Title: Quantitative Fatty Acid Signature Analysis
Description: Accurate estimates of the diets of predators are required
in many areas of ecology, but for many species current methods are
imprecise, limited to the last meal, and often biased. The diversity
of fatty acids and their patterns in organisms, coupled with the
narrow limitations on their biosynthesis, properties of digestion in
monogastric animals, and the prevalence of large storage reservoirs of
lipid in many predators, led to the development of quantitative
fatty acid signature analysis (QFASA) to study predator diets.
Author: Connie Stewart [cre, aut, cph],
Sara Iverson [aut, cph],
Chris Field [aut],
Don Bowen [aut],
Wade Blanchard [aut],
Shelley Lang [aut],
Justin Kamerman [aut],
Hongchang Bao [ctb],
Holly Steeves [aut],
Jennifer McNichol [aut],
Tyler Rideout [aut]
Maintainer: Connie Stewart <connie.stewart@unb.ca>
Diff between QFASA versions 1.1.1 dated 2021-07-20 and 1.1.2 dated 2022-10-18
DESCRIPTION | 18 MD5 | 53 +- NAMESPACE | 1 NEWS.md | 14 R/All_CI_Code.R | 4 R/All_MUFASA_Code.R | 12 R/All_Rep_Code.R | 63 ++ R/All_Simplified_MUFASA_Code.R |only R/All_SimultaneousEst_MUFASA_Code.R | 57 +- R/qfasa.R | 14 R/roxygentags.r | 1 build/vignette.rds |binary inst/doc/MUFASA_Workflow_Example.Rmd | 4 inst/doc/MUFASA_Workflow_Example.html | 293 +++++++++++- inst/doc/Parallel_Execution_for_Confidence_Intervals.Rmd | 2 inst/doc/Parallel_Execution_for_Confidence_Intervals.html | 237 +++++++++ inst/doc/QFASA_Workflow_Example.html | 334 ++++++++++++-- inst/doc/SMUFASA_Workflow_Example.Rmd | 6 inst/doc/SMUFASA_Workflow_Example.html | 298 +++++++++++- man/dummy.Rd | 1 man/multiplicativeReplacement.Rd |only man/p.MLE.Rd |only man/p.MUFASA.Rd | 8 man/p.QFASA.Rd | 6 man/p.SMUFASA.Rd | 37 - man/testfordiff.ind.pval.Rd | 9 vignettes/MUFASA_Workflow_Example.Rmd | 4 vignettes/Parallel_Execution_for_Confidence_Intervals.Rmd | 2 vignettes/SMUFASA_Workflow_Example.Rmd | 6 29 files changed, 1265 insertions(+), 219 deletions(-)
Title: Network Reverse Engineering with Approximate Bayesian
Computation
Description: We developed an inference tool based on approximate Bayesian computation to decipher network data and assess the strength of the inferred links between network's actors. It is a new multi-level approximate Bayesian computation (ABC) approach. At the first level, the method captures the global properties of the network, such as a scale-free structure and clustering coefficients, whereas the second level is targeted to capture local properties, including the probability of each couple of genes being linked. Up to now, Approximate Bayesian Computation (ABC) algorithms have been scarcely used in that setting and, due to the computational overhead, their application was limited to a small number of genes. On the contrary, our algorithm was made to cope with that issue and has low computational cost. It can be used, for instance, for elucidating gene regulatory network, which is an important step towards understanding the normal cell physiology and complex pathological phenotype. Reverse-eng [...truncated...]
Author: Frederic Bertrand [cre, aut] ,
Myriam Maumy-Bertrand [aut] ,
Khadija Musayeva [ctb],
Nicolas Jung [ctb],
Universite de Strasbourg [cph],
CNRS [cph]
Maintainer: Frederic Bertrand <frederic.bertrand@utt.fr>
Diff between networkABC versions 0.8-0 dated 2021-03-20 and 0.8-1 dated 2022-10-18
DESCRIPTION | 20 +- MD5 | 52 +++---- NEWS.md | 4 R/abc.R | 2 README.md | 7 - build/vignette.rds |binary inst/CITATION | 13 + inst/doc/vignette.Rmd | 4 inst/doc/vignette.html | 312 +++++++++++++++++++++++++++++++++++++++++---- man/abc.Rd | 2 src/Makevars | 2 src/R_init_networkABC.c | 2 src/abc_R.c | 2 src/abc_R.h | 2 src/graph.c | 2 src/graph.h | 2 src/graph_adjacency_list.h | 2 src/motif.c | 2 src/motif.h | 2 src/network.h | 10 - src/network_random_R.c | 2 src/network_random_R.h | 2 src/pool.c | 2 src/pool.h | 2 src/utils.c | 2 src/utils.h | 2 vignettes/vignette.Rmd | 4 27 files changed, 369 insertions(+), 91 deletions(-)
Title: A Wrapper of the JavaScript Library 'DataTables'
Description: Data objects in R can be rendered as HTML tables using the
JavaScript library 'DataTables' (typically via R Markdown or Shiny). The
'DataTables' library has been included in this R package. The package name
'DT' is an abbreviation of 'DataTables'.
Author: Yihui Xie [aut, cre],
Joe Cheng [aut],
Xianying Tan [aut],
JJ Allaire [ctb],
Maximilian Girlich [ctb],
Greg Freedman Ellis [ctb],
Johannes Rauh [ctb],
SpryMedia Limited [ctb, cph] ,
Brian Reavis [ctb, cph] ,
Leon Gersen [ctb, cph] ,
Bartek Szopka [ct [...truncated...]
Maintainer: Yihui Xie <xie@yihui.name>
Diff between DT versions 0.25 dated 2022-09-12 and 0.26 dated 2022-10-18
DESCRIPTION | 8 MD5 | 271 +++-- R/datatables.R | 8 R/package.R | 2 inst/doc/DT.html | 478 +++++----- inst/examples/DT-deleteRows |only inst/examples/DT-searchExact |only inst/htmlwidgets/lib/datatables-extensions/AutoFill/css/autoFill.bootstrap.min.css | 2 inst/htmlwidgets/lib/datatables-extensions/AutoFill/css/autoFill.bootstrap4.min.css | 2 inst/htmlwidgets/lib/datatables-extensions/AutoFill/css/autoFill.bootstrap5.min.css | 2 inst/htmlwidgets/lib/datatables-extensions/AutoFill/css/autoFill.bulma.min.css | 2 inst/htmlwidgets/lib/datatables-extensions/AutoFill/css/autoFill.dataTables.min.css | 2 inst/htmlwidgets/lib/datatables-extensions/AutoFill/css/autoFill.foundation.min.css | 2 inst/htmlwidgets/lib/datatables-extensions/AutoFill/css/autoFill.jqueryui.min.css | 2 inst/htmlwidgets/lib/datatables-extensions/AutoFill/css/autoFill.semanticui.min.css | 2 inst/htmlwidgets/lib/datatables-extensions/AutoFill/js/dataTables.autoFill.min.js | 74 - inst/htmlwidgets/lib/datatables-extensions/Buttons/css/buttons.bootstrap.min.css | 2 inst/htmlwidgets/lib/datatables-extensions/Buttons/css/buttons.bootstrap4.min.css | 2 inst/htmlwidgets/lib/datatables-extensions/Buttons/css/buttons.bootstrap5.min.css | 2 inst/htmlwidgets/lib/datatables-extensions/Buttons/css/buttons.bulma.min.css | 2 inst/htmlwidgets/lib/datatables-extensions/Buttons/css/buttons.dataTables.min.css | 2 inst/htmlwidgets/lib/datatables-extensions/Buttons/css/buttons.foundation.min.css | 2 inst/htmlwidgets/lib/datatables-extensions/Buttons/css/buttons.jqueryui.min.css | 2 inst/htmlwidgets/lib/datatables-extensions/Buttons/css/buttons.semanticui.min.css | 2 inst/htmlwidgets/lib/datatables-extensions/Buttons/js/buttons.bootstrap.min.js | 4 inst/htmlwidgets/lib/datatables-extensions/Buttons/js/buttons.bootstrap4.min.js | 4 inst/htmlwidgets/lib/datatables-extensions/Buttons/js/buttons.bootstrap5.min.js | 4 inst/htmlwidgets/lib/datatables-extensions/Buttons/js/buttons.bulma.min.js | 4 inst/htmlwidgets/lib/datatables-extensions/Buttons/js/buttons.colVis.min.js | 2 inst/htmlwidgets/lib/datatables-extensions/Buttons/js/buttons.foundation.min.js | 4 inst/htmlwidgets/lib/datatables-extensions/Buttons/js/buttons.html5.min.js | 4 inst/htmlwidgets/lib/datatables-extensions/Buttons/js/buttons.semanticui.min.js | 4 inst/htmlwidgets/lib/datatables-extensions/Buttons/js/dataTables.buttons.min.js | 101 +- inst/htmlwidgets/lib/datatables-extensions/ColReorder/js/dataTables.colReorder.min.js | 28 inst/htmlwidgets/lib/datatables-extensions/DateTime/js/dataTables.dateTime.min.js | 62 - inst/htmlwidgets/lib/datatables-extensions/FixedColumns/css/fixedColumns.bootstrap.min.css | 2 inst/htmlwidgets/lib/datatables-extensions/FixedColumns/css/fixedColumns.bootstrap4.min.css | 2 inst/htmlwidgets/lib/datatables-extensions/FixedColumns/css/fixedColumns.bootstrap5.min.css | 2 inst/htmlwidgets/lib/datatables-extensions/FixedColumns/css/fixedColumns.bulma.min.css | 2 inst/htmlwidgets/lib/datatables-extensions/FixedColumns/css/fixedColumns.dataTables.min.css | 2 inst/htmlwidgets/lib/datatables-extensions/FixedColumns/css/fixedColumns.foundation.min.css | 2 inst/htmlwidgets/lib/datatables-extensions/FixedColumns/css/fixedColumns.jqueryui.min.css | 2 inst/htmlwidgets/lib/datatables-extensions/FixedColumns/css/fixedColumns.semanticui.min.css | 2 inst/htmlwidgets/lib/datatables-extensions/FixedColumns/js/dataTables.fixedColumns.min.js | 70 - inst/htmlwidgets/lib/datatables-extensions/FixedHeader/css/fixedHeader.bulma.min.css | 2 inst/htmlwidgets/lib/datatables-extensions/FixedHeader/js/dataTables.fixedHeader.min.js | 63 - inst/htmlwidgets/lib/datatables-extensions/KeyTable/css/keyTable.bootstrap.min.css | 2 inst/htmlwidgets/lib/datatables-extensions/KeyTable/css/keyTable.bootstrap4.min.css | 2 inst/htmlwidgets/lib/datatables-extensions/KeyTable/css/keyTable.bootstrap5.min.css | 2 inst/htmlwidgets/lib/datatables-extensions/KeyTable/css/keyTable.bulma.min.css | 2 inst/htmlwidgets/lib/datatables-extensions/KeyTable/css/keyTable.dataTables.min.css | 2 inst/htmlwidgets/lib/datatables-extensions/KeyTable/css/keyTable.foundation.min.css | 2 inst/htmlwidgets/lib/datatables-extensions/KeyTable/css/keyTable.jqueryui.min.css | 2 inst/htmlwidgets/lib/datatables-extensions/KeyTable/css/keyTable.semanticui.min.css | 2 inst/htmlwidgets/lib/datatables-extensions/KeyTable/js/dataTables.keyTable.min.js | 48 - inst/htmlwidgets/lib/datatables-extensions/Responsive/css/responsive.bootstrap5.min.css | 2 inst/htmlwidgets/lib/datatables-extensions/Responsive/js/dataTables.responsive.min.js | 62 - inst/htmlwidgets/lib/datatables-extensions/Responsive/js/responsive.bootstrap5.min.js | 16 inst/htmlwidgets/lib/datatables-extensions/RowGroup/css/rowGroup.bootstrap.min.css | 2 inst/htmlwidgets/lib/datatables-extensions/RowGroup/css/rowGroup.bootstrap4.min.css | 2 inst/htmlwidgets/lib/datatables-extensions/RowGroup/css/rowGroup.bootstrap5.min.css | 2 inst/htmlwidgets/lib/datatables-extensions/RowGroup/css/rowGroup.bulma.min.css | 2 inst/htmlwidgets/lib/datatables-extensions/RowGroup/css/rowGroup.dataTables.min.css | 2 inst/htmlwidgets/lib/datatables-extensions/RowGroup/css/rowGroup.foundation.min.css | 2 inst/htmlwidgets/lib/datatables-extensions/RowGroup/css/rowGroup.jqueryui.min.css | 2 inst/htmlwidgets/lib/datatables-extensions/RowGroup/css/rowGroup.semanticui.min.css | 2 inst/htmlwidgets/lib/datatables-extensions/RowGroup/js/dataTables.rowGroup.min.js | 8 inst/htmlwidgets/lib/datatables-extensions/Scroller/css/scroller.bootstrap.min.css | 2 inst/htmlwidgets/lib/datatables-extensions/Scroller/css/scroller.bootstrap4.min.css | 2 inst/htmlwidgets/lib/datatables-extensions/Scroller/css/scroller.bootstrap5.min.css | 2 inst/htmlwidgets/lib/datatables-extensions/Scroller/css/scroller.bulma.min.css | 2 inst/htmlwidgets/lib/datatables-extensions/Scroller/css/scroller.dataTables.min.css | 2 inst/htmlwidgets/lib/datatables-extensions/Scroller/css/scroller.jqueryui.min.css | 2 inst/htmlwidgets/lib/datatables-extensions/Scroller/css/scroller.semanticui.min.css | 2 inst/htmlwidgets/lib/datatables-extensions/Scroller/js/dataTables.scroller.min.js | 55 - inst/htmlwidgets/lib/datatables-extensions/SearchBuilder/css/searchBuilder.bootstrap.min.css | 2 inst/htmlwidgets/lib/datatables-extensions/SearchBuilder/css/searchBuilder.bootstrap4.min.css | 2 inst/htmlwidgets/lib/datatables-extensions/SearchBuilder/css/searchBuilder.bootstrap5.min.css | 2 inst/htmlwidgets/lib/datatables-extensions/SearchBuilder/css/searchBuilder.bulma.min.css | 2 inst/htmlwidgets/lib/datatables-extensions/SearchBuilder/css/searchBuilder.dataTables.min.css | 2 inst/htmlwidgets/lib/datatables-extensions/SearchBuilder/css/searchBuilder.foundation.min.css | 2 inst/htmlwidgets/lib/datatables-extensions/SearchBuilder/css/searchBuilder.jqueryui.min.css | 2 inst/htmlwidgets/lib/datatables-extensions/SearchBuilder/css/searchBuilder.semanticui.min.css | 2 inst/htmlwidgets/lib/datatables-extensions/SearchBuilder/js/dataTables.searchBuilder.min.js | 286 +++-- inst/htmlwidgets/lib/datatables-extensions/SearchBuilder/js/searchBuilder.foundation.min.js | 4 inst/htmlwidgets/lib/datatables-extensions/SearchBuilder/js/searchBuilder.semanticui.min.js | 6 inst/htmlwidgets/lib/datatables-extensions/SearchPanes/css/searchPanes.bootstrap.min.css | 2 inst/htmlwidgets/lib/datatables-extensions/SearchPanes/css/searchPanes.bootstrap4.min.css | 2 inst/htmlwidgets/lib/datatables-extensions/SearchPanes/css/searchPanes.bootstrap5.min.css | 2 inst/htmlwidgets/lib/datatables-extensions/SearchPanes/css/searchPanes.bulma.min.css | 2 inst/htmlwidgets/lib/datatables-extensions/SearchPanes/css/searchPanes.dataTables.min.css | 2 inst/htmlwidgets/lib/datatables-extensions/SearchPanes/css/searchPanes.foundation.min.css | 2 inst/htmlwidgets/lib/datatables-extensions/SearchPanes/css/searchPanes.jqueryui.min.css | 2 inst/htmlwidgets/lib/datatables-extensions/SearchPanes/css/searchPanes.semanticui.min.css | 2 inst/htmlwidgets/lib/datatables-extensions/SearchPanes/js/dataTables.searchPanes.min.js | 265 ++--- inst/htmlwidgets/lib/datatables-extensions/SearchPanes/js/searchPanes.bootstrap.min.js | 6 inst/htmlwidgets/lib/datatables-extensions/SearchPanes/js/searchPanes.bootstrap4.min.js | 6 inst/htmlwidgets/lib/datatables-extensions/SearchPanes/js/searchPanes.bootstrap5.min.js | 5 inst/htmlwidgets/lib/datatables-extensions/SearchPanes/js/searchPanes.bulma.min.js | 4 inst/htmlwidgets/lib/datatables-extensions/SearchPanes/js/searchPanes.dataTables.min.js | 2 inst/htmlwidgets/lib/datatables-extensions/SearchPanes/js/searchPanes.foundation.min.js | 4 inst/htmlwidgets/lib/datatables-extensions/SearchPanes/js/searchPanes.jqueryui.min.js | 4 inst/htmlwidgets/lib/datatables-extensions/SearchPanes/js/searchPanes.semanticui.min.js | 4 inst/htmlwidgets/lib/datatables-extensions/Select/css/select.bootstrap.min.css | 2 inst/htmlwidgets/lib/datatables-extensions/Select/css/select.bootstrap4.min.css | 2 inst/htmlwidgets/lib/datatables-extensions/Select/css/select.bootstrap5.min.css | 2 inst/htmlwidgets/lib/datatables-extensions/Select/css/select.bulma.min.css | 2 inst/htmlwidgets/lib/datatables-extensions/Select/css/select.dataTables.min.css | 2 inst/htmlwidgets/lib/datatables-extensions/Select/css/select.foundation.min.css | 2 inst/htmlwidgets/lib/datatables-extensions/Select/css/select.jqueryui.min.css | 2 inst/htmlwidgets/lib/datatables-extensions/Select/css/select.semanticui.min.css | 2 inst/htmlwidgets/lib/datatables-extensions/Select/js/dataTables.select.min.js | 53 - inst/htmlwidgets/lib/datatables-extensions/StateRestore |only inst/htmlwidgets/lib/datatables-plugins/dataRender/ellipsis/source.js | 8 inst/htmlwidgets/lib/datatables-plugins/features/scrollResize/source.min.js | 8 inst/htmlwidgets/lib/datatables/css/dataTables.bootstrap.min.css | 2 inst/htmlwidgets/lib/datatables/css/dataTables.bootstrap4.min.css | 2 inst/htmlwidgets/lib/datatables/css/dataTables.bootstrap5.min.css | 4 inst/htmlwidgets/lib/datatables/css/dataTables.bulma.min.css | 4 inst/htmlwidgets/lib/datatables/css/dataTables.dataTables.min.css | 2 inst/htmlwidgets/lib/datatables/css/dataTables.foundation.min.css | 2 inst/htmlwidgets/lib/datatables/css/dataTables.jqueryui.min.css | 2 inst/htmlwidgets/lib/datatables/css/dataTables.semanticui.min.css | 2 inst/htmlwidgets/lib/datatables/css/jquery.dataTables.min.css | 2 inst/htmlwidgets/lib/datatables/js/dataTables.bulma.min.js | 6 inst/htmlwidgets/lib/datatables/js/dataTables.jqueryui.min.js | 13 inst/htmlwidgets/lib/datatables/js/jquery.dataTables.min.js | 355 +++---- 127 files changed, 1322 insertions(+), 1269 deletions(-)
Title: TK Rplot
Description: Simple mechanism for placing R graphics in a Tk widget.
Author: Luke Tierney <luke-tierney@uiowa.edu>
Maintainer: Luke Tierney <luke-tierney@uiowa.edu>
Diff between tkrplot versions 0.0-26 dated 2021-10-05 and 0.0-27 dated 2022-10-18
DESCRIPTION | 6 +++--- MD5 | 4 ++-- src/tcltkimg.c | 55 +++++++++++++++++++++++++------------------------------ 3 files changed, 30 insertions(+), 35 deletions(-)
Title: Importing and Analyzing 'Twitter' Data Collected with 'Twitter
Archiving Google Sheets'
Description: The 'tidytags' package coordinates the simplicity of collecting tweets
over time with a 'Twitter Archiving Google Sheet' (TAGS; <https://tags.hawksey.info/>)
and the utility of the 'rtweet' package (<https://docs.ropensci.org/rtweet/>)
for processing and preparing additional 'Twitter' metadata. 'tidytags' also
introduces functions developed to facilitate systematic yet flexible analyses
of data from 'Twitter'.
Author: K. Bret Staudt Willet [aut, cre]
,
Joshua M. Rosenberg [aut] ,
Lluis Revilla Sancho [rev] ,
Marion Louveaux [rev]
Maintainer: K. Bret Staudt Willet <bret.staudtwillet@fsu.edu>
Diff between tidytags versions 1.0.2 dated 2022-08-23 and 1.0.3 dated 2022-10-18
DESCRIPTION | 6 MD5 | 33 NEWS.md | 30 R/get-upstream-tweets.R | 2 R/setup-functions.R | 32 README.md | 55 - tests/fixtures/different_tweet_types.yml | 771 ++++++++--------- tests/fixtures/lookup_many.yml | 209 ++-- tests/fixtures/metadata_from_ids.yml | 141 ++- tests/fixtures/metadata_from_rtweet.yml | 157 ++- tests/fixtures/metadata_from_urls.yml | 141 ++- tests/fixtures/sample_tags.yml | 8 tests/fixtures/tweet_ids.yml |only tests/fixtures/upstream_tweets.yml | 1400 +++++++++++++++---------------- tests/fixtures/upstream_tweets_empty.yml | 92 +- tests/fixtures/url_domains.yml | 52 - tests/fixtures/users_info.yml | 1014 +++++++++++----------- tests/testthat/test-3-pull_tweet_data.R | 206 ++-- 18 files changed, 2336 insertions(+), 2013 deletions(-)
Title: Efficient Bayesian Inference for Time-Varying Parameter Models
with Shrinkage
Description: Efficient Markov chain Monte Carlo (MCMC) algorithms for fully Bayesian estimation of time-varying parameter models with shrinkage priors. Details on the algorithms used are provided in Bitto and Frühwirth-Schnatter (2019) <doi:10.1016/j.jeconom.2018.11.006> and
Cadonna et al. (2020) <doi:10.3390/econometrics8020020>. For details on the package, please see Knaus et al. (2021) <doi:10.18637/jss.v100.i13>.
Author: Peter Knaus [aut, cre] ,
Angela Bitto-Nemling [aut],
Annalisa Cadonna [aut] ,
Sylvia Fruehwirth-Schnatter [aut]
,
Daniel Winkler [ctb],
Kemal Dingic [ctb]
Maintainer: Peter Knaus <peter.knaus@wu.ac.at>
Diff between shrinkTVP versions 2.0.5 dated 2022-02-03 and 2.0.6 dated 2022-10-18
DESCRIPTION | 6 +++--- MD5 | 23 ++++++++++++----------- NEWS.md | 5 +++++ R/pred_funs.R | 23 ++++++++--------------- build/vignette.rds |binary inst/doc/shrinkTVP.pdf |binary src/Makevars | 2 +- src/Makevars.win | 2 +- src/TG_sampling_functions.cpp | 2 +- src/cpp_utilities.cpp | 2 +- src/do_rgig1.cpp | 2 +- src/shrinkTVP.cpp | 16 ++++++++-------- tests/testthat/Rplots.pdf |only 13 files changed, 41 insertions(+), 42 deletions(-)
Title: Akaike Information Criterion for Sparse Estimation
Description: Computes the Akaike information criterion for the generalized linear models (logistic regression, Poisson regression, and Gaussian graphical models) estimated by the lasso.
Author: Shuichi Kawano [aut, cre] ,
Yoshiyuki Ninomiya [aut]
Maintainer: Shuichi Kawano <skawano@math.kyushu-u.ac.jp>
Diff between sAIC versions 1.0 dated 2016-10-05 and 1.0.1 dated 2022-10-18
DESCRIPTION | 25 +++++++--- MD5 | 5 +- build |only man/sAIC.Rd | 141 ++++++++++++++++++++++++++++++++++++++++-------------------- 4 files changed, 116 insertions(+), 55 deletions(-)
Title: Read and Write 'las' and 'laz' Binary File Formats Used for
Remote Sensing Data
Description: Read and write 'las' and 'laz' binary file formats. The LAS file format is a public file format for the interchange of 3-dimensional point cloud data between data users. The LAS specifications are approved by the American Society for Photogrammetry and Remote Sensing <https://www.asprs.org/divisions-committees/lidar-division/laser-las-file-format-exchange-activities>. The LAZ file format is an open and lossless compression scheme for binary LAS format versions 1.0 to 1.4 <https://laszip.org/>.
Author: Jean-Romain Roussel [aut, cre, cph],
Florian De Boissieu [aut, ctb] ,
Martin Isenburg [cph] ,
David Auty [ctb] ,
Pierrick Marie [ctb] ,
Tiago de Conto [ctb]
Maintainer: Jean-Romain Roussel <jean-romain.roussel.1@ulaval.ca>
Diff between rlas versions 1.6.0 dated 2022-05-26 and 1.6.1 dated 2022-10-18
DESCRIPTION | 6 +++--- MD5 | 14 +++++++------- NEWS.md | 5 +++++ src/LASlib/lasfilter.cpp | 4 ++-- src/LASlib/lasreader_asc.cpp | 2 +- src/LASlib/lasreader_ply.cpp | 8 ++++---- src/LASlib/lasreader_txt.cpp | 12 ++++++------ src/LASzip/lasreadpoint.cpp | 22 +++++++++++----------- 8 files changed, 39 insertions(+), 34 deletions(-)
Title: 'Rcpp' Bindings for the 'simdjson' Header-Only Library for
'JSON' Parsing
Description: The 'JSON' format is ubiquitous for data interchange, and the
'simdjson' library written by Daniel Lemire (and many contributors) provides
a high-performance parser for these files which by relying on parallel 'SIMD'
instruction manages to parse these files as faster than disk speed. See the
<arXiv:1902.08318> paper for more details about 'simdjson'. This package
parses 'JSON' from string, file, or remote URLs under a variety of settings.
Author: Dirk Eddelbuettel, Brendan Knapp, Daniel Lemire
Maintainer: Dirk Eddelbuettel <edd@debian.org>
Diff between RcppSimdJson versions 0.1.7 dated 2022-02-18 and 0.1.8 dated 2022-10-18
ChangeLog | 7 +++++++ DESCRIPTION | 8 ++++---- MD5 | 10 +++++----- build/partial.rdb |binary inst/NEWS.Rd | 9 +++++++++ inst/include/simdjson.h | 8 ++++---- 6 files changed, 29 insertions(+), 13 deletions(-)
Title: Nonparametric Kernel Smoothing Methods for Mixed Data Types
Description: Nonparametric (and semiparametric) kernel methods that seamlessly handle a mix of continuous, unordered, and ordered factor data types. We would like to gratefully acknowledge support from the Natural Sciences and Engineering Research Council of Canada (NSERC, <https://www.nserc-crsng.gc.ca/>), the Social Sciences and Humanities Research Council of Canada (SSHRC, <https://www.sshrc-crsh.gc.ca/>), and the Shared Hierarchical Academic Research Computing Network (SHARCNET, <https://sharcnet.ca/>). We would also like to acknowledge the contributions of the GNU GSL authors. In particular, we adapt the GNU GSL B-spline routine gsl_bspline.c adding automated support for quantile knots (in addition to uniform knots), providing missing functionality for derivatives, and for extending the splines beyond their endpoints.
Author: Jeffrey S. Racine [aut, cre],
Tristen Hayfield [aut]
Maintainer: Jeffrey S. Racine <racinej@mcmaster.ca>
Diff between np versions 0.60-15 dated 2022-10-09 and 0.60-16 dated 2022-10-18
CHANGELOG | 6 ++++++ DESCRIPTION | 8 ++++---- MD5 | 18 +++++++++--------- R/zzz.R | 2 +- inst/doc/entropy_np.pdf |binary inst/doc/np.pdf |binary inst/doc/np_faq.Rnw | 10 ++++++++++ inst/doc/np_faq.pdf |binary src/RuniqueCombs.c | 9 ++++++--- vignettes/np_faq.Rnw | 10 ++++++++++ 10 files changed, 46 insertions(+), 17 deletions(-)
Title: Ensemble Algorithms for Time Series Forecasting with Modeltime
Description: A 'modeltime' extension that implements time series ensemble forecasting methods including model averaging,
weighted averaging, and stacking. These techniques are popular methods
to improve forecast accuracy and stability. Refer to papers such as
"Machine-Learning Models for Sales Time Series Forecasting" Pavlyshenko, B.M. (2019) <doi:10.3390>.
Author: Matt Dancho [aut, cre],
Business Science [cph]
Maintainer: Matt Dancho <mdancho@business-science.io>
Diff between modeltime.ensemble versions 1.0.1 dated 2022-06-09 and 1.0.2 dated 2022-10-18
modeltime.ensemble-1.0.1/modeltime.ensemble/vignettes/temp |only modeltime.ensemble-1.0.2/modeltime.ensemble/DESCRIPTION | 10 modeltime.ensemble-1.0.2/modeltime.ensemble/LICENSE | 4 modeltime.ensemble-1.0.2/modeltime.ensemble/MD5 | 92 modeltime.ensemble-1.0.2/modeltime.ensemble/NAMESPACE | 130 modeltime.ensemble-1.0.2/modeltime.ensemble/NEWS.md | 142 - modeltime.ensemble-1.0.2/modeltime.ensemble/R/00_global_variables.R | 12 modeltime.ensemble-1.0.2/modeltime.ensemble/R/00_imports.R | 12 modeltime.ensemble-1.0.2/modeltime.ensemble/R/dev-model_descriptions.R | 166 - modeltime.ensemble-1.0.2/modeltime.ensemble/R/ensemble_average.R | 208 - modeltime.ensemble-1.0.2/modeltime.ensemble/R/ensemble_model_spec.R | 810 ++--- modeltime.ensemble-1.0.2/modeltime.ensemble/R/ensemble_weighted.R | 268 - modeltime.ensemble-1.0.2/modeltime.ensemble/R/modeltime_calibrate.R | 26 modeltime.ensemble-1.0.2/modeltime.ensemble/R/modeltime_forecast.R | 1175 ++++---- modeltime.ensemble-1.0.2/modeltime.ensemble/R/modeltime_recursive.R | 67 modeltime.ensemble-1.0.2/modeltime.ensemble/R/modeltime_refit.R | 400 +- modeltime.ensemble-1.0.2/modeltime.ensemble/R/nested_ensemble_average.R | 1190 ++++---- modeltime.ensemble-1.0.2/modeltime.ensemble/R/nested_ensemble_weighted.R | 1376 +++++----- modeltime.ensemble-1.0.2/modeltime.ensemble/R/tibble-type_sum.R | 16 modeltime.ensemble-1.0.2/modeltime.ensemble/R/utils-parallel_processing.R | 158 - modeltime.ensemble-1.0.2/modeltime.ensemble/R/utils-pipe.R | 22 modeltime.ensemble-1.0.2/modeltime.ensemble/R/utils-tidy-eval.R | 93 modeltime.ensemble-1.0.2/modeltime.ensemble/README.md | 396 +- modeltime.ensemble-1.0.2/modeltime.ensemble/build/vignette.rds |binary modeltime.ensemble-1.0.2/modeltime.ensemble/inst/doc/getting-started-with-modeltime-ensemble.R | 240 - modeltime.ensemble-1.0.2/modeltime.ensemble/inst/doc/getting-started-with-modeltime-ensemble.Rmd | 498 +-- modeltime.ensemble-1.0.2/modeltime.ensemble/inst/doc/getting-started-with-modeltime-ensemble.html | 1239 ++++----- modeltime.ensemble-1.0.2/modeltime.ensemble/inst/doc/nested-ensembles.R |only modeltime.ensemble-1.0.2/modeltime.ensemble/inst/doc/nested-ensembles.Rmd |only modeltime.ensemble-1.0.2/modeltime.ensemble/inst/doc/nested-ensembles.html |only modeltime.ensemble-1.0.2/modeltime.ensemble/inst/doc/recursive-ensembles.R |only modeltime.ensemble-1.0.2/modeltime.ensemble/inst/doc/recursive-ensembles.Rmd |only modeltime.ensemble-1.0.2/modeltime.ensemble/inst/doc/recursive-ensembles.html |only modeltime.ensemble-1.0.2/modeltime.ensemble/man/ensemble_average.Rd | 124 modeltime.ensemble-1.0.2/modeltime.ensemble/man/ensemble_model_spec.Rd | 302 +- modeltime.ensemble-1.0.2/modeltime.ensemble/man/ensemble_nested_average.Rd | 188 - modeltime.ensemble-1.0.2/modeltime.ensemble/man/ensemble_nested_weighted.Rd | 202 - modeltime.ensemble-1.0.2/modeltime.ensemble/man/ensemble_weighted.Rd | 126 modeltime.ensemble-1.0.2/modeltime.ensemble/man/pipe.Rd | 24 modeltime.ensemble-1.0.2/modeltime.ensemble/man/tidyeval.Rd | 101 modeltime.ensemble-1.0.2/modeltime.ensemble/tests/testthat.R | 38 modeltime.ensemble-1.0.2/modeltime.ensemble/tests/testthat/test-conf_by_id.R | 172 - modeltime.ensemble-1.0.2/modeltime.ensemble/tests/testthat/test-ensemble_average.R | 382 +- modeltime.ensemble-1.0.2/modeltime.ensemble/tests/testthat/test-ensemble_model_spec.R | 580 ++-- modeltime.ensemble-1.0.2/modeltime.ensemble/tests/testthat/test-ensemble_weighted.R | 234 - modeltime.ensemble-1.0.2/modeltime.ensemble/tests/testthat/test-nested-ensembles.R | 818 ++--- modeltime.ensemble-1.0.2/modeltime.ensemble/tests/testthat/test-panel-data.R | 466 +-- modeltime.ensemble-1.0.2/modeltime.ensemble/tests/testthat/test-recursive.R | 466 +-- modeltime.ensemble-1.0.2/modeltime.ensemble/vignettes/getting-started-with-modeltime-ensemble.Rmd | 498 +-- modeltime.ensemble-1.0.2/modeltime.ensemble/vignettes/nested-ensembles.Rmd |only modeltime.ensemble-1.0.2/modeltime.ensemble/vignettes/recursive-ensembles.Rmd |only 51 files changed, 6778 insertions(+), 6693 deletions(-)
More information about modeltime.ensemble at CRAN
Permanent link
Title: Composable Preprocessing Operators and Pipelines for Machine
Learning
Description: Toolset that enriches 'mlr' with a diverse set of preprocessing
operators. Composable Preprocessing Operators ("CPO"s) are first-class
R objects that can be applied to data.frames and 'mlr' "Task"s to modify
data, can be attached to 'mlr' "Learner"s to add preprocessing to machine
learning algorithms, and can be composed to form preprocessing pipelines.
