 61 + patchwork-1.3.0/patchwork/R/aaa.R | 2 patchwork-1.3.0/patchwork/R/add_plot.R | 37 - patchwork-1.3.0/patchwork/R/arithmetic.R | 3 patchwork-1.3.0/patchwork/R/collect_axes.R | 82 +- patchwork-1.3.0/patchwork/R/free.R | 73 +- patchwork-1.3.0/patchwork/R/guides.R | 86 +- patchwork-1.3.0/patchwork/R/inset_element.R | 6 patchwork-1.3.0/patchwork/R/merge.R |only patchwork-1.3.0/patchwork/R/plot_annotation.R | 30 patchwork-1.3.0/patchwork/R/plot_layout.R | 39 - patchwork-1.3.0/patchwork/R/plot_patchwork.R | 359 ++++++++-- patchwork-1.3.0/patchwork/R/wrap_elements.R | 12 patchwork-1.3.0/patchwork/R/wrap_ggplot_grob.R | 18 patchwork-1.3.0/patchwork/R/wrap_plots.R | 6 patchwork-1.3.0/patchwork/R/wrap_table.R |only patchwork-1.3.0/patchwork/R/zzz.R | 26 patchwork-1.3.0/patchwork/build/vignette.rds |binary patchwork-1.3.0/patchwork/inst/doc/patchwork.html | 20 patchwork-1.3.0/patchwork/man/free.Rd | 53 + patchwork-1.3.0/patchwork/man/inset_element.Rd | 2 patchwork-1.3.0/patchwork/man/plot_annotation.Rd | 19 patchwork-1.3.0/patchwork/man/plot_arithmetic.Rd | 3 patchwork-1.3.0/patchwork/man/plot_layout.Rd | 21 patchwork-1.3.0/patchwork/man/wrap_elements.Rd | 4 patchwork-1.3.0/patchwork/man/wrap_plots.Rd | 16 patchwork-1.3.0/patchwork/man/wrap_table.Rd |only patchwork-1.3.0/patchwork/tests/testthat/_snaps/arithmetic/add-ggplot-elements-p1-p2-theme-bw.svg | 22 patchwork-1.3.0/patchwork/tests/testthat/_snaps/arithmetic/add-patchwork-to-plot-p1-p2-p3.svg | 40 - patchwork-1.3.0/patchwork/tests/testthat/_snaps/arithmetic/adding-to-all-on-level-patchwork-theme-bw.svg | 80 +- patchwork-1.3.0/patchwork/tests/testthat/_snaps/arithmetic/adding-to-all-subplots-patchwork-theme-bw.svg | 78 +- patchwork-1.3.0/patchwork/tests/testthat/_snaps/arithmetic/adding-to-patchwork-p1-p2-p3.svg | 60 - patchwork-1.3.0/patchwork/tests/testthat/_snaps/arithmetic/complex-composition-p1-p2-p3-p4.svg | 80 +- patchwork-1.3.0/patchwork/tests/testthat/_snaps/arithmetic/nest-left-hand-side-p1-p2-p3.svg | 58 - patchwork-1.3.0/patchwork/tests/testthat/_snaps/arithmetic/nest-right-hand-side-p1-p2-p3.svg | 40 - patchwork-1.3.0/patchwork/tests/testthat/_snaps/arithmetic/pack-4-plots-p1-p2-p3-p4.svg | 78 +- patchwork-1.3.0/patchwork/tests/testthat/_snaps/arithmetic/stack-3-plots-p1-p2-p3.svg | 58 - patchwork-1.3.0/patchwork/tests/testthat/_snaps/arithmetic/standard-addition-p1-p2-p3.svg | 60 - patchwork-1.3.0/patchwork/tests/testthat/_snaps/collect |only patchwork-1.3.0/patchwork/tests/testthat/_snaps/layout/basic-inset-works.svg | 18 patchwork-1.3.0/patchwork/tests/testthat/_snaps/layout/far-dimensions-can-be-set-with-units.svg | 42 - patchwork-1.3.0/patchwork/tests/testthat/_snaps/layout/far-legend-justification.svg | 20 patchwork-1.3.0/patchwork/tests/testthat/_snaps/layout/far-optimise-space-by-default-1.svg | 78 +- patchwork-1.3.0/patchwork/tests/testthat/_snaps/layout/far-optimise-space-by-default-2.svg | 60 - patchwork-1.3.0/patchwork/tests/testthat/_snaps/layout/far-optimise-space-by-default-3.svg | 78 +- patchwork-1.3.0/patchwork/tests/testthat/_snaps/layout/far-space-optimisation-can-be-turned-off.svg | 62 - patchwork-1.3.0/patchwork/tests/testthat/_snaps/layout/free-can-be-nested.svg |only patchwork-1.3.0/patchwork/tests/testthat/_snaps/layout/free-can-be-stacked-and-nested.svg |only patchwork-1.3.0/patchwork/tests/testthat/_snaps/layout/free-label-works.svg |only patchwork-1.3.0/patchwork/tests/testthat/_snaps/layout/free-panel-works-on-one-side.svg |only patchwork-1.3.0/patchwork/tests/testthat/_snaps/layout/free-panel-works.svg |only patchwork-1.3.0/patchwork/tests/testthat/_snaps/layout/free-space-works.svg |only patchwork-1.3.0/patchwork/tests/testthat/_snaps/layout/grobs-can-be-inset.svg | 18 