Title: Probabilistic Supervised Learning for 'mlr3'
Description: Provides extensions for probabilistic supervised
learning for 'mlr3'. This includes extending the regression task to
probabilistic and interval regression, adding a survival task, and
other specialized models, predictions, and measures. mlr3extralearners is available
from <https://github.com/mlr-org/mlr3extralearners>.
Author: Raphael Sonabend [aut, cre] (<https://orcid.org/0000-0001-9225-4654>),
Franz Kiraly [aut],
Michel Lang [aut] (<https://orcid.org/0000-0001-9754-0393>),
Nurul Ain Toha [ctb],
Andreas Bender [ctb] (<https://orcid.org/0000-0001-5628-8611>)
Maintainer: Raphael Sonabend <raphael.sonabend.15@ucl.ac.uk>
Diff between mlr3proba versions 0.2.4 dated 2020-11-11 and 0.2.5 dated 2020-11-18
DESCRIPTION | 9 +- MD5 | 82 +++++++++++++-------------- NAMESPACE | 1 NEWS.md | 11 ++- R/LearnerDensKDE.R | 2 R/LearnerSurvCoxPH.R | 15 ---- R/LearnerSurvKaplan.R | 17 +---- R/LearnerSurvRpart.R | 2 R/MeasureSurvBeggC.R | 2 R/MeasureSurvCalibrationAlpha.R | 2 R/MeasureSurvCalibrationBeta.R | 2 R/MeasureSurvChamblessAUC.R | 2 R/MeasureSurvCindex.R | 2 R/MeasureSurvGonenHellersC.R | 2 R/MeasureSurvGraf.R | 2 R/MeasureSurvGrafSE.R | 2 R/MeasureSurvHarrellC.R | 2 R/MeasureSurvHungAUC.R | 2 R/MeasureSurvIntLogloss.R | 2 R/MeasureSurvIntLoglossSE.R | 2 R/MeasureSurvNagelkR2.R | 2 R/MeasureSurvOQuigleyR2.R | 2 R/MeasureSurvSchmid.R | 2 R/MeasureSurvSongTNR.R | 2 R/MeasureSurvSongTPR.R | 2 R/MeasureSurvUnoAUC.R | 2 R/MeasureSurvUnoC.R | 2 R/MeasureSurvUnoTNR.R | 2 R/MeasureSurvUnoTPR.R | 2 R/MeasureSurvXuR2.R | 2 R/PipeOpCrankCompositor.R | 28 +++++++-- R/PipeOpDistrCompositor.R | 1 R/PipeOpTaskSurvRegr.R | 2 R/bibentries.R | 5 + R/surv_return.R |only build/partial.rdb |binary inst/testthat/helper_autotest.R | 31 ++++++++-- man/dot-surv_return.Rd |only man/mlr_measures_surv.cindex.Rd | 16 +++-- man/mlr_measures_surv.schmid.Rd | 1 man/mlr_pipeops_trafotask_survregr.Rd | 2 tests/testthat/Rplots.pdf |binary tests/testthat/test_pipeop_crankcompositor.R | 2 43 files changed, 158 insertions(+), 113 deletions(-)
Title: Handling Missing Data in Stochastic Block Models
Description: When a network is partially observed (here, NAs in the adjacency matrix rather than 1 or 0
due to missing information between node pairs), it is possible to account for the underlying process
that generates those NAs. 'missSBM' adjusts the popular stochastic block model from network data
sampled under various missing data conditions, as described in Tabouy, Barbillon and Chiquet (2019) <doi:10.1080/01621459.2018.1562934>.
Author: Julien Chiquet [aut, cre] (<https://orcid.org/0000-0002-3629-3429>),
Pierre Barbillon [aut] (<https://orcid.org/0000-0002-7766-7693>),
Timothée Tabouy [aut],
großBM team [ctb]
Maintainer: Julien Chiquet <julien.chiquet@inrae.fr>
Diff between missSBM versions 0.2.1 dated 2019-09-16 and 0.3.0 dated 2020-11-18
missSBM-0.2.1/missSBM/R/SBM-Class.R |only missSBM-0.2.1/missSBM/R/SBM_fit-Class.R |only missSBM-0.2.1/missSBM/R/SBM_fit_covariates-Class.R |only missSBM-0.2.1/missSBM/R/SBM_fit_nocovariate-Class.R |only missSBM-0.2.1/missSBM/R/SBM_sampler-Class.R |only missSBM-0.2.1/missSBM/R/estimate.R |only missSBM-0.2.1/missSBM/R/missSBM_collection-Class.R |only missSBM-0.2.1/missSBM/R/missSBM_fit-Class.R |only missSBM-0.2.1/missSBM/R/networkSampler-Class.R |only missSBM-0.2.1/missSBM/R/networkSampling-Class.R |only missSBM-0.2.1/missSBM/R/networkSampling_fit-Class.R |only missSBM-0.2.1/missSBM/R/prepare_data.R |only missSBM-0.2.1/missSBM/R/sample.R |only missSBM-0.2.1/missSBM/R/sampledNetwork-Class.R |only missSBM-0.2.1/missSBM/R/simulate.R |only missSBM-0.2.1/missSBM/R/utils-pipe.R |only missSBM-0.2.1/missSBM/configure |only missSBM-0.2.1/missSBM/inst/covariates.R |only missSBM-0.2.1/missSBM/man/SBM_fit.Rd |only missSBM-0.2.1/missSBM/man/SBM_sampler.Rd |only missSBM-0.2.1/missSBM/man/estimate.Rd |only missSBM-0.2.1/missSBM/man/prepare_data.Rd |only missSBM-0.2.1/missSBM/man/sample.Rd |only missSBM-0.2.1/missSBM/man/sampledNetwork.Rd |only missSBM-0.2.1/missSBM/man/simulate.Rd |only missSBM-0.2.1/missSBM/tests/testthat/test-SBM-sbm-sampler.R |only missSBM-0.3.0/missSBM/DESCRIPTION | 45 - missSBM-0.3.0/missSBM/MD5 | 161 ++-- missSBM-0.3.0/missSBM/NAMESPACE | 13 missSBM-0.3.0/missSBM/NEWS.md | 26 missSBM-0.3.0/missSBM/R/R6Class-missSBM_collection.R |only missSBM-0.3.0/missSBM/R/R6Class-missSBM_fit.R |only missSBM-0.3.0/missSBM/R/R6Class-networkSampler.R |only missSBM-0.3.0/missSBM/R/R6Class-networkSampling.R |only missSBM-0.3.0/missSBM/R/R6Class-networkSampling_fit.R |only missSBM-0.3.0/missSBM/R/R6Class-partlyObservedNetwork.R |only missSBM-0.3.0/missSBM/R/R6Class-simpleSBM_fit_missSBM.R |only missSBM-0.3.0/missSBM/R/RcppExports.R | 20 missSBM-0.3.0/missSBM/R/defunct.R |only missSBM-0.3.0/missSBM/R/er_network.R | 4 missSBM-0.3.0/missSBM/R/estimateMissSBM.R |only missSBM-0.3.0/missSBM/R/frenchblog2007.R | 2 missSBM-0.3.0/missSBM/R/missSBM-package.R | 29 missSBM-0.3.0/missSBM/R/observeNetwork.R |only missSBM-0.3.0/missSBM/R/utils_initialization.R | 40 - missSBM-0.3.0/missSBM/R/utils_missSBM.R | 52 - missSBM-0.3.0/missSBM/R/war.R | 12 missSBM-0.3.0/missSBM/README.md | 21 missSBM-0.3.0/missSBM/build/partial.rdb |only missSBM-0.3.0/missSBM/build/vignette.rds |binary missSBM-0.3.0/missSBM/data/war.rda |binary missSBM-0.3.0/missSBM/inst/WORDLIST |only missSBM-0.3.0/missSBM/inst/doc/case_study_war_networks.R | 138 ++- missSBM-0.3.0/missSBM/inst/doc/case_study_war_networks.Rmd | 113 +-- missSBM-0.3.0/missSBM/inst/doc/case_study_war_networks.html | 360 ++++++---- missSBM-0.3.0/missSBM/inst/sticker |only missSBM-0.3.0/missSBM/man/SimpleSBM_fit_missSBM.Rd |only missSBM-0.3.0/missSBM/man/blockDyadSampler.Rd |only missSBM-0.3.0/missSBM/man/blockDyadSampling_fit.Rd |only missSBM-0.3.0/missSBM/man/blockNodeSampler.Rd |only missSBM-0.3.0/missSBM/man/blockSampling_fit.Rd |only missSBM-0.3.0/missSBM/man/coef.missSBM_fit.Rd |only missSBM-0.3.0/missSBM/man/covarDyadSampling_fit.Rd |only missSBM-0.3.0/missSBM/man/covarNodeSampling_fit.Rd |only missSBM-0.3.0/missSBM/man/degreeSampler.Rd |only missSBM-0.3.0/missSBM/man/degreeSampling_fit.Rd |only missSBM-0.3.0/missSBM/man/doubleStandardSampler.Rd |only missSBM-0.3.0/missSBM/man/doubleStandardSampling_fit.Rd |only missSBM-0.3.0/missSBM/man/dyadSampler.Rd | 70 + missSBM-0.3.0/missSBM/man/dyadSampling_fit.Rd |only missSBM-0.3.0/missSBM/man/er_network.Rd | 8 missSBM-0.3.0/missSBM/man/estimateMissSBM.Rd |only missSBM-0.3.0/missSBM/man/fitted.missSBM_fit.Rd |only missSBM-0.3.0/missSBM/man/frenchblog2007.Rd | 8 missSBM-0.3.0/missSBM/man/missSBM-defunct.Rd |only missSBM-0.3.0/missSBM/man/missSBM.Rd | 26 missSBM-0.3.0/missSBM/man/missSBM_collection.Rd | 165 ++++ missSBM-0.3.0/missSBM/man/missSBM_fit.Rd | 146 +++- missSBM-0.3.0/missSBM/man/networkSampler.Rd | 94 ++ missSBM-0.3.0/missSBM/man/networkSampling.Rd | 103 ++ missSBM-0.3.0/missSBM/man/networkSamplingDyads_fit.Rd | 120 +++ missSBM-0.3.0/missSBM/man/networkSamplingNodes_fit.Rd | 120 +++ missSBM-0.3.0/missSBM/man/nodeSampler.Rd |only missSBM-0.3.0/missSBM/man/nodeSampling_fit.Rd |only missSBM-0.3.0/missSBM/man/observeNetwork.Rd |only missSBM-0.3.0/missSBM/man/partlyObservedNetwork.Rd |only missSBM-0.3.0/missSBM/man/pipe.Rd | 2 missSBM-0.3.0/missSBM/man/plot.missSBM_fit.Rd |only missSBM-0.3.0/missSBM/man/predicted.missSBM_fit.Rd |only missSBM-0.3.0/missSBM/man/simpleDyadSampler.Rd |only missSBM-0.3.0/missSBM/man/simpleNodeSampler.Rd |only missSBM-0.3.0/missSBM/man/smooth.Rd | 26 missSBM-0.3.0/missSBM/man/snowballSampler.Rd |only missSBM-0.3.0/missSBM/man/summary.missSBM_fit.Rd |only missSBM-0.3.0/missSBM/man/war.Rd | 18 missSBM-0.3.0/missSBM/src/RcppExports.cpp | 52 - missSBM-0.3.0/missSBM/src/SBM_covariates.cpp | 21 missSBM-0.3.0/missSBM/src/SBM_nocovariates.cpp | 6 missSBM-0.3.0/missSBM/src/roundProduct.cpp |only missSBM-0.3.0/missSBM/tests/spelling.R |only missSBM-0.3.0/missSBM/tests/testthat/test-INIT-clustering.R | 82 -- missSBM-0.3.0/missSBM/tests/testthat/test-MISSSBM-fit-with-covariates.R | 75 +- missSBM-0.3.0/missSBM/tests/testthat/test-MISSSBM-fit-without-covariate.R | 28 missSBM-0.3.0/missSBM/tests/testthat/test-MISSSBM_collection.R | 21 missSBM-0.3.0/missSBM/tests/testthat/test-SAMPLING-fit-with-covariates.R | 49 - missSBM-0.3.0/missSBM/tests/testthat/test-SAMPLING-fit-without-covariate.R | 26 missSBM-0.3.0/missSBM/tests/testthat/test-SAMPLING-sampler.R | 29 missSBM-0.3.0/missSBM/tests/testthat/test-SBM-sbm-fit-with-covariates.R | 131 +-- missSBM-0.3.0/missSBM/tests/testthat/test-SBM-sbm-fit-without-covariate.R | 83 +- missSBM-0.3.0/missSBM/tests/testthat/test-TOP-LEVEL-consistency.R | 50 - missSBM-0.3.0/missSBM/tests/testthat/test-TOP-LEVEL-estimate.R | 41 - missSBM-0.3.0/missSBM/tests/testthat/test-TOP-LEVEL-sampleSBM.R | 138 ++- missSBM-0.3.0/missSBM/tests/testthat/test-consistency-on-fully-observed-network.R | 37 - missSBM-0.3.0/missSBM/tests/testthat/utils_test.R | 4 missSBM-0.3.0/missSBM/vignettes/case_study_war_networks.Rmd | 113 +-- 115 files changed, 1872 insertions(+), 1056 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 (with contributions from Christopher N. Lawrence, Dave Atkins, Jason W. Morgan, Achim Zeileis)
Maintainer: Martin Elff <memisc@elff.eu>
Diff between memisc versions 0.99.27.2 dated 2020-11-02 and 0.99.27.3 dated 2020-11-18
DESCRIPTION | 8 ++++---- MD5 | 24 ++++++++++++------------ R/mtable.R | 10 +++++++++- inst/ChangeLog | 7 ++++++- inst/doc/anes48.Rmd | 4 ++++ inst/doc/anes48.html | 2 +- inst/doc/ftable-matrix.Rmd | 4 ++++ inst/doc/items.Rmd | 4 ++++ inst/doc/mtable-html.Rmd | 4 ++++ vignettes/anes48.Rmd | 4 ++++ vignettes/ftable-matrix.Rmd | 4 ++++ vignettes/items.Rmd | 4 ++++ vignettes/mtable-html.Rmd | 4 ++++ 13 files changed, 64 insertions(+), 19 deletions(-)
Title: Automated Spatial Prediction using Ensemble Machine Learning
Description: Functions and tools for spatial interpolation and/or prediction of environmental variables (points to grids)
based on using Ensemble Machine Learning with geographical distances. Package also provides access to Global
Environmental Layers (<https://www.OpenLandMap.org>) produced by the OpenGeoHub.org foundation and collaborators. Some functions have been migrated and adopted from the
Global Soil Information Facilities package.
Author: Tomislav Hengl [aut, cre]
Maintainer: Tomislav Hengl <tom.hengl@opengeohub.org>
Diff between landmap versions 0.0.5 dated 2020-11-11 and 0.0.6 dated 2020-11-18
DESCRIPTION | 17 ++++++++--------- MD5 | 14 ++++++++------ NAMESPACE | 1 + R/AAAA.R | 4 ++++ R/train.spLearner.R | 22 +++++++++++++--------- R/tune.spLearner.R |only man/train.spLearner-methods.Rd | 6 +++--- man/train.spLearner.matrix.Rd | 2 +- man/tune.spLearner-methods.Rd |only 9 files changed, 38 insertions(+), 28 deletions(-)
Title: Infinite Mixtures of Infinite Factor Analysers and Related
Models
Description: Provides flexible Bayesian estimation of Infinite Mixtures of Infinite Factor Analysers and related models, for nonparametrically clustering high-dimensional data, introduced by Murphy et al. (2020) <doi:10.1214/19-BA1179>. The IMIFA model conducts Bayesian nonparametric model-based clustering with factor analytic covariance structures without recourse to model selection criteria to choose the number of clusters or cluster-specific latent factors, mostly via efficient Gibbs updates. Model-specific diagnostic tools are also provided, as well as many options for plotting results, conducting posterior inference on parameters of interest, posterior predictive checking, and quantifying uncertainty.
Author: Keefe Murphy [aut, cre] (<https://orcid.org/0000-0002-7709-3159>),
Cinzia Viroli [ctb],
Isobel Claire Gormley [ctb]
Maintainer: Keefe Murphy <keefe.murphy@mu.ie>
Diff between IMIFA versions 2.1.3 dated 2020-05-12 and 2.1.4 dated 2020-11-18
DESCRIPTION | 22 - MD5 | 86 +++---- NAMESPACE | 2 R/Diagnostics.R | 46 ++-- R/FullConditionals.R | 244 +++++++++++---------- R/IMIFA.R | 22 + R/MainFunction.R | 64 ++--- R/PlottingFunctions.R | 121 +++++----- R/SimulateData.R | 20 + README.md | 8 build/vignette.rds |binary inst/CITATION | 13 - inst/NEWS.md | 13 + inst/doc/IMIFA.Rmd | 10 inst/doc/IMIFA.html | 518 +++++++++++++++++++++++++++++++++++----------- man/G_moments.Rd | 10 man/G_priorDensity.Rd | 14 - man/IMIFA-package.Rd | 124 +++++------ man/MGP_check.Rd | 6 man/PGMM_dfree.Rd | 2 man/Procrustes.Rd | 2 man/Zsimilarity.Rd | 4 man/bnpControl.Rd | 30 +- man/get_IMIFA_results.Rd | 36 +-- man/gumbel_max.Rd | 10 man/heat_legend.Rd | 4 man/is.posi_def.Rd | 8 man/mat2cols.Rd | 12 - man/mcmc_IMIFA.Rd | 50 ++-- man/mgpControl.Rd | 18 - man/mixfaControl.Rd | 34 +-- man/pareto_scale.Rd | 4 man/plot.Results_IMIFA.Rd | 35 +-- man/plot_cols.Rd | 2 man/post_conf_mat.Rd | 2 man/psi_hyper.Rd | 4 man/rDirichlet.Rd | 5 man/scores_MAP.Rd | 10 man/shift_GA.Rd | 6 man/show_IMIFA_digit.Rd | 4 man/show_digit.Rd | 2 man/sim_IMIFA.Rd | 18 - man/storeControl.Rd | 6 vignettes/IMIFA.Rmd | 10 44 files changed, 1004 insertions(+), 657 deletions(-)
Title: Formal Concept Analysis
Description: Provides tools to perform fuzzy formal concept
analysis, presented in Wille (1982) <doi:10.1007/978-3-642-01815-2_23>
and in Ganter and Obiedkov (2016) <doi:10.1007/978-3-662-49291-8>. It
provides functions to load and save a formal context, extract its
concept lattice and implications. In addition, one can use the
implications to compute semantic closures of fuzzy sets and, thus,
build recommendation systems.
Author: Domingo Lopez Rodriguez [aut, cre]
(<https://orcid.org/0000-0002-0172-1585>),
Angel Mora [aut],
Jesus Dominguez [aut],
Ana Villalon [aut],
Ian Johnson [ctb]
Maintainer: Domingo Lopez Rodriguez <dominlopez@uma.es>
Diff between fcaR versions 1.0.4 dated 2020-07-07 and 1.0.6 dated 2020-11-18
DESCRIPTION | 68 ++- MD5 | 110 +++--- NAMESPACE | 32 - NEWS.md | 16 R/RcppExports.R | 36 +- R/Rsimplification.R |only R/add_col.R | 4 R/as_SparseSet.R | 2 R/batch_apply.R | 6 R/clarify_matrix.R | 2 R/clean.R | 2 R/composition.R | 6 R/compute_closure.R | 46 +- R/concept_lattice.R | 62 +-- R/diff2.R |only R/equivalences_registry.R |only R/export_to_latex.R | 22 - R/export_to_string.R | 6 R/extract_col.R | 24 - R/formal_context.R | 149 ++++---- R/generalization.R | 14 R/imp_to_basis.R | 26 - R/implication_set.R | 92 ++--- R/intersection.R | 7 R/meet_join.R | 12 R/process_batch.R | 52 +- R/reduce_transitivity.R | 3 R/reduction.R | 2 R/reorder.R |only R/simplification.R | 95 ++--- R/sparse_concept.R | 2 R/sparse_set.R | 22 - R/sparse_set_operations.R | 26 - R/subsets.R | 19 - R/to_fraction.R | 1 R/zzz.R |only README.md | 198 ----------- build/vignette.rds |binary inst/doc/arules.html | 177 ++++++--- inst/doc/concept_lattice.html | 569 +++++++++++++++++--------------- inst/doc/extending_equivalence.R |only inst/doc/extending_equivalence.Rmd |only inst/doc/extending_equivalence.html |only inst/doc/implications.Rmd | 2 inst/doc/implications.html | 295 +++++++++------- man/ImplicationSet.Rd | 2 man/equivalencesRegistry.Rd |only src/RcppExports.cpp | 129 +++++-- src/aux_functions.cpp |only src/aux_functions.h |only src/implication_tree.cpp | 4 src/nextclosure.cpp | 603 +++++++++++----------------------- src/set_operations_galois.cpp |only src/set_operations_galois.h |only src/vector_operations.cpp | 380 ++++++++++++++++++++- src/vector_operations.h | 16 tests/testthat/Rplots.pdf |binary tests/testthat/test-concept_lattice.R | 1 tests/testthat/test-formal_context.R | 11 tests/testthat/test-implication_set.R | 10 tests/testthat/test-sparse_set.R | 2 vignettes/extending_equivalence.Rmd |only vignettes/implications.Rmd | 2 63 files changed, 1810 insertions(+), 1557 deletions(-)
Title: Interface to Data from the SAFE Project
Description: The SAFE Project (<https://www.safeproject.net/>) is a large
scale ecological experiment in Malaysian Borneo that explores the impact
of habitat fragmentation and conversion on ecosystem function and services.