Author: Martin Binder [aut, cre],
Bernd Bischl [ctb],
Michel Lang [ctb],
Lars Kotthoff [ctb]
Maintainer: Martin Binder <developer.mb706@doublecaret.com>
Diff between mlrCPO versions 0.3.7-4 dated 2022-07-20 and 0.3.7-5 dated 2022-10-18
DESCRIPTION | 14 ++--- MD5 | 68 ++++++++++++++------------- NEWS | 4 + R/CPO_filterFeatures.R | 10 +-- R/RandomForestSRC.R |only inst/doc/a_1_getting_started.html | 6 +- inst/doc/a_2_mlrCPO_core.html | 4 - inst/doc/a_3_all_CPOs.html | 4 - inst/doc/a_4_custom_CPOs.html | 6 +- inst/doc/afaff |only inst/doc/z_1_getting_started_terse.html | 4 - inst/doc/z_2_mlrCPO_core_terse.html | 4 - inst/doc/z_3_all_CPOs_terse.html | 4 - inst/doc/z_4_custom_CPOs_terse.html | 4 - man/cpoFilterAnova.Rd | 3 - man/cpoFilterCarscore.Rd | 3 - man/cpoFilterChiSquared.Rd | 3 - man/cpoFilterFeatures.Rd | 6 +- man/cpoFilterGainRatio.Rd | 3 - man/cpoFilterInformationGain.Rd | 3 - man/cpoFilterKruskal.Rd | 3 - man/cpoFilterLinearCorrelation.Rd | 3 - man/cpoFilterMrmr.Rd | 3 - man/cpoFilterOneR.Rd | 3 - man/cpoFilterPermutationImportance.Rd | 3 - man/cpoFilterRankCorrelation.Rd | 3 - man/cpoFilterRelief.Rd | 3 - man/cpoFilterRfCImportance.Rd | 3 - man/cpoFilterRfImportance.Rd | 3 - man/cpoFilterRfSRCImportance.Rd | 3 - man/cpoFilterRfSRCMinDepth.Rd | 3 - man/cpoFilterSymmetricalUncertainty.Rd | 3 - man/cpoFilterUnivariate.Rd | 3 - man/cpoFilterVariance.Rd | 3 - man/randomForestSRC_filters.Rd |only tests/testthat/test_core_targetop.R | 4 - tests/testthat/test_pipeop_collapsefactors.R |only 37 files changed, 114 insertions(+), 85 deletions(-)
Title: Download Data from Kobotoolbox to R
Description: Wrapper for 'Kobotoolbox' APIs ver 2 mentioned at <https://support.kobotoolbox.org/api.html>, to download data from 'Kobotoolbox' to R. Small and simple package that adds immense convenience for the data professionals using 'Kobotoolbox'.
Author: Asitav Sen [aut, cre, cph]
Maintainer: Asitav Sen <hello@asitavsen.com>
Diff between KoboconnectR versions 1.2.0 dated 2022-10-16 and 1.2.1 dated 2022-10-18
DESCRIPTION | 8 - MD5 | 26 ++-- NAMESPACE | 3 NEWS.md | 4 R/Koboconnect.R | 166 ++++++++++++++++++++----------- R/other.R | 111 ++++++++++++-------- README.md | 3 build/vignette.rds |binary tests/testthat/test-get_kobo_token.R | 1 tests/testthat/test-kobo_df_download.R | 2 tests/testthat/test-kobo_export_create.R | 9 - tests/testthat/test-kobo_exports.R | 3 tests/testthat/test-kobo_xls_dl.R | 13 +- tests/testthat/test-kobotools_api.R | 1 14 files changed, 223 insertions(+), 127 deletions(-)
Title: Approximate Optimal Transport Between Two-Dimensional Grids
Description: Can be used for optimal transport between two-dimensional grids with respect to separable cost functions of l^p form. It utilizes the Frank-Wolfe algorithm to approximate so-called pivot measures: one-dimensional transport plans that fully describe the full transport, see G. Auricchio (2021) <arXiv:2105.07278>. For these, it offers methods for visualization and to extract the corresponding transport plans and costs. Additionally, related functions for one-dimensional optimal transport are available.
Author: Michel Groppe [aut, cre],
Nicholas Bonneel [ctb],
Egervary Research Group on Combinatorial Optimization [cph]
Maintainer: Michel Groppe <michel.groppe@stud.uni-goettingen.de>
Diff between gridOT versions 1.0 dated 2022-10-17 and 1.0.1 dated 2022-10-18
DESCRIPTION | 8 ++++---- MD5 | 4 ++-- src/dual.h | 2 ++ 3 files changed, 8 insertions(+), 6 deletions(-)
Title: Genetic Algorithms
Description: Flexible general-purpose toolbox implementing genetic algorithms (GAs) for stochastic optimisation. Binary, real-valued, and permutation representations are available to optimize a fitness function, i.e. a function provided by users depending on their objective function. Several genetic operators are available and can be combined to explore the best settings for the current task. Furthermore, users can define new genetic operators and easily evaluate their performances. Local search using general-purpose optimisation algorithms can be applied stochastically to exploit interesting regions. GAs can be run sequentially or in parallel, using an explicit master-slave parallelisation or a coarse-grain islands approach.
Author: Luca Scrucca [aut, cre]
Maintainer: Luca Scrucca <luca.scrucca@unipg.it>
Diff between GA versions 3.2.2 dated 2021-10-15 and 3.2.3 dated 2022-10-18
DESCRIPTION | 8 MD5 | 14 - NEWS.md | 4 README.md | 6 build/partial.rdb |binary build/vignette.rds |binary inst/doc/GA.html | 719 ++++++++++++++++++++++++++++++++++++++++------------- src/genope.cpp | 4 8 files changed, 576 insertions(+), 179 deletions(-)
Title: Categorical Regression Splines
Description: Regression splines that handle a mix of continuous and categorical (discrete) data often encountered in applied settings. I would like to gratefully acknowledge support from the Natural Sciences and Engineering Research Council of Canada (NSERC, <https://www.nserc-crsng.gc.ca>), the Social Sciences and Humanities Research Council of Canada (SSHRC, <https://www.sshrc-crsh.gc.ca>), and the Shared Hierarchical Academic Research Computing Network (SHARCNET, <https://www.sharcnet.ca>). We would also like to acknowledge the contributions of the GNU GSL authors. In particular, we adapt the GNU GSL B-spline routine gsl_bspline.c adding automated support for quantile knots (in addition to uniform knots), providing missing functionality for derivatives, and for extending the splines beyond their endpoints.
Author: Jeffrey S. Racine [aut, cre],
Zhenghua Nie [aut],
Brian D. Ripley [ctb]
Maintainer: Jeffrey S. Racine <racinej@mcmaster.ca>
Diff between crs versions 0.15-35 dated 2022-10-09 and 0.15-36 dated 2022-10-18
CHANGELOG | 6 +++++- DESCRIPTION | 8 ++++---- MD5 | 24 ++++++++++++------------ R/zzz.R | 2 +- inst/doc/crs.pdf |binary inst/doc/crs_faq.Rnw | 12 +++++++++++- inst/doc/crs_faq.pdf |binary inst/doc/spline_primer.pdf |binary src/RuniqueCombs.c | 9 ++++++--- src/nomad_src/Mads.cpp | 4 ++-- src/nomad_src/NelderMead_Search.cpp | 13 +++++++------ src/nomad_src/Sgtelib_Model_Search.hpp | 2 +- vignettes/crs_faq.Rnw | 12 +++++++++++- 13 files changed, 60 insertions(+), 32 deletions(-)
Title: Visualising Bipartite Networks and Calculating Some (Ecological)
Indices
Description: Functions to visualise webs and calculate a series of indices commonly used to describe pattern in (ecological) webs. It focuses on webs consisting of only two levels (bipartite), e.g. pollination webs or predator-prey-webs. Visualisation is important to get an idea of what we are actually looking at, while the indices summarise different aspects of the web's topology.
Author: Carsten F. Dormann [aut, cre] ,
Jochen Fruend [aut] ,
Bernd Gruber [aut] ,
Stephen Beckett [ctb] ,
Mariano Devoto [ctb] ,
Gabriel M.F. Felix [ctb] ,
Jos<e9> M. Iriondo [ctb] ,
Tore Opsahl [ctb] ,
Rafael B.P. Pinheiro [ctb] ,
Rouven Strauss [ctb],
Die [...truncated...]
Maintainer: Carsten F. Dormann <carsten.dormann@biom.uni-freiburg.de>
Diff between bipartite versions 2.17 dated 2022-04-20 and 2.18 dated 2022-10-18
bipartite-2.17/bipartite/R/nestedness.r |only bipartite-2.18/bipartite/DESCRIPTION | 8 ++--- bipartite-2.18/bipartite/MD5 | 24 ++++++++-------- bipartite-2.18/bipartite/R/nestedness.R |only bipartite-2.18/bipartite/R/robustness.r | 2 - bipartite-2.18/bipartite/build/partial.rdb |binary bipartite-2.18/bipartite/build/vignette.rds |binary bipartite-2.18/bipartite/inst/doc/Intro2bipartite.pdf |binary bipartite-2.18/bipartite/man/NOS.Rd | 2 - bipartite-2.18/bipartite/man/bipartite-package.Rd | 10 +++++- bipartite-2.18/bipartite/man/nestedness.Rd | 26 ++++++++++++------ bipartite-2.18/bipartite/man/specieslevel.Rd | 2 - bipartite-2.18/bipartite/src/bmn5.cc | 2 - bipartite-2.18/bipartite/src/init.c | 4 +- 14 files changed, 48 insertions(+), 32 deletions(-)
Title: Bayesian Treed Gaussian Process Models
Description: Bayesian nonstationary, semiparametric nonlinear regression
and design by treed Gaussian processes (GPs) with jumps to the limiting
linear model (LLM). Special cases also implemented include Bayesian
linear models, CART, treed linear models, stationary separable and
isotropic GPs, and GP single-index models. Provides 1-d and 2-d plotting functions
(with projection and slice capabilities) and tree drawing, designed for
visualization of tgp-class output. Sensitivity analysis and
multi-resolution models are supported. Sequential experimental
design and adaptive sampling functions are also provided, including ALM,
ALC, and expected improvement. The latter supports derivative-free
optimization of noisy black-box functions. For details and tutorials,
see Gramacy (2007) <doi:10.18637/jss.v019.i09> and Gramacy & Taddy (2010)
<doi:10.18637/jss.v033.i06>.
Author: Robert B. Gramacy <rbg@vt.edu> and Matt A. Taddy
Maintainer: Robert B. Gramacy <rbg@vt.edu>
Diff between tgp versions 2.4-19 dated 2022-08-19 and 2.4-20 dated 2022-10-18
ChangeLog | 6 + DESCRIPTION | 8 - MD5 | 32 ++--- build/partial.rdb |binary build/vignette.rds |binary data/exp2d.rda |binary inst/doc/tgp.pdf |binary inst/doc/tgp2.pdf |binary src/all_draws.c | 279 ++++++++++++++++----------------------------------- src/dopt.c | 18 +-- src/gen_covar.c | 95 +++++------------ src/lik_post.c | 12 -- src/linalg.c | 65 +++-------- src/predict.c | 95 ++++++----------- src/predict_linear.c | 95 +++++------------ src/rand_draws.c | 166 +++++++++++------------------- src/rand_pdf.c | 68 +++--------- 17 files changed, 324 insertions(+), 615 deletions(-)
Title: Create Representative Records After Entity Resolution
Description: An implementation of Kaplan, Betancourt, Steorts (2022) <doi:10.1080/00031305.2022.2041482> that creates representative records for use in downstream tasks after entity resolution is performed. Multiple methods for creating the representative records (data sets) are provided.
Author: Andee Kaplan [aut, cre],
Brenda Betancourt [aut],
Rebecca C. Steorts [aut]
Maintainer: Andee Kaplan <andee.kaplan@colostate.edu>
Diff between representr versions 0.1.3 dated 2022-02-03 and 0.1.4 dated 2022-10-18
DESCRIPTION | 10 MD5 | 18 - NEWS.md | 6 R/clust_proto.R | 2 R/pp_weights.R | 6 R/record_distance.R | 2 R/represent.R | 12 build/vignette.rds |binary inst/doc/representr.html | 545 +++++++++++++++++++++++++++++++++++----- src/within_category_compare.cpp | 2 10 files changed, 520 insertions(+), 83 deletions(-)
Title: Estimation of the Probability of Informed Trading
Description: A comprehensive bundle of utilities for the estimation of probability of informed trading models: original PIN in Easley and O'Hara (1992) and Easley et al. (1996); Multilayer PIN (MPIN) in Ersan (2016); Adjusted PIN (AdjPIN) in Duarte and Young (2009); and volume-synchronized PIN (VPIN) in Easley et al. (2011, 2012). Implementations of various estimation methods suggested in the literature are included. Additional compelling features comprise posterior probabilities, an implementation of an expectation-maximization (EM) algorithm, and PIN decomposition into layers, and into bad/good components. Versatile data simulation tools, and trade classification algorithms are among the supplementary utilities. The package provides fast, compact, and precise utilities to tackle the sophisticated, error-prone, and time-consuming estimation procedure of informed trading, and this solely using the raw trade-level data.
Author: Montasser Ghachem [aut, cre, cph]
,
Oguz Ersan [aut]
Maintainer: Montasser Ghachem <montasser.ghachem@pinstimation.com>
Diff between PINstimation versions 0.1.0 dated 2022-05-27 and 0.1.1 dated 2022-10-18
PINstimation-0.1.0/PINstimation/man/figures/PINstimation_logo_blue.png |only PINstimation-0.1.0/PINstimation/man/figures/PINstimation_logo_dark.png |only PINstimation-0.1.0/PINstimation/man/figures/logo_small.png |only PINstimation-0.1.0/PINstimation/man/figures/small_logo1.png |only PINstimation-0.1.0/PINstimation/man/figures/small_logo_.png |only PINstimation-0.1.0/PINstimation/man/figures/small_logo_10.png |only PINstimation-0.1.0/PINstimation/vignettes/file394c28ad4057.html |only PINstimation-0.1.0/PINstimation/vignettes/file3a8457286d90.html |only PINstimation-0.1.0/PINstimation/vignettes/file9b8420761e3.html |only PINstimation-0.1.0/PINstimation/vignettes/file9b845711a78.html |only PINstimation-0.1.1/PINstimation/DESCRIPTION | 12 PINstimation-0.1.1/PINstimation/MD5 | 151 PINstimation-0.1.1/PINstimation/NAMESPACE | 147 PINstimation-0.1.1/PINstimation/NEWS.md | 27 PINstimation-0.1.1/PINstimation/R/PINstimation.R | 17 PINstimation-0.1.1/PINstimation/R/args_defaultvalues.R | 12 PINstimation-0.1.1/PINstimation/R/args_validation.R | 84 PINstimation-0.1.1/PINstimation/R/data_aggregation.R | 21 PINstimation-0.1.1/PINstimation/R/data_simulation.R | 29 PINstimation-0.1.1/PINstimation/R/model_adjpin.R | 71 PINstimation-0.1.1/PINstimation/R/model_factorizations.R | 121 PINstimation-0.1.1/PINstimation/R/model_mpin.R | 27 PINstimation-0.1.1/PINstimation/R/model_mpin.ecm.R | 47 PINstimation-0.1.1/PINstimation/R/model_mpin.layers.R | 98 PINstimation-0.1.1/PINstimation/R/model_pin.R | 419 ++ PINstimation-0.1.1/PINstimation/R/model_vpin.R | 153 PINstimation-0.1.1/PINstimation/R/output_classes.R | 36 PINstimation-0.1.1/PINstimation/R/utilities_functions.R | 8 PINstimation-0.1.1/PINstimation/R/utilities_messages.R | 166 PINstimation-0.1.1/PINstimation/R/zzz.R | 8 PINstimation-0.1.1/PINstimation/README.md | 16 PINstimation-0.1.1/PINstimation/build/partial.rdb |binary PINstimation-0.1.1/PINstimation/build/vignette.rds |binary PINstimation-0.1.1/PINstimation/inst/REFERENCES.bib | 10 PINstimation-0.1.1/PINstimation/inst/doc/PINstimation.R | 2 PINstimation-0.1.1/PINstimation/inst/doc/PINstimation.html | 1704 +++++++++ PINstimation-0.1.1/PINstimation/inst/doc/PINstimation.rmd | 18 PINstimation-0.1.1/PINstimation/inst/doc/parallel_processing.html | 1760 +++++++++- PINstimation-0.1.1/PINstimation/inst/doc/parallel_processing.rmd | 2 PINstimation-0.1.1/PINstimation/man/PINstimation-package.Rd | 466 +- PINstimation-0.1.1/PINstimation/man/adjpin.Rd | 352 +- PINstimation-0.1.1/PINstimation/man/aggregate_trades.Rd | 222 - PINstimation-0.1.1/PINstimation/man/dailytrades.Rd | 50 PINstimation-0.1.1/PINstimation/man/data.series-class.Rd | 128 PINstimation-0.1.1/PINstimation/man/dataset-class.Rd | 194 - PINstimation-0.1.1/PINstimation/man/detecting-layers.Rd | 210 - PINstimation-0.1.1/PINstimation/man/estimate.adjpin-class.Rd | 192 - PINstimation-0.1.1/PINstimation/man/estimate.mpin-class.Rd | 174 PINstimation-0.1.1/PINstimation/man/estimate.mpin.ecm-class.Rd | 283 - PINstimation-0.1.1/PINstimation/man/estimate.pin-class.Rd | 158 PINstimation-0.1.1/PINstimation/man/estimate.vpin-class.Rd | 120 PINstimation-0.1.1/PINstimation/man/factorizations.Rd | 394 +- PINstimation-0.1.1/PINstimation/man/figures/small_logo_2.png |only PINstimation-0.1.1/PINstimation/man/figures/small_logo_w.png |only PINstimation-0.1.1/PINstimation/man/generatedata_adjpin.Rd | 340 - PINstimation-0.1.1/PINstimation/man/generatedata_mpin.Rd | 586 +-- PINstimation-0.1.1/PINstimation/man/get_posteriors.Rd | 173 PINstimation-0.1.1/PINstimation/man/hfdata.Rd | 54 PINstimation-0.1.1/PINstimation/man/initials_adjpin.Rd | 178 - PINstimation-0.1.1/PINstimation/man/initials_adjpin_cl.Rd | 220 - PINstimation-0.1.1/PINstimation/man/initials_adjpin_rnd.Rd | 178 - PINstimation-0.1.1/PINstimation/man/initials_mpin.Rd | 214 - PINstimation-0.1.1/PINstimation/man/initials_pin_ea.Rd | 194 - PINstimation-0.1.1/PINstimation/man/initials_pin_gwj.Rd | 134 PINstimation-0.1.1/PINstimation/man/initials_pin_yz.Rd | 206 - PINstimation-0.1.1/PINstimation/man/mpin_ecm.Rd | 514 +- PINstimation-0.1.1/PINstimation/man/mpin_ml.Rd | 248 - PINstimation-0.1.1/PINstimation/man/pin.Rd | 184 - PINstimation-0.1.1/PINstimation/man/pin_bayes.Rd |only PINstimation-0.1.1/PINstimation/man/pin_ea.Rd | 196 - PINstimation-0.1.1/PINstimation/man/pin_gwj.Rd | 170 PINstimation-0.1.1/PINstimation/man/pin_yz.Rd | 216 - PINstimation-0.1.1/PINstimation/man/set_display_digits.Rd | 130 PINstimation-0.1.1/PINstimation/man/vpin.Rd | 220 - PINstimation-0.1.1/PINstimation/vignettes/PINstimation.rmd | 18 PINstimation-0.1.1/PINstimation/vignettes/file2868200c331d.html | 718 ++-- PINstimation-0.1.1/PINstimation/vignettes/file28682f562633.html | 850 ++-- PINstimation-0.1.1/PINstimation/vignettes/file373c18c31780.html | 856 ++-- PINstimation-0.1.1/PINstimation/vignettes/file3fbc2fefcc9.html | 856 ++-- PINstimation-0.1.1/PINstimation/vignettes/file404c5be2ef3.html | 724 ++-- PINstimation-0.1.1/PINstimation/vignettes/file404c69cf31a2.html | 856 ++-- PINstimation-0.1.1/PINstimation/vignettes/file40b42d323a3d.html | 772 ++-- PINstimation-0.1.1/PINstimation/vignettes/parallel_processing.rmd | 2 83 files changed, 10793 insertions(+), 7323 deletions(-)
Title: Linkage Disequilibrium Shrinkage Estimation for Polyploids
Description: Estimate haplotypic or composite pairwise linkage disequilibrium
(LD) in polyploids, using either genotypes or genotype likelihoods.
Support is provided to estimate the popular measures of LD: the LD
coefficient D, the standardized LD coefficient D', and the Pearson
correlation coefficient r. All estimates are returned with corresponding
standard errors. These estimates and standard errors can then be used
for shrinkage estimation. The main functions are ldfast(), ldest(), mldest(),
sldest(), plot.lddf(), format_lddf(), and ldshrink(). Details of the methods
are available in Gerard (2021a) <doi:10.1111/1755-0998.13349>
and Gerard (2021b) <doi:10.1038/s41437-021-00462-5>.
Author: David Gerard [aut, cre]
Maintainer: David Gerard <gerard.1787@gmail.com>
Diff between ldsep versions 2.1.4 dated 2022-02-11 and 2.1.5 dated 2022-10-18
DESCRIPTION | 8 MD5 | 40 - NEWS.md | 14 R/data.R | 120 +-- R/generics.R | 400 +++++----- R/ldgeno.R | 1396 ++++++++++++++++++------------------ R/multild.R | 896 +++++++++++------------ build/partial.rdb |binary build/vignette.rds |binary inst/CITATION | 68 - inst/doc/fast.Rmd | 192 ++-- inst/doc/fast.html | 269 ++++++ inst/doc/vcf.Rmd | 518 ++++++------- inst/doc/vcf.html | 390 ++++++++-- man/slcor.Rd | 74 - src/derivatives.cpp | 6 src/em.cpp | 14 tests/testthat/test-ldfast.R | 136 +-- tests/testthat/test-posteriormean.R | 366 ++++----- vignettes/fast.Rmd | 192 ++-- vignettes/vcf.Rmd | 518 ++++++------- 21 files changed, 3072 insertions(+), 2545 deletions(-)
Title: Web Interface to 'IsoplotR'
Description: Provides a graphical user interface to the 'IsoplotR' package for radiometric geochronology. The GUI runs in an internet browser and can either be used offline, or hosted on a server to provide online access to the 'IsoplotR' toolbox.
Author: Pieter Vermeesch [aut, cre],
Tim Band [ctb]
Maintainer: Pieter Vermeesch <p.vermeesch@ucl.ac.uk>
Diff between IsoplotRgui versions 5.0 dated 2022-09-15 and 5.1 dated 2022-10-18
DESCRIPTION | 10 +- MD5 | 34 ++++---- R/IsoplotR.R | 104 +++++++++++--------------- inst/www/home/news.html | 9 +- inst/www/js/IsoplotR.js | 31 +++---- inst/www/js/constants.json | 10 +- inst/www/js/js2R.js | 3 inst/www/js/settings.json | 1 inst/www/locales/cy/dictionary_id.json | 2 inst/www/locales/cy/home_id.json | 2 inst/www/locales/en/contextual_help.json | 3 inst/www/locales/en/dictionary_id.json | 3 inst/www/locales/es/dictionary_id.json | 2 inst/www/locales/zh_Hans/contextual_help.json | 2 inst/www/locales/zh_Hans/dictionary_id.json | 6 + inst/www/options/spectrum.html | 4 - inst/www/version.txt | 2 man/IsoplotR.Rd | 2 18 files changed, 102 insertions(+), 128 deletions(-)
Title: Supporting Functions for Packages Maintained by 'Yihui Xie'
Description: Miscellaneous functions commonly used in other packages maintained by 'Yihui Xie'.
Author: Yihui Xie [aut, cre, cph] ,
Wush Wu [ctb],
Daijiang Li [ctb],
Xianying Tan [ctb],
Salim Brueggemann [ctb] ,
Christophe Dervieux [ctb]
Maintainer: Yihui Xie <xie@yihui.name>
Diff between xfun versions 0.33 dated 2022-09-12 and 0.34 dated 2022-10-18
DESCRIPTION | 6 +- MD5 | 23 ++++---- NAMESPACE | 2 NEWS.md | 6 ++ R/command.R | 2 R/string.R | 17 ++++++ R/utils.R | 21 +------ inst/doc/xfun.html | 119 ++++++++++++++++++++---------------------- man/alnum_id.Rd |only man/optipng.Rd | 2 man/stringsAsStrings.Rd | 14 ---- tests/test-cran/test-string.R | 6 ++ tests/test-cran/test-utils.R | 8 -- 13 files changed, 112 insertions(+), 114 deletions(-)
Title: Bayesian QTL Mapping Toolkit
Description: QTL mapping toolkit for inbred crosses and recombinant
inbred lines. Includes maximum likelihood and Bayesian tools.
Author: Charles C. Berry <cberry@ucsd.edu>
Maintainer: Charles C. Berry <cberry@ucsd.edu>
Diff between bqtl versions 1.0-33 dated 2021-09-04 and 1.0-34 dated 2022-10-18
CHANGES | 5 +++++ DESCRIPTION | 8 ++++---- MD5 | 28 ++++++++++++++-------------- R/lapadj.s | 2 +- R/linear.bayes.s | 2 +- R/predict.bqtl.s | 2 +- R/swap.s | 2 +- R/swapbc1.c.s | 2 +- R/swapf2.c.s | 2 +- R/twohk.s | 2 +- R/twohkbc1.s | 2 +- R/twohkf2.s | 2 +- src/lapadj.c | 20 ++++++++++++++++++-- src/normLogLik.c | 15 +++++++-------- src/upbqtl.c | 22 ++++++++++++++++++++-- 15 files changed, 77 insertions(+), 39 deletions(-)
Title: Capture-Mark-Recapture Analysis using Multiple Non-Invasive
Marks
Description: Traditional and spatial capture-mark-recapture analysis with
multiple non-invasive marks. The models implemented in 'multimark' combine
encounter history data arising from two different non-invasive "marks",
such as images of left-sided and right-sided pelage patterns of bilaterally
asymmetrical species, to estimate abundance and related demographic
parameters while accounting for imperfect detection. Bayesian models are
specified using simple formulae and fitted using Markov chain Monte Carlo.
Addressing deficiencies in currently available software, 'multimark' also
provides a user-friendly interface for performing Bayesian multimodel
inference using non-spatial or spatial capture-recapture data consisting of a single
conventional mark or multiple non-invasive marks. See McClintock (2015) <doi:10.1002/ece3.1676> and Maronde et al. (2020) <doi:10.1002/ece3.6990>.
Author: Brett T. McClintock [aut, cre],
Acho Arnold [ctb, cph] ,
Barry Brown [ctb] ,
James Lovato [ctb] ,
John Burkardt [ctb] ,
Cleve Moler [ctb] ,
Arjun Gopalaswamy [ctb]
Maintainer: Brett T. McClintock <brett.mcclintock@noaa.gov>
Diff between multimark versions 2.1.4 dated 2022-03-08 and 2.1.5 dated 2022-10-18
DESCRIPTION | 10 MD5 | 12 NEWS | 9 src/Closed.c | 609 +++++++++++++++++-------------------------------- src/ClosedSCR.c | 585 +++++++++++++++++++++++------------------------ src/ProbitCJS.c | 694 +++++++++++++++++++++++++++----------------------------- src/func.c |only src/func.h |only 8 files changed, 865 insertions(+), 1054 deletions(-)
Title: Maximum Likelihood Analysis of Animal Movement Behavior Using
Multivariate Hidden Markov Models
Description: Extended tools for analyzing telemetry data using generalized hidden Markov models. Features of momentuHMM (pronounced ``momentum'') include data pre-processing and visualization, fitting HMMs to location and auxiliary biotelemetry or environmental data, biased and correlated random walk movement models, hierarchical HMMs, multiple imputation for incorporating location measurement error and missing data, user-specified design matrices and constraints for covariate modelling of parameters, random effects, decoding of the state process, visualization of fitted models, model checking and selection, and simulation. See McClintock and Michelot (2018) <doi:10.1111/2041-210X.12995>.