patchwork-1.3.0/patchwork/tests/testthat/_snaps/layout/insets-can-be-changed.svg | 18 patchwork-1.3.0/patchwork/tests/testthat/_snaps/layout/other-alignments-work.svg | 18 patchwork-1.3.0/patchwork/tests/testthat/_snaps/layout/patchworks-can-be-inset.svg | 64 + patchwork-1.3.0/patchwork/tests/testthat/_snaps/layout/setting-heights-as-units.svg | 82 +- patchwork-1.3.0/patchwork/tests/testthat/_snaps/layout/setting-heights.svg | 80 +- patchwork-1.3.0/patchwork/tests/testthat/_snaps/layout/setting-ncol.svg | 78 +- patchwork-1.3.0/patchwork/tests/testthat/_snaps/layout/setting-nrow.svg | 80 +- patchwork-1.3.0/patchwork/tests/testthat/_snaps/layout/setting-widths-as-units.svg | 78 +- patchwork-1.3.0/patchwork/tests/testthat/_snaps/layout/setting-widths.svg | 80 +- patchwork-1.3.0/patchwork/tests/testthat/test-collect.R |only patchwork-1.3.0/patchwork/tests/testthat/test-layout.R | 30 69 files changed, 1708 insertions(+), 1065 deletions(-)
Title: Fitting Hidden Markov Models to Financial Data
Description: Fitting (hierarchical) hidden Markov models to financial data
via maximum likelihood estimation. See Oelschläger, L. and Adam, T.
"Detecting Bearish and Bullish Markets in Financial Time Series Using
Hierarchical Hidden Markov Models" (2021, Statistical Modelling)
<doi:10.1177/1471082X211034048> for a reference on the method. A user guide
is provided by the accompanying software paper "fHMM: Hidden Markov Models
for Financial Time Series in R", Oelschläger, L., Adam, T., and Michels, R.
(2024, Journal of Statistical Software) <doi:10.18637/jss.v109.i09>.
Author: Lennart Oelschlaeger [aut, cre]
,
Timo Adam [aut] ,
Rouven Michels [aut]
Maintainer: Lennart Oelschlaeger <oelschlaeger.lennart@gmail.com>
Diff between fHMM versions 1.4.0 dated 2024-08-26 and 1.4.1 dated 2024-09-16
DESCRIPTION | 11 MD5 | 263 NAMESPACE | 231 NEWS.md | 264 R/RcppExports.R | 22 R/compare_models.R | 152 R/compute_T_star.R | 174 R/compute_ci.R | 122 R/compute_residuals.R | 238 R/data_and_models.R | 612 R/decode_states.R | 350 R/download_data.R | 273 R/fHMM-package.R | 5 R/fHMM_colors.R | 152 R/fHMM_controls.R | 1846 +- R/fHMM_data.R | 432 R/fHMM_events.R | 116 R/fHMM_likelihood.R | 478 R/fHMM_model.R | 898 - R/fHMM_parameters.R | 2192 +- R/fHMM_sdds.R | 320 R/fit_model.R | 500 R/get_initial_values.R | 652 R/helpers.R | 108 R/parameter_labels.R | 132 R/plot.R | 1536 +- R/read_data.R | 462 R/reorder_states.R | 264 R/simulate_hmm.R | 416 README.md | 626 build/partial.rdb |binary build/vignette.rds |binary inst/doc/fHMM.R | 14 inst/doc/fHMM.Rmd | 108 inst/doc/fHMM.html | 934 - inst/doc/v01_model_definition.R | 14 inst/doc/v01_model_definition.Rmd | 104 inst/doc/v01_model_definition.html | 866 - inst/doc/v02_controls.R | 86 inst/doc/v02_controls.Rmd | 176 inst/doc/v02_controls.html | 1002 - inst/doc/v03_data_management.R | 88 inst/doc/v03_data_management.Rmd | 184 inst/doc/v03_data_management.html | 922 - inst/doc/v04_model_estimation.R | 82 inst/doc/v04_model_estimation.Rmd | 252 inst/doc/v04_model_estimation.html | 1136 - inst/doc/v05_state_decoding_and_prediction.R | 52 inst/doc/v05_state_decoding_and_prediction.Rmd | 148 inst/doc/v05_state_decoding_and_prediction.html | 948 - inst/doc/v06_model_checking.R | 46 inst/doc/v06_model_checking.Rmd | 132 inst/doc/v06_model_checking.html | 920 - inst/doc/v07_model_selection.R | 32 inst/doc/v07_model_selection.Rmd | 108 inst/doc/v07_model_selection.html | 914 - inst/extdata/dax.csv |18024 ++++++++++++------------ man/compare_models.Rd | 60 man/compute_T_star.Rd | 58 man/compute_ci.Rd | 54 man/compute_residuals.Rd | 48 man/dax.Rd | 70 man/dax_model_2n.Rd | 82 man/dax_model_3t.Rd | 92 man/dax_vw_model.Rd | 94 man/decode_states.Rd | 138 man/download_data.Rd | 134 man/fHMM-package.Rd | 62 