Data collected at the SAFE Project is made available under a common format
through the Zenodo data repository and this package makes it easy to
discover and load that data into R.
Author: Andy Aldersley [aut],
David Orme [aut, cre] (<https://orcid.org/0000-0002-7005-1394>)
Maintainer: David Orme <d.orme@imperial.ac.uk>
Diff between safedata versions 1.0.8 dated 2020-10-09 and 1.0.9 dated 2020-11-18
DESCRIPTION | 8 MD5 | 27 NEWS | 13 R/files.R | 2 R/index.R | 222 +-- R/load_safe.R | 48 R/metadata.R | 6 R/safedata.R | 4 README.md | 2 inst/doc/overview.html | 498 ++++--- inst/doc/using_safe_data.html | 1353 ++++++++------------- inst/safedata_example_dir/safedata_example_dir.zip |binary man/download_safe_files.Rd | 3 man/get_index.Rd |only man/load_index.Rd | 10 15 files changed, 1037 insertions(+), 1159 deletions(-)
Title: Compositional Data Analysis
Description: Methods for analysis of compositional data including robust
methods (<doi:10.1007/978-3-319-96422-5>), imputation of missing values (<doi:10.1016/j.csda.2009.11.023>), methods to replace
rounded zeros (<doi:10.1080/02664763.2017.1410524>, <doi:10.1016/j.chemolab.2016.04.011>, <doi:10.1016/j.csda.2012.02.012>),
count zeros (<doi:10.1177/1471082X14535524>),
methods to deal with essential zeros (<doi:10.1080/02664763.2016.1182135>), (robust) outlier
detection for compositional data, (robust) principal component analysis for
compositional data, (robust) factor analysis for compositional data, (robust)
discriminant analysis for compositional data (Fisher rule), robust regression
with compositional predictors, functional data analysis (<doi:10.1016/j.csda.2015.07.007>) and p-splines (<doi:10.1016/j.csda.2015.07.007>),
contingency (<doi:10.1080/03610926.2013.824980>)
and compositional tables (<doi:10.1111/sjos.12326>, <doi:10.1111/sjos.12223>, <doi:10.1080/02664763.2013.856871>)
and (robust) Anderson-Darling normality tests for
compositional data as well as popular log-ratio transformations (addLR, cenLR,
isomLR, and their inverse transformations). In addition, visualisation and
diagnostic tools are implemented as well as high and low-level plot functions
for the ternary diagram.
Author: Matthias Templ [aut, cre] (<https://orcid.org/0000-0002-8638-5276>),
Karel Hron [aut] (<https://orcid.org/0000-0002-1847-6598>),
Peter Filzmoser [aut] (<https://orcid.org/0000-0002-8014-4682>),
Kamila Facevicova [ctb],
Petra Kynclova [ctb],
Jan Walach [ctb],
Veronika Pintar [ctb],
Jiajia Chen [ctb],
Dominika Miksova [ctb],
Bernhard Meindl [ctb],
Alessandra Menafoglio [ctb] (<https://orcid.org/0000-0003-0682-6412>),
Alessia Di Blasi [ctb],
Federico Pavone [ctb],
Gianluca Zeni [ctb]
Maintainer: Matthias Templ <matthias.templ@gmail.com>
Diff between robCompositions versions 2.2.1 dated 2020-02-11 and 2.3.0 dated 2020-11-18
DESCRIPTION | 18 +- MD5 | 216 +++++++++++++++++----------------- NAMESPACE | 14 ++ NEWS | 10 + R/CompositionalSpline.R |only R/Transformations.R |only R/ZBsplineBasis.R |only R/clustCoDa.R | 4 R/dataSets.R | 8 - R/outCoDa.R | 14 +- R/pcaCoDa.R | 25 +++ build/vignette.rds |binary data/GDPsatis.rda |binary data/ageCatWorld.rda |binary data/alcohol.rda |binary data/alcoholreg.rda |binary data/arcticLake.rda |binary data/cancer.rda |binary data/cancerMN.rda |binary data/chorizonDL.rda |binary data/coffee.rda |binary data/economy.rda |binary data/educFM.rda |binary data/election.rda |binary data/electionATbp.rda |binary data/employment.rda |binary data/employment2.rda |binary data/employment_df.rda |binary data/expenditures.rda |binary data/expendituresEU.rda |binary data/gemas.rda |binary data/gjovik.rda |binary data/govexp.rda |binary data/haplogroups.rda |binary data/instw.rda |binary data/isic32.rda |binary data/laborForce.rda |binary data/lifeExpGdp.rda |binary data/machineOperators.rda |binary data/manu_abs.rda |binary data/mcad.rda |binary data/mortality.rda |binary data/mortality_tab.rda |binary data/nutrients_branded.rda |binary data/payments.rda |binary data/phd.rda |binary data/phd_totals.rda |binary data/precipitation.rda |binary data/production.rda |binary data/rcodes.rda |binary data/skyeLavas.rda |binary data/socExp.rda |binary data/teachingStuff.rda |binary data/trondelagC.rda |binary data/trondelagO.rda |binary data/unemployed.rda |binary inst/doc/imputation.pdf |binary inst/doc/robCompositions-overview.pdf |binary man/GDPsatis.Rd | 4 man/ZBsplineBasis.Rd |only man/ageCatWorld.Rd | 4 man/alcohol.Rd | 4 man/alcoholreg.Rd | 4 man/arcticLake.Rd | 4 man/cancer.Rd | 4 man/cancerMN.Rd | 4 man/chorizonDL.Rd | 6 man/coffee.Rd | 4 man/compositionalSpline.Rd |only man/cubeCoord.Rd | 2 man/economy.Rd | 4 man/educFM.Rd | 4 man/election.Rd | 4 man/electionATbp.Rd | 4 man/employment.Rd | 4 man/employment2.Rd | 4 man/employment_df.Rd | 4 man/expenditures.Rd | 4 man/expendituresEU.Rd | 6 man/fcenLR.Rd |only man/fcenLRinv.Rd |only man/fcenLRp.Rd |only man/fcenLRu.Rd |only man/gemas.Rd | 4 man/gjovik.Rd | 6 man/govexp.Rd | 6 man/haplogroups.Rd | 8 - man/instw.Rd | 4 man/isic32.Rd | 4 man/laborForce.Rd | 4 man/lifeExpGdp.Rd | 4 man/machineOperators.Rd | 4 man/manu_abs.Rd | 4 man/mcad.Rd | 4 man/mortality.Rd | 4 man/mortality_tab.Rd | 4 man/nutrients.Rd | 9 - man/nutrients_branded.Rd | 9 - man/outCoDa.Rd | 7 - man/payments.Rd | 4 man/pcaCoDa.Rd | 12 + man/phd.Rd | 4 man/phd_totals.Rd | 4 man/precipitation.Rd | 4 man/production.Rd | 4 man/rcodes.Rd | 4 man/skyeLavas.Rd | 4 man/socExp.Rd | 4 man/tabCoord.Rd | 6 man/teachingStuff.Rd | 6 man/trapzc.Rd |only man/trondelagC.Rd | 4 man/trondelagO.Rd | 4 man/unemployed.Rd | 6 114 files changed, 343 insertions(+), 199 deletions(-)
More information about robCompositions at CRAN
Permanent link
Title: Export or Graph and Tables to 'Microsoft' Office and Import
Figures and Tables
Description: Provides wrap functions to export and import graphics and
data frames in R to 'microsoft' office. And This package also
provide write out figures with lots of different formats.
Since people may work on the platform without GUI support, the package
also provide function to easily write out figures
to lots of different type of formats. Now this package provide function
to extract colors from all types of figures and pdf files.
Author: Kai Guo [aut, cre]
Maintainer: Kai Guo <guokai8@gmail.com>
Diff between eoffice versions 0.2.0 dated 2020-10-22 and 0.2.1 dated 2020-11-18
DESCRIPTION | 6 +++--- MD5 | 10 +++++----- R/toffice.R | 8 ++++---- README.md | 1 - build/vignette.rds |binary inst/doc/eoffice.html | 4 ++-- 6 files changed, 14 insertions(+), 15 deletions(-)
Title: Beautiful Colour Maps for Oceanography
Description: Perceptually uniform palettes for commonly used
variables in oceanography as functions taking an integer
and producing character vectors of colours.
See Thyng, K.M., Greene, C.A., Hetland, R.D., Zimmerle, H.M.
and S.F. DiMarco (2016) <doi:10.5670/oceanog.2016.66> for
the guidelines adhered to when creating the palettes.