Author: Brett McClintock, Theo Michelot
Maintainer: Brett McClintock <brett.mcclintock@noaa.gov>
Diff between momentuHMM versions 1.5.4 dated 2021-09-03 and 1.5.5 dated 2022-10-18
DESCRIPTION | 14 +++++++------- MD5 | 26 +++++++++++++------------- NAMESPACE | 6 ++++++ NEWS | 11 +++++++++-- R/MIfitHMM.R | 4 ++-- R/plotSpatialCov.R | 2 +- R/prepData.R | 4 ++-- R/simData.R | 2 +- R/simHierData.R | 2 +- README.md | 2 +- build/partial.rdb |binary build/vignette.rds |binary src/RcppExports.cpp | 5 +++++ src/densities.h | 2 +- 14 files changed, 49 insertions(+), 31 deletions(-)
Title: Canadian Hydrological Analyses
Description: A collection of user-submitted functions to aid in the analysis of hydrological data, particularly for users in Canada. The functions focus on the use of Canadian data sets, and are suited to Canadian hydrology, such as the important cold region hydrological processes and will work with Canadian hydrological models. The functions are grouped into several themes, currently including Statistical hydrology, Basic data manipulations, Visualization, and Spatial hydrology. Functions developed by the Floodnet project are also included. CSHShydRology has been developed with the assistance of the Canadian Society for Hydrological Sciences (CSHS) which is an affiliated society of the Canadian Water Resources Association (CWRA). As of version 1.2.6, functions now fail gracefully when attempting to download data from a url which is unavailable.
Author: Kevin Shook [cre, aut],
Paul Whitfield [aut],
Robert Chlumsky [aut],
Daniel Moore [aut],
Martin Durocher [aut],
Matthew Lemieux [ctb],
Jason Chiang [ctb],
Joel Trubilowicz [ctb],
SJ Kim [ctb]
Maintainer: Kevin Shook <kevin.shook@usask.ca>
Diff between CSHShydRology versions 1.2.9 dated 2022-09-05 and 1.2.10 dated 2022-10-18
DESCRIPTION | 8 ++++---- MD5 | 6 +++--- inst/doc/hydrograph_plot.html | 14 +++++++------- tests/testthat/test_ch_rfa_seasonstat.R | 1 - 4 files changed, 14 insertions(+), 15 deletions(-)
Title: Modeling Count Data with Peer Effects
Description: Likelihood-based estimation and data generation from a class of models used to estimate peer effects on count data by controlling for the network endogeneity. This class includes count data models with social interactions (Houndetoungan 2022; <doi:10.2139/ssrn.3721250>), spatial tobit models (Xu and Lee 2015; <doi:10.1016/j.jeconom.2015.05.004>), and spatial linear-in-means models (Lee 2004; <doi:10.1111/j.1468-0262.2004.00558.x>).
Author: Elysee Aristide Houndetoungan [cre, aut]
Maintainer: Elysee Aristide Houndetoungan <ariel92and@gmail.com>
Diff between CDatanet versions 1.0.1 dated 2022-04-05 and 2.0.1 dated 2022-10-18
CDatanet-1.0.1/CDatanet/src/CDIncomplet.cpp |only CDatanet-2.0.1/CDatanet/DESCRIPTION | 13 CDatanet-2.0.1/CDatanet/MD5 | 55 +- CDatanet-2.0.1/CDatanet/NAMESPACE | 4 CDatanet-2.0.1/CDatanet/NEWS.md | 8 CDatanet-2.0.1/CDatanet/R/CDatanet.R | 15 CDatanet-2.0.1/CDatanet/R/CDnetestim.R | 373 +++++++++++++----- CDatanet-2.0.1/CDatanet/R/CDnetsim.R | 129 ++++-- CDatanet-2.0.1/CDatanet/R/RcppExports.R | 88 ++++ CDatanet-2.0.1/CDatanet/R/SARTestim.R | 83 ++-- CDatanet-2.0.1/CDatanet/R/SARTsim.R | 12 CDatanet-2.0.1/CDatanet/R/SARestim.R | 8 CDatanet-2.0.1/CDatanet/R/SARsim.R | 4 CDatanet-2.0.1/CDatanet/R/homophily.R | 15 CDatanet-2.0.1/CDatanet/R/homophily.fixed.R |only CDatanet-2.0.1/CDatanet/build/partial.rdb |binary CDatanet-2.0.1/CDatanet/man/CDatanet-package.Rd | 14 CDatanet-2.0.1/CDatanet/man/cdnet.Rd | 43 +- CDatanet-2.0.1/CDatanet/man/homophily.FE.Rd |only CDatanet-2.0.1/CDatanet/man/homophily.Rd | 14 CDatanet-2.0.1/CDatanet/man/sar.Rd | 9 CDatanet-2.0.1/CDatanet/man/sart.Rd | 19 CDatanet-2.0.1/CDatanet/man/simcdnet.Rd | 37 + CDatanet-2.0.1/CDatanet/man/simsar.Rd | 5 CDatanet-2.0.1/CDatanet/man/simsart.Rd | 13 CDatanet-2.0.1/CDatanet/src/CDincomInfo.cpp |only CDatanet-2.0.1/CDatanet/src/CDincomInfo.rho.cpp |only CDatanet-2.0.1/CDatanet/src/Homophily.cpp | 383 +++++++++++++++++++ CDatanet-2.0.1/CDatanet/src/RcppExports.cpp | 477 ++++++++++++++++++++++++ CDatanet-2.0.1/CDatanet/src/SARTComplet.cpp | 6 CDatanet-2.0.1/CDatanet/src/SARTIncomplet.cpp | 220 ++++++++++- 31 files changed, 1751 insertions(+), 296 deletions(-)
Title: Extracts the Backbone from Graphs
Description: An implementation of methods for extracting an unweighted unipartite
graph (i.e. a backbone) from an unweighted unipartite graph, a weighted unipartite
graph, the projection of an unweighted bipartite graph , or the projection
of a weighted bipartite graph (Neal, 2022 <doi:10.1371/journal.pone.0269137>).
Author: Zachary Neal [aut, cre] ,
Rachel Domagalski [aut],
Bruce Sagan [aut],
Karl Godard [ctb]
Maintainer: Zachary Neal <zpneal@msu.edu>
Diff between backbone versions 2.1.0 dated 2022-06-01 and 2.1.1 dated 2022-10-18
backbone-2.1.0/backbone/man/hyperg.Rd |only backbone-2.1.0/backbone/man/universal.Rd |only backbone-2.1.0/backbone/tests/testthat |only backbone-2.1.0/backbone/tests/testthat.R |only backbone-2.1.1/backbone/DESCRIPTION | 8 backbone-2.1.1/backbone/MD5 | 71 +- backbone-2.1.1/backbone/NAMESPACE | 2 backbone-2.1.1/backbone/NEWS.md | 8 backbone-2.1.1/backbone/R/backbone.extract.R |only backbone-2.1.1/backbone/R/bicm.R | 240 ++++++-- backbone-2.1.1/backbone/R/disparity.R | 35 - backbone-2.1.1/backbone/R/fastball.R |only backbone-2.1.1/backbone/R/fdsm.R | 51 + backbone-2.1.1/backbone/R/fixedcol.R | 50 + backbone-2.1.1/backbone/R/fixedfill.R | 36 - backbone-2.1.1/backbone/R/fixedrow.R | 60 -- backbone-2.1.1/backbone/R/global.R | 17 backbone-2.1.1/backbone/R/osdsm.R | 59 +- backbone-2.1.1/backbone/R/pb.R |only backbone-2.1.1/backbone/R/sdsm.R | 66 +- backbone-2.1.1/backbone/R/sparsify.R | 34 - backbone-2.1.1/backbone/R/utils.R | 242 -------- backbone-2.1.1/backbone/README.md | 10 backbone-2.1.1/backbone/build/partial.rdb |binary backbone-2.1.1/backbone/inst/doc/backbone.html | 650 ++++++++++++++++++++---- backbone-2.1.1/backbone/inst/tinytest |only backbone-2.1.1/backbone/man/backbone.extract.Rd | 12 backbone-2.1.1/backbone/man/bicm.Rd | 12 backbone-2.1.1/backbone/man/disparity.Rd | 8 backbone-2.1.1/backbone/man/fastball.Rd | 2 backbone-2.1.1/backbone/man/fdsm.Rd | 14 backbone-2.1.1/backbone/man/fixedcol.Rd | 11 backbone-2.1.1/backbone/man/fixedfill.Rd | 11 backbone-2.1.1/backbone/man/fixedrow.Rd | 11 backbone-2.1.1/backbone/man/frommatrix.Rd | 10 backbone-2.1.1/backbone/man/global.Rd | 3 backbone-2.1.1/backbone/man/osdsm.Rd | 16 backbone-2.1.1/backbone/man/pb.Rd | 21 backbone-2.1.1/backbone/man/sdsm.Rd | 11 backbone-2.1.1/backbone/man/tomatrix.Rd | 4 backbone-2.1.1/backbone/tests/tinytest.R |only 41 files changed, 1135 insertions(+), 650 deletions(-)
Title: Statistical Toolbox for Radiometric Geochronology
Description: Plots U-Pb data on Wetherill and Tera-Wasserburg concordia diagrams. Calculates concordia and discordia ages. Performs linear regression of measurements with correlated errors using 'York', 'Titterington' and 'Ludwig' approaches. Generates Kernel Density Estimates (KDEs) and Cumulative Age Distributions (CADs). Produces Multidimensional Scaling (MDS) configurations and Shepard plots of multi-sample detrital datasets using the Kolmogorov-Smirnov distance as a dissimilarity measure. Calculates 40Ar/39Ar ages, isochrons, and age spectra. Computes weighted means accounting for overdispersion. Calculates U-Th-He (single grain and central) ages, logratio plots and ternary diagrams. Processes fission track data using the external detector method and LA-ICP-MS, calculates central ages and plots fission track and other data on radial (a.k.a. 'Galbraith') plots. Constructs total Pb-U, Pb-Pb, Th-Pb, K-Ca, Re-Os, Sm-Nd, Lu-Hf, Rb-Sr and 230Th-U isochrons as well as 230Th-U evolution plots.
Author: Pieter Vermeesch [aut, cre]
Maintainer: Pieter Vermeesch <p.vermeesch@ucl.ac.uk>
Diff between IsoplotR versions 5.0 dated 2022-09-15 and 5.1 dated 2022-10-18
DESCRIPTION | 8 ++++---- MD5 | 20 ++++++++++---------- R/ci.R | 14 +++++++++----- R/discfilter.R | 14 +++++++------- R/diseq.R | 7 +++++-- R/isochron.R | 2 +- R/peakfit.R | 1 + inst/constants.json | 6 +++--- inst/diseq.csv | 20 ++++++++++---------- man/discfilter.Rd | 10 +++++----- man/diseq.Rd | 7 +++++-- 11 files changed, 60 insertions(+), 49 deletions(-)
Title: Simulating Explicit Population Genetics Models
Description: Implementation in a simple and efficient way of fully customisable population genetics simulations,
considering multiple loci that have epistatic interactions. Specifically suited to the modelling of
multilocus nucleocytoplasmic systems (with both diploid and haploid loci), it is nevertheless possible
to simulate purely diploid (or purely haploid) genetic models.
Examples of models that can be simulated with Ease are numerous, for example models of genetic
incompatibilities as presented by Marie-Orleach et al. (2022) <doi:10.1101/2022.07.25.501356>.
Many others are conceivable, although few are actually explored, Ease having been developed
in particular to provide a solution so that these kinds of models can be simulated simply.
Author: Ehouarn Le Faou <ehouarnlefaou@orange.fr> [aut, cre]
Maintainer: Ehouarn Le Faou <ehouarnlefaou@orange.fr>
Diff between Ease versions 0.1.0 dated 2022-09-19 and 0.1.1 dated 2022-10-18
Ease-0.1.0/Ease/R/EaseClass.R |only Ease-0.1.0/Ease/man/Ease-class.Rd |only Ease-0.1.0/Ease/man/SIMULATION_MULTIPLE.Rd |only Ease-0.1.0/Ease/man/check.ease.Rd |only Ease-0.1.0/Ease/man/initialize-Ease-method.Rd |only Ease-0.1.0/Ease/man/is.correct.mut.matrix.Rd |only Ease-0.1.0/Ease/man/plot-Ease-method.Rd |only Ease-0.1.0/Ease/man/print-Ease-method.Rd |only Ease-0.1.0/Ease/man/setEase.Rd |only Ease-0.1.0/Ease/man/setMutationMatrixByRates.Rd |only Ease-0.1.0/Ease/man/show-Ease-method.Rd |only Ease-0.1.0/Ease/man/simulate-Ease-method.Rd |only Ease-0.1.0/Ease/man/stopGenerations.Rd |only Ease-0.1.0/Ease/man/stopProportions.Rd |only Ease-0.1.0/Ease/man/stopVect.Rd |only Ease-0.1.0/Ease/man/summary-Ease-method.Rd |only Ease-0.1.1/Ease/DESCRIPTION | 13 Ease-0.1.1/Ease/MD5 | 119 - Ease-0.1.1/Ease/NAMESPACE | 24 Ease-0.1.1/Ease/NEWS.md | 16 Ease-0.1.1/Ease/R/GenomeClass.R | 33 Ease-0.1.1/Ease/R/MetapopulationClass.R |only Ease-0.1.1/Ease/R/ModelFunctions.R | 453 ++++++ Ease-0.1.1/Ease/R/MutationMatrixClass.R | 70 Ease-0.1.1/Ease/R/PopulationClass.R |only Ease-0.1.1/Ease/R/RcppExports.R | 217 +- Ease-0.1.1/Ease/R/SelectionClass.R | 77 - Ease-0.1.1/Ease/R/ToolFunctions.R | 82 + Ease-0.1.1/Ease/R/UserFunctions.R | 691 +++++---- Ease-0.1.1/Ease/build/vignette.rds |binary Ease-0.1.1/Ease/inst/doc/use-the-Ease-package.R | 280 +++ Ease-0.1.1/Ease/inst/doc/use-the-Ease-package.Rmd | 392 ++++- Ease-0.1.1/Ease/inst/doc/use-the-Ease-package.html | 878 +++++++++-- Ease-0.1.1/Ease/man/Genome-class.Rd | 17 Ease-0.1.1/Ease/man/IDgenomeGeneration.Rd |only Ease-0.1.1/Ease/man/IDgenotypeGeneration.Rd | 6 Ease-0.1.1/Ease/man/IDhaplotypeGeneration.Rd | 4 Ease-0.1.1/Ease/man/METAPOP_SIMULATION.Rd |only Ease-0.1.1/Ease/man/Metapopulation-class.Rd |only Ease-0.1.1/Ease/man/MutationMatrix-class.Rd | 2 Ease-0.1.1/Ease/man/Population-class.Rd |only Ease-0.1.1/Ease/man/Selection-class.Rd | 18 Ease-0.1.1/Ease/man/areThereHomoz.Rd |only Ease-0.1.1/Ease/man/catn.Rd | 14 Ease-0.1.1/Ease/man/check.metapopulation.Rd |only Ease-0.1.1/Ease/man/check.population.Rd |only Ease-0.1.1/Ease/man/extractAlleleComb.Rd |only Ease-0.1.1/Ease/man/genotyping.Rd | 2 Ease-0.1.1/Ease/man/getCustomOutput.Rd |only Ease-0.1.1/Ease/man/getRecords.Rd | 38 Ease-0.1.1/Ease/man/getResults.Rd | 66 Ease-0.1.1/Ease/man/initialize-Metapopulation-method.Rd |only Ease-0.1.1/Ease/man/initialize-Population-method.Rd |only Ease-0.1.1/Ease/man/is.correct.transition.matrix.Rd |only Ease-0.1.1/Ease/man/is.default.matrix.Rd | 2 Ease-0.1.1/Ease/man/is.probability.matrix.Rd | 2 Ease-0.1.1/Ease/man/isAffected.Rd |only Ease-0.1.1/Ease/man/isHaploSelectFormula.Rd |only Ease-0.1.1/Ease/man/listing.Rd | 2 Ease-0.1.1/Ease/man/mutMatFriendly.Rd |only Ease-0.1.1/Ease/man/mutMatRates.Rd | 7 Ease-0.1.1/Ease/man/mutation.Rd |only Ease-0.1.1/Ease/man/outFunct.Rd |only Ease-0.1.1/Ease/man/print-Metapopulation-method.Rd |only Ease-0.1.1/Ease/man/print-Population-method.Rd |only Ease-0.1.1/Ease/man/rowResultGen.Rd |only Ease-0.1.1/Ease/man/selectFormIntoVect.Rd |only Ease-0.1.1/Ease/man/selectInputTreatment.Rd |only Ease-0.1.1/Ease/man/selection.form.treatment.Rd |only Ease-0.1.1/Ease/man/setGenome.Rd | 6 Ease-0.1.1/Ease/man/setMetapopulation.Rd |only Ease-0.1.1/Ease/man/setMutationMatrix.Rd | 73 Ease-0.1.1/Ease/man/setPopulation.Rd |only Ease-0.1.1/Ease/man/setSelectNeutral.Rd | 18 Ease-0.1.1/Ease/man/setSelectOnGametes.Rd | 6 Ease-0.1.1/Ease/man/setSelectOnGametesProd.Rd | 6 Ease-0.1.1/Ease/man/setSelectOnInds.Rd | 6 Ease-0.1.1/Ease/man/show-Metapopulation-method.Rd |only Ease-0.1.1/Ease/man/show-Population-method.Rd |only Ease-0.1.1/Ease/man/simulate-Metapopulation-method.Rd |only Ease-0.1.1/Ease/man/whichHomoz.Rd |only Ease-0.1.1/Ease/src/Ease_cpp.cpp | 1174 +++++++++++----- Ease-0.1.1/Ease/src/RcppExports.cpp | 40 Ease-0.1.1/Ease/vignettes/use-the-Ease-package.Rmd | 392 ++++- 84 files changed, 3808 insertions(+), 1438 deletions(-)
Title: Continuous Cartogram
Description: Procedures for making continuous cartogram. Procedures available are:
flow based cartogram (Gastner & Newman (2004) <doi:10.1073/pnas.0400280101>),
fast flow based cartogram (Gastner, Seguy & More (2018) <doi:10.1073/pnas.1712674115>),
rubber band based cartogram (Dougenik et al. (1985)
<doi:10.1111/j.0033-0124.1985.00075.x>).
Author: Pierre-Andre Cornillon [aut, cre],
Florent Demoraes [aut],
Flow-Based-Cartograms [cph]
Maintainer: Pierre-Andre Cornillon <pierre-andre.cornillon@univ-rennes2.fr>
Diff between cartogramR versions 1.0-8 dated 2022-07-18 and 1.0-9 dated 2022-10-18
DESCRIPTION | 8 ++++---- MD5 | 6 +++--- R/geom_cartogramR.R | 5 ----- src/geomcarto.c | 48 +++++++++++++++++++++++++++++------------------- 4 files changed, 36 insertions(+), 31 deletions(-)
Title: Port of the 'Scilab' 'n1qn1' Module for Unconstrained BFGS
Optimization
Description: Provides 'Scilab' 'n1qn1'. This takes more memory than traditional L-BFGS. The n1qn1 routine is useful since it allows prespecification of a Hessian.
If the Hessian is near enough the truth in optimization it can speed up the optimization problem. The algorithm is described in the
'Scilab' optimization documentation located at
<https://www.scilab.org/sites/default/files/optimization_in_scilab.pdf>. This version uses manually modified code from 'f2c' to make this a C only binary.
Author: Matthew Fidler [aut, cre],
Wenping Wang [aut],
Claude Lemarechal [aut, ctb],
Joseph Bonnans [ctb],
Jean-Charles Gilbert [ctb],
Claudia Sagastizabal [ctb],
Stephen L. Campbell, [ctb],
Jean-Philippe Chancelier [ctb],
Ramine Nikoukhah [ctb],
Dirk Eddelb [...truncated...]
Maintainer: Matthew Fidler <matthew.fidler@gmail.com>
Diff between n1qn1 versions 6.0.1-10 dated 2020-11-17 and 6.0.1-11 dated 2022-10-18
DESCRIPTION | 14 +++++++------- MD5 | 18 ++++++++++-------- NEWS.md |only README.md | 6 ++---- src/RcppExpMod.cpp | 2 +- src/ajour.c | 5 +---- src/init.c | 3 ++- src/n1qn1.h |only src/n1qn1_all.c | 3 +-- src/proj.c | 4 +--- src/satur.c | 3 +-- 11 files changed, 26 insertions(+), 32 deletions(-)
Title: Regulatory Tables for Clinical Research
Description: Creates tables suitable for regulatory agency submission by
leveraging the 'gtsummary' package as the back end. Tables can be exported
to HTML, Word, PDF and more. Highly customized outputs are
available by utilizing existing styling functions from 'gtsummary' as
well as custom options designed for regulatory tables.
Author: Shannon Pileggi [aut, cre, cph]
,
Daniel D. Sjoberg [aut]
Maintainer: Shannon Pileggi <shannon.pileggi@gmail.com>
Diff between gtreg versions 0.1.1 dated 2022-08-17 and 0.2.0 dated 2022-10-18
gtreg-0.1.1/gtreg/inst/doc/counting-methods.R |only gtreg-0.1.1/gtreg/inst/doc/counting-methods.Rmd |only gtreg-0.1.1/gtreg/inst/doc/counting-methods.html |only gtreg-0.1.1/gtreg/vignettes/counting-methods.Rmd |only gtreg-0.2.0/gtreg/DESCRIPTION | 12 gtreg-0.2.0/gtreg/MD5 | 68 gtreg-0.2.0/gtreg/NAMESPACE | 13 gtreg-0.2.0/gtreg/NEWS.md | 27 gtreg-0.2.0/gtreg/R/add_overall.R | 457 ++--- gtreg-0.2.0/gtreg/R/complete_ae_data.R | 482 ++--- gtreg-0.2.0/gtreg/R/inline_text_tbl_ae.R | 4 gtreg-0.2.0/gtreg/R/reexport.R | 25 gtreg-0.2.0/gtreg/R/selectors.R | 189 +- gtreg-0.2.0/gtreg/R/style_xxx.R |only gtreg-0.2.0/gtreg/R/tbl_ae.R | 392 ++-- gtreg-0.2.0/gtreg/R/tbl_ae_count.R | 91 - gtreg-0.2.0/gtreg/R/tbl_ae_focus.R | 215 +- gtreg-0.2.0/gtreg/R/utils-tbl_ae.R | 541 ++---- gtreg-0.2.0/gtreg/README.md | 13 gtreg-0.2.0/gtreg/build/vignette.rds |binary gtreg-0.2.0/gtreg/inst/WORDLIST | 7 gtreg-0.2.0/gtreg/inst/doc/further_documentation.R |only gtreg-0.2.0/gtreg/inst/doc/further_documentation.Rmd |only gtreg-0.2.0/gtreg/inst/doc/further_documentation.html |only gtreg-0.2.0/gtreg/man/figures/Introducing-gtreg-screenshot.png |only gtreg-0.2.0/gtreg/man/reexports.Rd | 10 gtreg-0.2.0/gtreg/man/selectors.Rd | 1 gtreg-0.2.0/gtreg/man/style_xxx.Rd |only gtreg-0.2.0/gtreg/man/tbl_ae.Rd | 2 gtreg-0.2.0/gtreg/man/tbl_ae_count.Rd | 2 gtreg-0.2.0/gtreg/man/tbl_ae_focus.Rd | 2 gtreg-0.2.0/gtreg/tests/testthat/_snaps |only gtreg-0.2.0/gtreg/tests/testthat/test-add_overall.R | 437 ++--- gtreg-0.2.0/gtreg/tests/testthat/test-complete_ae_data.R | 812 +++++----- gtreg-0.2.0/gtreg/tests/testthat/test-inline_text.R | 140 - gtreg-0.2.0/gtreg/tests/testthat/test-modify_header.R | 230 +- gtreg-0.2.0/gtreg/tests/testthat/test-style_xxx.R |only gtreg-0.2.0/gtreg/tests/testthat/test-tbl_ae.R | 103 - gtreg-0.2.0/gtreg/tests/testthat/test-tbl_ae_count.R | 9 gtreg-0.2.0/gtreg/tests/testthat/test-tbl_ae_focus.R | 50 gtreg-0.2.0/gtreg/vignettes/further_documentation.Rmd |only 41 files changed, 2181 insertions(+), 2153 deletions(-)
Title: Web Interface to 'R' Functions
Description: Web front end for your 'R' functions producing plots or tables.
If you have a function or set of related functions, you can make them
available over the internet through a web browser. This is the same
motivation as the 'shiny' package, but note that the development of
'shinylight' is not in any way linked to that of 'shiny' (beyond the use of
the 'httpuv' package). You might prefer 'shinylight' to 'shiny' if you want
a lighter weight deployment with easier horizontal scaling, or if you want
to develop your front end yourself in JavaScript and HTML just using
a lightweight remote procedure call interface to your R code on the
server.
Author: Pieter Vermeesch [aut],
Tim Band [aut, cre]
Maintainer: Tim Band <t.band@ucl.ac.uk>
Diff between shinylight versions 0.7 dated 2022-09-01 and 1.0.0 dated 2022-10-18
DESCRIPTION | 8 ++++---- MD5 | 12 ++++++------ R/shinylight.R | 4 ++-- inst/www/css/shinylight.css | 3 ++- inst/www/js/shinylight-framework.js | 8 ++++++++ inst/www/js/shinylight-toolkit.js | 8 +++++--- man/framework.shinylightFrameworkStart.Rd | 8 ++++++++ 7 files changed, 35 insertions(+), 16 deletions(-)
Title: Classification with Mixture Modelling
Description: Interface of 'MIXMOD' software for supervised, unsupervised and
semi-supervised classification with mixture modelling <doi: 10.18637/jss.v067.i06>.
Author: Florent Langrognet [aut],
Remi Lebret [aut],
Christian Poli [aut],
Serge Iovleff [aut],
Benjamin Auder [aut],
Parmeet Bhatia [ctb],
Anwuli Echenim [ctb],
Serge Iovleff [aut],
Christophe Biernacki [ctb],
Gilles Celeux [ctb],
Gerard Govaert [ctb],
Quen [...truncated...]
Maintainer: Quentin Grimonprez <quentingrim@yahoo.fr>
Diff between Rmixmod versions 2.1.6 dated 2021-11-24 and 2.1.7 dated 2022-10-18
DESCRIPTION | 12 MD5 | 189 ++-- R/CompositeModel.R | 723 ++++++++++------ R/CompositeParameter.R | 79 + R/GaussianModel.R | 468 ++++++---- R/GaussianParameter.R | 207 ++-- R/Mixmod.R | 768 +++++++++--------- R/MixmodCluster.R | 472 ++++++----- R/MixmodDAResults.R | 118 +- R/MixmodLearn.R | 407 +++++---- R/MixmodPredict.R | 371 ++++---- R/MixmodResults.R | 663 ++++++++------- R/MixmodXml.R | 40 R/Model.R | 59 - R/MultinomialModel.R | 528 +++++++----- R/MultinomialParameter.R | 251 +++-- R/Parameter.R | 23 R/Rmixmod.R | 242 +++-- R/Strategy.R | 605 +++++++------- R/global.R | 405 +++++---- R/zzz.R | 2 cleanup | 1 inst/CITATION |only man/CompositeModel-class.Rd | 9 man/CompositeParameter-class.Rd | 5 man/GaussianModel-class.Rd | 7 man/GaussianParameter-class.Rd | 5 man/Mixmod-class.Rd | 13 man/MixmodCluster-class.Rd | 11 man/MixmodDAResults-class.Rd | 9 man/MixmodLearn-class.Rd | 7 man/MixmodPredict-class.Rd | 15 man/MixmodResults-class.Rd | 9 man/Model-class.Rd | 3 man/MultinomialModel-class.Rd | 9 man/MultinomialParameter-class.Rd | 5 man/Parameter-class.Rd | 3 man/Rmixmod-package.Rd | 130 +-- man/Strategy-class.Rd | 30 man/barplot-methods.Rd | 15 man/barplotCluster.Rd | 15 man/birds.Rd | 8 man/car.Rd | 9 man/composeModelName.Rd | 4 man/extract-methods.Rd | 3 man/finance.Rd | 14 man/geyser.Rd | 15 man/heterodata.Rd | 3 man/hist-methods.Rd | 11 man/histCluster.Rd | 11 man/mixmodCluster.Rd | 77 + man/mixmodCompositeModel.Rd | 44 - man/mixmodGaussianModel.Rd | 53 - man/mixmodLearn.default.Rd | 66 - man/mixmodMultinomialModel.Rd | 37 man/mixmodStrategy.Rd | 58 - man/oldmixmodPredict.Rd | 51 - man/plot-methods.Rd | 29 man/plotCluster.Rd | 30 man/print-methods.Rd | 60 - man/show-methods.Rd | 56 - man/sortByCriterion-methods.Rd | 9 man/summary-methods.Rd | 11 man/titanic.Rd | 25 src/ClusteringInputHandling.cpp | 4 src/mixmod/Clustering/ClusteringOutput.cpp | 2 src/mixmod/Clustering/ClusteringOutput.h | 6 src/mixmod/Clustering/ClusteringStrategy.cpp | 8 src/mixmod/Clustering/ClusteringStrategy.h | 16 src/mixmod/Clustering/ClusteringStrategyInit.h | 18 src/mixmod/DiscriminantAnalysis/Learn/LearnInput.h | 4 src/mixmod/DiscriminantAnalysis/Learn/LearnOutput.cpp | 2 src/mixmod/DiscriminantAnalysis/Learn/LearnOutput.h | 2 src/mixmod/Kernel/Algo/Algo.h | 14 src/mixmod/Kernel/Algo/CEMAlgo.h | 8 src/mixmod/Kernel/Algo/EMAlgo.h | 8 src/mixmod/Kernel/Algo/MAPAlgo.h | 16 src/mixmod/Kernel/Algo/MAlgo.h | 16 src/mixmod/Kernel/Algo/SEMAlgo.h | 18 src/mixmod/Kernel/Criterion/CriterionOutput.h | 8 src/mixmod/Kernel/IO/DataDescription.h | 2 src/mixmod/Kernel/IO/Input.h | 4 src/mixmod/Kernel/IO/Label.cpp | 2 src/mixmod/Kernel/IO/Label.h | 2 src/mixmod/Kernel/IO/LabelDescription.h | 4 src/mixmod/Kernel/Parameter/CompositeParameter.h | 2 src/mixmod/Matrix/DiagMatrix.h | 6 src/mixmod/Matrix/GeneralMatrix.h | 6 src/mixmod/Matrix/SphericalMatrix.h | 6 src/mixmod/Matrix/SymmetricMatrix.h | 6 tests/clustering1test.R | 6 tests/clusteringParametertest.R | 48 - tests/clusteringPartitiontest.R | 12 tests/heterogeneousclusteringtest.R | 2 tests/ssupervised.R | 12 tests/test.R | 24 96 files changed, 4482 insertions(+), 3429 deletions(-)
Title: Parallel Bayesian Optimization of Hyperparameters
Description: Fast, flexible framework for implementing Bayesian optimization of model
hyperparameters according to the methods described in Snoek et al. <arXiv:1206.2944>.
The package allows the user to run scoring function in parallel, save intermediary
results, and tweak other aspects of the process to fully utilize the computing resources
available to the user.
Author: Samuel Wilson [aut, cre]
Maintainer: Samuel Wilson <samwilson303@gmail.com>
Diff between ParBayesianOptimization versions 1.2.4 dated 2021-02-11 and 1.2.6 dated 2022-10-18
ParBayesianOptimization-1.2.4/ParBayesianOptimization/R/smallFuncs.R |only ParBayesianOptimization-1.2.6/ParBayesianOptimization/DESCRIPTION | 9 +- ParBayesianOptimization-1.2.6/ParBayesianOptimization/MD5 | 28 +++---- ParBayesianOptimization-1.2.6/ParBayesianOptimization/NAMESPACE | 2 ParBayesianOptimization-1.2.6/ParBayesianOptimization/NEWS.md | 4 + ParBayesianOptimization-1.2.6/ParBayesianOptimization/R/SmallFuncs.R |only ParBayesianOptimization-1.2.6/ParBayesianOptimization/R/addIterations.R | 21 +++-- ParBayesianOptimization-1.2.6/ParBayesianOptimization/R/bayesOpt.R | 2 ParBayesianOptimization-1.2.6/ParBayesianOptimization/R/changeSaveFile.R | 2 ParBayesianOptimization-1.2.6/ParBayesianOptimization/R/getNextParameters.R | 16 ++-- ParBayesianOptimization-1.2.6/ParBayesianOptimization/R/updateGP.R | 2 ParBayesianOptimization-1.2.6/ParBayesianOptimization/README.md | 23 ++---- ParBayesianOptimization-1.2.6/ParBayesianOptimization/build/vignette.rds |binary ParBayesianOptimization-1.2.6/ParBayesianOptimization/inst/doc/functionMaximization.html | 14 +++ ParBayesianOptimization-1.2.6/ParBayesianOptimization/inst/doc/multiPointSampling.html | 12 ++- ParBayesianOptimization-1.2.6/ParBayesianOptimization/inst/doc/tuningHyperparameters.html | 37 ++++++---- 16 files changed, 106 insertions(+), 66 deletions(-)
More information about ParBayesianOptimization at CRAN
Permanent link
Title: Computation of the MLE for Bivariate Interval Censored Data
Description: We provide functions to compute the nonparametric
maximum likelihood estimator (MLE) for
the bivariate distribution of (X,Y), when
realizations of (X,Y) cannot be observed directly.