man/fHMM_colors.Rd | 80 man/fHMM_data.Rd | 140 man/fHMM_events.Rd | 82 man/fHMM_model.Rd | 178 man/fHMM_parameters.Rd | 324 man/fHMM_sdds.Rd | 126 man/find_closest_year.Rd | 2 man/fit_model.Rd | 338 man/get_initial_values.Rd | 98 man/list_to_vector.Rd |only man/ll_hmm.Rd | 256 man/nLL_hhmm.Rd | 44 man/nLL_hmm.Rd | 44 man/parameter_labels.Rd | 40 man/parameter_transformations.Rd | 458 man/plot.fHMM_data.Rd | 70 man/plot.fHMM_model.Rd | 118 man/plot_ll.Rd | 46 man/plot_pr.Rd | 40 man/plot_sdds.Rd | 52 man/plot_ts.Rd | 86 man/prepare_data.Rd | 60 man/read_data.Rd | 58 man/reorder_states.Rd | 96 man/set_controls.Rd | 652 man/sim_model_2gamma.Rd | 78 man/simulate_hmm.Rd | 270 man/simulate_observations.Rd | 82 man/spx.Rd | 72 man/unemp.Rd | 54 man/unemp_spx_model_3_2.Rd | 86 man/vw.Rd | 70 tests/testthat.R | 8 tests/testthat/test-compare_models.R | 40 tests/testthat/test-compute_T_star.R | 84 tests/testthat/test-compute_ci.R | 26 tests/testthat/test-compute_residuals.R | 46 tests/testthat/test-data_and_models.R | 88 tests/testthat/test-decode_states.R | 60 tests/testthat/test-download_data.R | 146 tests/testthat/test-fHMM_colors.R | 70 tests/testthat/test-fHMM_controls.R | 1260 - tests/testthat/test-fHMM_data.R | 120 tests/testthat/test-fHMM_events.R | 56 tests/testthat/test-fHMM_likelihood.R | 66 tests/testthat/test-fHMM_model.R | 96 tests/testthat/test-fHMM_parameters.R | 426 tests/testthat/test-fHMM_sdds.R | 214 tests/testthat/test-fit_model.R | 178 tests/testthat/test-get_initial_values.R | 118 tests/testthat/test-helpers.R | 81 tests/testthat/test-parameter_labels.R | 68 tests/testthat/test-plot.R | 232 tests/testthat/test-read_data.R | 42 tests/testthat/test-reorder_states.R | 12 tests/testthat/test-simulate_hmm.R | 100 vignettes/fHMM.Rmd | 108 vignettes/ref.bib | 662 vignettes/v01_model_definition.Rmd | 104 vignettes/v02_controls.Rmd | 176 vignettes/v03_data_management.Rmd | 184 vignettes/v04_model_estimation.Rmd | 252 vignettes/v05_state_decoding_and_prediction.Rmd | 148 vignettes/v06_model_checking.Rmd | 132 vignettes/v07_model_selection.Rmd | 108 133 files changed, 25919 insertions(+), 25823 deletions(-)
Title: Misc Functions of the Department of Statistics, Probability
Theory Group (Formerly: E1071), TU Wien
Description: Functions for latent class analysis, short time Fourier
transform, fuzzy clustering, support vector machines,
shortest path computation, bagged clustering, naive Bayes
classifier, generalized k-nearest neighbour ...
Author: David Meyer [aut, cre] ,
Evgenia Dimitriadou [aut, cph],
Kurt Hornik [aut] ,
Andreas Weingessel [aut],
Friedrich Leisch [aut],
Chih-Chung Chang [ctb, cph] ,
Chih-Chen Lin [ctb, cph]
Maintainer: David Meyer <David.Meyer@R-project.org>
Diff between e1071 versions 1.7-14 dated 2023-12-06 and 1.7-16 dated 2024-09-16
DESCRIPTION | 6 +++--- MD5 | 26 +++++++++++++------------- R/sparse.R | 2 +- build/vignette.rds |binary inst/NEWS.Rd | 11 +++++++++++ inst/doc/svmdoc.R | 4 ++-- inst/doc/svmdoc.Rnw | 8 ++++---- inst/doc/svmdoc.pdf |binary inst/doc/svminternals.Rnw | 1 + inst/doc/svminternals.pdf |binary man/matchControls.Rd | 4 ++-- src/svm.cpp | 2 +- vignettes/svmdoc.Rnw | 8 ++++---- vignettes/svminternals.Rnw | 1 + 14 files changed, 43 insertions(+), 30 deletions(-)
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2018-01-04 0.1.4
2017-10-08 0.1.3
2017-02-11 0.1.2
2017-02-05 0.1.1
2017-01-08 0.1.0
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2018-01-05 0.3.0
2017-04-30 0.2.0
2017-02-12 0.1.0
Title: Bayesian Vector Heterogeneous Autoregressive Modeling
Description: Tools to model and forecast multivariate time series
including Bayesian Vector heterogeneous autoregressive (VHAR) model
by Kim & Baek (2023) (<doi:10.1080/00949655.2023.2281644>).