Author: Kristen Thyng [aut],
Clark Richards [ctb],
Ilja Kocken [ctb],
Ivan Krylov [cre]
Maintainer: Ivan Krylov <krylov.r00t@gmail.com>
Diff between cmocean versions 0.2 dated 2019-05-06 and 0.3-1 dated 2020-11-18
cmocean-0.2/cmocean/NEWS |only cmocean-0.3-1/cmocean/DESCRIPTION | 16 - cmocean-0.3-1/cmocean/MD5 | 31 +- cmocean-0.3-1/cmocean/NAMESPACE | 3 cmocean-0.3-1/cmocean/R/cmocean.R | 28 +- cmocean-0.3-1/cmocean/R/ggplot2.R |only cmocean-0.3-1/cmocean/R/sysdata.rda |binary cmocean-0.3-1/cmocean/README.md | 2 cmocean-0.3-1/cmocean/build/partial.rdb |binary cmocean-0.3-1/cmocean/build/vignette.rds |binary cmocean-0.3-1/cmocean/inst/CITATION |only cmocean-0.3-1/cmocean/inst/NEWS.Rd |only cmocean-0.3-1/cmocean/inst/doc/cmocean.R | 10 cmocean-0.3-1/cmocean/inst/doc/cmocean.Rmd | 6 cmocean-0.3-1/cmocean/inst/doc/cmocean.html | 371 ++++++++++++++++++++++----- cmocean-0.3-1/cmocean/man/cmocean-package.Rd | 26 - cmocean-0.3-1/cmocean/man/cmocean.Rd | 44 ++- cmocean-0.3-1/cmocean/man/ggplot2.Rd |only cmocean-0.3-1/cmocean/vignettes/cmocean.Rmd | 6 19 files changed, 412 insertions(+), 131 deletions(-)
Title: Model Temporal Trends
Description: Provides a coherent interface to multiple modelling tools for
fitting trends along with a standardised approach for generating confidence
and prediction intervals.
Author: Dirk Schumacher [aut],
Thibaut Jombart [aut],
Tim Taylor [ctb, cre] (<https://orcid.org/0000-0002-8587-7113>)
Maintainer: Tim Taylor <tim.taylor@hiddenelephants.co.uk>
Diff between trending versions 0.0.1.0 dated 2020-10-19 and 0.0.2 dated 2020-11-18
trending-0.0.1.0/trending/R/intervals.R |only trending-0.0.2/trending/DESCRIPTION | 12 trending-0.0.2/trending/MD5 | 38 - trending-0.0.2/trending/NAMESPACE | 15 trending-0.0.2/trending/NEWS.md |only trending-0.0.2/trending/R/add_confidence_interval.R |only trending-0.0.2/trending/R/add_prediction_interval.R |only trending-0.0.2/trending/R/dplyr.R |only trending-0.0.2/trending/R/fit.r | 62 +- trending-0.0.2/trending/R/model-interface.R | 33 + trending-0.0.2/trending/R/predict.R | 40 - trending-0.0.2/trending/R/trending_model_fit_accessors.R | 15 trending-0.0.2/trending/R/utils.R | 36 - trending-0.0.2/trending/R/zzz.r |only trending-0.0.2/trending/README.md | 13 trending-0.0.2/trending/build/vignette.rds |binary trending-0.0.2/trending/inst/doc/Introduction.R | 19 trending-0.0.2/trending/inst/doc/Introduction.Rmd | 37 + trending-0.0.2/trending/inst/doc/Introduction.html | 225 +++------- trending-0.0.2/trending/inst/doc/prediction_intervals.html | 185 +++----- trending-0.0.2/trending/man/trending_model_fit_accessors.Rd | 6 trending-0.0.2/trending/tests/testthat/test-model_interface.R | 16 trending-0.0.2/trending/vignettes/Introduction.Rmd | 37 + 23 files changed, 400 insertions(+), 389 deletions(-)
Title: Causal Inference and Prediction in Cohort-Based Analyses
Description: We propose numerous functions for cohort-based analyses, either for prediction or causal inference. For causal inference, it includes Inverse Probability Weighting and G-computation for marginal estimation of an exposure effect when confounders are expected. We deal with binary outcomes, times-to-events (Le Borgne, 2016, <doi:10.1002/sim.6777>), competing events (Trebern-Launay, 2018, <doi: 10.1007/s10654-017-0322-3>), and multi-state data (Gillaizeau, 2018, <doi: 10.1002/sim.7550>). For multistate data, semi-Markov model with interval censoring (Foucher, 2008, <doi: 10.1177/0962280208093889>) may be considered and we propose the possibility to consider the excess of mortality related to the disease compared to reference lifetime tables (Gillaizeau, 2017, <doi: 10.1177/0962280215586456>). For predictive studies, we propose a set of functions to estimate time-dependent receiver operating characteristic (ROC) curves with the possible consideration of right-censoring times-to-events or the presence of confounders (Le Borgne, 2018, <doi: 10.1177/0962280217702416>). Finally, several functions are available to assess time-dependent ROC curves (Combescure, 2017, <doi: 10.1177/0962280212464542>) or survival curves (Combescure, 2014, <doi: 10.1002/sim.6111>) from aggregated data.
Author: Yohann Foucher [aut, cre] (<https://orcid.org/0000-0003-0330-7457>),
Florent Le Borgne [aut],
Etienne Dantan [aut],
Florence Gillaizeau [aut],
Arthur Chatton [aut],
Christophe Combescure [aut]
Maintainer: Yohann Foucher <Yohann.Foucher@univ-nantes.fr>
Diff between RISCA versions 0.8.2 dated 2020-04-04 and 0.9 dated 2020-11-18
RISCA-0.8.2/RISCA/R/lines.roc.R |only RISCA-0.8.2/RISCA/R/plot.roc.R |only RISCA-0.8.2/RISCA/R/plot.survival.R |only RISCA-0.8.2/RISCA/man/lines.roc.Rd |only RISCA-0.8.2/RISCA/man/plot.roc.Rd |only RISCA-0.8.2/RISCA/man/plot.survival.Rd |only RISCA-0.9/RISCA/DESCRIPTION | 9 RISCA-0.9/RISCA/MD5 | 66 - RISCA-0.9/RISCA/NAMESPACE | 107 +- RISCA-0.9/RISCA/R/gc.logistic.R | 446 +++++----- RISCA-0.9/RISCA/R/gc.sl.binary.R | 1409 ++++++++++++++++---------------- RISCA-0.9/RISCA/R/gc.survival.R | 701 ++++++++------- RISCA-0.9/RISCA/R/ipw.log.rank.R | 130 +- RISCA-0.9/RISCA/R/ipw.survival.R | 60 - RISCA-0.9/RISCA/R/lines.rocrisca.R |only RISCA-0.9/RISCA/R/plot.rocrisca.R |only RISCA-0.9/RISCA/R/plot.survrisca.R |only RISCA-0.9/RISCA/R/roc.binary.R | 200 ++-- RISCA-0.9/RISCA/R/roc.net.R | 323 +++---- RISCA-0.9/RISCA/data/dataCSL.rda |binary RISCA-0.9/RISCA/data/dataDIVAT1.rda |binary RISCA-0.9/RISCA/data/dataDIVAT2.rda |binary RISCA-0.9/RISCA/data/dataDIVAT3.rda |binary RISCA-0.9/RISCA/data/dataDIVAT4.rda |binary RISCA-0.9/RISCA/data/dataDIVAT5.rda |binary RISCA-0.9/RISCA/data/dataHepatology.rda |binary RISCA-0.9/RISCA/data/dataKTFS.rda |binary RISCA-0.9/RISCA/data/dataKi67.rda |binary RISCA-0.9/RISCA/data/datalist | 24 RISCA-0.9/RISCA/data/fr.ratetable.rda |binary RISCA-0.9/RISCA/data/rein.ratetable.rda |binary RISCA-0.9/RISCA/data/usa.ratetable.rda |binary RISCA-0.9/RISCA/man/gc.sl.binary.Rd | 8 RISCA-0.9/RISCA/man/ipw.survival.Rd | 102 +- RISCA-0.9/RISCA/man/lines.rocrisca.Rd |only RISCA-0.9/RISCA/man/plot.rocrisca.Rd |only RISCA-0.9/RISCA/man/plot.survrisca.Rd |only RISCA-0.9/RISCA/man/roc.binary.Rd | 194 ++-- RISCA-0.9/RISCA/man/roc.net.Rd | 213 ++-- RISCA-0.9/RISCA/man/roc.time.Rd | 2 40 files changed, 2006 insertions(+), 1988 deletions(-)
Title: Sensitivity Analyses for Unmeasured Confounding and Other Biases
in Observational Studies and Meta-Analyses
Description: Conducts sensitivity analyses for unmeasured confounding,selection bias, and measurement error (individually or in combination) in individual studies. Also conducts sensitivity analyses for unmeasured confounding in meta-analyses.
Author: Maya B. Mathur [cre, aut],
Louisa H. Smith [aut],
Peng Ding [aut],
Tyler J. VanderWeele [aut]
Maintainer: Maya B. Mathur <mmathur@stanford.edu>
Diff between EValue versions 3.0.0 dated 2020-06-16 and 4.1.0 dated 2020-11-18
EValue-3.0.0/EValue/man/sens_table.Rd |only EValue-3.0.0/EValue/man/stronger_than.Rd |only EValue-4.1.0/EValue/DESCRIPTION | 18 EValue-4.1.0/EValue/MD5 | 49 EValue-4.1.0/EValue/NAMESPACE | 8 EValue-4.1.0/EValue/R/meta-analysis.R | 1539 +++++++++++---- EValue-4.1.0/EValue/build/vignette.rds |binary EValue-4.1.0/EValue/data/soyMeta.RData |only EValue-4.1.0/EValue/data/toyMeta.RData |only EValue-4.1.0/EValue/inst/doc/meta-analysis.R | 78 EValue-4.1.0/EValue/inst/doc/meta-analysis.Rmd | 109 - EValue-4.1.0/EValue/inst/doc/meta-analysis.html | 139 + EValue-4.1.0/EValue/inst/doc/multiple-bias-examples.R | 20 EValue-4.1.0/EValue/inst/doc/multiple-bias-examples.html | 52 EValue-4.1.0/EValue/inst/doc/multiple-bias.R | 30 EValue-4.1.0/EValue/inst/doc/multiple-bias.html | 96 EValue-4.1.0/EValue/inst/doc/selection-bias.R | 4 EValue-4.1.0/EValue/inst/doc/selection-bias.html | 35 EValue-4.1.0/EValue/inst/doc/unmeasured-confounding.R | 16 EValue-4.1.0/EValue/inst/doc/unmeasured-confounding.Rmd | 8 EValue-4.1.0/EValue/inst/doc/unmeasured-confounding.html | 55 EValue-4.1.0/EValue/man/confounded_meta.Rd | 212 +- EValue-4.1.0/EValue/man/sens_plot.Rd | 192 + EValue-4.1.0/EValue/man/soyMeta.Rd |only EValue-4.1.0/EValue/man/toyMeta.Rd |only EValue-4.1.0/EValue/tests/helper_testthat.R |only EValue-4.1.0/EValue/tests/testthat/testthat.R | 989 ++++++++- EValue-4.1.0/EValue/vignettes/meta-analysis.Rmd | 109 - EValue-4.1.0/EValue/vignettes/unmeasured-confounding.Rmd | 8 29 files changed, 2954 insertions(+), 812 deletions(-)
Title: Relational Data Models
Description: Provides tools for working with multiple related
tables, stored as data frames or in a relational database. Multiple
tables (data and metadata) are stored in a compound object, which can
then be manipulated with a pipe-friendly syntax.