To be more precise, we consider the situation
where we observe a set of rectangles in R^2 that are known
to contain the unobservable realizations of (X,Y). We
compute the MLE based on such a set of rectangles.
The methods can also be used for univariate censored data (see data set
'cosmesis'), and for
censored data with competing risks (see data set 'menopause').
We also provide functions to visualize the observed data and the MLE.
Author: Marloes Maathuis [aut, cre]
Maintainer: Marloes Maathuis <marloesmaathuis@gmail.com>
Diff between MLEcens versions 0.1-5 dated 2022-03-31 and 0.1-7 dated 2022-10-18
DESCRIPTION | 12 ++++++------ MD5 | 4 ++-- src/reduc.c | 36 ++++++++++++++++++------------------ 3 files changed, 26 insertions(+), 26 deletions(-)
Title: R Interface to the 'UNU.RAN' Random Variate Generators
Description: Interface to the 'UNU.RAN' library for Universal Non-Uniform RANdom variate generators.
Thus it allows to build non-uniform random number generators from quite arbitrary
distributions. In particular, it provides an algorithm for fast numerical inversion
for distribution with given density function.
In addition, the package contains densities, distribution functions and quantiles
from a couple of distributions.
Author: Josef Leydold [aut, cre],
Wolfgang H"ormann [aut]
Maintainer: Josef Leydold <josef.leydold@wu.ac.at>
Diff between Runuran versions 0.36 dated 2022-05-05 and 0.37 dated 2022-10-18
DESCRIPTION | 10 +++++----- MD5 | 16 ++++++++-------- NEWS | 7 +++++++ build/vignette.rds |binary inst/doc/Runuran.pdf |binary man/Runuran-package.Rd | 4 ++-- src/Makevars.in | 2 +- src/unuran-src/methods/pinv.c | 2 +- vignettes/inputs/version.tex | 2 +- 9 files changed, 25 insertions(+), 18 deletions(-)
Title: Bindings to AppArmor and Security Related Linux Tools
Description: Bindings to kernel methods for enforcing security restrictions.
AppArmor can apply mandatory access control (MAC) policies on a given task
(process) via security profiles with detailed ACL definitions. In addition
this package implements bindings for setting process resource limits (rlimit),
uid, gid, affinity and priority. The high level R function 'eval.secure'
builds on these methods to perform dynamic sandboxing: it evaluates a single
R expression within a temporary fork which acts as a sandbox by enforcing
fine grained restrictions without affecting the main R process. A portable
version of this function is now available in the 'unix' package.
Author: Jeroen Ooms [aut, cre]
Maintainer: Jeroen Ooms <jeroen@berkeley.edu>
Diff between RAppArmor versions 3.2.2 dated 2020-12-11 and 3.2.3 dated 2022-10-18
DESCRIPTION | 8 ++++---- MD5 | 14 +++++++------- NEWS | 3 +++ R/apparmor.R | 2 +- build/vignette.rds |binary src/affinity.c | 8 ++++---- src/apparmor.c | 10 +++++----- src/init.c | 16 ++++++++-------- 8 files changed, 32 insertions(+), 29 deletions(-)
Title: Embedding and Clustering with Alignment for Spatial Datasets
Description: An efficient data integration method is provided for multiple spatial transcriptomics data with non-cluster-relevant effects such as the complex batch effects. It unifies spatial factor analysis simultaneously with spatial clustering and embedding alignment, requiring only partially shared cell/domain clusters across datasets. More details can be referred to Wei Liu, et al. (2022) <doi:10.1101/2022.06.26.497672>.
Author: Wei Liu [aut, cre],
Yi Yang [aut],
Jin Liu [aut]
Maintainer: Wei Liu <wei.liu@duke-nus.edu.sg>
Diff between PRECAST versions 1.2 dated 2022-07-11 and 1.3 dated 2022-10-18
PRECAST-1.2/PRECAST/man/gendata_seulist.Rd |only PRECAST-1.3/PRECAST/DESCRIPTION | 10 PRECAST-1.3/PRECAST/MD5 | 39 +- PRECAST-1.3/PRECAST/NAMESPACE | 8 PRECAST-1.3/PRECAST/R/SetClass.R | 237 ++++++++++++++--- PRECAST-1.3/PRECAST/R/main.R | 23 + PRECAST-1.3/PRECAST/README.md | 61 +++- PRECAST-1.3/PRECAST/build/vignette.rds |binary PRECAST-1.3/PRECAST/inst/doc/PRECAST.BreastCancer.R |only PRECAST-1.3/PRECAST/inst/doc/PRECAST.BreastCancer.Rmd |only PRECAST-1.3/PRECAST/inst/doc/PRECAST.BreastCancer.html |only PRECAST-1.3/PRECAST/inst/doc/PRECAST.DLPFC.R |only PRECAST-1.3/PRECAST/inst/doc/PRECAST.DLPFC.Rmd |only PRECAST-1.3/PRECAST/inst/doc/PRECAST.DLPFC.html |only PRECAST-1.3/PRECAST/inst/doc/PRECAST.Simu.R | 53 +-- PRECAST-1.3/PRECAST/inst/doc/PRECAST.Simu.Rmd | 75 +++-- PRECAST-1.3/PRECAST/inst/doc/PRECAST.Simu.html | 158 +++++------ PRECAST-1.3/PRECAST/inst/doc/PRECAST.html | 4 PRECAST-1.3/PRECAST/man/CreateiDRSCObject.Rd | 31 +- PRECAST-1.3/PRECAST/man/IntegrateSpaData.Rd | 2 PRECAST-1.3/PRECAST/man/PRECASTObj.Rd | 2 PRECAST-1.3/PRECAST/man/SpaPlot.Rd | 8 PRECAST-1.3/PRECAST/vignettes/PRECAST.BreastCancer.Rmd |only PRECAST-1.3/PRECAST/vignettes/PRECAST.DLPFC.Rmd |only PRECAST-1.3/PRECAST/vignettes/PRECAST.Simu.Rmd | 75 +++-- 25 files changed, 530 insertions(+), 256 deletions(-)
Title: Methods for Fast Multiple Change-Point Detection and Estimation
Description: A developing software suite for multiple change-point detection/estimation (data segmentation) in data sequences.
Author: Andreas Anastasiou [aut],
Yining Chen [aut, cre],
Haeran Cho [aut],
Piotr Fryzlewicz [aut]
Maintainer: Yining Chen <y.chen101@lse.ac.uk>
Diff between breakfast versions 2.2 dated 2021-06-11 and 2.3 dated 2022-10-18
DESCRIPTION | 6 MD5 | 16 R/ic.R | 2 R/local_prune.R | 3 R/sdll.R | 2 R/thresholding.R | 2 build/vignette.rds |binary inst/doc/breakfast-vignette.html | 2782 ++++++++++++++++++++++++--------------- src/exhaust_bic.cpp | 4 9 files changed, 1775 insertions(+), 1042 deletions(-)
Title: POSIX System Utilities
Description: Bindings to system utilities found in most Unix systems such as
POSIX functions which are not part of the Standard C Library.
Author: Jeroen Ooms [aut, cre]
Maintainer: Jeroen Ooms <jeroen@berkeley.edu>
Diff between unix versions 1.5.4 dated 2021-11-16 and 1.5.5 dated 2022-10-18
DESCRIPTION | 6 +++--- MD5 | 14 +++++++------- NEWS | 5 ++++- src/fork.c | 4 ++-- src/process.c | 16 ++++++++-------- src/register.c | 24 ++++++++++++------------ src/rlimit.c | 2 +- src/util.c | 8 ++++---- 8 files changed, 41 insertions(+), 38 deletions(-)
Title: Powerful and Reliable Tools for Running System Commands in R
Description: Drop-in replacements for the base system2() function with fine control
and consistent behavior across platforms. Supports clean interruption, timeout,
background tasks, and streaming STDIN / STDOUT / STDERR over binary or text
connections. Arguments on Windows automatically get encoded and quoted to work
on different locales.
Author: Jeroen Ooms [aut, cre] ,
Gabor Csardi [ctb]
Maintainer: Jeroen Ooms <jeroen@berkeley.edu>
Diff between sys versions 3.4 dated 2020-07-23 and 3.4.1 dated 2022-10-18
DESCRIPTION | 7 +++---- MD5 | 6 +++--- NEWS | 3 +++ src/exec.c | 6 +++--- 4 files changed, 12 insertions(+), 10 deletions(-)
Title: Spatio-Temporal Functional Imputation Tool
Description: A general spatiotemporal satellite image imputation method based on sparse functional data analytic techniques. The imputation method applies and extends the Functional Principal Analysis by Conditional Estimation (PACE). The underlying idea for the proposed procedure is to impute a missing pixel by borrowing information from temporally and spatially contiguous pixels based on the best linear unbiased prediction.
Author: Weicheng Zhu [aut, cre]
Maintainer: Weicheng Zhu <mingsnu@gmail.com>
Diff between stfit versions 0.99.8 dated 2020-10-02 and 0.99.9 dated 2022-10-18
DESCRIPTION | 8 ++++---- MD5 | 4 ++-- src/rcpp_cov_est1d.cpp | 4 ++-- 3 files changed, 8 insertions(+), 8 deletions(-)
Title: Micro Simulation Model for Cervical Cancer Prevention
Description: Micro simulation model to reproduce natural history of cervical cancer and cost-effectiveness evaluation of prevention strategies. See Georgalis L, de Sanjose S, Esnaola M, Bosch F X, Diaz M (2016) <doi:10.1097/CEJ.0000000000000202> for more details.
Author: David Morina , Pedro Puig and Mireia Diaz
Maintainer: David Morina Soler <dmorina@ub.edu>
Diff between mSimCC versions 0.0.1 dated 2019-06-03 and 0.0.2 dated 2022-10-18
DESCRIPTION | 12 +++--- MD5 | 4 +- src/Cmicrosim.c | 112 ++++++++++++++++++++++++++++---------------------------- 3 files changed, 64 insertions(+), 64 deletions(-)
Title: The Tidymodels Extension for Time Series Modeling
Description: The time series forecasting framework for use with the 'tidymodels' ecosystem.
Models include ARIMA, Exponential Smoothing, and additional time series models
from the 'forecast' and 'prophet' packages. Refer to "Forecasting Principles & Practice, Second edition"
(<https://otexts.com/fpp2/>).
Refer to "Prophet: forecasting at scale"
(<https://research.facebook.com/blog/2017/02/prophet-forecasting-at-scale/>.).
Author: Matt Dancho [aut, cre],
Business Science [cph]
Maintainer: Matt Dancho <mdancho@business-science.io>
Diff between modeltime versions 1.2.2 dated 2022-06-07 and 1.2.3 dated 2022-10-18
DESCRIPTION | 10 MD5 | 106 +++--- NAMESPACE | 1 NEWS.md | 7 R/helpers-modeltime_table.R | 46 ++ R/modeltime-forecast.R | 18 - R/modeltime-recursive.R | 176 ++++++---- R/modeltime-refit.R | 10 R/parsnip-adam.R | 5 R/parsnip-arima_boost.R | 5 R/parsnip-arima_reg.R | 5 R/parsnip-exp_smoothing.R | 5 R/parsnip-naive_reg.R | 5 R/parsnip-nnetar_reg.R | 5 R/parsnip-prophet_boost.R | 5 R/parsnip-prophet_reg.R | 5 R/parsnip-seasonal_reg.R | 5 R/parsnip-temporal_hierarchy.R | 5 R/parsnip-window_reg.R | 5 R/utils-tidy-eval.R | 3 inst/doc/getting-started-with-modeltime.html | 175 +++++---- man/adam_fit_impl.Rd | 12 man/adam_reg.Rd | 48 +- man/add_modeltime_model.Rd | 1 man/arima_boost.Rd | 29 - man/arima_params.Rd | 3 man/arima_reg.Rd | 24 - man/auto_adam_fit_impl.Rd | 12 man/combine_modeltime_tables.Rd | 1 man/drop_modeltime_model.Rd |only man/exp_smoothing.Rd | 32 - man/exp_smoothing_params.Rd | 3 man/nnetar_params.Rd | 3 man/nnetar_reg.Rd | 4 man/pluck_modeltime_model.Rd | 1 man/prophet_boost.Rd | 23 - man/prophet_params.Rd | 3 man/prophet_reg.Rd | 12 man/recursive.Rd | 8 man/seasonal_reg.Rd | 8 man/temporal_hierarchy.Rd | 6 man/tidyeval.Rd | 3 man/update_model_description.Rd | 1 man/update_modeltime_model.Rd | 1 man/xgboost_impl.Rd | 6 tests/testthat/test-conf_by_id.R | 2 tests/testthat/test-developer-tools-xregs.R | 4 tests/testthat/test-modeltime_residuals.R | 2 tests/testthat/test-modeltime_table-forecast-accuracy-refitting.R | 4 tests/testthat/test-nested-modeltime.R | 2 tests/testthat/test-panel-data.R | 2 tests/testthat/test-recursive-chunk-uneven.R |only tests/testthat/test-recursive-chunk.R |only tests/testthat/test-recursive.R | 3 tests/testthat/test-refit-parallel.R | 2 vignettes/modeltime_nested_fit.jpg |only 56 files changed, 520 insertions(+), 352 deletions(-)
Title: Mixed Models for Repeated Measures
Description: Mixed models for repeated measures (MMRM) are a popular
choice for analyzing longitudinal continuous outcomes in randomized
clinical trials and beyond; see Cnaan, Laird and Slasor (1997)
<doi:10.1002/(SICI)1097-0258(19971030)16:20%3C2349::AID-SIM667%3E3.0.CO;2-E>
for a tutorial and Mallinckrodt, Lane and Schnell (2008)
<doi:10.1177/009286150804200402> for a review. This package implements
MMRM based on the marginal linear model without random effects using
Template Model Builder ('TMB') which enables fast and robust model
fitting. Users can specify a variety of covariance matrices, weight
observations, fit models with restricted or standard maximum
likelihood inference, perform hypothesis testing with Satterthwaite
adjusted degrees of freedom, and extract least square means estimates
by using 'emmeans'.
Author: Daniel Sabanes Bove [aut, cre],
Julia Dedic [aut],
Doug Kelkhoff [aut],
Kevin Kunzmann [aut],
Brian Matthew Lang [aut],
Liming Li [aut],
Ya Wang [aut],
Craig Gower-Page [ctb],
Boehringer Ingelheim Ltd. [cph, fnd],
Gilead Sciences, Inc. [cph, fnd],
F. [...truncated...]
Maintainer: Daniel Sabanes Bove <daniel.sabanes_bove@roche.com>
Diff between mmrm versions 0.1.3 dated 2022-10-18 and 0.1.5 dated 2022-10-18
DESCRIPTION | 10 - MD5 | 16 +- NEWS.md | 2 build/partial.rdb |binary inst/doc/algorithm.html | 173 ++++++++++------------- inst/doc/covariance.html | 191 +++++++++++--------------- inst/doc/introduction.html | 291 +++++++++++++++++++--------------------- inst/doc/package_structure.html | 173 ++++++++++------------- man/mmrm-package.Rd | 2 9 files changed, 394 insertions(+), 464 deletions(-)
Title: Multivariate Kernel Density Estimation with Vine Copulas
Description: Implements the vine copula based kernel density estimator of
Nagler and Czado (2016) <doi:10.1016/j.jmva.2016.07.003>. The estimator does
not suffer from the curse of dimensionality and is therefore well suited for
high-dimensional applications.
Author: Thomas Nagler [aut, cre]
Maintainer: Thomas Nagler <mail@tnagler.com>
Diff between kdevine versions 0.4.3 dated 2021-05-11 and 0.4.4 dated 2022-10-18
DESCRIPTION | 8 ++--- MD5 | 20 ++++++------- NEWS.md | 8 +++++ README.md | 68 ++++++++++++++++++---------------------------- man/contour.kdevinecop.Rd | 3 -- man/kde1d.Rd | 3 -- man/kdevine-package.Rd | 2 - man/kdevine.Rd | 3 -- man/kdevinecop.Rd | 15 ++++++++-- src/RcppExports.cpp | 5 +++ src/evaluators.cpp | 2 - 11 files changed, 72 insertions(+), 65 deletions(-)
Title: Semi-Supervised Gaussian Mixture Model with a Missing-Data
Mechanism
Description: The algorithm of semi-supervised learning based on finite Gaussian mixture models with a missing-data mechanism is designed for a fitting g-class Gaussian mixture model via maximum likelihood (ML). It is proposed to treat the labels of the unclassified features as missing-data and to introduce a framework for their missing as in the pioneering work of Rubin (1976) for missing in incomplete data analysis. This dependency in the missingness pattern can be leveraged to provide additional information about the optimal classifier as specified by Bayes’ rule.
Author: Ziyang Lyu, Daniel Ahfock, Geoffrey J. McLachlan
Maintainer: Ziyang Lyu <ziyang.lyu@unsw.edu.au>
Diff between EMMIXSSL versions 1.1.0 dated 2022-02-08 and 1.1.1 dated 2022-10-18
DESCRIPTION | 14 ++++--- MD5 | 80 ++++++++++++++++++++++++++---------------- NAMESPACE | 1 R/Classifier_Bayes.R |only R/EMMIXSSL.R | 27 +++++++++----- R/Untitled.R |only R/data |only R/data-raw |only R/discriminant_beta.R | 10 ++--- R/errorrate.R |only R/gastro_label_binary.R |only R/gastro_label_trinary.R |only R/gastrodata.R |only R/get_clusterprobs.R | 19 ++++----- R/get_entropy.R | 11 ++--- R/initialvalue.R | 4 +- R/list2par.R | 23 ++++++------ R/loglk_full.R | 10 ++--- R/loglk_ig.R | 11 ++--- R/loglk_miss.R | 14 +++---- R/makelabelmaatrix.R | 6 +-- R/neg_objective_function.R | 12 +++++- R/par2list.R | 6 ++- R/rlabel.R | 7 ++- R/rmix.R | 20 +++++----- data |only man/Classifier_Bayes.Rd |only man/EMMIXSSL.Rd | 20 +++++----- man/discriminant_beta.Rd | 10 ++--- man/errorrate.Rd |only man/gastro_label_binary.Rd |only man/gastro_label_trinary.Rd |only man/gastrodata.Rd |only man/get_clusterprobs.Rd | 19 ++++----- man/get_entropy.Rd | 11 ++--- man/initialvalue.Rd | 4 +- man/list2par.Rd | 29 +++++++++------ man/loglk_full.Rd | 10 ++--- man/loglk_ig.Rd | 11 ++--- man/loglk_miss.Rd | 13 +++--- man/makelabelmatrix.Rd | 6 +-- man/neg_objective_function.Rd | 13 +++++- man/par2list.Rd | 6 ++- man/rlabel.Rd | 9 ++-- man/rmix.Rd | 17 ++++---- 45 files changed, 254 insertions(+), 199 deletions(-)
Title: 'RStudio' Addins and 'Shiny' Modules for Medical Research
Description: 'RStudio' addins and 'Shiny' modules for descriptive statistics, regression and survival analysis.
Author: Jinseob Kim [aut, cre] ,
Zarathu [cph, fnd],
Hyunki Lee [aut],
Changwoo Lim [aut]
Maintainer: Jinseob Kim <jinseob2kim@gmail.com>
Diff between jsmodule versions 1.3.2 dated 2022-09-12 and 1.3.3 dated 2022-10-18
DESCRIPTION | 16 MD5 | 187 +-- NAMESPACE | 5 NEWS.md | 7 R/FilePsInput.R | 364 +++--- R/FileRepeatedInput.R | 314 +++-- R/FileSurveyInput.R | 378 +++--- R/bar.R | 484 ++++---- R/box.R | 472 ++++---- R/coxph.R | 365 +++--- R/csvFileInput.R | 256 ++-- R/display2.R | 498 +++++---- R/gee.R | 383 +++---- R/ggpairs.R | 777 +++++++------- R/histogram.R |only R/jsBasicGadget.R | 1126 +++++++++++--------- R/jsPropensityGadget.R | 1749 +++++++++++++++++--------------- R/jsRepeatedGadget.R | 890 ++++++++-------- R/jsSurveyGadget.R | 1045 ++++++++++--------- R/kaplan.R | 555 +++++----- R/line.R | 502 ++++----- R/regress.R | 632 ++++++----- R/roc.R | 895 ++++++++-------- R/scatter.R | 542 ++++----- R/tb1.R | 591 +++++----- R/tb1simple.R | 777 +++++++------- R/timeroc.R | 1254 ++++++++++++---------- inst/doc/jsmodule.html | 17 man/FilePs.Rd | 21 man/FilePsInput.Rd | 21 man/FileRepeated.Rd | 51 man/FileRepeatedInput.Rd | 51 man/FileSurvey.Rd | 51 man/FileSurveyInput.Rd | 51 man/GEEModuleLinear.Rd | 45 man/GEEModuleLogistic.Rd | 47 man/GEEModuleUI.Rd | 45 man/barServer.Rd | 29 man/barUI.Rd | 29 man/boxServer.Rd | 29 man/boxUI.Rd | 29 man/coxModule.Rd | 30 man/coxUI.Rd | 2 man/csvFile.Rd | 19 man/csvFileInput.Rd | 19 man/ggpairsModule.Rd | 31 man/ggpairsModule2.Rd | 31 man/ggpairsModuleUI1.Rd | 31 man/ggpairsModuleUI2.Rd | 31 man/ggplotdownUI.Rd | 31 man/histogramServer.Rd |only man/histogramUI.Rd |only man/jsBasicAddin.Rd | 6 man/jsBasicExtAddin.Rd | 6 man/jsBasicGadget.Rd | 6 man/jsPropensityAddin.Rd | 6 man/jsPropensityExtAddin.Rd | 6 man/jsPropensityGadget.Rd | 6 man/jsRepeatedAddin.Rd | 6 man/jsRepeatedExtAddin.Rd | 6 man/jsRepeatedGadjet.Rd | 6 man/jsSurveyAddin.Rd | 6 man/jsSurveyExtAddin.Rd | 6 man/jsSurveyGadget.Rd | 6 man/kaplanModule.Rd | 31 man/kaplanUI.Rd | 31 man/lineServer.Rd | 29 man/lineUI.Rd | 29 man/logisticModule2.Rd | 30 man/mklist.Rd | 4 man/mksetdiff.Rd | 4 man/optionUI.Rd | 33 man/reclassificationJS.Rd | 12 man/regressModule2.Rd | 30 man/regressModuleUI.Rd | 30 man/rocModule.Rd | 49 man/rocModule2.Rd | 49 man/rocUI.Rd | 49 man/scatterServer.Rd | 29 man/scatterUI.Rd | 29 man/survIDINRI_helper.Rd | 4 man/tb1module.Rd | 36 man/tb1module2.Rd | 36 man/tb1moduleUI.Rd | 36 man/tb1simple.Rd | 120 +- man/tb1simple2.Rd | 120 +- man/tb1simpleUI.Rd | 120 +- man/timeROC_table.Rd | 6 man/timeROChelper.Rd | 4 man/timerocModule.Rd | 88 - man/timerocUI.Rd | 44 tests/testthat/shinytest/basic/app.R | 334 +++--- tests/testthat/shinytest/basic/global.R | 36 tests/testthat/test-display2.R | 3 tests/testthat/test-module.R | 10 tests/testthat/test-reclassification.R | 9 96 files changed, 9346 insertions(+), 8005 deletions(-)
Title: Export Data Frames to Excel 'xlsx' Format
Description: Zero-dependency data frame to xlsx exporter based on 'libxlsxwriter'.
Fast and no Java or Excel required.
Author: Jeroen Ooms [aut, cre] ,
John McNamara [cph] )
Maintainer: Jeroen Ooms <jeroen@berkeley.edu>
Diff between writexl versions 1.4.0 dated 2021-04-20 and 1.4.1 dated 2022-10-18
DESCRIPTION | 6 +++--- MD5 | 10 +++++----- NEWS | 3 +++ src/minizip/ioapi.c | 4 +--- src/minizip/zip.c | 2 +- src/write_xlsx.c | 7 +++++-- 6 files changed, 18 insertions(+), 14 deletions(-)
Title: Secure Shell (SSH) Client for R
Description: Connect to a remote server over SSH to transfer files via SCP,
setup a secure tunnel, or run a command or script on the host while
streaming stdout and stderr directly to the client.
Author: Jeroen Ooms [aut, cre]
Maintainer: Jeroen Ooms <jeroen@berkeley.edu>
Diff between ssh versions 0.8.1 dated 2022-09-24 and 0.8.2 dated 2022-10-18
DESCRIPTION | 6 +++--- MD5 | 14 +++++++------- NEWS | 3 +++ src/init.c | 4 ++-- src/myssh.h | 2 +- src/session.c | 2 +- src/tunnel.c | 4 ++-- src/writer.c | 2 +- 8 files changed, 20 insertions(+), 17 deletions(-)
Title: Diving Calculations and Decompression Models
Description: Code for describing and manipulating scuba diving profiles
(depth-time curves) and decompression models,
for calculating the predictions of decompression models,
for calculating maximum no-decompression time and decompression tables,
and for performing mixed gas calculations.
Author: Adrian Baddeley [aut, cre],
Vittorio Broglio [ctb, dtc],
Pedro Antonio Neves [ctb, dtc],
Andrew Bassom [ctb],
Peter Buzzacott [ctb],
Aren Leishman [ctb]
Maintainer: Adrian Baddeley <Adrian.Baddeley@curtin.edu.au>
Diff between scuba versions 1.11-0 dated 2021-05-14 and 1.11-1 dated 2022-10-18
DESCRIPTION | 14 ++++++++------ MD5 | 22 +++++++++++----------- NEWS | 23 +++++++++++++++++++++++ R/haldane.R | 8 ++++---- R/hm.R | 13 +++++++++---- build/vignette.rds |binary data/Bookspan.rda |binary data/baron.rda |binary data/deepmine.rda |binary data/pedro.rda |binary inst/doc/intro.pdf |binary src/haldane.c | 20 ++++++++++++-------- 12 files changed, 67 insertions(+), 33 deletions(-)
Title: Render SVG Images into PDF, PNG, (Encapsulated) PostScript, or
Bitmap Arrays
Description: Renders vector-based svg images into high-quality custom-size
bitmap arrays using 'librsvg2'. The resulting bitmap can be written to
e.g. png, jpeg or webp format. In addition, the package can convert
images directly to various formats such as pdf or postscript.
Author: Jeroen Ooms [aut, cre] ,
Salim Brueggemann [ctb]
Maintainer: Jeroen Ooms <jeroen@berkeley.edu>
Diff between rsvg versions 2.3.1 dated 2022-04-20 and 2.3.2 dated 2022-10-18
DESCRIPTION | 6 - MD5 | 12 ++- NEWS | 3 build/vignette.rds |binary inst/doc/svg-css.html | 159 +++++++++++++++++++++++++++---------------------- src/rsvg.c | 2 tests/engine.R |only tests/engine.Rout.save |only 8 files changed, 104 insertions(+), 78 deletions(-)
Title: Database Interface and 'MySQL' Driver for R
Description: Legacy 'DBI' interface to 'MySQL' / 'MariaDB' based on old code
ported from S-PLUS. A modern 'MySQL' client based on 'Rcpp' is available
from the 'RMariaDB' package.
Author: Jeroen Ooms [aut, cre] ,
David James [aut],
Saikat DebRoy [aut],
Hadley Wickham [aut],
Jeffrey Horner [aut],
RStudio [cph]
Maintainer: Jeroen Ooms <jeroen@berkeley.edu>
Diff between RMySQL versions 0.10.23 dated 2021-12-14 and 0.10.24 dated 2022-10-18
DESCRIPTION | 6 +++--- MD5 | 10 +++++----- NEWS.md | 4 ++++ src/RS-MySQL.h | 4 ++-- src/driver.c | 8 ++++---- src/utils.c | 2 +- 6 files changed, 19 insertions(+), 15 deletions(-)
Title: Functions for Handling Dates
Description: Functions for handling dates.
Author: Terry Therneau [aut],
Thomas Lumley [trl] ,
Kjetil Halvorsen [trl] ,
Kurt Hornik [trl, ctb, cre] ,
R Core Team [ctb]
Maintainer: Kurt Hornik <Kurt.Hornik@R-project.org>
Diff between date versions 1.2-39 dated 2020-02-05 and 1.2-40 dated 2022-10-18
ChangeLog | 6 ++++++ DESCRIPTION | 6 +++--- MD5 | 6 +++--- src/char_date.c | 7 ++----- 4 files changed, 14 insertions(+), 11 deletions(-)
Title: Methods to Convert R Data to YAML and Back
Description: Implements the 'libyaml' 'YAML' 1.1 parser and emitter
(<https://pyyaml.org/wiki/LibYAML>) for R.
Author: Shawn P Garbett [aut], Jeremy Stephens [aut, cre], Kirill Simonov [aut], Yihui Xie [ctb],
Zhuoer Dong [ctb], Hadley Wickham [ctb], Jeffrey Horner [ctb], reikoch [ctb],
Will Beasley [ctb], Brendan O'Connor [ctb], Gregory R. Warnes [ctb],
Michael Quinn [...truncated...]
Maintainer: Shawn Garbett <shawn.garbett@vumc.org>
Diff between yaml versions 2.3.5 dated 2022-02-21 and 2.3.6 dated 2022-10-18
DESCRIPTION | 8 MD5 | 14 inst/CHANGELOG | 4 inst/implicit.re | 5 src/implicit.c | 2291 +++++++++++++++++++++++++++---------------------------- src/r_emit.c | 128 +-- src/r_ext.c | 42 - src/r_parse.c | 184 +--- 8 files changed, 1300 insertions(+), 1376 deletions(-)
Title: Flexible Genotyping for Polyploids
Description: Implements empirical Bayes approaches to genotype
polyploids from next generation sequencing data while
accounting for allele bias, overdispersion, and sequencing
error. The main functions are flexdog() and multidog(),
which allow the specification
of many different genotype distributions. Also provided are functions to
simulate genotypes, rgeno(), and read-counts, rflexdog(), as well as
functions to calculate oracle genotyping error rates, oracle_mis(), and
correlation with the true genotypes, oracle_cor(). These latter two
functions are useful for read depth calculations. Run
browseVignettes(package = "updog") in R for example usage. See
Gerard et al. (2018) <doi:10.1534/genetics.118.301468> and
Gerard and Ferrao (2020) <doi:10.1093/bioinformatics/btz852> for details
on the implemented methods.