'bvhar' can model Vector Autoregressive (VAR), VHAR, Bayesian VAR (BVAR), and Bayesian VHAR (BVHAR) models.
Author: Young Geun Kim [aut, cre, cph]
,
Changryong Baek [ctb]
Maintainer: Young Geun Kim <ygeunkimstat@gmail.com>
Diff between bvhar versions 2.0.1 dated 2024-03-01 and 2.1.0 dated 2024-09-16
bvhar-2.0.1/bvhar/R/bvar-hierarchical.R |only bvhar-2.0.1/bvhar/R/doc-models.R |only bvhar-2.0.1/bvhar/data/oxfordman_rk.rda |only bvhar-2.0.1/bvhar/data/oxfordman_rv.rda |only bvhar-2.0.1/bvhar/inst/doc/empirical-bayes.R |only bvhar-2.0.1/bvhar/inst/doc/empirical-bayes.Rmd |only bvhar-2.0.1/bvhar/inst/doc/empirical-bayes.html |only bvhar-2.0.1/bvhar/man/AIC.varlse.Rd |only bvhar-2.0.1/bvhar/man/BIC.varlse.Rd |only bvhar-2.0.1/bvhar/man/FPE.varlse.Rd |only bvhar-2.0.1/bvhar/man/HQ.varlse.Rd |only bvhar-2.0.1/bvhar/man/analyze_ir.Rd |only bvhar-2.0.1/bvhar/man/bvar_adding_dummy.Rd |only bvhar-2.0.1/bvhar/man/bvar_niwhm.Rd |only bvhar-2.0.1/bvhar/man/bvar_predictive_density.Rd |only bvhar-2.0.1/bvhar/man/coef.varlse.Rd |only bvhar-2.0.1/bvhar/man/figures/README-predfig-1.png |only bvhar-2.0.1/bvhar/man/fitted.varlse.Rd |only bvhar-2.0.1/bvhar/man/horseshoe_bvar_algo.Rd |only bvhar-2.0.1/bvhar/man/is.stable.varlse.Rd |only bvhar-2.0.1/bvhar/man/is.varlse.Rd |only bvhar-2.0.1/bvhar/man/logLik.varlse.Rd |only bvhar-2.0.1/bvhar/man/lpl.Rd |only bvhar-2.0.1/bvhar/man/oxfordman.Rd |only bvhar-2.0.1/bvhar/man/predict.varlse.Rd |only bvhar-2.0.1/bvhar/man/residuals.varlse.Rd |only bvhar-2.0.1/bvhar/man/set_sv.Rd |only bvhar-2.0.1/bvhar/man/split_coef.Rd |only bvhar-2.0.1/bvhar/man/ssvs_bvar_algo.Rd |only bvhar-2.0.1/bvhar/man/ssvs_bvhar_algo.Rd |only bvhar-2.0.1/bvhar/man/stableroot.varlse.Rd |only bvhar-2.0.1/bvhar/man/summary.ssvsmod.Rd |only bvhar-2.0.1/bvhar/man/ts_forecasting_cv.Rd |only bvhar-2.0.1/bvhar/man/var_design_formulation.Rd |only bvhar-2.0.1/bvhar/man/var_vec_formulation.Rd |only bvhar-2.0.1/bvhar/src/forecast-var.cpp |only bvhar-2.0.1/bvhar/src/forecast-vhar.cpp |only bvhar-2.0.1/bvhar/tests/testthat/test-bvar-sv.R |only bvhar-2.0.1/bvhar/tests/testthat/test-bvhar-sv.R |only bvhar-2.0.1/bvhar/vignettes/empirical-bayes.Rmd |only bvhar-2.1.0/bvhar/DESCRIPTION | 15 bvhar-2.1.0/bvhar/MD5 | 420 ++-- bvhar-2.1.0/bvhar/NAMESPACE | 64 bvhar-2.1.0/bvhar/NEWS.md | 74 bvhar-2.1.0/bvhar/R/RcppExports.R | 1176 ++++++++---- bvhar-2.1.0/bvhar/R/bvar-flat.R | 177 + bvhar-2.1.0/bvhar/R/bvar-horseshoe.R | 92 bvhar-2.1.0/bvhar/R/bvar-minnesota.R | 375 +++ bvhar-2.1.0/bvhar/R/bvar-ssvs.R | 106 - bvhar-2.1.0/bvhar/R/bvar-sv.R | 150 + bvhar-2.1.0/bvhar/R/bvhar-horseshoe.R | 88 bvhar-2.1.0/bvhar/R/bvhar-minnesota.R | 445 ++++ bvhar-2.1.0/bvhar/R/bvhar-package.R | 10 bvhar-2.1.0/bvhar/R/bvhar-ssvs.R | 106 - bvhar-2.1.0/bvhar/R/bvhar-sv.R | 156 + bvhar-2.1.0/bvhar/R/criteria.R | 203 -- bvhar-2.1.0/bvhar/R/data.R | 97 - bvhar-2.1.0/bvhar/R/forecast.R | 608 +++++- bvhar-2.1.0/bvhar/R/generate-process.R | 85 bvhar-2.1.0/bvhar/R/globals.R | 1 bvhar-2.1.0/bvhar/R/hyperparam.R | 440 +++- bvhar-2.1.0/bvhar/R/irf.R | 32 bvhar-2.1.0/bvhar/R/member.R | 112 - bvhar-2.1.0/bvhar/R/misc-r.R | 56 bvhar-2.1.0/bvhar/R/plot-spillover.R |only bvhar-2.1.0/bvhar/R/plot.R | 32 bvhar-2.1.0/bvhar/R/print-bvarflat.R | 2 bvhar-2.1.0/bvhar/R/print-bvarmn.R | 61 bvhar-2.1.0/bvhar/R/print-bvharmn.R | 61 bvhar-2.1.0/bvhar/R/print-bvharsp.R | 125 + bvhar-2.1.0/bvhar/R/print-bvharspec.R | 129 + bvhar-2.1.0/bvhar/R/print-forecast.R | 4 bvhar-2.1.0/bvhar/R/print-irf.R | 4 bvhar-2.1.0/bvhar/R/print-spillover.R |only bvhar-2.1.0/bvhar/R/print-summarymniw.R | 6 bvhar-2.1.0/bvhar/R/print-varlse.R | 2 bvhar-2.1.0/bvhar/R/simulate-param.R | 56 bvhar-2.1.0/bvhar/R/spillover.R |only bvhar-2.1.0/bvhar/R/stable-process.R | 73 bvhar-2.1.0/bvhar/R/summary-bayes.R | 257 +- bvhar-2.1.0/bvhar/R/summary-forecast.R | 1237 ++++++++++++- bvhar-2.1.0/bvhar/R/summary-sparse.R | 109 - bvhar-2.1.0/bvhar/R/summary-varlse.R | 2 bvhar-2.1.0/bvhar/R/summary-vharlse.R | 6 bvhar-2.1.0/bvhar/R/tuning.R | 25 bvhar-2.1.0/bvhar/R/var-bayes.R |only bvhar-2.1.0/bvhar/R/varlse.R | 39 bvhar-2.1.0/bvhar/R/vhar-bayes.R |only bvhar-2.1.0/bvhar/R/vharlse.R | 35 bvhar-2.1.0/bvhar/README.md | 79 bvhar-2.1.0/bvhar/build/partial.rdb |binary bvhar-2.1.0/bvhar/build/vignette.rds |binary bvhar-2.1.0/bvhar/inst/CITATION | 10 bvhar-2.1.0/bvhar/inst/doc/bvhar.R | 15 bvhar-2.1.0/bvhar/inst/doc/bvhar.Rmd | 32 bvhar-2.1.0/bvhar/inst/doc/bvhar.html | 354 +-- bvhar-2.1.0/bvhar/inst/doc/forecasting.R | 2 bvhar-2.1.0/bvhar/inst/doc/forecasting.Rmd | 2 bvhar-2.1.0/bvhar/inst/doc/forecasting.html | 140 - bvhar-2.1.0/bvhar/inst/doc/linking.Rmd | 12 bvhar-2.1.0/bvhar/inst/doc/linking.html | 21 bvhar-2.1.0/bvhar/inst/doc/minnesota.R | 6 bvhar-2.1.0/bvhar/inst/doc/minnesota.Rmd | 11 bvhar-2.1.0/bvhar/inst/doc/minnesota.html | 189 +- bvhar-2.1.0/bvhar/inst/doc/shrinkage.R | 22 bvhar-2.1.0/bvhar/inst/doc/shrinkage.Rmd | 65 bvhar-2.1.0/bvhar/inst/doc/shrinkage.html | 273 +- bvhar-2.1.0/bvhar/inst/doc/stochastic-volatility.R |only bvhar-2.1.0/bvhar/inst/doc/stochastic-volatility.Rmd |only bvhar-2.1.0/bvhar/inst/doc/stochastic-volatility.html |only bvhar-2.1.0/bvhar/inst/include/bvharcommon.h | 78 bvhar-2.1.0/bvhar/inst/include/bvhardesign.h | 8 bvhar-2.1.0/bvhar/inst/include/bvhardraw.h | 782 +++++++- bvhar-2.1.0/bvhar/inst/include/bvharinterrupt.h | 2 bvhar-2.1.0/bvhar/inst/include/bvharprogress.h | 16 bvhar-2.1.0/bvhar/inst/include/bvharsim.h | 504 ++++- bvhar-2.1.0/bvhar/inst/include/bvharstructural.h |only bvhar-2.1.0/bvhar/inst/include/commondefs.h |only bvhar-2.1.0/bvhar/inst/include/mcmchs.h | 72 bvhar-2.1.0/bvhar/inst/include/mcmcreg.h |only bvhar-2.1.0/bvhar/inst/include/mcmcssvs.h | 6 bvhar-2.1.0/bvhar/inst/include/mcmcsv.h | 1310 ++++++++++--- bvhar-2.1.0/bvhar/inst/include/minnesota.h | 423 ++++ bvhar-2.1.0/bvhar/inst/include/minnforecaster.h |only bvhar-2.1.0/bvhar/inst/include/minnspillover.h |only bvhar-2.1.0/bvhar/inst/include/ols.h | 104 - bvhar-2.1.0/bvhar/inst/include/olsforecaster.h |only bvhar-2.1.0/bvhar/inst/include/olsspillover.h |only bvhar-2.1.0/bvhar/inst/include/regforecaster.h |only bvhar-2.1.0/bvhar/inst/include/regspillover.h |only bvhar-2.1.0/bvhar/inst/include/svforecaster.h |only bvhar-2.1.0/bvhar/inst/include/svspillover.h |only bvhar-2.1.0/bvhar/man/FPE.Rd | 22 bvhar-2.1.0/bvhar/man/HQ.Rd | 41 bvhar-2.1.0/bvhar/man/VARtoVMA.Rd | 2 bvhar-2.1.0/bvhar/man/VHARtoVMA.Rd | 2 bvhar-2.1.0/bvhar/man/autoplot.bvhardynsp.Rd |only bvhar-2.1.0/bvhar/man/autoplot.bvharirf.Rd | 4 bvhar-2.1.0/bvhar/man/autoplot.bvharsp.Rd | 4 bvhar-2.1.0/bvhar/man/autoplot.normaliw.Rd | 2 bvhar-2.1.0/bvhar/man/autoplot.predbvhar.Rd | 4 bvhar-2.1.0/bvhar/man/autoplot.summary.bvharsp.Rd | 2 bvhar-2.1.0/bvhar/man/autoplot.summary.normaliw.Rd | 4 bvhar-2.1.0/bvhar/man/bound_bvhar.Rd | 5 bvhar-2.1.0/bvhar/man/bvar_flat.Rd | 46 bvhar-2.1.0/bvhar/man/bvar_horseshoe.Rd | 28 bvhar-2.1.0/bvhar/man/bvar_minnesota.Rd | 77 bvhar-2.1.0/bvhar/man/bvar_ssvs.Rd | 38 bvhar-2.1.0/bvhar/man/bvar_sv.Rd | 34 bvhar-2.1.0/bvhar/man/bvhar-package.Rd | 12 bvhar-2.1.0/bvhar/man/bvhar_horseshoe.Rd | 27 bvhar-2.1.0/bvhar/man/bvhar_minnesota.Rd | 79 bvhar-2.1.0/bvhar/man/bvhar_ssvs.Rd | 34 bvhar-2.1.0/bvhar/man/bvhar_sv.Rd | 34 bvhar-2.1.0/bvhar/man/choose_bayes.Rd | 2 bvhar-2.1.0/bvhar/man/choose_bvar.Rd | 9 bvhar-2.1.0/bvhar/man/choose_ssvs.Rd | 10 bvhar-2.1.0/bvhar/man/coef.Rd |only bvhar-2.1.0/bvhar/man/compute_logml.Rd | 4 bvhar-2.1.0/bvhar/man/conf_fdr.Rd | 2 bvhar-2.1.0/bvhar/man/conf_fnr.Rd | 2 bvhar-2.1.0/bvhar/man/conf_prec.Rd | 2 bvhar-2.1.0/bvhar/man/conf_recall.Rd | 2 bvhar-2.1.0/bvhar/man/confusion.Rd | 2 bvhar-2.1.0/bvhar/man/dynamic_spillover.Rd |only bvhar-2.1.0/bvhar/man/financial_history_appendix.Rd | 10 bvhar-2.1.0/bvhar/man/fitted.Rd |only bvhar-2.1.0/bvhar/man/forecast_expand.Rd | 48 bvhar-2.1.0/bvhar/man/forecast_roll.Rd | 54 bvhar-2.1.0/bvhar/man/fromse.Rd | 2 bvhar-2.1.0/bvhar/man/geom_eval.Rd | 2 bvhar-2.1.0/bvhar/man/gg_loss.Rd | 4 bvhar-2.1.0/bvhar/man/init_ssvs.Rd | 15 bvhar-2.1.0/bvhar/man/irf.Rd |only bvhar-2.1.0/bvhar/man/is.stable.Rd | 31 bvhar-2.1.0/bvhar/man/mae.Rd | 2 bvhar-2.1.0/bvhar/man/mape.Rd | 2 bvhar-2.1.0/bvhar/man/mase.Rd | 2 bvhar-2.1.0/bvhar/man/mrae.Rd | 2 bvhar-2.1.0/bvhar/man/mse.Rd | 2 bvhar-2.1.0/bvhar/man/predict.Rd |only bvhar-2.1.0/bvhar/man/relmae.Rd | 2 bvhar-2.1.0/bvhar/man/residuals.Rd |only bvhar-2.1.0/bvhar/man/rmafe.Rd | 2 bvhar-2.1.0/bvhar/man/rmape.Rd | 2 bvhar-2.1.0/bvhar/man/rmase.Rd | 2 bvhar-2.1.0/bvhar/man/rmsfe.Rd | 2 