Author: Tobias Schieferdecker [aut],
Kirill Müller [aut, cre] (<https://orcid.org/0000-0002-1416-3412>),
Darko Bergant [aut],
Katharina Brunner [ctb],
James Wondrasek [ctb],
energie360° AG [fnd],
cynkra GmbH [fnd, cph]
Maintainer: Kirill Müller <krlmlr+r@mailbox.org>
Diff between dm versions 0.1.7 dated 2020-09-02 and 0.1.9 dated 2020-11-18
dm-0.1.7/dm/tests/testthat/helper-rstudio.R |only dm-0.1.9/dm/DESCRIPTION | 13 dm-0.1.9/dm/MD5 | 144 +- dm-0.1.9/dm/NAMESPACE | 1 dm-0.1.9/dm/NEWS.md | 8 dm-0.1.9/dm/R/add-tbl.R | 48 dm-0.1.9/dm/R/db-interface.R | 2 dm-0.1.9/dm/R/dm.R | 14 dm-0.1.9/dm/R/error-helpers.R | 2 dm-0.1.9/dm/R/financial-db-con.R |only dm-0.1.9/dm/R/financial.R | 9 dm-0.1.9/dm/R/flatten.R | 2 dm-0.1.9/dm/R/foreign-keys.R | 2 dm-0.1.9/dm/R/key-helpers.R | 3 dm-0.1.9/dm/R/learn.R | 2 dm-0.1.9/dm/R/table-surgery.R | 3 dm-0.1.9/dm/R/zoom.R | 2 dm-0.1.9/dm/README.md | 233 +-- dm-0.1.9/dm/build/vignette.rds |binary dm-0.1.9/dm/inst/doc/dm.html | 228 ++- dm-0.1.9/dm/inst/doc/howto-dm-copy.R |only dm-0.1.9/dm/inst/doc/howto-dm-copy.Rmd |only dm-0.1.9/dm/inst/doc/howto-dm-copy.html |only dm-0.1.9/dm/inst/doc/howto-dm-db.R | 68 - dm-0.1.9/dm/inst/doc/howto-dm-db.Rmd | 169 +- dm-0.1.9/dm/inst/doc/howto-dm-db.html | 585 +++------- dm-0.1.9/dm/inst/doc/howto-dm-df.Rmd | 2 dm-0.1.9/dm/inst/doc/howto-dm-df.html | 208 ++- dm-0.1.9/dm/inst/doc/howto-dm-rows.R |only dm-0.1.9/dm/inst/doc/howto-dm-rows.Rmd |only dm-0.1.9/dm/inst/doc/howto-dm-rows.html |only dm-0.1.9/dm/inst/doc/howto-dm-theory.Rmd | 21 dm-0.1.9/dm/inst/doc/howto-dm-theory.html | 259 ++-- dm-0.1.9/dm/inst/doc/tech-dm-cdm.html | 98 + dm-0.1.9/dm/inst/doc/tech-dm-class.html | 230 ++- dm-0.1.9/dm/inst/doc/tech-dm-draw.html | 570 +++++---- dm-0.1.9/dm/inst/doc/tech-dm-filter.html | 296 ++--- dm-0.1.9/dm/inst/doc/tech-dm-join.html | 180 +-- dm-0.1.9/dm/inst/doc/tech-dm-low-level.html | 220 ++- dm-0.1.9/dm/inst/doc/tech-dm-naming.html | 69 - dm-0.1.9/dm/inst/doc/tech-dm-zoom.html | 272 ++-- dm-0.1.9/dm/man/copy_dm_to.Rd | 2 dm-0.1.9/dm/man/dm_add_tbl.Rd | 6 dm-0.1.9/dm/man/dm_mutate_tbl.Rd |only dm-0.1.9/dm/man/dm_zoom_to.Rd | 2 dm-0.1.9/dm/man/figures/README-draw.svg | 12 dm-0.1.9/dm/man/financial_db_con.Rd |only dm-0.1.9/dm/tests/testthat/_snaps |only dm-0.1.9/dm/tests/testthat/helper-expectations.R | 18 dm-0.1.9/dm/tests/testthat/helper-skip.R | 16 dm-0.1.9/dm/tests/testthat/helper-testthat.R |only dm-0.1.9/dm/tests/testthat/out/card-0-n-data_card_1-data_card_2.txt | 1 dm-0.1.9/dm/tests/testthat/out/check-if-subset-2a-1a.txt | 3 dm-0.1.9/dm/tests/testthat/out/check-set-equality-1a-2a.txt | 3 dm-0.1.9/dm/tests/testthat/out/code_from_paste.txt | 7 dm-0.1.9/dm/tests/testthat/out/error-msgs.txt | 2 dm-0.1.9/dm/tests/testthat/out/examine-constraints-as-tibble.txt | 1 dm-0.1.9/dm/tests/testthat/test-add-tbl.R | 29 dm-0.1.9/dm/tests/testthat/test-db-interface.R | 5 dm-0.1.9/dm/tests/testthat/test-disambiguate.R | 2 dm-0.1.9/dm/tests/testthat/test-dm-from-src.R | 5 dm-0.1.9/dm/tests/testthat/test-dm.R | 20 dm-0.1.9/dm/tests/testthat/test-dplyr.R | 19 dm-0.1.9/dm/tests/testthat/test-draw-dm.R | 10 dm-0.1.9/dm/tests/testthat/test-examine-constraints.R | 38 dm-0.1.9/dm/tests/testthat/test-flatten.R | 79 - dm-0.1.9/dm/tests/testthat/test-learn.R | 7 dm-0.1.9/dm/tests/testthat/test-paste.R | 102 - dm-0.1.9/dm/tests/testthat/test-rows-dm.R | 359 +++--- dm-0.1.9/dm/tests/testthat/test-select.R | 2 dm-0.1.9/dm/tests/testthat/test-table-surgery.R | 34 dm-0.1.9/dm/tests/testthat/test-zoom.R | 10 dm-0.1.9/dm/tests/testthat/test-zzx-deprecated.R | 8 dm-0.1.9/dm/vignettes/howto-dm-copy.Rmd |only dm-0.1.9/dm/vignettes/howto-dm-db.Rmd | 169 +- dm-0.1.9/dm/vignettes/howto-dm-df.Rmd | 2 dm-0.1.9/dm/vignettes/howto-dm-rows.Rmd |only dm-0.1.9/dm/vignettes/howto-dm-theory.Rmd | 21 78 files changed, 2617 insertions(+), 2340 deletions(-)
Title: Create Reports Using R and 'asciidoc'
Description: Inspired by Karl Broman`s reader on using 'knitr'
with 'asciidoc'
(<http://kbroman.org/knitr_knutshell/pages/asciidoc.html>), this is
merely a wrapper to 'knitr' and 'asciidoc'.
Author: Andreas Dominik Cullmann [aut, cre]
Maintainer: Andreas Dominik Cullmann <fvafrcu@mailbox.org>
Diff between rasciidoc versions 2.2.0 dated 2020-09-22 and 2.2.1 dated 2020-11-18
DESCRIPTION | 13 +- MD5 | 20 ++- NEWS.md | 7 + R/internals.R | 283 +++++++++++++++++++++++++++++++++++++++++++--- R/knitr_internals_mod.R | 5 R/render.R | 294 ++++-------------------------------------------- R/vignette_engine.R |only build |only inst/doc |only man/rasciidoc.Rd | 4 man/render.Rd | 8 - vignettes |only 12 files changed, 331 insertions(+), 303 deletions(-)
Title: Combine Parameter Estimates via Parametric Bootstrap
Description: Propagate uncertainty from several estimates when combining these estimates via a function.
This is done by using the parametric bootstrap to simulate values from the distribution of each estimate to build up an empirical distribution of the combined parameter.
Finally either the percentile method is used or the highest density interval is chosen to derive a confidence interval for the combined parameter with the desired coverage.
References: Davison and Hinkley (1997,ISBN:0-521-57471-4) for the parametric bootstrap and percentile method, Gelman et al. (2014,ISBN:978-1-4398-4095-5) for the highest density interval, Stockdale et al. (2020)<doi:10.1016/j.jhep.2020.04.008> for an example of combining conditional prevalences.
Author: Marc Henrion [aut, cre] (<https://orcid.org/0000-0003-1242-839X>)
Maintainer: Marc Henrion <mhenrion@mlw.mw>
Diff between bootComb versions 1.0.0 dated 2020-09-07 and 1.0.1 dated 2020-11-18
DESCRIPTION | 6 +++--- MD5 | 6 +++--- NEWS.md | 8 ++++++-- R/internalFunctions.R | 12 ++++++------ 4 files changed, 18 insertions(+), 14 deletions(-)
Title: Create Interactive Chart with the JavaScript 'ApexCharts'
Library
Description: Provides an 'htmlwidgets' interface to 'apexcharts.js'.
'Apexcharts' is a modern JavaScript charting library to build interactive charts and visualizations with simple API.
'Apexcharts' examples and documentation are available here: <https://apexcharts.com/>.