Author: David Gerard [aut, cre]
Maintainer: David Gerard <gerard.1787@gmail.com>
Diff between updog versions 2.1.2 dated 2022-01-24 and 2.1.3 dated 2022-10-18
DESCRIPTION | 8 MD5 | 137 - NAMESPACE | 82 - NEWS.md | 9 R/ashdog.R | 2524 ++++++++++++++++++------------------ R/data.R | 98 - R/multidog.R | 1560 +++++++++++----------- R/oracle.R | 594 ++++---- R/plot_geno.R | 398 ++--- R/pp.R | 876 ++++++------ R/rflexdog.R | 622 ++++---- R/updog.R | 296 ++-- README.md | 296 ++-- build/partial.rdb |binary build/vignette.rds |binary inst/CITATION | 88 - inst/doc/multidog.html | 281 +++- inst/doc/oracle_calculations.Rmd | 266 +-- inst/doc/oracle_calculations.html | 271 +++ inst/doc/simulate_ngs.Rmd | 248 +-- inst/doc/simulate_ngs.html | 247 +++ inst/doc/smells_like_updog.Rmd | 214 +-- inst/doc/smells_like_updog.html | 298 +++- man/betabinom.Rd | 180 +- man/export_vcf.Rd | 100 - man/figures |only man/filter_snp.Rd | 86 - man/flexdog.Rd | 711 +++++----- man/flexdog_full.Rd | 785 +++++------ man/format_multidog.Rd | 54 man/get_q_array.Rd | 74 - man/is.flexdog.Rd | 50 man/is.multidog.Rd | 50 man/log_sum_exp.Rd | 42 man/log_sum_exp_2.Rd | 44 man/multidog.Rd | 455 +++--- man/oracle_cor.Rd | 136 - man/oracle_cor_from_joint.Rd | 100 - man/oracle_joint.Rd | 170 +- man/oracle_mis.Rd | 142 +- man/oracle_mis_from_joint.Rd | 96 - man/oracle_mis_vec.Rd | 142 +- man/oracle_mis_vec_from_joint.Rd | 104 - man/oracle_plot.Rd | 92 - man/plot.flexdog.Rd | 92 - man/plot.multidog.Rd | 78 - man/plot_geno.Rd | 192 +- man/rflexdog.Rd | 148 +- man/rgeno.Rd | 184 +- man/snpdat.Rd | 70 man/uitdewilligen.Rd | 66 man/updog-package.Rd | 176 +- man/wem.Rd | 102 - src/betabinom.cpp | 28 src/em.cpp | 2 src/gradients.cpp | 8 src/objective.cpp | 2 src/util_funs.cpp | 6 tests/testthat/test_dbetabinom.R | 282 ++-- tests/testthat/test_f1_genotyping.R | 84 - tests/testthat/test_flexdog.R | 414 ++--- tests/testthat/test_gradients.R | 520 +++---- tests/testthat/test_objectives.R | 324 ++-- tests/testthat/test_oracle.R | 334 ++-- tests/testthat/test_rflexdog.R | 60 tests/testthat/test_utils.R | 136 - tests/testthat/test_wikmat.R | 46 vignettes/oracle_calculations.Rmd | 266 +-- vignettes/simulate_ngs.Rmd | 248 +-- vignettes/smells_like_updog.Rmd | 214 +-- 70 files changed, 9030 insertions(+), 8078 deletions(-)
Title: Extract Text from Rich Text Format (RTF) Documents
Description: Wraps the 'unrtf' utility to extract text from RTF files. Supports
document conversion to HTML, LaTeX or plain text. Output in HTML is recommended
because 'unrtf' has limited support for converting between character encodings.
Author: Jeroen Ooms [aut, cre],
Free Software Foundation, Inc [cph]
Maintainer: Jeroen Ooms <jeroen@berkeley.edu>
Diff between unrtf versions 1.4.1 dated 2021-12-09 and 1.4.2 dated 2022-10-18
DESCRIPTION | 6 +++--- MD5 | 25 +++++++++++++------------ NEWS | 3 +++ man/figures |only src/libunrtf/attr.c | 18 +++++++++--------- src/libunrtf/attr.h | 14 +++++++------- src/libunrtf/convert.c | 24 ++++++++++++------------ src/libunrtf/error.c | 2 +- src/libunrtf/hash.c | 2 +- src/libunrtf/malloc.c | 5 +---- src/libunrtf/output.c | 2 +- src/libunrtf/parse.c | 2 +- src/libunrtf/path.c | 4 ++-- src/libunrtf/path.h | 4 ++-- 14 files changed, 56 insertions(+), 55 deletions(-)
Title: Soil Database Interface
Description: A collection of functions for reading data from USDA-NCSS soil databases.
Author: Dylan Beaudette [aut],
Jay Skovlin [aut],
Stephen Roecker [aut],
Andrew Brown [aut, cre]
Maintainer: Andrew Brown <andrew.g.brown@usda.gov>
Diff between soilDB versions 2.7.4 dated 2022-09-30 and 2.7.5 dated 2022-10-18
DESCRIPTION | 6 MD5 | 80 +++---- NAMESPACE | 1 NEWS.md | 20 + R/AAAA.R | 29 ++ R/SDA_query.R | 18 - R/WCS-utils.R | 200 ++++++++++++++++--- R/fetchHenry.R | 204 +++++++++---------- R/fetchKSSL.R | 256 +++++++++++------------- R/fetchNASIS_components.R | 8 R/fetchOSD.R | 280 +++++++++++++-------------- R/fetchSCAN.R | 86 ++++---- R/get_OSD.R | 18 - R/get_component_from_GDB.R | 215 ++++++++++++-------- R/get_soilseries_from_NASIS.R | 5 R/siblings.R | 57 +++-- R/soilColorWCS.R |only R/soilDB-package.R | 72 +++--- R/uncode.R | 43 ++-- R/waterDayYear.R | 53 ++--- inst/CITATION | 4 man/WCS_details.Rd | 42 ++-- man/fetchGDB.Rd | 6 man/fetchKSSL.Rd | 36 +-- man/fetchOSD.Rd | 38 +-- man/fetchSCAN.Rd | 8 man/format_SQL_in_statement.Rd | 10 man/loafercreek.Rd | 134 ++++++------ man/soilColor.wcs.Rd |only man/waterDayYear.Rd | 4 tests/testthat/test-estimateColorMixture.R | 14 - tests/testthat/test-fetchHenry.R | 248 +++++++++++------------ tests/testthat/test-fetchKSSL.R | 54 ++--- tests/testthat/test-fetchNASISWebReport.R | 24 +- tests/testthat/test-fetchSDA_component.R | 2 tests/testthat/test-get_OSD.R | 36 +-- tests/testthat/test-get_SDA_interpretation.R | 4 tests/testthat/test-get_SDA_property.R | 10 tests/testthat/test-siblings.R | 2 tests/testthat/test-simplifyColorData.R | 54 ++--- tests/testthat/test-uncode.R | 2 tests/testthat/test-waterDayYear.R | 76 ++++++- 42 files changed, 1394 insertions(+), 1065 deletions(-)
Title: Projection Pursuit
Description: Package for projection pursuit (PP) with 17 methods and grand tour with 3 methods. Being that projection pursuit searches for low-dimensional linear projections in high-dimensional data structures, while grand tour is a technique used to explore multivariate statistical data through animation.
Author: Paulo Cesar Ossani <ossanipc@hotmail.com>
Marcelo Angelo Cirillo <macufla@des.ufla.br>
Maintainer: Paulo Cesar Ossani <ossanipc@hotmail.com>
Diff between Pursuit versions 1.0.2 dated 2021-01-10 and 1.0.3 dated 2022-10-18
DESCRIPTION | 8 ++++---- MD5 | 8 ++++---- man/Pursuit-package.Rd | 4 ++-- src/PP_IndexC.c | 4 ++-- src/PursuitRegister.c | 31 +------------------------------ 5 files changed, 13 insertions(+), 42 deletions(-)
Title: Latent Space Item Response Model
Description: Analysis of dichotomous and continuous response data using latent factor by both 1PL LSIRM and 2PL LSIRM as described in Jeon et al. (2021) <doi:10.1007/s11336-021-09762-5>. It includes original 1PL LSIRM and 2PL LSIRM provided for binary response data and its extension for continuous response data. Bayesian model selection with spike-and-slab prior and method for dealing data with missing value under missing at random, missing completely at random are also supported. Various diagnostic plots are available to inspect the latent space and summary of estimated parameters.
Author: Dongyoung Go [aut],
Gwanghee Kim [aut],
Jina Park [aut, cre],
Ickhoon Jin [ctb],
Minjeong Jeon [ctb]
Maintainer: Jina Park <pja0707@yonsei.ac.kr>
Diff between lsirm12pl versions 1.0.2 dated 2022-10-11 and 1.1.0 dated 2022-10-18
DESCRIPTION | 8 +- MD5 | 10 +-- src/lsirm1pl_mcar_ss.cpp | 132 ++++++++++++++++++++-------------------- src/lsirm1pl_normal_mar_ss.cpp | 114 +++++++++++++++++----------------- src/lsirm1pl_normal_mcar_ss.cpp | 120 ++++++++++++++++++------------------ src/lsirm1pl_normal_ss.cpp | 121 ++++++++++++++++++------------------ 6 files changed, 256 insertions(+), 249 deletions(-)
Title: Image Processing Functionality using the 'dlib' Package
Description: Facility wrappers around the image processing functionality of
'dlib'. 'Dlib' <http://dlib.net> is a 'C++' toolkit containing machine learning
algorithms and computer vision tools. Currently the package allows to find feature
descriptors of digital images, in particular 'SURF' and 'HOG' descriptors.
Author: Jan Wijffels [aut, cre, cph] ,
BNOSAC [cph] ,
Davis E. King [ctb, cph] ,
dlib authors [ctb, cph]
Maintainer: Jan Wijffels <jwijffels@bnosac.be>
Diff between image.dlib versions 0.1.0 dated 2020-07-27 and 0.1.1 dated 2022-10-18
DESCRIPTION | 10 MD5 | 1376 - NEWS.md |only README.md |only inst/dlib-19.20/dlib/LICENSE.txt | 44 inst/dlib-19.20/dlib/algs.h | 2316 +- inst/dlib-19.20/dlib/array.h | 20 inst/dlib-19.20/dlib/array/array_kernel.h | 1618 - inst/dlib-19.20/dlib/array/array_kernel_abstract.h | 720 inst/dlib-19.20/dlib/array/array_tools.h | 76 inst/dlib-19.20/dlib/array/array_tools_abstract.h | 66 inst/dlib-19.20/dlib/array2d.h | 24 inst/dlib-19.20/dlib/array2d/array2d_generic_image.h | 134 inst/dlib-19.20/dlib/array2d/array2d_kernel.h | 1044 - inst/dlib-19.20/dlib/array2d/array2d_kernel_abstract.h | 678 inst/dlib-19.20/dlib/array2d/serialize_pixel_overloads.h | 742 inst/dlib-19.20/dlib/assert.h | 434 inst/dlib-19.20/dlib/base64.h | 18 inst/dlib-19.20/dlib/base64/base64_kernel_1.cpp | 806 inst/dlib-19.20/dlib/base64/base64_kernel_1.h | 184 inst/dlib-19.20/dlib/base64/base64_kernel_abstract.h | 242 inst/dlib-19.20/dlib/bigint.h | 86 inst/dlib-19.20/dlib/bigint/bigint_kernel_1.cpp | 3440 +-- inst/dlib-19.20/dlib/bigint/bigint_kernel_1.h | 1088 - inst/dlib-19.20/dlib/bigint/bigint_kernel_2.cpp | 3890 ++-- inst/dlib-19.20/dlib/bigint/bigint_kernel_2.h | 1140 - inst/dlib-19.20/dlib/bigint/bigint_kernel_abstract.h | 1340 - inst/dlib-19.20/dlib/bigint/bigint_kernel_c.h | 2282 +- inst/dlib-19.20/dlib/binary_search_tree.h | 100 inst/dlib-19.20/dlib/binary_search_tree/binary_search_tree_kernel_1.h | 4128 ++-- inst/dlib-19.20/dlib/binary_search_tree/binary_search_tree_kernel_2.h | 3794 ++-- inst/dlib-19.20/dlib/binary_search_tree/binary_search_tree_kernel_abstract.h | 622 inst/dlib-19.20/dlib/binary_search_tree/binary_search_tree_kernel_c.h | 470 inst/dlib-19.20/dlib/bit_stream.h | 84 inst/dlib-19.20/dlib/bit_stream/bit_stream_kernel_1.cpp | 400 inst/dlib-19.20/dlib/bit_stream/bit_stream_kernel_1.h | 240 inst/dlib-19.20/dlib/bit_stream/bit_stream_kernel_abstract.h | 370 inst/dlib-19.20/dlib/bit_stream/bit_stream_kernel_c.h | 344 inst/dlib-19.20/dlib/bit_stream/bit_stream_multi_1.h | 206 inst/dlib-19.20/dlib/bit_stream/bit_stream_multi_abstract.h | 154 inst/dlib-19.20/dlib/bit_stream/bit_stream_multi_c.h | 202 inst/dlib-19.20/dlib/bound_function_pointer.h | 20 inst/dlib-19.20/dlib/bound_function_pointer/bound_function_pointer_kernel_1.h | 1548 - inst/dlib-19.20/dlib/bound_function_pointer/bound_function_pointer_kernel_abstract.h | 912 inst/dlib-19.20/dlib/bsp.h | 24 inst/dlib-19.20/dlib/bsp/bsp.cpp | 992 - inst/dlib-19.20/dlib/bsp/bsp.h | 2086 +- inst/dlib-19.20/dlib/bsp/bsp_abstract.h | 1824 - inst/dlib-19.20/dlib/byte_orderer.h | 20 inst/dlib-19.20/dlib/byte_orderer/byte_orderer_kernel_1.h | 352 inst/dlib-19.20/dlib/byte_orderer/byte_orderer_kernel_abstract.h | 298 inst/dlib-19.20/dlib/cmd_line_parser.h | 168 inst/dlib-19.20/dlib/cmd_line_parser/cmd_line_parser_check_1.h | 1160 - inst/dlib-19.20/dlib/cmd_line_parser/cmd_line_parser_check_c.h | 906 inst/dlib-19.20/dlib/cmd_line_parser/cmd_line_parser_kernel_1.h | 1598 - inst/dlib-19.20/dlib/cmd_line_parser/cmd_line_parser_kernel_abstract.h | 1346 - inst/dlib-19.20/dlib/cmd_line_parser/cmd_line_parser_kernel_c.h | 406 inst/dlib-19.20/dlib/cmd_line_parser/cmd_line_parser_print_1.h | 410 inst/dlib-19.20/dlib/cmd_line_parser/get_option.h | 362 inst/dlib-19.20/dlib/cmd_line_parser/get_option_abstract.h | 292 inst/dlib-19.20/dlib/config.h | 62 inst/dlib-19.20/dlib/config_reader.h | 78 inst/dlib-19.20/dlib/config_reader/config_reader_kernel_1.h | 1476 - inst/dlib-19.20/dlib/config_reader/config_reader_kernel_abstract.h | 726 inst/dlib-19.20/dlib/config_reader/config_reader_thread_safe_1.h | 912 inst/dlib-19.20/dlib/config_reader/config_reader_thread_safe_abstract.h | 90 inst/dlib-19.20/dlib/console_progress_indicator.h | 414 inst/dlib-19.20/dlib/dir_nav.h | 42 inst/dlib-19.20/dlib/dir_nav/dir_nav_extensions.cpp | 242 inst/dlib-19.20/dlib/dir_nav/dir_nav_extensions.h | 344 inst/dlib-19.20/dlib/dir_nav/dir_nav_extensions_abstract.h | 406 inst/dlib-19.20/dlib/dir_nav/dir_nav_kernel_1.cpp | 516 inst/dlib-19.20/dlib/dir_nav/dir_nav_kernel_1.h | 1268 - inst/dlib-19.20/dlib/dir_nav/dir_nav_kernel_2.cpp | 508 inst/dlib-19.20/dlib/dir_nav/dir_nav_kernel_2.h | 1318 - inst/dlib-19.20/dlib/dir_nav/dir_nav_kernel_abstract.h | 1030 - inst/dlib-19.20/dlib/dir_nav/posix.h | 12 inst/dlib-19.20/dlib/dir_nav/windows.h | 12 inst/dlib-19.20/dlib/enable_if.h | 124 inst/dlib-19.20/dlib/entropy_decoder.h | 88 inst/dlib-19.20/dlib/entropy_decoder/entropy_decoder_kernel_1.cpp | 440 inst/dlib-19.20/dlib/entropy_decoder/entropy_decoder_kernel_1.h | 264 inst/dlib-19.20/dlib/entropy_decoder/entropy_decoder_kernel_2.cpp | 448 inst/dlib-19.20/dlib/entropy_decoder/entropy_decoder_kernel_2.h | 254 inst/dlib-19.20/dlib/entropy_decoder/entropy_decoder_kernel_abstract.h | 414 inst/dlib-19.20/dlib/entropy_decoder/entropy_decoder_kernel_c.h | 246 inst/dlib-19.20/dlib/entropy_encoder.h | 86 inst/dlib-19.20/dlib/entropy_encoder/entropy_encoder_kernel_1.cpp | 478 inst/dlib-19.20/dlib/entropy_encoder/entropy_encoder_kernel_1.h | 238 inst/dlib-19.20/dlib/entropy_encoder/entropy_encoder_kernel_2.cpp | 466 inst/dlib-19.20/dlib/entropy_encoder/entropy_encoder_kernel_2.h | 224 inst/dlib-19.20/dlib/entropy_encoder/entropy_encoder_kernel_abstract.h | 322 inst/dlib-19.20/dlib/entropy_encoder/entropy_encoder_kernel_c.h | 224 inst/dlib-19.20/dlib/error.h | 898 inst/dlib-19.20/dlib/float_details.h | 322 inst/dlib-19.20/dlib/general_hash/count_bits.h | 164 inst/dlib-19.20/dlib/general_hash/count_bits_abstract.h | 96 inst/dlib-19.20/dlib/general_hash/general_hash.h | 160 inst/dlib-19.20/dlib/general_hash/hash.h | 284 inst/dlib-19.20/dlib/general_hash/hash_abstract.h | 364 inst/dlib-19.20/dlib/general_hash/murmur_hash3.h | 1052 - inst/dlib-19.20/dlib/general_hash/murmur_hash3_abstract.h | 250 inst/dlib-19.20/dlib/general_hash/random_hashing.h | 1754 - inst/dlib-19.20/dlib/general_hash/random_hashing_abstract.h | 116 inst/dlib-19.20/dlib/geometry.h | 30 inst/dlib-19.20/dlib/geometry/border_enumerator.h | 372 inst/dlib-19.20/dlib/geometry/border_enumerator_abstract.h | 252 inst/dlib-19.20/dlib/geometry/drectangle.h | 1004 - inst/dlib-19.20/dlib/geometry/drectangle_abstract.h | 1284 - inst/dlib-19.20/dlib/geometry/line.h | 472 inst/dlib-19.20/dlib/geometry/line_abstract.h | 484 inst/dlib-19.20/dlib/geometry/point_transforms.h | 1982 +- inst/dlib-19.20/dlib/geometry/point_transforms_abstract.h | 1594 - inst/dlib-19.20/dlib/geometry/rectangle.h | 1688 - inst/dlib-19.20/dlib/geometry/rectangle_abstract.h | 1702 - inst/dlib-19.20/dlib/geometry/vector.h | 2772 +- inst/dlib-19.20/dlib/geometry/vector_abstract.h | 1038 - inst/dlib-19.20/dlib/graph_utils.h | 24 inst/dlib-19.20/dlib/graph_utils/edge_list_graphs.h | 1186 - inst/dlib-19.20/dlib/graph_utils/edge_list_graphs_abstract.h | 716 inst/dlib-19.20/dlib/graph_utils/find_k_nearest_neighbors_lsh.h | 434 inst/dlib-19.20/dlib/graph_utils/find_k_nearest_neighbors_lsh_abstract.h | 204 inst/dlib-19.20/dlib/graph_utils/function_objects.h | 258 inst/dlib-19.20/dlib/graph_utils/function_objects_abstract.h | 418 inst/dlib-19.20/dlib/graph_utils/graph_utils.h | 2454 +- inst/dlib-19.20/dlib/graph_utils/graph_utils_abstract.h | 904 inst/dlib-19.20/dlib/graph_utils/ordered_sample_pair.h | 250 inst/dlib-19.20/dlib/graph_utils/ordered_sample_pair_abstract.h | 256 inst/dlib-19.20/dlib/graph_utils/sample_pair.h | 358 inst/dlib-19.20/dlib/graph_utils/sample_pair_abstract.h | 384 inst/dlib-19.20/dlib/hash.h | 28 inst/dlib-19.20/dlib/image_keypoint.h | 32 inst/dlib-19.20/dlib/image_keypoint/binned_vector_feature_image.h | 866 inst/dlib-19.20/dlib/image_keypoint/binned_vector_feature_image_abstract.h | 574 inst/dlib-19.20/dlib/image_keypoint/build_separable_poly_filters.h | 372 inst/dlib-19.20/dlib/image_keypoint/draw_surf_points.h | 80 inst/dlib-19.20/dlib/image_keypoint/draw_surf_points_abstract.h | 60 inst/dlib-19.20/dlib/image_keypoint/fine_hog_image.h | 756 inst/dlib-19.20/dlib/image_keypoint/fine_hog_image_abstract.h | 552 inst/dlib-19.20/dlib/image_keypoint/hashed_feature_image.h | 1036 - inst/dlib-19.20/dlib/image_keypoint/hashed_feature_image_abstract.h | 606 inst/dlib-19.20/dlib/image_keypoint/hessian_pyramid.h | 1062 - inst/dlib-19.20/dlib/image_keypoint/hessian_pyramid_abstract.h | 488 inst/dlib-19.20/dlib/image_keypoint/hog.h | 1028 - inst/dlib-19.20/dlib/image_keypoint/hog_abstract.h | 670 inst/dlib-19.20/dlib/image_keypoint/nearest_neighbor_feature_image.h | 816 inst/dlib-19.20/dlib/image_keypoint/nearest_neighbor_feature_image_abstract.h | 508 inst/dlib-19.20/dlib/image_keypoint/poly_image.h | 1298 - inst/dlib-19.20/dlib/image_keypoint/poly_image_abstract.h | 670 inst/dlib-19.20/dlib/image_keypoint/surf.h | 590 inst/dlib-19.20/dlib/image_keypoint/surf_abstract.h | 326 inst/dlib-19.20/dlib/image_processing.h | 56 inst/dlib-19.20/dlib/image_processing/box_overlap_testing.h | 430 inst/dlib-19.20/dlib/image_processing/box_overlap_testing_abstract.h | 402 inst/dlib-19.20/dlib/image_processing/correlation_tracker.h | 808 inst/dlib-19.20/dlib/image_processing/correlation_tracker_abstract.h | 324 inst/dlib-19.20/dlib/image_processing/detection_template_tools.h | 226 inst/dlib-19.20/dlib/image_processing/detection_template_tools_abstract.h | 190 inst/dlib-19.20/dlib/image_processing/frontal_face_detector.h | 4746 ++--- inst/dlib-19.20/dlib/image_processing/frontal_face_detector_abstract.h | 50 inst/dlib-19.20/dlib/image_processing/full_object_detection.h | 382 inst/dlib-19.20/dlib/image_processing/full_object_detection_abstract.h | 406 inst/dlib-19.20/dlib/image_processing/generic_image.h | 1134 - inst/dlib-19.20/dlib/image_processing/object_detector.h | 1252 - inst/dlib-19.20/dlib/image_processing/object_detector_abstract.h | 808 inst/dlib-19.20/dlib/image_processing/remove_unobtainable_rectangles.h | 634 inst/dlib-19.20/dlib/image_processing/remove_unobtainable_rectangles_abstract.h | 112 inst/dlib-19.20/dlib/image_processing/render_face_detections.h | 198 inst/dlib-19.20/dlib/image_processing/render_face_detections_abstract.h | 118 inst/dlib-19.20/dlib/image_processing/scan_fhog_pyramid.h | 2696 +- inst/dlib-19.20/dlib/image_processing/scan_fhog_pyramid_abstract.h | 1568 - inst/dlib-19.20/dlib/image_processing/scan_image.h | 1012 - inst/dlib-19.20/dlib/image_processing/scan_image_abstract.h | 566 inst/dlib-19.20/dlib/image_processing/scan_image_boxes.h | 1260 - inst/dlib-19.20/dlib/image_processing/scan_image_boxes_abstract.h | 788 inst/dlib-19.20/dlib/image_processing/scan_image_custom.h | 802 inst/dlib-19.20/dlib/image_processing/scan_image_custom_abstract.h | 780 inst/dlib-19.20/dlib/image_processing/scan_image_pyramid.h | 2202 +- inst/dlib-19.20/dlib/image_processing/scan_image_pyramid_abstract.h | 990 - inst/dlib-19.20/dlib/image_processing/scan_image_pyramid_tools.h | 360 inst/dlib-19.20/dlib/image_processing/scan_image_pyramid_tools_abstract.h | 236 inst/dlib-19.20/dlib/image_processing/setup_hashed_features.h | 438 inst/dlib-19.20/dlib/image_processing/setup_hashed_features_abstract.h | 420 inst/dlib-19.20/dlib/image_processing/shape_predictor.h | 1048 - inst/dlib-19.20/dlib/image_processing/shape_predictor_abstract.h | 390 inst/dlib-19.20/dlib/image_processing/shape_predictor_trainer.h | 1766 - inst/dlib-19.20/dlib/image_processing/shape_predictor_trainer_abstract.h | 894 inst/dlib-19.20/dlib/image_transforms.h | 62 inst/dlib-19.20/dlib/image_transforms/assign_image.h | 770 inst/dlib-19.20/dlib/image_transforms/assign_image_abstract.h | 392 inst/dlib-19.20/dlib/image_transforms/colormaps.h | 538 inst/dlib-19.20/dlib/image_transforms/colormaps_abstract.h | 304 inst/dlib-19.20/dlib/image_transforms/draw.h | 792 inst/dlib-19.20/dlib/image_transforms/draw_abstract.h | 300 inst/dlib-19.20/dlib/image_transforms/edge_detector.h | 1476 - inst/dlib-19.20/dlib/image_transforms/edge_detector_abstract.h | 1108 - inst/dlib-19.20/dlib/image_transforms/equalize_histogram.h | 364 inst/dlib-19.20/dlib/image_transforms/equalize_histogram_abstract.h | 244 inst/dlib-19.20/dlib/image_transforms/fhog.h | 2808 +- inst/dlib-19.20/dlib/image_transforms/fhog_abstract.h | 692 inst/dlib-19.20/dlib/image_transforms/hough_transform.h | 1180 - inst/dlib-19.20/dlib/image_transforms/hough_transform_abstract.h | 742 inst/dlib-19.20/dlib/image_transforms/image_pyramid.h | 2476 +- inst/dlib-19.20/dlib/image_transforms/image_pyramid_abstract.h | 768 inst/dlib-19.20/dlib/image_transforms/integral_image.h | 380 inst/dlib-19.20/dlib/image_transforms/integral_image_abstract.h | 338 inst/dlib-19.20/dlib/image_transforms/interpolation.h | 4314 ++-- inst/dlib-19.20/dlib/image_transforms/interpolation_abstract.h | 3064 +-- inst/dlib-19.20/dlib/image_transforms/label_connected_blobs.h | 718 inst/dlib-19.20/dlib/image_transforms/label_connected_blobs_abstract.h | 558 inst/dlib-19.20/dlib/image_transforms/lbp.h | 614 inst/dlib-19.20/dlib/image_transforms/lbp_abstract.h | 278 inst/dlib-19.20/dlib/image_transforms/morphological_operations.h | 1860 - inst/dlib-19.20/dlib/image_transforms/morphological_operations_abstract.h | 740 inst/dlib-19.20/dlib/image_transforms/random_color_transform.h | 314 inst/dlib-19.20/dlib/image_transforms/random_color_transform_abstract.h | 188 inst/dlib-19.20/dlib/image_transforms/random_cropper.h | 722 inst/dlib-19.20/dlib/image_transforms/random_cropper_abstract.h | 692 inst/dlib-19.20/dlib/image_transforms/segment_image.h | 1960 +- inst/dlib-19.20/dlib/image_transforms/segment_image_abstract.h | 336 inst/dlib-19.20/dlib/image_transforms/spatial_filtering.h | 3160 +-- inst/dlib-19.20/dlib/image_transforms/spatial_filtering_abstract.h | 974 - inst/dlib-19.20/dlib/image_transforms/thresholding.h | 1360 - inst/dlib-19.20/dlib/image_transforms/thresholding_abstract.h | 398 inst/dlib-19.20/dlib/interfaces/cmd_line_parser_option.h | 214 inst/dlib-19.20/dlib/interfaces/enumerable.h | 260 inst/dlib-19.20/dlib/interfaces/map_pair.h | 148 inst/dlib-19.20/dlib/interfaces/remover.h | 440 inst/dlib-19.20/dlib/is_kind.h | 324 inst/dlib-19.20/dlib/linker.h | 18 inst/dlib-19.20/dlib/linker/linker_kernel_1.cpp | 714 inst/dlib-19.20/dlib/linker/linker_kernel_1.h | 282 inst/dlib-19.20/dlib/linker/linker_kernel_abstract.h | 282 inst/dlib-19.20/dlib/logger.h | 22 inst/dlib-19.20/dlib/logger/extra_logger_headers.cpp | 80 inst/dlib-19.20/dlib/logger/extra_logger_headers.h | 82 inst/dlib-19.20/dlib/logger/logger_config_file.cpp | 428 inst/dlib-19.20/dlib/logger/logger_config_file.h | 270 inst/dlib-19.20/dlib/logger/logger_kernel_1.cpp | 996 - inst/dlib-19.20/dlib/logger/logger_kernel_1.h | 1374 - inst/dlib-19.20/dlib/logger/logger_kernel_abstract.h | 858 inst/dlib-19.20/dlib/lsh.h | 28 inst/dlib-19.20/dlib/lsh/create_random_projection_hash.h | 464 inst/dlib-19.20/dlib/lsh/create_random_projection_hash_abstract.h | 296 inst/dlib-19.20/dlib/lsh/hashes.h | 438 inst/dlib-19.20/dlib/lsh/hashes_abstract.h | 572 inst/dlib-19.20/dlib/lsh/projection_hash.h | 236 inst/dlib-19.20/dlib/lsh/projection_hash_abstract.h | 238 inst/dlib-19.20/dlib/map.h | 118 inst/dlib-19.20/dlib/map/map_kernel_1.h | 872 inst/dlib-19.20/dlib/map/map_kernel_abstract.h | 470 inst/dlib-19.20/dlib/map/map_kernel_c.h | 496 inst/dlib-19.20/dlib/matrix.h | 48 inst/dlib-19.20/dlib/matrix/cblas_constants.h | 64 inst/dlib-19.20/dlib/matrix/lapack/fortran_id.h | 124 inst/dlib-19.20/dlib/matrix/lapack/gees.h | 528 inst/dlib-19.20/dlib/matrix/lapack/geev.h | 468 inst/dlib-19.20/dlib/matrix/lapack/geqrf.h | 336 inst/dlib-19.20/dlib/matrix/lapack/gesdd.h | 728 inst/dlib-19.20/dlib/matrix/lapack/gesvd.h | 646 inst/dlib-19.20/dlib/matrix/lapack/getrf.h | 264 inst/dlib-19.20/dlib/matrix/lapack/ormqr.h | 448 inst/dlib-19.20/dlib/matrix/lapack/pbtrf.h | 356 inst/dlib-19.20/dlib/matrix/lapack/potrf.h | 348 inst/dlib-19.20/dlib/matrix/lapack/syev.h | 436 inst/dlib-19.20/dlib/matrix/lapack/syevr.h | 890 inst/dlib-19.20/dlib/matrix/matrix.h | 4350 ++-- inst/dlib-19.20/dlib/matrix/matrix_abstract.h | 1744 - inst/dlib-19.20/dlib/matrix/matrix_assign.h | 1956 +- inst/dlib-19.20/dlib/matrix/matrix_assign_fwd.h | 826 inst/dlib-19.20/dlib/matrix/matrix_blas_bindings.h | 3278 +-- inst/dlib-19.20/dlib/matrix/matrix_cholesky.h | 558 inst/dlib-19.20/dlib/matrix/matrix_conj_trans.h | 142 inst/dlib-19.20/dlib/matrix/matrix_conv.h | 716 inst/dlib-19.20/dlib/matrix/matrix_conv_abstract.h | 316 inst/dlib-19.20/dlib/matrix/matrix_data_layout.h | 2682 +- inst/dlib-19.20/dlib/matrix/matrix_data_layout_abstract.h | 80 inst/dlib-19.20/dlib/matrix/matrix_default_mul.h | 268 inst/dlib-19.20/dlib/matrix/matrix_eigenvalue.h | 2758 +- inst/dlib-19.20/dlib/matrix/matrix_exp.h | 550 inst/dlib-19.20/dlib/matrix/matrix_exp_abstract.h | 420 inst/dlib-19.20/dlib/matrix/matrix_expressions.h | 560 inst/dlib-19.20/dlib/matrix/matrix_fft.h | 1692 - inst/dlib-19.20/dlib/matrix/matrix_fft_abstract.h | 236 inst/dlib-19.20/dlib/matrix/matrix_fwd.h | 62 inst/dlib-19.20/dlib/matrix/matrix_generic_image.h | 220 inst/dlib-19.20/dlib/matrix/matrix_la.h | 3614 +-- inst/dlib-19.20/dlib/matrix/matrix_la_abstract.h | 2010 +- inst/dlib-19.20/dlib/matrix/matrix_lu.h | 722 inst/dlib-19.20/dlib/matrix/matrix_mat.h | 1466 - inst/dlib-19.20/dlib/matrix/matrix_mat_abstract.h | 486 inst/dlib-19.20/dlib/matrix/matrix_math_functions.h | 896 inst/dlib-19.20/dlib/matrix/matrix_math_functions_abstract.h | 1190 - inst/dlib-19.20/dlib/matrix/matrix_op.h | 958 - inst/dlib-19.20/dlib/matrix/matrix_qr.h | 932 inst/dlib-19.20/dlib/matrix/matrix_read_from_istream.h | 216 inst/dlib-19.20/dlib/matrix/matrix_subexp.h | 3148 +-- inst/dlib-19.20/dlib/matrix/matrix_subexp_abstract.h | 1140 - inst/dlib-19.20/dlib/matrix/matrix_trsm.h | 1308 - inst/dlib-19.20/dlib/matrix/matrix_utilities.h | 9394 +++++----- inst/dlib-19.20/dlib/matrix/matrix_utilities_abstract.h | 3828 ++-- inst/dlib-19.20/dlib/matrix/symmetric_matrix_cache.h | 928 inst/dlib-19.20/dlib/matrix/symmetric_matrix_cache_abstract.h | 126 inst/dlib-19.20/dlib/md5.h | 6 inst/dlib-19.20/dlib/md5/md5_kernel_1.cpp | 1234 - inst/dlib-19.20/dlib/md5/md5_kernel_1.h | 100 inst/dlib-19.20/dlib/md5/md5_kernel_abstract.h | 166 inst/dlib-19.20/dlib/member_function_pointer.h | 20 inst/dlib-19.20/dlib/member_function_pointer/make_mfp.h | 358 inst/dlib-19.20/dlib/member_function_pointer/make_mfp_abstract.h | 414 inst/dlib-19.20/dlib/member_function_pointer/member_function_pointer_kernel_1.h | 1018 - inst/dlib-19.20/dlib/member_function_pointer/member_function_pointer_kernel_abstract.h | 966 - inst/dlib-19.20/dlib/memory_manager.h | 146 inst/dlib-19.20/dlib/memory_manager/memory_manager_kernel_1.h | 610 inst/dlib-19.20/dlib/memory_manager/memory_manager_kernel_2.h | 506 inst/dlib-19.20/dlib/memory_manager/memory_manager_kernel_3.h | 770 inst/dlib-19.20/dlib/memory_manager/memory_manager_kernel_abstract.h | 292 inst/dlib-19.20/dlib/memory_manager_stateless.h | 144 inst/dlib-19.20/dlib/memory_manager_stateless/memory_manager_stateless_kernel_1.h | 202 inst/dlib-19.20/dlib/memory_manager_stateless/memory_manager_stateless_kernel_2.h | 238 inst/dlib-19.20/dlib/memory_manager_stateless/memory_manager_stateless_kernel_abstract.h | 346 inst/dlib-19.20/dlib/misc_api.h | 40 inst/dlib-19.20/dlib/misc_api/misc_api_kernel_1.cpp | 298 inst/dlib-19.20/dlib/misc_api/misc_api_kernel_1.h | 220 inst/dlib-19.20/dlib/misc_api/misc_api_kernel_2.cpp | 246 inst/dlib-19.20/dlib/misc_api/misc_api_kernel_2.h | 162 inst/dlib-19.20/dlib/misc_api/misc_api_kernel_abstract.h | 318 inst/dlib-19.20/dlib/misc_api/misc_api_shared.h | 114 inst/dlib-19.20/dlib/misc_api/posix.h | 12 inst/dlib-19.20/dlib/misc_api/windows.h | 12 inst/dlib-19.20/dlib/noncopyable.h | 64 inst/dlib-19.20/dlib/numeric_constants.h | 106 inst/dlib-19.20/dlib/optimization.h | 48 inst/dlib-19.20/dlib/optimization/elastic_net.h | 778 inst/dlib-19.20/dlib/optimization/elastic_net_abstract.h | 380 inst/dlib-19.20/dlib/optimization/find_max_factor_graph_nmplp.h | 674 inst/dlib-19.20/dlib/optimization/find_max_factor_graph_nmplp_abstract.h | 730 inst/dlib-19.20/dlib/optimization/find_max_factor_graph_viterbi.h | 464 inst/dlib-19.20/dlib/optimization/find_max_factor_graph_viterbi_abstract.h | 262 inst/dlib-19.20/dlib/optimization/find_max_parse_cky.h | 828 inst/dlib-19.20/dlib/optimization/find_max_parse_cky_abstract.h | 776 inst/dlib-19.20/dlib/optimization/find_optimal_parameters.h | 234 inst/dlib-19.20/dlib/optimization/find_optimal_parameters_abstract.h | 116 inst/dlib-19.20/dlib/optimization/isotonic_regression.h | 340 inst/dlib-19.20/dlib/optimization/isotonic_regression_abstract.h | 256 inst/dlib-19.20/dlib/optimization/max_cost_assignment.h | 576 inst/dlib-19.20/dlib/optimization/max_cost_assignment_abstract.h | 126 inst/dlib-19.20/dlib/optimization/max_sum_submatrix.h | 570 inst/dlib-19.20/dlib/optimization/max_sum_submatrix_abstract.h | 98 inst/dlib-19.20/dlib/optimization/optimization.h | 1436 - inst/dlib-19.20/dlib/optimization/optimization_abstract.h | 936 inst/dlib-19.20/dlib/optimization/optimization_bobyqa.h | 6846 +++---- inst/dlib-19.20/dlib/optimization/optimization_bobyqa_abstract.h | 240 inst/dlib-19.20/dlib/optimization/optimization_least_squares.h | 690 inst/dlib-19.20/dlib/optimization/optimization_least_squares_abstract.h | 224 inst/dlib-19.20/dlib/optimization/optimization_line_search.h | 1788 - inst/dlib-19.20/dlib/optimization/optimization_line_search_abstract.h | 722 inst/dlib-19.20/dlib/optimization/optimization_oca.h | 856 inst/dlib-19.20/dlib/optimization/optimization_oca_abstract.h | 708 inst/dlib-19.20/dlib/optimization/optimization_search_strategies.h | 648 inst/dlib-19.20/dlib/optimization/optimization_search_strategies_abstract.h | 660 inst/dlib-19.20/dlib/optimization/optimization_solve_qp2_using_smo.h | 936 inst/dlib-19.20/dlib/optimization/optimization_solve_qp2_using_smo_abstract.h | 300 inst/dlib-19.20/dlib/optimization/optimization_solve_qp3_using_smo.h | 910 inst/dlib-19.20/dlib/optimization/optimization_solve_qp3_using_smo_abstract.h | 278 inst/dlib-19.20/dlib/optimization/optimization_solve_qp_using_smo.h | 1910 +- inst/dlib-19.20/dlib/optimization/optimization_solve_qp_using_smo_abstract.h | 564 inst/dlib-19.20/dlib/optimization/optimization_stop_strategies.h | 346 inst/dlib-19.20/dlib/optimization/optimization_stop_strategies_abstract.h | 314 inst/dlib-19.20/dlib/optimization/optimization_trust_region.h | 1128 - inst/dlib-19.20/dlib/optimization/optimization_trust_region_abstract.h | 466 inst/dlib-19.20/dlib/pixel.h | 3432 +-- inst/dlib-19.20/dlib/platform.h | 130 inst/dlib-19.20/dlib/queue.h | 168 inst/dlib-19.20/dlib/queue/queue_kernel_1.h | 1108 - inst/dlib-19.20/dlib/queue/queue_kernel_2.h | 1200 - inst/dlib-19.20/dlib/queue/queue_kernel_abstract.h | 392 inst/dlib-19.20/dlib/queue/queue_kernel_c.h | 374 inst/dlib-19.20/dlib/queue/queue_sort_1.h | 330 inst/dlib-19.20/dlib/queue/queue_sort_abstract.h | 148 inst/dlib-19.20/dlib/rand.h | 18 inst/dlib-19.20/dlib/rand/mersenne_twister.h | 420 inst/dlib-19.20/dlib/rand/rand_kernel_1.h | 708 inst/dlib-19.20/dlib/rand/rand_kernel_abstract.h | 438 inst/dlib-19.20/dlib/ref.h | 168 inst/dlib-19.20/dlib/sequence.h | 166 inst/dlib-19.20/dlib/sequence/sequence_compare_1.h | 204 inst/dlib-19.20/dlib/sequence/sequence_compare_abstract.h | 150 inst/dlib-19.20/dlib/sequence/sequence_kernel_1.h | 2680 +- inst/dlib-19.20/dlib/sequence/sequence_kernel_2.h | 1364 - inst/dlib-19.20/dlib/sequence/sequence_kernel_abstract.h | 398 inst/dlib-19.20/dlib/sequence/sequence_kernel_c.h | 506 inst/dlib-19.20/dlib/sequence/sequence_sort_1.h | 364 inst/dlib-19.20/dlib/sequence/sequence_sort_2.h | 130 inst/dlib-19.20/dlib/sequence/sequence_sort_abstract.h | 130 inst/dlib-19.20/dlib/serialize.h | 3558 +-- inst/dlib-19.20/dlib/server.h | 24 inst/dlib-19.20/dlib/server/server_http.cpp | 818 inst/dlib-19.20/dlib/server/server_http.h | 484 inst/dlib-19.20/dlib/server/server_http_abstract.h | 780 inst/dlib-19.20/dlib/server/server_iostream.cpp | 28 inst/dlib-19.20/dlib/server/server_iostream.h | 310 inst/dlib-19.20/dlib/server/server_iostream_abstract.h | 168 inst/dlib-19.20/dlib/server/server_kernel.cpp | 1190 - inst/dlib-19.20/dlib/server/server_kernel.h | 468 inst/dlib-19.20/dlib/server/server_kernel_abstract.h | 620 inst/dlib-19.20/dlib/set.h | 148 inst/dlib-19.20/dlib/set/set_compare_1.h | 244 inst/dlib-19.20/dlib/set/set_compare_abstract.h | 192 inst/dlib-19.20/dlib/set/set_kernel_1.h | 744 inst/dlib-19.20/dlib/set/set_kernel_abstract.h | 384 inst/dlib-19.20/dlib/set/set_kernel_c.h | 388 inst/dlib-19.20/dlib/simd.h | 24 inst/dlib-19.20/dlib/simd/simd4f.h | 1370 - inst/dlib-19.20/dlib/simd/simd4i.h | 1132 - inst/dlib-19.20/dlib/simd/simd8f.h | 804 inst/dlib-19.20/dlib/simd/simd8i.h | 678 inst/dlib-19.20/dlib/simd/simd_check.h | 354 inst/dlib-19.20/dlib/smart_pointers.h | 44 inst/dlib-19.20/dlib/smart_pointers/scoped_ptr.h | 32 inst/dlib-19.20/dlib/smart_pointers/shared_ptr.h | 984 - inst/dlib-19.20/dlib/smart_pointers/shared_ptr_abstract.h | 748 inst/dlib-19.20/dlib/smart_pointers/shared_ptr_thread_safe.h | 924 inst/dlib-19.20/dlib/smart_pointers/shared_ptr_thread_safe_abstract.h | 704 inst/dlib-19.20/dlib/smart_pointers/weak_ptr.h | 450 inst/dlib-19.20/dlib/smart_pointers/weak_ptr_abstract.h | 386 inst/dlib-19.20/dlib/smart_pointers_thread_safe.h | 42 inst/dlib-19.20/dlib/sockets.h | 40 inst/dlib-19.20/dlib/sockets/posix.h | 12 inst/dlib-19.20/dlib/sockets/sockets_extensions.cpp | 682 inst/dlib-19.20/dlib/sockets/sockets_extensions.h | 302 inst/dlib-19.20/dlib/sockets/sockets_extensions_abstract.h | 600 inst/dlib-19.20/dlib/sockets/sockets_kernel_1.cpp | 1958 +- inst/dlib-19.20/dlib/sockets/sockets_kernel_1.h | 702 inst/dlib-19.20/dlib/sockets/sockets_kernel_2.cpp | 2220 +- inst/dlib-19.20/dlib/sockets/sockets_kernel_2.h | 792 inst/dlib-19.20/dlib/sockets/sockets_kernel_abstract.h | 990 - inst/dlib-19.20/dlib/sockets/windows.h | 12 inst/dlib-19.20/dlib/sockstreambuf.h | 22 inst/dlib-19.20/dlib/sockstreambuf/sockstreambuf.cpp | 354 inst/dlib-19.20/dlib/sockstreambuf/sockstreambuf.h | 344 inst/dlib-19.20/dlib/sockstreambuf/sockstreambuf_abstract.h | 254 inst/dlib-19.20/dlib/sockstreambuf/sockstreambuf_unbuffered.cpp | 336 inst/dlib-19.20/dlib/sockstreambuf/sockstreambuf_unbuffered.h | 236 inst/dlib-19.20/dlib/sort.h | 980 - inst/dlib-19.20/dlib/sparse_vector.h | 20 inst/dlib-19.20/dlib/stack_trace.cpp | 182 inst/dlib-19.20/dlib/stack_trace.h | 236 inst/dlib-19.20/dlib/statistics.h | 38 inst/dlib-19.20/dlib/statistics/average_precision.h | 132 inst/dlib-19.20/dlib/statistics/average_precision_abstract.h | 134 inst/dlib-19.20/dlib/statistics/cca.h | 372 inst/dlib-19.20/dlib/statistics/cca_abstract.h | 382 inst/dlib-19.20/dlib/statistics/dpca.h | 1082 - inst/dlib-19.20/dlib/statistics/dpca_abstract.h | 730 inst/dlib-19.20/dlib/statistics/image_feature_sampling.h | 164 inst/dlib-19.20/dlib/statistics/image_feature_sampling_abstract.h | 90 inst/dlib-19.20/dlib/statistics/lda.h | 464 inst/dlib-19.20/dlib/statistics/lda_abstract.h | 236 inst/dlib-19.20/dlib/statistics/random_subset_selector.h | 744 inst/dlib-19.20/dlib/statistics/random_subset_selector_abstract.h | 776 inst/dlib-19.20/dlib/statistics/running_gradient.h | 740 inst/dlib-19.20/dlib/statistics/running_gradient_abstract.h | 552 inst/dlib-19.20/dlib/statistics/sammon.h | 538 inst/dlib-19.20/dlib/statistics/sammon_abstract.h | 234 inst/dlib-19.20/dlib/statistics/statistics.h | 3780 ++-- inst/dlib-19.20/dlib/statistics/statistics_abstract.h | 2766 +- inst/dlib-19.20/dlib/statistics/vector_normalizer_frobmetric.h | 1236 - inst/dlib-19.20/dlib/statistics/vector_normalizer_frobmetric_abstract.h | 656 inst/dlib-19.20/dlib/std_allocator.h | 398 inst/dlib-19.20/dlib/stl_checked.h | 20 inst/dlib-19.20/dlib/stl_checked/std_vector_c.h | 666 inst/dlib-19.20/dlib/stl_checked/std_vector_c_abstract.h | 940 - inst/dlib-19.20/dlib/string.h | 18 inst/dlib-19.20/dlib/string/cassert | 2 inst/dlib-19.20/dlib/string/iomanip | 2 inst/dlib-19.20/dlib/string/iosfwd | 2 inst/dlib-19.20/dlib/string/iostream | 2 inst/dlib-19.20/dlib/string/locale | 2 inst/dlib-19.20/dlib/string/string.h | 2008 +- inst/dlib-19.20/dlib/string/string_abstract.h | 1304 - inst/dlib-19.20/dlib/svm.h | 122 inst/dlib-19.20/dlib/svm/active_learning.h | 324 inst/dlib-19.20/dlib/svm/active_learning_abstract.h | 150 inst/dlib-19.20/dlib/svm/assignment_function.h | 510 inst/dlib-19.20/dlib/svm/assignment_function_abstract.h | 684 inst/dlib-19.20/dlib/svm/auto.cpp | 216 inst/dlib-19.20/dlib/svm/auto.h | 50 inst/dlib-19.20/dlib/svm/auto_abstract.h | 72 inst/dlib-19.20/dlib/svm/cross_validate_assignment_trainer.h | 362 inst/dlib-19.20/dlib/svm/cross_validate_assignment_trainer_abstract.h | 138 inst/dlib-19.20/dlib/svm/cross_validate_graph_labeling_trainer.h | 516 inst/dlib-19.20/dlib/svm/cross_validate_graph_labeling_trainer_abstract.h | 294 inst/dlib-19.20/dlib/svm/cross_validate_multiclass_trainer.h | 416 inst/dlib-19.20/dlib/svm/cross_validate_multiclass_trainer_abstract.h | 198 inst/dlib-19.20/dlib/svm/cross_validate_object_detection_trainer.h | 860 inst/dlib-19.20/dlib/svm/cross_validate_object_detection_trainer_abstract.h | 594 inst/dlib-19.20/dlib/svm/cross_validate_regression_trainer.h | 310 inst/dlib-19.20/dlib/svm/cross_validate_regression_trainer_abstract.h | 164 inst/dlib-19.20/dlib/svm/cross_validate_sequence_labeler.h | 304 inst/dlib-19.20/dlib/svm/cross_validate_sequence_labeler_abstract.h | 166 inst/dlib-19.20/dlib/svm/cross_validate_sequence_segmenter.h | 374 inst/dlib-19.20/dlib/svm/cross_validate_sequence_segmenter_abstract.h | 160 inst/dlib-19.20/dlib/svm/cross_validate_track_association_trainer.h | 326 inst/dlib-19.20/dlib/svm/cross_validate_track_association_trainer_abstract.h | 138 inst/dlib-19.20/dlib/svm/empirical_kernel_map.h | 858 inst/dlib-19.20/dlib/svm/empirical_kernel_map_abstract.h | 860 inst/dlib-19.20/dlib/svm/feature_ranking.h | 954 - inst/dlib-19.20/dlib/svm/feature_ranking_abstract.h | 272 inst/dlib-19.20/dlib/svm/function.h | 1764 - inst/dlib-19.20/dlib/svm/function_abstract.h | 1994 +- inst/dlib-19.20/dlib/svm/kcentroid.h | 1228 - inst/dlib-19.20/dlib/svm/kcentroid_abstract.h | 678 inst/dlib-19.20/dlib/svm/kcentroid_overloads.h | 2648 +- inst/dlib-19.20/dlib/svm/kernel.h | 1138 - inst/dlib-19.20/dlib/svm/kernel_abstract.h | 1362 - inst/dlib-19.20/dlib/svm/kernel_matrix.h | 536 inst/dlib-19.20/dlib/svm/kernel_matrix_abstract.h | 230 inst/dlib-19.20/dlib/svm/kkmeans.h | 1308 - inst/dlib-19.20/dlib/svm/kkmeans_abstract.h | 730 inst/dlib-19.20/dlib/svm/krls.h | 716 inst/dlib-19.20/dlib/svm/krls_abstract.h | 404 inst/dlib-19.20/dlib/svm/krr_trainer.h | 736 inst/dlib-19.20/dlib/svm/krr_trainer_abstract.h | 644 inst/dlib-19.20/dlib/svm/linearly_independent_subset_finder.h | 1080 - inst/dlib-19.20/dlib/svm/linearly_independent_subset_finder_abstract.h | 654 inst/dlib-19.20/dlib/svm/multiclass_tools.h | 136 inst/dlib-19.20/dlib/svm/multiclass_tools_abstract.h | 90 inst/dlib-19.20/dlib/svm/null_df.h | 66 inst/dlib-19.20/dlib/svm/null_trainer.h | 122 inst/dlib-19.20/dlib/svm/null_trainer_abstract.h | 202 inst/dlib-19.20/dlib/svm/num_nonnegative_weights.h | 152 inst/dlib-19.20/dlib/svm/one_vs_all_decision_function.h | 530 inst/dlib-19.20/dlib/svm/one_vs_all_decision_function_abstract.h | 428 inst/dlib-19.20/dlib/svm/one_vs_all_trainer.h | 468 inst/dlib-19.20/dlib/svm/one_vs_all_trainer_abstract.h | 326 inst/dlib-19.20/dlib/svm/one_vs_one_decision_function.h | 582 inst/dlib-19.20/dlib/svm/one_vs_one_decision_function_abstract.h | 426 inst/dlib-19.20/dlib/svm/one_vs_one_trainer.h | 498 inst/dlib-19.20/dlib/svm/one_vs_one_trainer_abstract.h | 332 inst/dlib-19.20/dlib/svm/pegasos.h | 1422 - inst/dlib-19.20/dlib/svm/pegasos_abstract.h | 1028 - inst/dlib-19.20/dlib/svm/ranking_tools.h | 896 inst/dlib-19.20/dlib/svm/ranking_tools_abstract.h | 494 inst/dlib-19.20/dlib/svm/rbf_network.h | 324 inst/dlib-19.20/dlib/svm/rbf_network_abstract.h | 264 inst/dlib-19.20/dlib/svm/reduced.h | 1226 - inst/dlib-19.20/dlib/svm/reduced_abstract.h | 534 inst/dlib-19.20/dlib/svm/rls.h | 464 inst/dlib-19.20/dlib/svm/rls_abstract.h | 350 inst/dlib-19.20/dlib/svm/roc_trainer.h | 298 inst/dlib-19.20/dlib/svm/roc_trainer_abstract.h | 270 inst/dlib-19.20/dlib/svm/rr_trainer.h | 912 inst/dlib-19.20/dlib/svm/rr_trainer_abstract.h | 510 inst/dlib-19.20/dlib/svm/rvm.h | 2036 +- inst/dlib-19.20/dlib/svm/rvm_abstract.h | 556 inst/dlib-19.20/dlib/svm/sequence_labeler.h | 678 inst/dlib-19.20/dlib/svm/sequence_labeler_abstract.h | 792 inst/dlib-19.20/dlib/svm/sequence_segmenter.h | 936 inst/dlib-19.20/dlib/svm/sequence_segmenter_abstract.h | 904 inst/dlib-19.20/dlib/svm/simplify_linear_decision_function.h | 220 inst/dlib-19.20/dlib/svm/simplify_linear_decision_function_abstract.h | 148 inst/dlib-19.20/dlib/svm/sort_basis_vectors.h | 448 inst/dlib-19.20/dlib/svm/sort_basis_vectors_abstract.h | 118 inst/dlib-19.20/dlib/svm/sparse_kernel.h | 768 inst/dlib-19.20/dlib/svm/sparse_kernel_abstract.h | 972 - inst/dlib-19.20/dlib/svm/sparse_vector.h | 2340 +- inst/dlib-19.20/dlib/svm/sparse_vector_abstract.h | 1376 - inst/dlib-19.20/dlib/svm/structural_assignment_trainer.h | 588 inst/dlib-19.20/dlib/svm/structural_assignment_trainer_abstract.h | 598 inst/dlib-19.20/dlib/svm/structural_graph_labeling_trainer.h | 564 inst/dlib-19.20/dlib/svm/structural_graph_labeling_trainer_abstract.h | 530 inst/dlib-19.20/dlib/svm/structural_object_detection_trainer.h | 830 inst/dlib-19.20/dlib/svm/structural_object_detection_trainer_abstract.h | 818 inst/dlib-19.20/dlib/svm/structural_sequence_labeling_trainer.h | 542 inst/dlib-19.20/dlib/svm/structural_sequence_labeling_trainer_abstract.h | 532 inst/dlib-19.20/dlib/svm/structural_sequence_segmentation_trainer.h | 562 inst/dlib-19.20/dlib/svm/structural_sequence_segmentation_trainer_abstract.h | 528 inst/dlib-19.20/dlib/svm/structural_svm_assignment_problem.h | 576 inst/dlib-19.20/dlib/svm/structural_svm_assignment_problem_abstract.h | 174 inst/dlib-19.20/dlib/svm/structural_svm_distributed.h | 1400 - inst/dlib-19.20/dlib/svm/structural_svm_distributed_abstract.h | 714 inst/dlib-19.20/dlib/svm/structural_svm_graph_labeling_problem.h | 1084 - inst/dlib-19.20/dlib/svm/structural_svm_graph_labeling_problem_abstract.h | 498 inst/dlib-19.20/dlib/svm/structural_svm_object_detection_problem.h | 1062 - inst/dlib-19.20/dlib/svm/structural_svm_object_detection_problem_abstract.h | 356 inst/dlib-19.20/dlib/svm/structural_svm_problem.h | 1298 - inst/dlib-19.20/dlib/svm/structural_svm_problem_abstract.h | 696 inst/dlib-19.20/dlib/svm/structural_svm_problem_threaded.h | 314 inst/dlib-19.20/dlib/svm/structural_svm_problem_threaded_abstract.h | 136 inst/dlib-19.20/dlib/svm/structural_svm_sequence_labeling_problem.h | 562 inst/dlib-19.20/dlib/svm/structural_svm_sequence_labeling_problem_abstract.h | 220 inst/dlib-19.20/dlib/svm/structural_track_association_trainer.h | 808 inst/dlib-19.20/dlib/svm/structural_track_association_trainer_abstract.h | 536 inst/dlib-19.20/dlib/svm/svm.h | 2410 +- inst/dlib-19.20/dlib/svm/svm_abstract.h | 1208 - inst/dlib-19.20/dlib/svm/svm_c_ekm_trainer.h | 1272 - inst/dlib-19.20/dlib/svm/svm_c_ekm_trainer_abstract.h | 768 inst/dlib-19.20/dlib/svm/svm_c_linear_dcd_trainer.h | 1424 - inst/dlib-19.20/dlib/svm/svm_c_linear_dcd_trainer_abstract.h | 764 inst/dlib-19.20/dlib/svm/svm_c_linear_trainer.h | 1452 - inst/dlib-19.20/dlib/svm/svm_c_linear_trainer_abstract.h | 778 inst/dlib-19.20/dlib/svm/svm_c_trainer.h | 718 inst/dlib-19.20/dlib/svm/svm_c_trainer_abstract.h | 474 inst/dlib-19.20/dlib/svm/svm_multiclass_linear_trainer.h | 864 inst/dlib-19.20/dlib/svm/svm_multiclass_linear_trainer_abstract.h | 550 inst/dlib-19.20/dlib/svm/svm_nu_trainer.h | 652 inst/dlib-19.20/dlib/svm/svm_nu_trainer_abstract.h | 420 inst/dlib-19.20/dlib/svm/svm_one_class_trainer.h | 568 inst/dlib-19.20/dlib/svm/svm_one_class_trainer_abstract.h | 402 inst/dlib-19.20/dlib/svm/svm_rank_trainer.h | 990 - inst/dlib-19.20/dlib/svm/svm_rank_trainer_abstract.h | 596 inst/dlib-19.20/dlib/svm/svm_threaded.h | 506 inst/dlib-19.20/dlib/svm/svm_threaded_abstract.h | 124 inst/dlib-19.20/dlib/svm/svr_linear_trainer.h | 848 inst/dlib-19.20/dlib/svm/svr_linear_trainer_abstract.h | 538 inst/dlib-19.20/dlib/svm/svr_trainer.h | 786 inst/dlib-19.20/dlib/svm/svr_trainer_abstract.h | 418 inst/dlib-19.20/dlib/svm/track_association_function.h | 308 inst/dlib-19.20/dlib/svm/track_association_function_abstract.h | 542 inst/dlib-19.20/dlib/test_for_odr_violations.cpp | 94 inst/dlib-19.20/dlib/test_for_odr_violations.h | 114 inst/dlib-19.20/dlib/threads.h | 56 inst/dlib-19.20/dlib/threads/async.cpp | 96 inst/dlib-19.20/dlib/threads/async.h | 236 inst/dlib-19.20/dlib/threads/async_abstract.h | 134 inst/dlib-19.20/dlib/threads/auto_mutex_extension.h | 360 inst/dlib-19.20/dlib/threads/auto_mutex_extension_abstract.h | 370 inst/dlib-19.20/dlib/threads/auto_unlock_extension.h | 232 inst/dlib-19.20/dlib/threads/auto_unlock_extension_abstract.h | 232 inst/dlib-19.20/dlib/threads/create_new_thread_extension.h | 92 inst/dlib-19.20/dlib/threads/create_new_thread_extension_abstract.h | 66 inst/dlib-19.20/dlib/threads/multithreaded_object_extension.cpp | 482 inst/dlib-19.20/dlib/threads/multithreaded_object_extension.h | 306 inst/dlib-19.20/dlib/threads/multithreaded_object_extension_abstract.h | 372 inst/dlib-19.20/dlib/threads/parallel_for_extension.h | 1352 - inst/dlib-19.20/dlib/threads/parallel_for_extension_abstract.h | 938 inst/dlib-19.20/dlib/threads/posix.h | 12 inst/dlib-19.20/dlib/threads/read_write_mutex_extension.h | 354 inst/dlib-19.20/dlib/threads/read_write_mutex_extension_abstract.h | 292 inst/dlib-19.20/dlib/threads/rmutex_extension.h | 218 inst/dlib-19.20/dlib/threads/rmutex_extension_abstract.h | 214 inst/dlib-19.20/dlib/threads/rsignaler_extension.h | 180 inst/dlib-19.20/dlib/threads/rsignaler_extension_abstract.h | 246 inst/dlib-19.20/dlib/threads/thread_function_extension.h | 430 inst/dlib-19.20/dlib/threads/thread_function_extension_abstract.h | 292 inst/dlib-19.20/dlib/threads/thread_pool_extension.cpp | 694 inst/dlib-19.20/dlib/threads/thread_pool_extension.h | 2784 +- inst/dlib-19.20/dlib/threads/thread_pool_extension_abstract.h | 1684 - inst/dlib-19.20/dlib/threads/thread_specific_data_extension.h | 282 inst/dlib-19.20/dlib/threads/thread_specific_data_extension_abstract.h | 174 inst/dlib-19.20/dlib/threads/threaded_object_extension.cpp | 580 inst/dlib-19.20/dlib/threads/threaded_object_extension.h | 246 inst/dlib-19.20/dlib/threads/threaded_object_extension_abstract.h | 398 inst/dlib-19.20/dlib/threads/threads_kernel.h | 36 inst/dlib-19.20/dlib/threads/threads_kernel_1.cpp | 166 inst/dlib-19.20/dlib/threads/threads_kernel_1.h | 316 inst/dlib-19.20/dlib/threads/threads_kernel_2.cpp | 150 inst/dlib-19.20/dlib/threads/threads_kernel_2.h | 360 inst/dlib-19.20/dlib/threads/threads_kernel_abstract.h | 604 inst/dlib-19.20/dlib/threads/threads_kernel_shared.cpp | 636 inst/dlib-19.20/dlib/threads/threads_kernel_shared.h | 548 inst/dlib-19.20/dlib/threads/windows.h | 12 inst/dlib-19.20/dlib/timeout.h | 20 inst/dlib-19.20/dlib/timeout/timeout.h | 400 inst/dlib-19.20/dlib/timeout/timeout_abstract.h | 376 inst/dlib-19.20/dlib/timer.h | 20 inst/dlib-19.20/dlib/timer/timer.cpp | 470 inst/dlib-19.20/dlib/timer/timer.h | 854 inst/dlib-19.20/dlib/timer/timer_abstract.h | 380 inst/dlib-19.20/dlib/timer/timer_heavy.h | 784 inst/dlib-19.20/dlib/tokenizer.h | 66 inst/dlib-19.20/dlib/tokenizer/tokenizer_kernel_1.cpp | 590 inst/dlib-19.20/dlib/tokenizer/tokenizer_kernel_1.h | 310 inst/dlib-19.20/dlib/tokenizer/tokenizer_kernel_abstract.h | 578 inst/dlib-19.20/dlib/tokenizer/tokenizer_kernel_c.h | 334 inst/dlib-19.20/dlib/uintn.h | 192 inst/dlib-19.20/dlib/unicode.h | 18 inst/dlib-19.20/dlib/unicode/unicode.cpp | 350 inst/dlib-19.20/dlib/unicode/unicode.h | 1244 - inst/dlib-19.20/dlib/unicode/unicode_abstract.h | 466 inst/dlib-19.20/dlib/unordered_pair.h | 352 inst/dlib-19.20/dlib/vectorstream.h | 22 inst/dlib-19.20/dlib/vectorstream/unserialize.h | 196 inst/dlib-19.20/dlib/vectorstream/unserialize_abstract.h | 116 inst/dlib-19.20/dlib/vectorstream/vectorstream.h | 276 inst/dlib-19.20/dlib/vectorstream/vectorstream_abstract.h | 124 inst/dlib-19.20/dlib/windows_magic.h | 100 src/Makevars | 2 src/Makevars.win | 2 690 files changed, 233890 insertions(+), 233888 deletions(-)
Title: Converts Conductance Units
Description: For plant physiologists, converts conductance (e.g. stomatal conductance) to different units: m/s, mol/m^2/s, and umol/m^2/s/Pa.