bvhar-2.1.0/bvhar/man/set_bvar.Rd | 9 bvhar-2.1.0/bvhar/man/set_dl.Rd |only bvhar-2.1.0/bvhar/man/set_horseshoe.Rd | 19 bvhar-2.1.0/bvhar/man/set_intercept.Rd | 5 bvhar-2.1.0/bvhar/man/set_lambda.Rd | 9 bvhar-2.1.0/bvhar/man/set_ldlt.Rd |only bvhar-2.1.0/bvhar/man/set_ng.Rd |only bvhar-2.1.0/bvhar/man/set_ssvs.Rd | 59 bvhar-2.1.0/bvhar/man/sim_gig.Rd |only bvhar-2.1.0/bvhar/man/sim_horseshoe_var.Rd | 4 bvhar-2.1.0/bvhar/man/sim_matgaussian.Rd | 4 bvhar-2.1.0/bvhar/man/sim_mncoef.Rd | 3 bvhar-2.1.0/bvhar/man/sim_mniw.Rd | 10 bvhar-2.1.0/bvhar/man/sim_mnormal.Rd | 4 bvhar-2.1.0/bvhar/man/sim_mnvhar_coef.Rd | 3 bvhar-2.1.0/bvhar/man/sim_mvt.Rd | 4 bvhar-2.1.0/bvhar/man/sim_ssvs_var.Rd | 10 bvhar-2.1.0/bvhar/man/sim_var.Rd | 8 bvhar-2.1.0/bvhar/man/sim_vhar.Rd | 8 bvhar-2.1.0/bvhar/man/spillover.Rd |only bvhar-2.1.0/bvhar/man/stableroot.Rd | 29 bvhar-2.1.0/bvhar/man/summary.bvharsp.Rd |only bvhar-2.1.0/bvhar/man/summary.normaliw.Rd | 19 bvhar-2.1.0/bvhar/man/summary.varlse.Rd | 2 bvhar-2.1.0/bvhar/man/summary.vharlse.Rd | 6 bvhar-2.1.0/bvhar/man/var_bayes.Rd |only bvhar-2.1.0/bvhar/man/var_lm.Rd | 106 - bvhar-2.1.0/bvhar/man/vhar_bayes.Rd |only bvhar-2.1.0/bvhar/man/vhar_lm.Rd | 47 bvhar-2.1.0/bvhar/src/Makevars | 4 bvhar-2.1.0/bvhar/src/Makevars.ucrt |only bvhar-2.1.0/bvhar/src/Makevars.win | 4 bvhar-2.1.0/bvhar/src/RcppExports.cpp | 1410 +++++++++++---- bvhar-2.1.0/bvhar/src/bvharsim.cpp | 139 - bvhar-2.1.0/bvhar/src/bvharstructural.cpp |only bvhar-2.1.0/bvhar/src/estimate-bvar.cpp | 352 +++ bvhar-2.1.0/bvhar/src/estimate-hierarchical.cpp | 68 bvhar-2.1.0/bvhar/src/estimate-horseshoe.cpp | 5 bvhar-2.1.0/bvhar/src/estimate-ssvs.cpp | 2 bvhar-2.1.0/bvhar/src/estimate-sur.cpp |only bvhar-2.1.0/bvhar/src/estimate-sv.cpp | 75 bvhar-2.1.0/bvhar/src/estimate-var.cpp | 125 - bvhar-2.1.0/bvhar/src/estimate-vhar.cpp | 130 - bvhar-2.1.0/bvhar/src/forecast-bvar.cpp | 507 ----- bvhar-2.1.0/bvhar/src/forecast-bvhar.cpp | 412 ---- bvhar-2.1.0/bvhar/src/forecast-ldlt.cpp |only bvhar-2.1.0/bvhar/src/forecast-minn.cpp |only bvhar-2.1.0/bvhar/src/forecast-ols.cpp |only bvhar-2.1.0/bvhar/src/forecast-sv.cpp |only bvhar-2.1.0/bvhar/src/simulate-data.cpp | 4 bvhar-2.1.0/bvhar/src/spillover-ldlt.cpp |only bvhar-2.1.0/bvhar/src/spillover-minn.cpp |only bvhar-2.1.0/bvhar/src/spillover-ols.cpp |only bvhar-2.1.0/bvhar/src/spillover-sv.cpp |only bvhar-2.1.0/bvhar/src/tuning-models.cpp | 78 bvhar-2.1.0/bvhar/tests/testthat/test-bvar-flat.R | 2 bvhar-2.1.0/bvhar/tests/testthat/test-bvar-minnesota.R | 6 bvhar-2.1.0/bvhar/tests/testthat/test-bvhar-minnesota.R | 12 bvhar-2.1.0/bvhar/tests/testthat/test-criteria.R | 2 bvhar-2.1.0/bvhar/tests/testthat/test-generate-process.R |only bvhar-2.1.0/bvhar/tests/testthat/test-spillover.R |only bvhar-2.1.0/bvhar/tests/testthat/test-var-bayes.R |only bvhar-2.1.0/bvhar/tests/testthat/test-vhar-bayes.R |only bvhar-2.1.0/bvhar/vignettes/bvhar.Rmd | 32 bvhar-2.1.0/bvhar/vignettes/forecasting.Rmd | 2 bvhar-2.1.0/bvhar/vignettes/linking.Rmd | 12 bvhar-2.1.0/bvhar/vignettes/minnesota.Rmd | 11 bvhar-2.1.0/bvhar/vignettes/shrinkage.Rmd | 65 bvhar-2.1.0/bvhar/vignettes/stochastic-volatility.Rmd |only 256 files changed, 11157 insertions(+), 5283 deletions(-)