Author: Victor Perrier [aut, cre],
Fanny Meyer [aut],
Juned Chhipa [cph] (apexcharts.js library),
Mike Bostock [cph] (d3.format library)
Maintainer: Victor Perrier <victor.perrier@dreamrs.fr>
Diff between apexcharter versions 0.1.7 dated 2020-10-16 and 0.1.8 dated 2020-11-18
DESCRIPTION | 6 MD5 | 32 - NEWS.md | 14 R/apex.R | 2 R/shiny-input.R | 6 inst/doc/apexcharter.html | 432 ++++++++--------- inst/doc/chart-options.html | 424 +++++++--------- inst/doc/shiny-integration.html | 376 ++++++-------- inst/doc/spark-box.html | 360 ++++++-------- inst/doc/sync-charts.html | 364 ++++++-------- inst/htmlwidgets/apexcharter.js | 242 ++++----- inst/htmlwidgets/apexcharter.yaml | 2 inst/htmlwidgets/lib/apexcharts-3.22/apexcharts.min.js | 8 man/run_demo_sparkbox.Rd | 2 man/set_input_click.Rd | 2 man/set_input_zoom.Rd | 2 tests/testthat/test-apex.R | 29 + 17 files changed, 1117 insertions(+), 1186 deletions(-)
Title: Convert Between Bibliography Formats
Description: Converts between a number of bibliography formats,
including 'BibTeX', 'BibLaTeX' and 'Bibentry'. Includes a port of the
'bibutils' utilities by Chris Putnam
<https://sourceforge.net/projects/bibutils/>. Supports all
bibliography formats and character encodings implemented in
'bibutils'.
Author: Georgi N. Boshnakov [aut, cre] (R port, modifications to bibutils' C
code),
Chris Putman [aut] (src/*, author of the bibutils libraries,
https://sourceforge.net/projects/bibutils/),
Richard Mathar [ctb] (src/addsout.c),
Johannes Wilm [ctb] (src/biblatexin.c, src/bltypes.c)
Maintainer: Georgi N. Boshnakov <georgi.boshnakov@manchester.ac.uk>
Diff between rbibutils versions 1.4 dated 2020-11-06 and 2.0 dated 2020-11-18
rbibutils-1.4/rbibutils/R/xml.R |only rbibutils-2.0/rbibutils/DESCRIPTION | 12 +- rbibutils-2.0/rbibutils/MD5 | 69 +++++++------ rbibutils-2.0/rbibutils/NAMESPACE | 6 - rbibutils-2.0/rbibutils/NEWS.md | 23 ++++ rbibutils-2.0/rbibutils/R/bib.R |only rbibutils-2.0/rbibutils/R/bibentry.R |only rbibutils-2.0/rbibutils/R/convert.R | 114 +++++------------------ rbibutils-2.0/rbibutils/README.md | 5 + rbibutils-2.0/rbibutils/build/partial.rdb |binary rbibutils-2.0/rbibutils/man/bibConvert.Rd | 25 +++-- rbibutils-2.0/rbibutils/man/rbibutils-package.Rd | 20 +++- rbibutils-2.0/rbibutils/man/readBib.Rd | 16 ++- rbibutils-2.0/rbibutils/man/readBibentry.Rd |only rbibutils-2.0/rbibutils/src/adsout.c | 1 rbibutils-2.0/rbibutils/src/bibentryout.c |only rbibutils-2.0/rbibutils/src/bibformats.h | 6 + rbibutils-2.0/rbibutils/src/biblatexin.c | 1 rbibutils-2.0/rbibutils/src/bibprog.c | 1 rbibutils-2.0/rbibutils/src/bibprog.h | 1 rbibutils-2.0/rbibutils/src/bibtexin.c | 1 rbibutils-2.0/rbibutils/src/bibtextypes.c | 2 rbibutils-2.0/rbibutils/src/bibutils.h | 4 rbibutils-2.0/rbibutils/src/copacin.c | 1 rbibutils-2.0/rbibutils/src/endin.c | 1 rbibutils-2.0/rbibutils/src/init.c | 49 +-------- rbibutils-2.0/rbibutils/src/intlist.c | 22 +++- rbibutils-2.0/rbibutils/src/isiin.c | 1 rbibutils-2.0/rbibutils/src/latex.c | 1 rbibutils-2.0/rbibutils/src/latex_parse.c | 1 rbibutils-2.0/rbibutils/src/modsout.c | 1 rbibutils-2.0/rbibutils/src/nbibin.c | 1 rbibutils-2.0/rbibutils/src/risin.c | 1 rbibutils-2.0/rbibutils/src/risout.c | 1 rbibutils-2.0/rbibutils/src/str.c | 1 rbibutils-2.0/rbibutils/src/str_conv.c | 1 rbibutils-2.0/rbibutils/src/tomods.c | 1 rbibutils-2.0/rbibutils/src/xml2any.c | 2 38 files changed, 194 insertions(+), 198 deletions(-)
Title: Aggregate Numeric, Date and Categorical Variables
Description: Convenience functions for aggregating a data frame or data table.
Currently mean, sum and variance are supported. For Date variables, the recency
and duration are supported. There is also support for dummy variables in
predictive contexts. Code has been completely re-written in data.table for computational speed.
Author: Matthias Bogaert, Michel Ballings, Dirk Van den Poel
Maintainer: Matthias Bogaert <matthias.bogaert@ugent.be>
Diff between AggregateR versions 0.0.2 dated 2015-11-23 and 0.1.0 dated 2020-11-18
DESCRIPTION | 19 ++-- MD5 | 14 ++- NAMESPACE | 12 ++ R/Aggregate.R | 228 +++++++++++++++++++++++++++++++----------------------- R/categories.R |only R/dummy.R |only inst/NEWS | 6 + man/Aggregate.Rd | 56 ++++++++----- man/categories.Rd |only man/dummy.Rd |only 10 files changed, 208 insertions(+), 127 deletions(-)
Title: Politely Web Scrape Data from SquashInfo
Description: Scrape SquashInfo <http://www.squashinfo.com/> for data on the Professional Squash Association World Tour and other squash events. 'squashinformr' functions scrape, parse, and clean data associated with players, tournaments, and rankings.
Author: Hayden MacDonald [aut, cre]
Maintainer: Hayden MacDonald <hayden.macdonald.8778@gmail.com>
Diff between squashinformr versions 0.1.4 dated 2020-10-25 and 0.1.5 dated 2020-11-18
DESCRIPTION | 6 +++--- MD5 | 4 ++-- R/get_matchup.R | 8 ++++---- 3 files changed, 9 insertions(+), 9 deletions(-)
Title: Manual Tours, Manual Control of Dynamic Projections of Numeric
Multivariate Data
Description: Data visualization tours animates linear projection
of multivariate data as its basis (ie. orientation) changes. The 'spinifex'
packages generates paths for manual tours by manipulating the contribution of
a single variable at a time ['Cook' & 'Buja' (1997) <doi:10.2307/1390747>].
Other types of tours, such as grand (random walk) and guided (optimizing some
objective function) are available in the
'tourr' package ['Wickham' 'et' 'al.' (2011) <doi:10.18637/jss.v040.i02>].
'spinifex' builds on 'tourr' and can render tours with 'gganimate' and
'plotly' graphics, and allows for exporting as an .html widget and as an .gif,
respectively. This work is fully discussed at ['Spyrison' & 'Cook' (2020)
<doi:10.32614/RJ-2020-027>.
Author: Nicholas Spyrison [aut, cre],
Dianne Cook [aut, ths]
Maintainer: Nicholas Spyrison <spyrison@gmail.com>
Diff between spinifex versions 0.2.6 dated 2020-11-09 and 0.2.7 dated 2020-11-18
spinifex-0.2.6/spinifex/data/breastcancer.rda |only spinifex-0.2.7/spinifex/DESCRIPTION | 9 -- spinifex-0.2.7/spinifex/MD5 | 32 ++++--- spinifex-0.2.7/spinifex/NAMESPACE | 2 spinifex-0.2.7/spinifex/NEWS.md | 54 ++++++------ spinifex-0.2.7/spinifex/R/0_util.r | 85 -------------------- spinifex-0.2.7/spinifex/R/2_render.r | 2 spinifex-0.2.7/spinifex/R/3_visualize.r | 27 ++++-- spinifex-0.2.7/spinifex/R/9_spinifex-depricated.r |only spinifex-0.2.7/spinifex/build/vignette.rds |binary spinifex-0.2.7/spinifex/data/BreastCancer.rda |only spinifex-0.2.7/spinifex/inst/doc/spinifex.html | 14 +-- spinifex-0.2.7/spinifex/inst/shiny_apps/intro/app.R | 4 spinifex-0.2.7/spinifex/man/is_orthonormal.Rd | 46 +++++----- spinifex-0.2.7/spinifex/man/play_tour_path.Rd | 4 spinifex-0.2.7/spinifex/man/render_plotly.Rd | 2 spinifex-0.2.7/spinifex/man/scale_sd.Rd | 34 ++++---- spinifex-0.2.7/spinifex/man/spinifex-deprecated.Rd |only spinifex-0.2.7/spinifex/man/view_frame.Rd | 24 ----- 19 files changed, 121 insertions(+), 218 deletions(-)
Title: Models for Survival Analysis
Description: Implementations of classical and machine learning models for survival analysis, including deep neural networks via 'keras' and 'tensorflow'. Each model includes a separated fit and predict interface with consistent prediction types for predicting risk, survival probabilities, or survival distributions with 'distr6' <https://CRAN.R-project.org/package=distr6>. Models are either implemented from 'Python' via 'reticulate' <https://CRAN.R-project.org/package=reticulate>, from code in GitHub packages, or novel implementations using 'Rcpp' <https://CRAN.R-project.org/package=Rcpp>. Novel machine learning survival models wil be included in the package in near-future updates. Neural networks are implemented from the 'Python' package 'pycox' <https://github.com/havakv/pycox> and are detailed by Kvamme et al. (2019) <https://jmlr.org/papers/v20/18-424.html>. The 'Akritas' estimator is defined in Akritas (1994) <doi:10.1214/aos/1176325630>. 'DNNSurv' is defined in Zhao and Feng (2020) <arXiv:1908.02337>.