Author: Chris Muir [aut, cre]
Maintainer: Chris Muir <cdmuir@hawaii.edu>
Diff between gunit versions 1.0.0 dated 2019-05-03 and 1.0.2 dated 2022-10-18
gunit-1.0.0/gunit/R/convert_conductance.R |only gunit-1.0.2/gunit/DESCRIPTION | 13 ++--- gunit-1.0.2/gunit/LICENSE | 2 gunit-1.0.2/gunit/MD5 | 21 ++++---- gunit-1.0.2/gunit/NAMESPACE | 3 + gunit-1.0.2/gunit/NEWS.md |only gunit-1.0.2/gunit/R/convert-conductance.R |only gunit-1.0.2/gunit/R/convert-species.R |only gunit-1.0.2/gunit/R/gunit-package.R | 1 gunit-1.0.2/gunit/README.md | 65 ++++++++++++--------------- gunit-1.0.2/gunit/inst/CITATION | 4 - gunit-1.0.2/gunit/man/convert_conductance.Rd | 10 ++-- gunit-1.0.2/gunit/man/gunit.Rd | 1 gunit-1.0.2/gunit/man/gw2gc.Rd |only 14 files changed, 63 insertions(+), 57 deletions(-)
Title: A Package for Graphical Modelling in R
Description: The 'gRbase' package provides graphical modelling features
used by e.g. the packages 'gRain', 'gRim' and 'gRc'. 'gRbase' implements
graph algorithms including (i) maximum cardinality search (for marked
and unmarked graphs).
(ii) moralization, (iii) triangulation, (iv) creation of junction tree.
'gRbase' facilitates array operations,
'gRbase' implements functions for testing for conditional independence.
'gRbase' illustrates how hierarchical log-linear models may be
implemented and describes concept of graphical meta
data.
The facilities of the package are documented in the book by Højsgaard,
Edwards and Lauritzen (2012,
<doi:10.1007/978-1-4614-2299-0>) and in the paper by
Dethlefsen and Højsgaard, (2005, <doi:10.18637/jss.v014.i17>).
Please see 'citation("gRbase")' for citation details.
NOTICE 'gRbase' requires that the packages graph,
'Rgraphviz' and 'RBGL' are installed from 'bioconductor'; for
installation instructions please refer to the web page given below.
Author: Soeren Hoejsgaard <sorenh@math.aau.dk>
Maintainer: Soeren Hoejsgaard <sorenh@math.aau.dk>
Diff between gRbase versions 1.8.7 dated 2022-04-02 and 1.8.8 dated 2022-10-18
gRbase-1.8.7/gRbase/data/lizardAGG.txt |only gRbase-1.8.7/gRbase/data/lizardRAW.txt |only gRbase-1.8.7/gRbase/man/data-cad.Rd |only gRbase-1.8.8/gRbase/DESCRIPTION | 9 +- gRbase-1.8.8/gRbase/MD5 | 43 +++++------ gRbase-1.8.8/gRbase/NEWS | 10 ++ gRbase-1.8.8/gRbase/R/DATA-cad.R |only gRbase-1.8.8/gRbase/R/RcppExports.R | 1 gRbase-1.8.8/gRbase/R/api_array_tabX.R | 2 gRbase-1.8.8/gRbase/R/data-description.R | 86 ----------------------- gRbase-1.8.8/gRbase/R/graph-coerce-xxx2yyy.R | 49 ++++++------- gRbase-1.8.8/gRbase/R/graph-coerce.R | 1 gRbase-1.8.8/gRbase/build/vignette.rds |binary gRbase-1.8.8/gRbase/data/lizardAGG.txt.gz |only gRbase-1.8.8/gRbase/data/lizardRAW.txt.gz |only gRbase-1.8.8/gRbase/inst/doc/arrays.pdf |binary gRbase-1.8.8/gRbase/inst/doc/graphs.pdf |binary gRbase-1.8.8/gRbase/man/api-tabNew.Rd | 6 + gRbase-1.8.8/gRbase/man/api-tabX_.Rd | 14 --- gRbase-1.8.8/gRbase/man/data_cad.Rd |only gRbase-1.8.8/gRbase/man/graph-gcproperties.Rd | 6 + gRbase-1.8.8/gRbase/man/graph-mcs.Rd | 6 + gRbase-1.8.8/gRbase/man/graph-min-triangulate.Rd | 6 + gRbase-1.8.8/gRbase/src/_u_rowsums_etc.c | 2 gRbase-1.8.8/gRbase/src/api_array_tab_X.cpp | 11 +- gRbase-1.8.8/gRbase/src/init.c | 2 26 files changed, 88 insertions(+), 166 deletions(-)
Title: A Framework for Robust Shiny Applications
Description: An opinionated framework for building a production-ready
'Shiny' application. This package contains a series of tools for
building a robust 'Shiny' application from start to finish.
Author: Colin Fay [cre, aut] ,
Vincent Guyader [aut] ,
Sebastien Rochette [aut] ,
Cervan Girard [aut] ,
Novica Nakov [ctb],
David Granjon [ctb],
Arthur Breant [ctb],
Antoine Languillaume [ctb],
ThinkR [cph]
Maintainer: Colin Fay <contact@colinfay.me>
Diff between golem versions 0.3.4 dated 2022-09-26 and 0.3.5 dated 2022-10-18
DESCRIPTION | 6 +++--- MD5 | 24 ++++++++++++------------ NEWS.md | 8 ++++++++ inst/doc/a_start.html | 4 ++-- inst/doc/b_dev.html | 4 ++-- inst/doc/c_deploy.html | 4 ++-- inst/doc/d_js.html | 4 ++-- inst/doc/e_config.html | 2 +- tests/testthat/test-add_deploy_helpers.R | 2 +- tests/testthat/test-extra_sysreqs.R | 2 +- tests/testthat/test-renv_stuff.R | 1 - tests/testthat/test-zreload.R | 12 ++++++------ tests/testthat/test-zzzzzzzzzz.R | 8 +------- 13 files changed, 41 insertions(+), 40 deletions(-)
Title: Generalised log-Linear Model
Description: Routines for log-linear models of incomplete contingency tables,
including some latent class models, via EM and Fisher scoring
approaches. Allows bootstrapping. See Espeland and Hui (1987)
<doi:10.2307/2531553> for general approach.
Author: David Duffy <David.Duffy@qimr.edu.au>.
C code in emgllmfitter by Andreas Borg <borg@imbei.uni-mainz.de>
Maintainer: David Duffy <David.Duffy@qimrberghofer.edu.au>
Diff between gllm versions 0.37 dated 2018-11-27 and 0.38 dated 2022-10-18
DESCRIPTION | 8 ++++---- MD5 | 4 ++-- src/emgllm.c | 14 +++++++------- 3 files changed, 13 insertions(+), 13 deletions(-)
Title: Fitting Single and Mixture of Generalised Lambda Distributions
Description: The fitting algorithms considered in this package have two major objectives. One is to provide a smoothing device to fit distributions to data using the weight and unweighted discretised approach based on the bin width of the histogram. The other is to provide a definitive fit to the data set using the maximum likelihood and quantile matching estimation. Other methods such as moment matching, starship method, L moment matching are also provided. Diagnostics on goodness of fit can be done via qqplots, KS-resample tests and comparing mean, variance, skewness and kurtosis of the data with the fitted distribution. References include the following: Karvanen and Nuutinen (2008) "Characterizing the generalized lambda distribution by L-moments" <doi:10.1016/j.csda.2007.06.021>, King and MacGillivray (1999) "A starship method for fitting the generalised lambda distributions" <doi:10.1111/1467-842X.00089>, Su (2005) "A Discretized Approach to Flexibly Fit Generalized Lambda Distribut [...truncated...]
Author: Steve Su [aut, cre, cph] ,
Martin Maechler [aut],
Juha Karvanen [aut],
Robert King [aut],
Benjamin Dean [ctb],
R Core Team [aut]
Maintainer: Steve Su <allegro.su@gmail.com>
Diff between GLDEX versions 2.0.0.9 dated 2022-05-17 and 2.0.0.9.1 dated 2022-10-18
DESCRIPTION | 8 ++++---- MD5 | 12 ++++++------ R/fun.gen.qrn.R | 2 +- man/starship.Rd | 4 ++-- man/starship.adaptivegrid.Rd | 6 +++--- man/starship.obj.Rd | 2 +- src/GLDEX.c | 36 ++++++++++++++++++------------------ 7 files changed, 35 insertions(+), 35 deletions(-)
Title: Indices of Effect Size
Description: Provide utilities to work with indices of effect size for a wide
variety of models and hypothesis tests (see list of supported models using
the function 'insight::supported_models()'), allowing computation of and
conversion between indices such as Cohen's d, r, odds, etc.
References: Ben-Shachar et al. (2020) <doi:10.21105/joss.02815>.
Author: Mattan S. Ben-Shachar [aut, cre]
,
Dominique Makowski [aut] ,
Daniel Luedecke [aut] ,
Indrajeet Patil [aut] ,
Brenton M. Wiernik [aut] ,
Ken Kelley [ctb],
David Stanley [ctb],
Jessica Burnett [rev] ,
Johannes Karreth [rev]
Maintainer: Mattan S. Ben-Shachar <mattansb@msbstats.info>
Diff between effectsize versions 0.8.0 dated 2022-10-09 and 0.8.1 dated 2022-10-18
effectsize-0.8.0/effectsize/man/es_info.Rd |only effectsize-0.8.1/effectsize/DESCRIPTION | 6 effectsize-0.8.1/effectsize/MD5 | 98 ++++---- effectsize-0.8.1/effectsize/NEWS.md | 10 effectsize-0.8.1/effectsize/R/cohens_d.R | 2 effectsize-0.8.1/effectsize/R/cohens_g.R | 8 effectsize-0.8.1/effectsize/R/common_language.R | 10 effectsize-0.8.1/effectsize/R/convert_between_OR_to_RR.R | 10 effectsize-0.8.1/effectsize/R/convert_between_common_language.R | 6 effectsize-0.8.1/effectsize/R/convert_stat_chisq.R | 21 + effectsize-0.8.1/effectsize/R/convert_stat_to_anova.R | 4 effectsize-0.8.1/effectsize/R/convert_stat_to_d.R | 2 effectsize-0.8.1/effectsize/R/convert_stat_to_r.R | 2 effectsize-0.8.1/effectsize/R/effectsize.BFBayesFactor.R | 6 effectsize-0.8.1/effectsize/R/effectsize.htest.R | 24 +- effectsize-0.8.1/effectsize/R/equivalence_test.R | 6 effectsize-0.8.1/effectsize/R/eta_squared-main.R | 43 +-- effectsize-0.8.1/effectsize/R/eta_squared-methods.R | 14 - effectsize-0.8.1/effectsize/R/eta_squared_posterior.R | 12 - effectsize-0.8.1/effectsize/R/interpret.R | 8 effectsize-0.8.1/effectsize/R/interpret_bf.R | 2 effectsize-0.8.1/effectsize/R/is_effectsize_name.R | 91 -------- effectsize-0.8.1/effectsize/R/mahalanobis_D.R | 12 - effectsize-0.8.1/effectsize/R/print.effectsize_table.R | 2 effectsize-0.8.1/effectsize/R/rank_ANOVA.R | 5 effectsize-0.8.1/effectsize/R/rank_diff.R | 2 effectsize-0.8.1/effectsize/R/sysdata.rda |only effectsize-0.8.1/effectsize/R/utils.R | 4 effectsize-0.8.1/effectsize/R/utils_interpret.R | 9 effectsize-0.8.1/effectsize/R/utils_validate_input_data.R | 84 +++---- effectsize-0.8.1/effectsize/R/xtab_corr.R | 2 effectsize-0.8.1/effectsize/R/xtab_diff.R | 12 - effectsize-0.8.1/effectsize/README.md | 2 effectsize-0.8.1/effectsize/data/Music_preferences.rdata |binary effectsize-0.8.1/effectsize/inst/doc/anovaES.R | 8 effectsize-0.8.1/effectsize/inst/doc/anovaES.Rmd | 9 effectsize-0.8.1/effectsize/inst/doc/anovaES.html | 113 +++++----- effectsize-0.8.1/effectsize/inst/doc/xtabs.R | 2 effectsize-0.8.1/effectsize/inst/doc/xtabs.Rmd | 2 effectsize-0.8.1/effectsize/inst/doc/xtabs.html | 16 - effectsize-0.8.1/effectsize/man/Music_preferences.Rd | 9 effectsize-0.8.1/effectsize/man/convert_chisq.Rd | 1 effectsize-0.8.1/effectsize/man/effectsize_CIs.Rd | 16 - effectsize-0.8.1/effectsize/tests/testthat/test-eta_squared.R | 8 effectsize-0.8.1/effectsize/tests/testthat/test-interpret.R | 4 effectsize-0.8.1/effectsize/tests/testthat/test-mahalanobis_D.R | 21 - effectsize-0.8.1/effectsize/tests/testthat/test-print.R | 5 effectsize-0.8.1/effectsize/tests/testthat/test-utils_validate_input_data.R | 38 +++ effectsize-0.8.1/effectsize/tests/testthat/test-xtab.R | 3 effectsize-0.8.1/effectsize/vignettes/anovaES.Rmd | 9 effectsize-0.8.1/effectsize/vignettes/xtabs.Rmd | 2 51 files changed, 378 insertions(+), 407 deletions(-)
Title: Create Compact Hash Digests of R Objects
Description: Implementation of a function 'digest()' for the creation of hash
digests of arbitrary R objects (using the 'md5', 'sha-1', 'sha-256', 'crc32',
'xxhash', 'murmurhash', 'spookyhash' and 'blake3' algorithms) permitting easy
comparison of R language objects, as well as functions such as'hmac()' to
create hash-based message authentication code. Please note that this package
is not meant to be deployed for cryptographic purposes for which more
comprehensive (and widely tested) libraries such as 'OpenSSL' should be
used.
Author: Dirk Eddelbuettel <edd@debian.org> with contributions
by Antoine Lucas, Jarek Tuszynski, Henrik Bengtsson, Simon Urbanek,
Mario Frasca, Bryan Lewis, Murray Stokely, Hannes Muehleisen,
Duncan Murdoch, Jim Hester, Wush Wu, Qiang Kou, Thierry Onkelinx,
[...truncated...]
Maintainer: Dirk Eddelbuettel <edd@debian.org>
Diff between digest versions 0.6.29 dated 2021-12-01 and 0.6.30 dated 2022-10-18
ChangeLog | 15 + DESCRIPTION | 8 - MD5 | 12 - build/vignette.rds |binary inst/doc/sha1.html | 412 +++++++++++++++++++++++++++++------------------------ src/crc32.c | 18 -- src/sha2.c | 4 7 files changed, 261 insertions(+), 208 deletions(-)
Title: Cluster Ensembles
Description: CLUster Ensembles.
Author: Kurt Hornik [aut, cre] ,
Walter Boehm [ctb]
Maintainer: Kurt Hornik <Kurt.Hornik@R-project.org>
Diff between clue versions 0.3-61 dated 2022-05-30 and 0.3-62 dated 2022-10-18
DESCRIPTION | 6 +++--- MD5 | 28 ++++++++++++++-------------- R/dissimilarity.R | 5 +++++ build/partial.rdb |binary build/vignette.rds |binary data/CKME.rda |binary data/Cassini.rda |binary data/GVME.rda |binary data/GVME_Consensus.rda |binary data/Kinship82.rda |binary data/Kinship82_Consensus.rda |binary data/Phonemes.rda |binary inst/doc/clue.pdf |binary man/Kinship82.Rd | 2 +- man/Phonemes.Rd | 2 +- 15 files changed, 24 insertions(+), 19 deletions(-)
Title: R Client for 'Adobe Analytics' API 2.0
Description: Connect to the 'Adobe Analytics' API v2.0 <https://github.com/AdobeDocs/analytics-2.0-apis>
which powers 'Analysis Workspace'. The package was developed
with the analyst in mind, and it will continue to be
developed with the guiding principles of iterative,
repeatable, timely analysis.
Author: Ben Woodard [aut, cre],
Tim Wilson [aut, ctb],
Charles Gallagher [ctb],
Mark Edmondson [ctb]
Maintainer: Ben Woodard <benrwoodard@gmail.com>
Diff between adobeanalyticsr versions 0.3.2 dated 2022-04-05 and 0.3.3 dated 2022-10-18
CHANGELOG | 4 + DESCRIPTION | 6 - MD5 | 23 +++--- NEWS.md | 4 + R/freeform_report.R | 52 +++++-------- R/get_metrics.R | 5 - R/get_req_data.R | 132 +++++++++++++---------------------- R/query_spec.R |only R/request_format.R | 9 -- man/aw_get_metrics.Rd | 5 - tests/testthat/test-date_utilities.R | 2 tests/testthat/test-query_spec.R |only vignettes/aa.oauth |binary vignettes/annotations.nb.html |only 14 files changed, 98 insertions(+), 144 deletions(-)
More information about adobeanalyticsr at CRAN
Permanent link
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2021-04-23 0.2.6
2020-12-09 0.2.4
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2016-02-07 0.6
2015-04-01 0.5
2014-11-30 0.4
2012-12-08 0.3
2009-10-29 0.2
2009-10-27 0.1
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2020-06-02 0.1.0
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2020-05-17 0.1.1
2020-05-08 0.1.0
Title: The Bayesian Causal Effect Estimation Algorithm
Description: A Bayesian model averaging approach to causal effect estimation
based on the BCEE algorithm. Currently supports binary or continuous
exposures and outcomes. For more details, see
Talbot et al. (2015) <doi:10.1515/jci-2014-0035>
Talbot and Beaudoin (2020) <arXiv:2003.11588>.
Permanent link
Title: Bayesian Age-Period-Cohort Modeling and Prediction
Description: Bayesian Age-Period-Cohort Modeling and Prediction using efficient Markov Chain Monte Carlo Methods. This is the R version of the previous BAMP software as described in Volker Schmid and Leonhard Held (2007) <DOI:10.18637/jss.v021.i08> Bayesian Age-Period-Cohort Modeling and Prediction - BAMP, Journal of Statistical Software 21:8. This package includes checks of convergence using Gelman's R.
Author: Volker Schmid [aut, cre],
Florian Geressen [ctb],
Leonhard Held [ctb],
Evi Rainer [ctb]
Maintainer: Volker Schmid <volker.schmid@lmu.de>
Diff between bamp versions 2.1.1 dated 2022-05-05 and 2.1.3 dated 2022-10-18
DESCRIPTION | 10 +++++----- MD5 | 18 +++++++++--------- NEWS.md | 6 ++++++ README.md | 4 +++- build/vignette.rds |binary man/bamp.Rd | 8 ++++---- src/block.h | 10 +++++----- src/mxs.h | 4 ++-- src/praez.h | 4 ++-- src/zz_ksi.h | 2 +- 10 files changed, 37 insertions(+), 29 deletions(-)
Title: Methods to Analyse Signed Networks
Description: Methods for the analysis of signed networks. This includes several measures for structural balance as introduced by Cartwright and Harary (1956) <doi:10.1037/h0046049>, blockmodeling algorithms from Doreian (2008) <doi:10.1016/j.socnet.2008.03.005>, various centrality indices, and projections of signed two-mode networks introduced by Schoch (2020) <doi:10.1080/0022250X.2019.1711376>.
Author: David Schoch [aut, cre]
Maintainer: David Schoch <david@schochastics.net>
Diff between signnet versions 0.8.0 dated 2022-02-13 and 0.8.1 dated 2022-10-18
DESCRIPTION | 6 MD5 | 24 +-- NEWS.md | 4 build/vignette.rds |binary inst/doc/blockmodeling.html | 259 +++++++++++++++++++++++++++++++-- inst/doc/centrality.html | 249 ++++++++++++++++++++++++++++++-- inst/doc/complex_matrices.html | 248 ++++++++++++++++++++++++++++++- inst/doc/signed_2mode.html | 303 +++++++++++++++++++++++++++++++++++---- inst/doc/signed_networks.html | 258 +++++++++++++++++++++++++++++++-- inst/doc/structural_balance.html | 280 +++++++++++++++++++++++++++++++++--- src/optimBlocks.cpp | 20 +- src/optimBlocksGen.cpp | 4 src/triadCensus.cpp | 4 13 files changed, 1520 insertions(+), 139 deletions(-)
Title: A Set of Common Tools for Seasonal to Decadal Verification
Description: The advanced version of package 's2dverification'. It is
intended for 'seasonal to decadal' (s2d) climate forecast verification, but
it can also be used in other kinds of forecasts or general climate analysis.
This package is specially designed for the comparison between the experimental
and observational datasets. The functionality of the included functions covers
from data retrieval, data post-processing, skill scores against observation,
to visualization. Compared to 's2dverification', 's2dv' is more compatible
with the package 'startR', able to use multiple cores for computation and
handle multi-dimensional arrays with a higher flexibility. The CDO version used
in development is 1.9.8.
Author: BSC-CNS [aut, cph],
An-Chi Ho [aut, cre],
Nuria Perez-Zanon [aut],
Roberto Bilbao [ctb],
Josep Cos [ctb],
Carlos Delgado [ctb],
Llorenc Lledo [ctb],
Andrea Manrique [ctb],
Deborah Verfaillie [ctb],
Eva Rifà [ctb]
Maintainer: An-Chi Ho <an.ho@bsc.es>
Diff between s2dv versions 1.2.0 dated 2022-06-23 and 1.3.0 dated 2022-10-18
DESCRIPTION | 23 +-- MD5 | 86 ++++++------ NAMESPACE | 5 NEWS.md | 14 + R/ACC.R | 4 R/AbsBiasSS.R |only R/Ano_CrossValid.R | 115 +++++++++++----- R/Bias.R |only R/BrierScore.R | 10 - R/CDORemap.R | 2 R/CRPS.R |only R/CRPSS.R |only R/Clim.R | 2 R/Composite.R | 2 R/Consist_Trend.R | 2 R/Corr.R | 316 ++++++++++++++++++++++----------------------- R/DiffCorr.R | 96 +++++++++---- R/EOF.R | 2 R/InsertDim.R | 4 R/Load.R | 6 R/NAO.R | 2 R/PlotEquiMap.R | 339 ++++++++++++++++++++++++++++++++++++------------ R/PlotLayout.R | 115 ++++++++++++---- R/REOF.R | 6 R/RMS.R | 53 +++++-- R/RMSSS.R | 39 ++++- R/RPS.R | 177 ++++++++++++++++++------- R/RPSS.R | 351 +++++++++++++++++++++++++++++++++++++------------- R/RatioRMS.R | 2 R/RatioSDRMS.R | 2 R/ResidualCorr.R | 2 R/UltimateBrier.R | 71 +++++++--- R/Utils.R | 89 ++++++++++++ man/AbsBiasSS.Rd |only man/Ano_CrossValid.Rd | 9 - man/Bias.Rd |only man/BrierScore.Rd | 6 man/CRPS.Rd |only man/CRPSS.Rd |only man/Corr.Rd | 34 ++-- man/DiffCorr.Rd | 22 ++- man/PlotEquiMap.Rd | 34 +++- man/PlotLayout.Rd | 4 man/RPS.Rd | 36 +++-- man/RPSS.Rd | 72 +++++++--- man/RatioRMS.Rd | 2 man/UltimateBrier.Rd | 9 - man/s2dv-package.Rd | 3 48 files changed, 1519 insertions(+), 649 deletions(-)
Title: RDS Sample Size Estimation and Power Calculation
Description: Provides functionality for carrying out sample size estimation and power calculation in Respondent-Driven Sampling.
Author: Yibo Wang [aut, cre],
Michael R. Elliott [aut],
Sunghee Lee [aut]
Maintainer: Yibo Wang <wangyb@umich.edu>
Diff between RDSsamplesize versions 0.1.0 dated 2022-07-04 and 0.2.0 dated 2022-10-18
RDSsamplesize-0.1.0/RDSsamplesize/src/Makevars |only RDSsamplesize-0.1.0/RDSsamplesize/src/Makevars.win |only RDSsamplesize-0.2.0/RDSsamplesize/DESCRIPTION | 7 RDSsamplesize-0.2.0/RDSsamplesize/MD5 | 16 - RDSsamplesize-0.2.0/RDSsamplesize/NAMESPACE | 6 RDSsamplesize-0.2.0/RDSsamplesize/R/RcppExports.R | 2 RDSsamplesize-0.2.0/RDSsamplesize/inst/doc/README.Rmd | 2 RDSsamplesize-0.2.0/RDSsamplesize/inst/doc/README.html | 139 +++++++++-------- RDSsamplesize-0.2.0/RDSsamplesize/src/Source.cpp | 6 RDSsamplesize-0.2.0/RDSsamplesize/vignettes/README.Rmd | 2 10 files changed, 97 insertions(+), 83 deletions(-)
Title: Calculation and Application of p-Variation
Description: The calculation of p-variation of the finite sample data.
This package is a realisation of the procedure described in Butkus, V. & Norvaisa, R. Lith Math J (2018). <doi: 10.1007/s10986-018-9414-3>
The formal definitions and reference into literature are given in vignette.
Author: Vygantas Butkus
Maintainer: Vygantas Butkus <Vygantas.Butkus@gmail.com>
Diff between pvar versions 2.2.5 dated 2018-11-15 and 2.2.7 dated 2022-10-18
DESCRIPTION | 8 ++++---- MD5 | 12 ++++++------ R/p-variation.R | 4 +++- build/vignette.rds |binary inst/doc/pvar_intro.R | 20 ++++++++++---------- inst/doc/pvar_intro.pdf |binary src/pvarC.cpp | 4 ++-- 7 files changed, 25 insertions(+), 23 deletions(-)
Title: Create a Bayesian Posterior from a Phylogeny
Description: Theoretical biologists are interested in measuring the extent
at which we can measure the truth. This package allows to
create a Bayesian posterior from a phylogeny that depicts
the true evolutionary relationships. The given and true phylogeny
can than be compared to the posterior phylogenies.
Richèl J. C. Bilderbeek, Giovanni Laudanno, Rampal S. Etienne (2020)
"Quantifying the impact of an inference model in Bayesian phylogenetics"
<doi:10.1111/2041-210X.13514>.
Author: Richel J.C. Bilderbeek [aut, cre]
,
Giovanni Laudanno [aut],
Thijs Janzen [ctb]
Maintainer: Richel J.C. Bilderbeek <richel@richelbilderbeek.nl>
Diff between pirouette versions 1.6.4 dated 2022-10-06 and 1.6.5 dated 2022-10-18
DESCRIPTION | 12 ++++++------ MD5 | 14 +++++++------- R/create_rate_matrix.R | 2 +- inst/doc/create_twin_tree.html | 4 ++-- inst/doc/demo.html | 4 ++-- inst/doc/experiment.html | 4 ++-- inst/doc/tutorial.html | 4 ++-- inst/doc/twinning.html | 4 ++-- 8 files changed, 24 insertions(+), 24 deletions(-)
Title: Gene-Level Variant Association Tests for Pedigree Data
Description: Gene-level variant association tests with disease status for pedigree data: kernel and burden association statistics.
Author: Schaid Daniel [aut],
Visconti Alessia [ctb],
Jason Sinnwell [aut, cre]
Maintainer: Jason Sinnwell <sinnwell.jason@mayo.edu>
Diff between pedgene versions 3.3 dated 2020-02-19 and 3.6 dated 2022-10-18
pedgene-3.3/pedgene/tests/test.pedgene.expanded.Rout |only pedgene-3.6/pedgene/DESCRIPTION | 14 ++++++------- pedgene-3.6/pedgene/MD5 | 14 +++++++------ pedgene-3.6/pedgene/build |only pedgene-3.6/pedgene/inst/doc/pedgene.R |only pedgene-3.6/pedgene/inst/doc/pedgene.Rnw |only pedgene-3.6/pedgene/inst/doc/pedgene.pdf |binary pedgene-3.6/pedgene/tests/test.pedgene.expanded.R | 3 -- pedgene-3.6/pedgene/tests/test.pedgene.expanded.Rout.save | 15 +++++++------- pedgene-3.6/pedgene/vignettes/pedgene.Rnw | 8 +------ 10 files changed, 26 insertions(+), 28 deletions(-)
Title: Implementation of POSIXct Work-Alike for 365 and 360 Day
Calendars
Description: Provides a work-alike to R's POSIXct class which implements
360- and 365-day calendars in addition to the gregorian calendar.
Author: David Bronaugh <bronaugh@uvic.ca> for the Pacific Climate
Impacts Consortium ; portions based on code written by
the R-Core team and Ulrich Drepper.
Maintainer: James Hiebert <hiebert@uvic.ca>
Diff between PCICt versions 0.5-4.2 dated 2022-10-16 and 0.5-4.3 dated 2022-10-18
DESCRIPTION | 8 ++++---- MD5 | 8 ++++---- R/PCICt.R | 4 ++-- src/PCICt_init.c | 8 ++++---- src/datetime_360.c | 35 ++++++++++++----------------------- 5 files changed, 26 insertions(+), 37 deletions(-)
Title: Tidy Up Date/Time Ranges
Description: Collapse, partition, combine, fill gaps in and expand date/time ranges.