Title: Multiblock Data Fusion in Statistics and Machine Learning
Description: Functions and datasets to support Smilde, Næs and Liland (2021, ISBN: 978-1-119-60096-1)
"Multiblock Data Fusion in Statistics and Machine Learning - Applications in the Natural and Life Sciences".
This implements and imports a large collection of methods for multiblock data analysis with common interfaces, result- and plotting
functions, several real data sets and six vignettes covering a range different applications.
Author: Kristian Hovde Liland [aut, cre]
,
Solve Saeboe [ctb],
Stefan Schrunner [rev]
Maintainer: Kristian Hovde Liland <kristian.liland@nmbu.no>
Diff between multiblock versions 0.8.8.1 dated 2024-03-11 and 0.8.8.2 dated 2024-09-16
DESCRIPTION | 10 +- MD5 | 37 +++++---- NAMESPACE | 4 + NEWS | 5 + R/asca.R | 4 - R/asca_plots.R | 5 + R/mbpls_results.R |only R/multiblock_plots.R | 5 + R/popls.R | 2 R/supervised.R | 4 - R/utilities.R | 1 build/vignette.rds |binary inst/doc/vignette_A_data.html | 130 ++++++++++++++++------------------ inst/doc/vignette_B_basic.html | 2 inst/doc/vignette_C_unsupervised.html | 2 inst/doc/vignette_D_asca.html | 2 inst/doc/vignette_E_supervised.html | 64 ++++++++-------- inst/doc/vignette_F_complex.html | 2 man/mvrVal.Rd |only man/popls.Rd | 2 man/predict.mbpls.Rd |only 21 files changed, 149 insertions(+), 132 deletions(-)
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2024-06-07 0.8.2
Title: Tidy Verbs for Fast Data Manipulation
Description: A toolkit of tidy data manipulation verbs with 'data.table' as the backend.
Combining the merits of syntax elegance from 'dplyr' and computing performance from 'data.table',
'tidyfst' intends to provide users with state-of-the-art data manipulation tools with least pain.
This package is an extension of 'data.table'. While enjoying a tidy syntax,
it also wraps combinations of efficient functions to facilitate frequently-used data operations.
Author: Tian-Yuan Huang [aut, cre]
Maintainer: Tian-Yuan Huang <huang.tian-yuan@qq.com>
Diff between tidyfst versions 1.8.0 dated 2024-08-30 and 1.8.1 dated 2024-09-16
DESCRIPTION | 6 +- MD5 | 16 +++-- NAMESPACE | 1 R/bind_rows_dt.R |only R/col_max.R | 58 ++++++++++++++------- inst/doc/benchmark.html | 32 +++++------ inst/doc/chinese_tutorial.html | 16 ++--- inst/doc/english_tutorial.html | 110 +++++++++++++++++++++-------------------- man/bind_rows_dt.Rd |only man/col_max.Rd | 10 ++- 10 files changed, 144 insertions(+), 105 deletions(-)