Author: Raphael Sonabend [aut, cre] (<https://orcid.org/0000-0001-9225-4654>)
Maintainer: Raphael Sonabend <raphael.sonabend.15@ucl.ac.uk>
Diff between survivalmodels versions 0.1.3 dated 2020-11-11 and 0.1.4 dated 2020-11-18
DESCRIPTION | 6 +++--- MD5 | 36 ++++++++++++++++++------------------ NEWS.md | 4 ++++ R/akritas.R | 14 ++++++++++---- R/dnnsurv.R | 19 ++++++++++--------- R/helpers_pycox.R | 22 +++++++++++++--------- R/simsurvdata.R | 16 +++++++++++++--- README.md | 1 + build/partial.rdb |binary man/simsurvdata.Rd | 7 +++++-- tests/testthat/helpers.R | 27 ++++++++++++++++++++++++--- tests/testthat/test_akritas.R | 5 +++++ tests/testthat/test_coxtime.R | 6 ++++++ tests/testthat/test_deephit.R | 6 ++++++ tests/testthat/test_deepsurv.R | 6 ++++++ tests/testthat/test_dnnsurv.R | 7 ++++++- tests/testthat/test_keras.R | 2 +- tests/testthat/test_loghaz.R | 6 ++++++ tests/testthat/test_pchazard.R | 6 ++++++ 19 files changed, 143 insertions(+), 53 deletions(-)
More information about survivalmodels at CRAN
Permanent link
Title: Latin Hypercube Designs (LHDs)
Description: Contains different algorithms and construction methods for efficient Latin hypercube designs (LHDs) with flexible sizes. Our package is comprehensive since it is capable of generating maximin distance LHDs, maximum projection LHDs, and orthogonal and nearly orthogonal LHDs. Documentations for all the algorithms and construction methods include informative explanation along with corresponding references. This package is particularly useful in the area of Design and Analysis of Experiments (DAE). More specifically, design of computer experiments.
Author: Hongzhi Wang, Qian Xiao, Abhyuday Mandal
Maintainer: Hongzhi Wang <hw34508@uga.edu>
Diff between LHD versions 1.3.0 dated 2020-11-09 and 1.3.1 dated 2020-11-18
LHD-1.3.0/LHD/R/LOO.R |only LHD-1.3.0/LHD/R/LPWT.R |only LHD-1.3.0/LHD/R/MWT.R |only LHD-1.3.0/LHD/R/OLHD1998.R |only LHD-1.3.0/LHD/R/OLHD2001.R |only LHD-1.3.0/LHD/R/OLHD2007.R |only LHD-1.3.0/LHD/R/OLHD2009.R |only LHD-1.3.0/LHD/R/OLHD2010.R |only LHD-1.3.0/LHD/man/LOO.Rd |only LHD-1.3.0/LHD/man/LPWT.Rd |only LHD-1.3.0/LHD/man/MWT.Rd |only LHD-1.3.0/LHD/man/OLHD1998.Rd |only LHD-1.3.0/LHD/man/OLHD2001.Rd |only LHD-1.3.0/LHD/man/OLHD2007.Rd |only LHD-1.3.0/LHD/man/OLHD2009.Rd |only LHD-1.3.0/LHD/man/OLHD2010.Rd |only LHD-1.3.1/LHD/DESCRIPTION | 8 LHD-1.3.1/LHD/MD5 | 84 +-- LHD-1.3.1/LHD/NAMESPACE | 13 LHD-1.3.1/LHD/NEWS.md | 83 +-- LHD-1.3.1/LHD/R/FastMmLHD.R | 129 ++++- LHD-1.3.1/LHD/R/GA.R | 7 LHD-1.3.1/LHD/R/GLP.R | 2 LHD-1.3.1/LHD/R/LaPSO.R | 7 LHD-1.3.1/LHD/R/OASA.R | 19 LHD-1.3.1/LHD/R/OLHD.B2001.R |only LHD-1.3.1/LHD/R/OLHD.C2007.R |only LHD-1.3.1/LHD/R/OLHD.L2009.R |only LHD-1.3.1/LHD/R/OLHD.S2010.R |only LHD-1.3.1/LHD/R/OLHD.Y1998.R |only LHD-1.3.1/LHD/R/SA.R | 7 LHD-1.3.1/LHD/R/SA2008.R | 7 LHD-1.3.1/LHD/R/SLHD.R | 26 - LHD-1.3.1/LHD/R/exchange.R | 4 LHD-1.3.1/LHD/R/rLHD.R | 2 LHD-1.3.1/LHD/build/vignette.rds |binary LHD-1.3.1/LHD/inst/doc/Vignette_for_LHD.R | 16 LHD-1.3.1/LHD/inst/doc/Vignette_for_LHD.Rmd | 30 - LHD-1.3.1/LHD/inst/doc/Vignette_for_LHD.html | 435 +++++++++---------- LHD-1.3.1/LHD/man/FastMmLHD.Rd | 4 LHD-1.3.1/LHD/man/GA.Rd | 6 LHD-1.3.1/LHD/man/GLP.Rd | 2 LHD-1.3.1/LHD/man/LaPSO.Rd | 6 LHD-1.3.1/LHD/man/OASA.Rd | 18 LHD-1.3.1/LHD/man/OLHD.B2001.Rd |only LHD-1.3.1/LHD/man/OLHD.C2007.Rd |only LHD-1.3.1/LHD/man/OLHD.L2009.Rd |only LHD-1.3.1/LHD/man/OLHD.S2010.Rd |only LHD-1.3.1/LHD/man/OLHD.Y1998.Rd |only LHD-1.3.1/LHD/man/SA.Rd | 6 LHD-1.3.1/LHD/man/SA2008.Rd | 6 LHD-1.3.1/LHD/man/SLHD.Rd | 24 - LHD-1.3.1/LHD/man/exchange.Rd | 4 LHD-1.3.1/LHD/man/rLHD.Rd | 2 LHD-1.3.1/LHD/tests/testthat/testmyfunctions_part1.R | 36 - LHD-1.3.1/LHD/vignettes/Vignette_for_LHD.Rmd | 30 - 56 files changed, 550 insertions(+), 473 deletions(-)
Title: Text Mining Package
Description: A framework for text mining applications within R.
Author: Ingo Feinerer [aut, cre] (<https://orcid.org/0000-0001-7656-8338>),
Kurt Hornik [aut] (<https://orcid.org/0000-0003-4198-9911>),
Artifex Software, Inc. [ctb, cph] (pdf_info.ps taken from GPL
Ghostscript)
Maintainer: Ingo Feinerer <feinerer@logic.at>
Diff between tm versions 0.7-7 dated 2019-12-12 and 0.7-8 dated 2020-11-18
DESCRIPTION | 8 +++--- MD5 | 58 +++++++++++++++++++++++------------------------ R/complete.R | 2 - R/corpus.R | 50 +++++++++++++++++++++++++--------------- R/filter.R | 2 - R/matrix.R | 6 ++++ build/vignette.rds |binary data/acq.rda |binary data/crude.rda |binary inst/CITATION | 4 +-- inst/NEWS.Rd | 14 ++++++++++- inst/doc/extensions.pdf |binary inst/doc/tm.R | 1 inst/doc/tm.pdf |binary man/PlainTextDocument.Rd | 2 - man/XMLTextDocument.Rd | 2 - man/Zipf_n_Heaps.Rd | 4 +-- man/acq.Rd | 6 +++- man/crude.Rd | 6 +++- man/foreign.Rd | 4 +-- man/matrix.Rd | 2 - man/meta.Rd | 4 +-- man/readPDF.Rd | 4 +-- man/readRCV1.Rd | 2 - man/readReut21578XML.Rd | 6 +++- man/removeNumbers.Rd | 2 - man/removePunctuation.Rd | 2 - man/stopwords.Rd | 4 +-- man/tm_filter.Rd | 4 +-- man/tokenizer.Rd | 4 +-- 30 files changed, 120 insertions(+), 83 deletions(-)
More information about DSMolgenisArmadillo at CRAN
Permanent link
Title: A Collection of Fluorescence Fluctuation Spectroscopy Analysis
Methods
Description: This is a package for fluorescence fluctuation spectroscopy data analysis methods such as spFCS, FCCS, scanning-FCS, pCF, N&B and pCOMB, among others.
In addition, several data detrending tools are provided. For an extensive user's guide for the use of FCSlib, please navigate to (<https://github.com/FCSlib/FCSlib/tree/master/Documentation>).
Sample data can be found at (<https://github.com/FCSlib/FCSlib/tree/master/Sample%20Data>).
The original paper where this package is presented can be found at (<doi:10.1093/bioinformatics/btaa876>).
Author: Raúl Pinto Cámara, Adán Guerrero, Alejandro Linares, José Damián Martínez Reyes, Haydee Hernández.
Maintainer: Raúl Pinto Cámara <support.fcslib@mail.ibt.unam.mx>
Diff between FCSlib versions 1.2.1 dated 2020-09-20 and 1.3.0 dated 2020-11-18
FCSlib-1.2.1/FCSlib/R/boxcarDetrend.R |only FCSlib-1.2.1/FCSlib/R/expDetrend.R |only FCSlib-1.2.1/FCSlib/R/polyDetrend.R |only FCSlib-1.2.1/FCSlib/man/boxcarDetrend.Rd |only FCSlib-1.2.1/FCSlib/man/expDetrend.Rd |only FCSlib-1.2.1/FCSlib/man/polyDetrend.Rd |only FCSlib-1.3.0/FCSlib/DESCRIPTION | 11 ++++++----- FCSlib-1.3.0/FCSlib/MD5 | 12 ++++-------- FCSlib-1.3.0/FCSlib/NAMESPACE | 4 +--- FCSlib-1.3.0/FCSlib/R/detrendTimeSeries.R |only FCSlib-1.3.0/FCSlib/man/detrendTimeSeries.Rd |only 11 files changed, 11 insertions(+), 16 deletions(-)
More information about CatDataAnalysis at CRAN
Permanent link
Title: Binary Expansion Testing
Description: Nonparametric detection of nonuniformity and dependence with Binary Expansion Testing (BET). See Kai Zhang (2019) BET on Independence, Journal of the American Statistical Association, 114:528, 1620-1637, <DOI:10.1080/01621459.2018.1537921> and Zhigen Zhao, Michael Baiocchi, Kai Zhang. SorBET: A Fast and Powerful Algorithm to Test Dependence of Variables.
Author: Wan Zhang [aut, cre],
Zhigen Zhao [aut],
Michael Baiocchi [aut],
Kai Zhang [aut]
Maintainer: Wan Zhang <wanz63@live.unc.edu>
Diff between BET versions 0.1.0 dated 2020-10-19 and 0.2.0 dated 2020-11-18
BET-0.1.0/BET/R/BET_package.R |only BET-0.1.0/BET/src/bitwise.cpp |only BET-0.2.0/BET/DESCRIPTION | 6 +-- BET-0.2.0/BET/MD5 | 29 +++++++------- BET-0.2.0/BET/NAMESPACE | 2 - BET-0.2.0/BET/R/RcppExports.R | 8 ++-- BET-0.2.0/BET/R/plot.R | 75 +++++++++++++++----------------------- BET-0.2.0/BET/R/star-data.R | 32 ++++++++-------- BET-0.2.0/BET/man/BET.Rd | 15 ++++++- BET-0.2.0/BET/man/BET_package.Rd | 42 ++++++++++----------- BET-0.2.0/BET/man/BETs.Rd | 15 ++++++- BET-0.2.0/BET/man/bet.plot.Rd | 6 ++- BET-0.2.0/BET/man/star.Rd | 2 - BET-0.2.0/BET/man/symm.Rd | 7 ++- BET-0.2.0/BET/src/BET.h |only BET-0.2.0/BET/src/BET2nd.cpp |only BET-0.2.0/BET/src/Makevars |only BET-0.2.0/BET/src/RcppExports.cpp | 19 +++++---- 18 files changed, 136 insertions(+), 122 deletions(-)
Title: Bayesian Reliability Estimation
Description: Functionality for the most common single test reliability estimates:
Coefficient alpha, 'Guttman's' lambda-2/-4/-6, the Greatest lower bound and coefficient omega.
The Bayesian estimates are provided with credible intervals.
The frequentist estimates are provided with bootstrapped confidence intervals
The method for the Bayesian estimates, except for omega, is sampling from the posterior inverse 'Wishart'
for the covariance matrix based measures
(see 'Murphy', 2007, <https://www.seas.harvard.edu/courses/cs281/papers/murphy-2007.pdf>.
In the case of omega it is 'Gibbs' Sampling from the joint conditional distributions of a single factor model
('Lee', 2007, <doi:10.1002/9780470024737>).
The glb method uses adjusted code from the 'Rcsdp' package by 'Hector Corrada Bravo',
<https://CRAN.R-project.org/package=Rcsdp>. This process applies a slightly adjusted solving algorithm
from the 'CSDP' library by 'Brian Borchers' <https://github.com/coin-or/Csdp/wiki>,
<doi.org/10.1080/10556789908805765>, but is wrapped in 'RcppArmadillo'.
Guttman's Lambda-4 is from 'Benton' (2015) <doi:10.1007/978-3-319-07503-7_19>.
The principal factor analysis for a version of frequentist omega is from 'Schlegel' (2017)
<https://www.r-bloggers.com/2017/03/iterated-principal-factor-method-of-factor-analysis-with-r/>.
The analytic confidence interval of alpha is from 'Bonett' and 'Wright' (2015) <doi:10.1002/job.1960>.
Author: Julius M. Pfadt [aut, cre],
Don van den Bergh [aut],
Joris Goosen [aut]
Maintainer: Julius M. Pfadt <julius.pfadt@gmail.com>
Diff between Bayesrel versions 0.7.0 dated 2020-11-11 and 0.7.0.2 dated 2020-11-18
Bayesrel-0.7.0.2/Bayesrel/DESCRIPTION | 37 ++-- Bayesrel-0.7.0.2/Bayesrel/MD5 | 17 - Bayesrel-0.7.0.2/Bayesrel/R/glb_funs.R | 166 +++++++++--------- Bayesrel-0.7.0.2/Bayesrel/R/prob_strel.R | 10 - Bayesrel-0.7.0.2/Bayesrel/R/samplePrior.R |only Bayesrel-0.7.0.2/Bayesrel/README.md | 6 Bayesrel-0.7.0.2/Bayesrel/build/partial.rdb |binary Bayesrel-0.7.0.2/Bayesrel/src/LowBoundsCpp.cpp |only Bayesrel-0.7.0.2/Bayesrel/src/pfaCpp.cpp |only Bayesrel-0.7.0.2/Bayesrel/tests/testthat/test_strel.R | 32 +++ Bayesrel-0.7.0/Bayesrel/src/LowBoundsC.cpp |only Bayesrel-0.7.0/Bayesrel/src/pfaC.cpp |only 12 files changed, 150 insertions(+), 118 deletions(-)
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2020-05-12 1.1.1
2020-03-31 1.1.0
2019-12-10 1.0.1
2019-08-24 1.0.0
Title: MR Spectroscopy Analysis Tools
Description: Tools for reading, visualising and processing Magnetic Resonance
Spectroscopy data.
Author: Martin Wilson [cre, aut],
Yong Wang [ctb],
John Muschelli [ctb]
Maintainer: Martin Wilson <martin@pipegrep.co.uk>
Diff between spant versions 1.7.0 dated 2020-07-09 and 1.8.0 dated 2020-11-18
spant-1.7.0/spant/man/back_extrap.Rd |only spant-1.7.0/spant/man/comb_coils_fp_pc.Rd |only spant-1.7.0/spant/man/decimate_mrs.Rd |only spant-1.7.0/spant/man/downsample_mrs.Rd |only spant-1.7.0/spant/man/mrsi2d_img2kspace.Rd |only spant-1.7.0/spant/man/mrsi2d_kspace2img.Rd |only spant-1.8.0/spant/DESCRIPTION | 21 spant-1.8.0/spant/MD5 | 140 +- spant-1.8.0/spant/NAMESPACE | 26 spant-1.8.0/spant/NEWS.md | 12 spant-1.8.0/spant/R/basis_set.R | 2 spant-1.8.0/spant/R/interactive_plotting.R | 33 spant-1.8.0/spant/R/mol_parameters.R | 107 +- spant-1.8.0/spant/R/mrs_data_display.R | 153 ++ spant-1.8.0/spant/R/mrs_data_io.R | 23 spant-1.8.0/spant/R/mrs_data_proc.R | 839 ++++++++++++---- spant-1.8.0/spant/R/mrs_read_ima.R | 12 spant-1.8.0/spant/R/mrs_read_lcm_raw.R | 7 spant-1.8.0/spant/R/mrs_read_list_data.R | 14 spant-1.8.0/spant/R/mrs_read_nifti.R | 23 spant-1.8.0/spant/R/mrs_read_paravis.R | 2 spant-1.8.0/spant/R/mrs_read_pfile.R | 8 spant-1.8.0/spant/R/mrs_read_rda.R | 11 spant-1.8.0/spant/R/mrs_read_spar_sdat.R | 12 spant-1.8.0/spant/R/mrs_read_twix.R | 39 spant-1.8.0/spant/R/mrs_read_varian.R |only spant-1.8.0/spant/R/mrs_write_nifti.R | 4 spant-1.8.0/spant/R/precomp.R |only spant-1.8.0/spant/R/rats.R | 73 - spant-1.8.0/spant/R/spant.R | 16 spant-1.8.0/spant/R/utils.R | 13 spant-1.8.0/spant/build/vignette.rds |binary spant-1.8.0/spant/inst/doc/abfit-baseline-opts.html | 66 + spant-1.8.0/spant/inst/doc/spant-intro.html | 115 +- spant-1.8.0/spant/inst/doc/spant-preprocessing.html | 62 + spant-1.8.0/spant/man/apodise_xy.Rd | 10 spant-1.8.0/spant/man/array2mrs_data.Rd | 3 spant-1.8.0/spant/man/back_extrap_ar.Rd |only spant-1.8.0/spant/man/circ_mask.Rd |only spant-1.8.0/spant/man/collapse_to_dyns.Rd | 8 spant-1.8.0/spant/man/comb_coils.Rd | 14 spant-1.8.0/spant/man/decimate_mrs_fd.Rd |only spant-1.8.0/spant/man/decimate_mrs_td.Rd |only spant-1.8.0/spant/man/def_acq_paras.Rd | 6 spant-1.8.0/spant/man/downsample_mrs_fd.Rd |only spant-1.8.0/spant/man/downsample_mrs_td.Rd |only spant-1.8.0/spant/man/fp_scale.Rd |only spant-1.8.0/spant/man/get_subset.Rd | 9 spant-1.8.0/spant/man/gridplot.Rd |only spant-1.8.0/spant/man/gridplot.mrs_data.Rd |only spant-1.8.0/spant/man/hsvd.Rd |only spant-1.8.0/spant/man/hsvd_filt.Rd | 7 spant-1.8.0/spant/man/hsvd_vec.Rd |only spant-1.8.0/spant/man/image.mrs_data.Rd | 7 spant-1.8.0/spant/man/img2kspace_xy.Rd |only spant-1.8.0/spant/man/kspace2img_xy.Rd |only spant-1.8.0/spant/man/l2_reg.Rd | 15 spant-1.8.0/spant/man/mask_dyns.Rd |only spant-1.8.0/spant/man/mask_xy_mat.Rd | 4 spant-1.8.0/spant/man/mat2mrs_data.Rd | 19 spant-1.8.0/spant/man/mrs_data2mat.Rd | 5 spant-1.8.0/spant/man/pg_extrap_xy.Rd |only spant-1.8.0/spant/man/plot.mrs_data.Rd | 12 spant-1.8.0/spant/man/plot_slice_map_inter.Rd | 6 spant-1.8.0/spant/man/precomp.Rd |only spant-1.8.0/spant/man/rats.Rd | 12 spant-1.8.0/spant/man/read_mrs.Rd | 4 spant-1.8.0/spant/man/reexports.Rd | 4 spant-1.8.0/spant/man/reson_table2mrs_data.Rd |only spant-1.8.0/spant/man/set_def_acq_paras.Rd | 5 spant-1.8.0/spant/man/set_precomp_mode.Rd |only spant-1.8.0/spant/man/set_precomp_verbose.Rd |only spant-1.8.0/spant/man/sim_resonances.Rd | 8 spant-1.8.0/spant/man/spant-package.Rd | 2 spant-1.8.0/spant/man/ssp.Rd |only spant-1.8.0/spant/man/stackplot.mrs_data.Rd | 7 spant-1.8.0/spant/man/vec2mrs_data.Rd | 3 spant-1.8.0/spant/man/zf_xy.Rd | 6 spant-1.8.0/spant/tests/testthat/abfit_res_coarse.rds |binary spant-1.8.0/spant/tests/testthat/abfit_res_default.rds |binary spant-1.8.0/spant/tests/testthat/abfit_res_fine.rds |binary spant-1.8.0/spant/tests/testthat/abfit_res_no_optim.rds |binary spant-1.8.0/spant/tests/testthat/abfit_sim_mrs_data.rds |binary spant-1.8.0/spant/tests/testthat/abfit_sim_res.rds |binary spant-1.8.0/spant/tests/testthat/def_basis.rds |binary 85 files changed, 1473 insertions(+), 536 deletions(-)