Author: Aljaz Jelenko [aut, cre],
Patrik Punco [aut]
Maintainer: Aljaz Jelenko <aljaz.jelenko@amis.net>
Diff between neatRanges versions 0.1.3 dated 2020-03-29 and 0.1.4 dated 2022-10-18
DESCRIPTION | 23 LICENSE | 4 MD5 | 42 - NEWS.md | 12 R/RcppExports.R | 22 R/collapse_ranges.R | 496 ++++++++--------- R/combine_ranges.R | 12 R/expand_variants.R | 38 - R/fill_ranges.R | 22 R/partition_ranges.R | 25 R/utils.R | 21 man/collapse_ranges.Rd | 126 ++-- man/combine_ranges.Rd | 134 ++-- man/expand_dates.Rd | 100 +-- man/expand_times.Rd | 106 +-- man/fill_ranges.Rd | 106 +-- man/partition_ranges.Rd | 86 +-- src/RcppExports.cpp | 5 src/subsetAndUpdate.cpp | 6 src/subsetAndUpdateTime.cpp | 6 tests/testthat.R | 8 tests/testthat/testneatRanges_collapse.R | 877 +++++++++++++++++++------------ 22 files changed, 1263 insertions(+), 1014 deletions(-)
Title: Discrete Event Simulation in R and C++, with Tools for
Cost-Effectiveness Analysis
Description: Discrete event simulation using both R and C++ (Karlsson et al 2016; <doi:10.1109/eScience.2016.7870915>). The C++ code is adapted from the SSIM library <https://www.inf.usi.ch/carzaniga/ssim/>, allowing for event-oriented simulation. The code includes a SummaryReport class for reporting events and costs by age and other covariates. The C++ code is available as a static library for linking to other packages. A priority queue implementation is given in C++ together with an S3 closure and a reference class implementation. Finally, some tools are provided for cost-effectiveness analysis.
Author: Mark Clements [aut, cre, cph],
Alexandra Jauhiainen [aut],
Andreas Karlsson [aut],
Antonio Carzaniga [cph],
University of Colorado [cph],
Pierre L'Ecuyer [cph]
Maintainer: Mark Clements <mark.clements@ki.se>
Diff between microsimulation versions 1.3.7 dated 2022-04-04 and 1.4.1 dated 2022-10-18
microsimulation-1.3.7/microsimulation/inst/doc/html/a00038.html |only microsimulation-1.3.7/microsimulation/inst/doc/html/a00038_source.html |only microsimulation-1.3.7/microsimulation/inst/doc/html/a00039.map |only microsimulation-1.3.7/microsimulation/inst/doc/html/a00039.md5 |only microsimulation-1.3.7/microsimulation/inst/doc/html/a00039.png |only microsimulation-1.3.7/microsimulation/inst/doc/html/a00040.map |only microsimulation-1.3.7/microsimulation/inst/doc/html/a00040.md5 |only microsimulation-1.3.7/microsimulation/inst/doc/html/a00040.png |only microsimulation-1.3.7/microsimulation/inst/doc/html/a00047.html |only microsimulation-1.3.7/microsimulation/inst/doc/html/a00047_source.html |only microsimulation-1.3.7/microsimulation/inst/doc/html/a00048.map |only microsimulation-1.3.7/microsimulation/inst/doc/html/a00048.md5 |only microsimulation-1.3.7/microsimulation/inst/doc/html/a00048.png |only microsimulation-1.3.7/microsimulation/inst/doc/html/a00065.html |only microsimulation-1.3.7/microsimulation/inst/doc/html/a00065_source.html |only microsimulation-1.3.7/microsimulation/inst/doc/html/a00066.map |only microsimulation-1.3.7/microsimulation/inst/doc/html/a00066.md5 |only microsimulation-1.3.7/microsimulation/inst/doc/html/a00066.png |only microsimulation-1.3.7/microsimulation/inst/doc/html/a00067.map |only microsimulation-1.3.7/microsimulation/inst/doc/html/a00067.md5 |only microsimulation-1.3.7/microsimulation/inst/doc/html/a00067.png |only microsimulation-1.3.7/microsimulation/inst/doc/html/a00068_source.html |only microsimulation-1.3.7/microsimulation/inst/doc/html/a00069.map |only microsimulation-1.3.7/microsimulation/inst/doc/html/a00069.md5 |only microsimulation-1.3.7/microsimulation/inst/doc/html/a00069.png |only microsimulation-1.3.7/microsimulation/inst/doc/html/a00070.map |only microsimulation-1.3.7/microsimulation/inst/doc/html/a00070.md5 |only microsimulation-1.3.7/microsimulation/inst/doc/html/a00070.png |only microsimulation-1.3.7/microsimulation/inst/doc/html/a00071.html |only microsimulation-1.3.7/microsimulation/inst/doc/html/a00071_source.html |only microsimulation-1.3.7/microsimulation/inst/doc/html/a00073.map |only microsimulation-1.3.7/microsimulation/inst/doc/html/a00073.md5 |only microsimulation-1.3.7/microsimulation/inst/doc/html/a00073.png |only microsimulation-1.3.7/microsimulation/inst/doc/html/a00077.html |only microsimulation-1.3.7/microsimulation/inst/doc/html/a00079.html |only microsimulation-1.3.7/microsimulation/inst/doc/html/a00081.html |only microsimulation-1.3.7/microsimulation/inst/doc/html/a00082.html |only microsimulation-1.3.7/microsimulation/inst/doc/html/a00086.html |only microsimulation-1.3.7/microsimulation/inst/doc/html/a00087.html |only microsimulation-1.3.7/microsimulation/inst/doc/html/a00088.html |only microsimulation-1.3.7/microsimulation/inst/doc/html/a00901.html |only microsimulation-1.3.7/microsimulation/inst/doc/html/a00902.map |only microsimulation-1.3.7/microsimulation/inst/doc/html/a00902.md5 |only microsimulation-1.3.7/microsimulation/inst/doc/html/a00902.png |only microsimulation-1.3.7/microsimulation/inst/doc/html/a00903.map |only microsimulation-1.3.7/microsimulation/inst/doc/html/a00903.md5 |only microsimulation-1.3.7/microsimulation/inst/doc/html/a00903.png |only microsimulation-1.3.7/microsimulation/inst/doc/html/a00904.html |only microsimulation-1.3.7/microsimulation/inst/doc/html/a00929.html |only microsimulation-1.3.7/microsimulation/inst/doc/html/a00931.map |only microsimulation-1.3.7/microsimulation/inst/doc/html/a00931.md5 |only microsimulation-1.3.7/microsimulation/inst/doc/html/a00931.png |only microsimulation-1.3.7/microsimulation/inst/doc/html/a00932.html |only microsimulation-1.3.7/microsimulation/inst/doc/html/a00937.html |only microsimulation-1.3.7/microsimulation/inst/doc/html/a00938.map |only microsimulation-1.3.7/microsimulation/inst/doc/html/a00938.md5 |only microsimulation-1.3.7/microsimulation/inst/doc/html/a00938.png |only microsimulation-1.3.7/microsimulation/inst/doc/html/a00939.map |only microsimulation-1.3.7/microsimulation/inst/doc/html/a00939.md5 |only microsimulation-1.3.7/microsimulation/inst/doc/html/a00939.png |only microsimulation-1.3.7/microsimulation/inst/doc/html/a00949.html |only microsimulation-1.3.7/microsimulation/inst/doc/html/a00950.map |only microsimulation-1.3.7/microsimulation/inst/doc/html/a00950.md5 |only microsimulation-1.3.7/microsimulation/inst/doc/html/a00950.png |only microsimulation-1.3.7/microsimulation/inst/doc/html/a00953.html |only microsimulation-1.3.7/microsimulation/inst/doc/html/a00956.html |only microsimulation-1.3.7/microsimulation/inst/doc/html/a00957.html |only microsimulation-1.3.7/microsimulation/inst/doc/html/a00958.map |only microsimulation-1.3.7/microsimulation/inst/doc/html/a00958.md5 |only microsimulation-1.3.7/microsimulation/inst/doc/html/a00958.png |only microsimulation-1.3.7/microsimulation/inst/doc/html/a00960.html |only microsimulation-1.3.7/microsimulation/inst/doc/html/a00961.html |only microsimulation-1.3.7/microsimulation/inst/doc/html/a00962.map |only microsimulation-1.3.7/microsimulation/inst/doc/html/a00962.md5 |only microsimulation-1.3.7/microsimulation/inst/doc/html/a00962.png |only microsimulation-1.3.7/microsimulation/inst/doc/html/a00963.map |only microsimulation-1.3.7/microsimulation/inst/doc/html/a00963.md5 |only microsimulation-1.3.7/microsimulation/inst/doc/html/a00963.png |only microsimulation-1.3.7/microsimulation/inst/doc/html/a00973.html |only microsimulation-1.3.7/microsimulation/inst/doc/html/a00974.map |only microsimulation-1.3.7/microsimulation/inst/doc/html/a00974.md5 |only microsimulation-1.3.7/microsimulation/inst/doc/html/a00974.png |only microsimulation-1.3.7/microsimulation/inst/doc/html/a00977.html |only microsimulation-1.3.7/microsimulation/inst/doc/html/a00978.map |only microsimulation-1.3.7/microsimulation/inst/doc/html/a00978.md5 |only microsimulation-1.3.7/microsimulation/inst/doc/html/a00978.png |only microsimulation-1.3.7/microsimulation/inst/doc/html/a00980.html |only microsimulation-1.3.7/microsimulation/inst/doc/html/a00981.html |only microsimulation-1.3.7/microsimulation/inst/doc/html/a00984.html |only microsimulation-1.3.7/microsimulation/inst/doc/html/a00985.html |only microsimulation-1.3.7/microsimulation/inst/doc/html/a00989.html |only microsimulation-1.3.7/microsimulation/inst/doc/html/a00993.html |only microsimulation-1.3.7/microsimulation/inst/doc/html/a00997.html |only microsimulation-1.3.7/microsimulation/inst/doc/html/a00999.map |only microsimulation-1.3.7/microsimulation/inst/doc/html/a00999.md5 |only microsimulation-1.3.7/microsimulation/inst/doc/html/a00999.png |only microsimulation-1.3.7/microsimulation/inst/doc/html/a01001.html |only microsimulation-1.3.7/microsimulation/inst/doc/html/a01003.map |only microsimulation-1.3.7/microsimulation/inst/doc/html/a01003.md5 |only microsimulation-1.3.7/microsimulation/inst/doc/html/a01003.png |only microsimulation-1.3.7/microsimulation/inst/doc/html/a01005.html |only microsimulation-1.3.7/microsimulation/inst/doc/html/a01006.map |only microsimulation-1.3.7/microsimulation/inst/doc/html/a01006.md5 |only microsimulation-1.3.7/microsimulation/inst/doc/html/a01006.png |only microsimulation-1.3.7/microsimulation/inst/doc/html/a01009.html |only microsimulation-1.3.7/microsimulation/inst/doc/html/a01010.map |only microsimulation-1.3.7/microsimulation/inst/doc/html/a01010.md5 |only microsimulation-1.3.7/microsimulation/inst/doc/html/a01010.png |only microsimulation-1.3.7/microsimulation/inst/doc/html/a01013.html |only microsimulation-1.3.7/microsimulation/inst/doc/html/a01015.map |only microsimulation-1.3.7/microsimulation/inst/doc/html/a01015.md5 |only microsimulation-1.3.7/microsimulation/inst/doc/html/a01015.png |only microsimulation-1.3.7/microsimulation/inst/doc/html/a01017.html |only microsimulation-1.3.7/microsimulation/inst/doc/html/a01018.map |only microsimulation-1.3.7/microsimulation/inst/doc/html/a01018.md5 |only microsimulation-1.3.7/microsimulation/inst/doc/html/a01018.png |only microsimulation-1.3.7/microsimulation/inst/doc/html/a01021.html |only microsimulation-1.3.7/microsimulation/inst/doc/html/a01022.map |only microsimulation-1.3.7/microsimulation/inst/doc/html/a01022.md5 |only microsimulation-1.3.7/microsimulation/inst/doc/html/a01022.png |only microsimulation-1.3.7/microsimulation/inst/doc/html/a01025.html |only microsimulation-1.3.7/microsimulation/inst/doc/html/a01026.map |only microsimulation-1.3.7/microsimulation/inst/doc/html/a01026.md5 |only microsimulation-1.3.7/microsimulation/inst/doc/html/a01026.png |only microsimulation-1.3.7/microsimulation/inst/doc/html/a01029.html |only microsimulation-1.3.7/microsimulation/inst/doc/html/a01030.map |only microsimulation-1.3.7/microsimulation/inst/doc/html/a01030.md5 |only microsimulation-1.3.7/microsimulation/inst/doc/html/a01030.png |only microsimulation-1.3.7/microsimulation/inst/doc/html/a01033.html |only microsimulation-1.3.7/microsimulation/inst/doc/html/a01034.map |only microsimulation-1.3.7/microsimulation/inst/doc/html/a01034.md5 |only microsimulation-1.3.7/microsimulation/inst/doc/html/a01034.png |only microsimulation-1.3.7/microsimulation/inst/doc/html/a01037.html |only microsimulation-1.3.7/microsimulation/inst/doc/html/a01041.html |only microsimulation-1.3.7/microsimulation/inst/doc/html/a01044.html |only microsimulation-1.3.7/microsimulation/inst/doc/html/a01049.html |only microsimulation-1.3.7/microsimulation/inst/doc/html/a01050.map |only microsimulation-1.3.7/microsimulation/inst/doc/html/a01050.md5 |only microsimulation-1.3.7/microsimulation/inst/doc/html/a01050.png |only microsimulation-1.3.7/microsimulation/inst/doc/html/a01053.html |only microsimulation-1.3.7/microsimulation/inst/doc/html/a01054.map |only microsimulation-1.3.7/microsimulation/inst/doc/html/a01054.md5 |only microsimulation-1.3.7/microsimulation/inst/doc/html/a01054.png |only microsimulation-1.3.7/microsimulation/inst/doc/html/a01057.html |only microsimulation-1.3.7/microsimulation/inst/doc/html/a01058.map |only microsimulation-1.3.7/microsimulation/inst/doc/html/a01058.md5 |only microsimulation-1.3.7/microsimulation/inst/doc/html/a01058.png |only microsimulation-1.3.7/microsimulation/inst/doc/html/a01061.html |only microsimulation-1.3.7/microsimulation/inst/doc/html/a01062.map |only microsimulation-1.3.7/microsimulation/inst/doc/html/a01062.md5 |only microsimulation-1.3.7/microsimulation/inst/doc/html/a01062.png |only microsimulation-1.3.7/microsimulation/inst/doc/html/a01065.html |only microsimulation-1.3.7/microsimulation/inst/doc/html/a01066.map |only microsimulation-1.3.7/microsimulation/inst/doc/html/a01066.md5 |only microsimulation-1.3.7/microsimulation/inst/doc/html/a01066.png |only microsimulation-1.3.7/microsimulation/inst/doc/html/a01069.html |only microsimulation-1.3.7/microsimulation/inst/doc/html/a01071.map |only microsimulation-1.3.7/microsimulation/inst/doc/html/a01071.md5 |only microsimulation-1.3.7/microsimulation/inst/doc/html/a01071.png |only microsimulation-1.3.7/microsimulation/inst/doc/html/a01073.html |only microsimulation-1.3.7/microsimulation/inst/doc/html/a01075.map |only microsimulation-1.3.7/microsimulation/inst/doc/html/a01075.md5 |only microsimulation-1.3.7/microsimulation/inst/doc/html/a01075.png |only microsimulation-1.3.7/microsimulation/inst/doc/html/a01077.html |only microsimulation-1.3.7/microsimulation/inst/doc/html/a01079.map |only microsimulation-1.3.7/microsimulation/inst/doc/html/a01079.md5 |only microsimulation-1.3.7/microsimulation/inst/doc/html/a01079.png |only microsimulation-1.3.7/microsimulation/inst/doc/html/a01081.html |only microsimulation-1.3.7/microsimulation/inst/doc/html/a01083.map |only microsimulation-1.3.7/microsimulation/inst/doc/html/a01083.md5 |only microsimulation-1.3.7/microsimulation/inst/doc/html/a01083.png |only microsimulation-1.3.7/microsimulation/inst/doc/html/a01085.html |only microsimulation-1.3.7/microsimulation/inst/doc/html/a01089.html |only microsimulation-1.3.7/microsimulation/inst/doc/html/a01092.html |only microsimulation-1.3.7/microsimulation/inst/doc/html/a01094.html |only microsimulation-1.3.7/microsimulation/inst/doc/html/a01096.html |only microsimulation-1.3.7/microsimulation/inst/doc/html/a01098.html |only microsimulation-1.3.7/microsimulation/inst/doc/html/a01100.html |only microsimulation-1.3.7/microsimulation/inst/doc/html/dir_c285c780dcbd4eb7e0884eb1095d0107_dep.map |only microsimulation-1.3.7/microsimulation/inst/doc/html/dir_c285c780dcbd4eb7e0884eb1095d0107_dep.md5 |only microsimulation-1.3.7/microsimulation/inst/doc/html/dir_c285c780dcbd4eb7e0884eb1095d0107_dep.png |only microsimulation-1.3.7/microsimulation/inst/doc/html/examples.html |only microsimulation-1.3.7/microsimulation/inst/doc/html/search/defines_1.html |only microsimulation-1.3.7/microsimulation/inst/doc/html/search/defines_1.js |only microsimulation-1.3.7/microsimulation/inst/doc/html/search/defines_2.html |only microsimulation-1.3.7/microsimulation/inst/doc/html/search/defines_2.js |only microsimulation-1.3.7/microsimulation/inst/doc/html/search/files_8.html |only microsimulation-1.3.7/microsimulation/inst/doc/html/search/files_8.js |only microsimulation-1.3.7/microsimulation/inst/include/microsimulation.cc |only microsimulation-1.4.1/microsimulation/DESCRIPTION | 17 microsimulation-1.4.1/microsimulation/MD5 | 1274 +++---- microsimulation-1.4.1/microsimulation/NAMESPACE | 4 microsimulation-1.4.1/microsimulation/R/simulate.R |only microsimulation-1.4.1/microsimulation/inst/doc/examples.html |only microsimulation-1.4.1/microsimulation/inst/doc/examples.org |only microsimulation-1.4.1/microsimulation/inst/doc/html/a00002.html | 54 microsimulation-1.4.1/microsimulation/inst/doc/html/a00002_source.html | 152 microsimulation-1.4.1/microsimulation/inst/doc/html/a00003.map | 48 microsimulation-1.4.1/microsimulation/inst/doc/html/a00003.md5 | 2 microsimulation-1.4.1/microsimulation/inst/doc/html/a00003.png |binary microsimulation-1.4.1/microsimulation/inst/doc/html/a00005.html | 12 microsimulation-1.4.1/microsimulation/inst/doc/html/a00005_source.html | 78 microsimulation-1.4.1/microsimulation/inst/doc/html/a00006.map | 6 microsimulation-1.4.1/microsimulation/inst/doc/html/a00006.png |binary microsimulation-1.4.1/microsimulation/inst/doc/html/a00008.html | 50 microsimulation-1.4.1/microsimulation/inst/doc/html/a00008_source.html | 289 - microsimulation-1.4.1/microsimulation/inst/doc/html/a00009.map | 46 microsimulation-1.4.1/microsimulation/inst/doc/html/a00009.md5 | 2 microsimulation-1.4.1/microsimulation/inst/doc/html/a00009.png |binary microsimulation-1.4.1/microsimulation/inst/doc/html/a00011.html | 2 microsimulation-1.4.1/microsimulation/inst/doc/html/a00014.html | 2 microsimulation-1.4.1/microsimulation/inst/doc/html/a00014_source.html | 2 microsimulation-1.4.1/microsimulation/inst/doc/html/a00017.html | 78 microsimulation-1.4.1/microsimulation/inst/doc/html/a00017_source.html | 148 microsimulation-1.4.1/microsimulation/inst/doc/html/a00018.map | 48 microsimulation-1.4.1/microsimulation/inst/doc/html/a00018.md5 | 2 microsimulation-1.4.1/microsimulation/inst/doc/html/a00018.png |binary microsimulation-1.4.1/microsimulation/inst/doc/html/a00020.html | 30 microsimulation-1.4.1/microsimulation/inst/doc/html/a00020_source.html | 10 microsimulation-1.4.1/microsimulation/inst/doc/html/a00021.map | 8 microsimulation-1.4.1/microsimulation/inst/doc/html/a00021.png |binary microsimulation-1.4.1/microsimulation/inst/doc/html/a00023.html | 119 microsimulation-1.4.1/microsimulation/inst/doc/html/a00023_source.html | 303 - microsimulation-1.4.1/microsimulation/inst/doc/html/a00024.map | 46 microsimulation-1.4.1/microsimulation/inst/doc/html/a00024.md5 | 2 microsimulation-1.4.1/microsimulation/inst/doc/html/a00024.png |binary microsimulation-1.4.1/microsimulation/inst/doc/html/a00026.html | 50 microsimulation-1.4.1/microsimulation/inst/doc/html/a00026_source.html | 108 microsimulation-1.4.1/microsimulation/inst/doc/html/a00027.map | 46 microsimulation-1.4.1/microsimulation/inst/doc/html/a00027.md5 | 2 microsimulation-1.4.1/microsimulation/inst/doc/html/a00027.png |binary microsimulation-1.4.1/microsimulation/inst/doc/html/a00029.html | 28 microsimulation-1.4.1/microsimulation/inst/doc/html/a00029_source.html | 168 microsimulation-1.4.1/microsimulation/inst/doc/html/a00030.map | 4 microsimulation-1.4.1/microsimulation/inst/doc/html/a00030.png |binary microsimulation-1.4.1/microsimulation/inst/doc/html/a00032.html | 60 microsimulation-1.4.1/microsimulation/inst/doc/html/a00032_source.html | 98 microsimulation-1.4.1/microsimulation/inst/doc/html/a00033.map | 44 microsimulation-1.4.1/microsimulation/inst/doc/html/a00033.md5 | 2 microsimulation-1.4.1/microsimulation/inst/doc/html/a00033.png |binary microsimulation-1.4.1/microsimulation/inst/doc/html/a00034.map | 4 microsimulation-1.4.1/microsimulation/inst/doc/html/a00034.png |binary microsimulation-1.4.1/microsimulation/inst/doc/html/a00035.html | 50 microsimulation-1.4.1/microsimulation/inst/doc/html/a00035_source.html | 10 microsimulation-1.4.1/microsimulation/inst/doc/html/a00036.map | 48 microsimulation-1.4.1/microsimulation/inst/doc/html/a00036.md5 | 2 microsimulation-1.4.1/microsimulation/inst/doc/html/a00036.png |binary microsimulation-1.4.1/microsimulation/inst/doc/html/a00041.html | 50 microsimulation-1.4.1/microsimulation/inst/doc/html/a00041_source.html | 90 microsimulation-1.4.1/microsimulation/inst/doc/html/a00042.map | 46 microsimulation-1.4.1/microsimulation/inst/doc/html/a00042.md5 | 2 microsimulation-1.4.1/microsimulation/inst/doc/html/a00042.png |binary microsimulation-1.4.1/microsimulation/inst/doc/html/a00044.html | 50 microsimulation-1.4.1/microsimulation/inst/doc/html/a00044_source.html | 76 microsimulation-1.4.1/microsimulation/inst/doc/html/a00045.map | 46 microsimulation-1.4.1/microsimulation/inst/doc/html/a00045.md5 | 2 microsimulation-1.4.1/microsimulation/inst/doc/html/a00045.png |binary microsimulation-1.4.1/microsimulation/inst/doc/html/a00050.html | 48 microsimulation-1.4.1/microsimulation/inst/doc/html/a00050_source.html | 331 - microsimulation-1.4.1/microsimulation/inst/doc/html/a00051.map | 7 microsimulation-1.4.1/microsimulation/inst/doc/html/a00051.md5 | 2 microsimulation-1.4.1/microsimulation/inst/doc/html/a00051.png |binary microsimulation-1.4.1/microsimulation/inst/doc/html/a00052.map |only microsimulation-1.4.1/microsimulation/inst/doc/html/a00052.md5 |only microsimulation-1.4.1/microsimulation/inst/doc/html/a00052.png |only microsimulation-1.4.1/microsimulation/inst/doc/html/a00053.html | 317 + microsimulation-1.4.1/microsimulation/inst/doc/html/a00053_source.html | 1634 ++++++++- microsimulation-1.4.1/microsimulation/inst/doc/html/a00054.map | 24 microsimulation-1.4.1/microsimulation/inst/doc/html/a00054.md5 | 2 microsimulation-1.4.1/microsimulation/inst/doc/html/a00054.png |binary microsimulation-1.4.1/microsimulation/inst/doc/html/a00055.map | 12 microsimulation-1.4.1/microsimulation/inst/doc/html/a00055.md5 | 2 microsimulation-1.4.1/microsimulation/inst/doc/html/a00055.png |binary microsimulation-1.4.1/microsimulation/inst/doc/html/a00056.html | 318 - microsimulation-1.4.1/microsimulation/inst/doc/html/a00056_source.html | 1770 ++-------- microsimulation-1.4.1/microsimulation/inst/doc/html/a00057.map | 31 microsimulation-1.4.1/microsimulation/inst/doc/html/a00057.md5 | 2 microsimulation-1.4.1/microsimulation/inst/doc/html/a00057.png |binary microsimulation-1.4.1/microsimulation/inst/doc/html/a00058.map | 19 microsimulation-1.4.1/microsimulation/inst/doc/html/a00058.md5 | 2 microsimulation-1.4.1/microsimulation/inst/doc/html/a00058.png |binary microsimulation-1.4.1/microsimulation/inst/doc/html/a00059.html | 126 microsimulation-1.4.1/microsimulation/inst/doc/html/a00059_source.html | 510 -- microsimulation-1.4.1/microsimulation/inst/doc/html/a00060.map | 11 microsimulation-1.4.1/microsimulation/inst/doc/html/a00060.md5 | 2 microsimulation-1.4.1/microsimulation/inst/doc/html/a00060.png |binary microsimulation-1.4.1/microsimulation/inst/doc/html/a00061.map | 24 microsimulation-1.4.1/microsimulation/inst/doc/html/a00061.md5 | 2 microsimulation-1.4.1/microsimulation/inst/doc/html/a00061.png |binary microsimulation-1.4.1/microsimulation/inst/doc/html/a00062.html | 108 microsimulation-1.4.1/microsimulation/inst/doc/html/a00062_source.html | 289 - microsimulation-1.4.1/microsimulation/inst/doc/html/a00063.map | 8 microsimulation-1.4.1/microsimulation/inst/doc/html/a00063.md5 | 2 microsimulation-1.4.1/microsimulation/inst/doc/html/a00063.png |binary microsimulation-1.4.1/microsimulation/inst/doc/html/a00064.map | 25 microsimulation-1.4.1/microsimulation/inst/doc/html/a00064.md5 | 2 microsimulation-1.4.1/microsimulation/inst/doc/html/a00064.png |binary microsimulation-1.4.1/microsimulation/inst/doc/html/a00068.html | 211 - microsimulation-1.4.1/microsimulation/inst/doc/html/a00069.html |only microsimulation-1.4.1/microsimulation/inst/doc/html/a00070.html |only microsimulation-1.4.1/microsimulation/inst/doc/html/a00072.html |only microsimulation-1.4.1/microsimulation/inst/doc/html/a00073.html |only microsimulation-1.4.1/microsimulation/inst/doc/html/a00078.html | 1324 +------ microsimulation-1.4.1/microsimulation/inst/doc/html/a00920.html |only microsimulation-1.4.1/microsimulation/inst/doc/html/a00921.map |only microsimulation-1.4.1/microsimulation/inst/doc/html/a00921.md5 |only microsimulation-1.4.1/microsimulation/inst/doc/html/a00921.png |only microsimulation-1.4.1/microsimulation/inst/doc/html/a00922.map |only microsimulation-1.4.1/microsimulation/inst/doc/html/a00922.md5 |only microsimulation-1.4.1/microsimulation/inst/doc/html/a00922.png |only microsimulation-1.4.1/microsimulation/inst/doc/html/a00923.html |only microsimulation-1.4.1/microsimulation/inst/doc/html/a00928.html |only microsimulation-1.4.1/microsimulation/inst/doc/html/a00929.map |only microsimulation-1.4.1/microsimulation/inst/doc/html/a00929.md5 |only microsimulation-1.4.1/microsimulation/inst/doc/html/a00929.png |only microsimulation-1.4.1/microsimulation/inst/doc/html/a00930.map | 8 microsimulation-1.4.1/microsimulation/inst/doc/html/a00930.md5 | 2 microsimulation-1.4.1/microsimulation/inst/doc/html/a00930.png |binary microsimulation-1.4.1/microsimulation/inst/doc/html/a00931.html |only microsimulation-1.4.1/microsimulation/inst/doc/html/a00940.html | 232 - microsimulation-1.4.1/microsimulation/inst/doc/html/a00941.map |only microsimulation-1.4.1/microsimulation/inst/doc/html/a00941.md5 |only microsimulation-1.4.1/microsimulation/inst/doc/html/a00941.png |only microsimulation-1.4.1/microsimulation/inst/doc/html/a00943.html |only microsimulation-1.4.1/microsimulation/inst/doc/html/a00944.html |only microsimulation-1.4.1/microsimulation/inst/doc/html/a00947.html |only microsimulation-1.4.1/microsimulation/inst/doc/html/a00948.html |only microsimulation-1.4.1/microsimulation/inst/doc/html/a00949.map |only microsimulation-1.4.1/microsimulation/inst/doc/html/a00949.md5 |only microsimulation-1.4.1/microsimulation/inst/doc/html/a00949.png |only microsimulation-1.4.1/microsimulation/inst/doc/html/a00951.html |only microsimulation-1.4.1/microsimulation/inst/doc/html/a00952.html | 226 - microsimulation-1.4.1/microsimulation/inst/doc/html/a00953.map |only microsimulation-1.4.1/microsimulation/inst/doc/html/a00953.md5 |only microsimulation-1.4.1/microsimulation/inst/doc/html/a00953.png |only microsimulation-1.4.1/microsimulation/inst/doc/html/a00954.map |only microsimulation-1.4.1/microsimulation/inst/doc/html/a00954.md5 |only microsimulation-1.4.1/microsimulation/inst/doc/html/a00954.png |only microsimulation-1.4.1/microsimulation/inst/doc/html/a00955.html |only microsimulation-1.4.1/microsimulation/inst/doc/html/a00964.html | 486 -- microsimulation-1.4.1/microsimulation/inst/doc/html/a00965.map |only microsimulation-1.4.1/microsimulation/inst/doc/html/a00965.md5 |only microsimulation-1.4.1/microsimulation/inst/doc/html/a00965.png |only microsimulation-1.4.1/microsimulation/inst/doc/html/a00967.html |only microsimulation-1.4.1/microsimulation/inst/doc/html/a00968.html |only microsimulation-1.4.1/microsimulation/inst/doc/html/a00969.map |only microsimulation-1.4.1/microsimulation/inst/doc/html/a00969.md5 |only microsimulation-1.4.1/microsimulation/inst/doc/html/a00969.png |only microsimulation-1.4.1/microsimulation/inst/doc/html/a00971.html |only microsimulation-1.4.1/microsimulation/inst/doc/html/a00972.html |only microsimulation-1.4.1/microsimulation/inst/doc/html/a00975.html |only microsimulation-1.4.1/microsimulation/inst/doc/html/a00976.html | 225 - microsimulation-1.4.1/microsimulation/inst/doc/html/a00979.html |only microsimulation-1.4.1/microsimulation/inst/doc/html/a00988.html | 713 ---- microsimulation-1.4.1/microsimulation/inst/doc/html/a00991.html |only microsimulation-1.4.1/microsimulation/inst/doc/html/a00992.html | 73 microsimulation-1.4.1/microsimulation/inst/doc/html/a00995.html |only microsimulation-1.4.1/microsimulation/inst/doc/html/a00996.html | 87 microsimulation-1.4.1/microsimulation/inst/doc/html/a00997.map |only microsimulation-1.4.1/microsimulation/inst/doc/html/a00997.md5 |only microsimulation-1.4.1/microsimulation/inst/doc/html/a00997.png |only microsimulation-1.4.1/microsimulation/inst/doc/html/a00998.map | 6 microsimulation-1.4.1/microsimulation/inst/doc/html/a00998.md5 | 2 microsimulation-1.4.1/microsimulation/inst/doc/html/a00998.png |binary microsimulation-1.4.1/microsimulation/inst/doc/html/a00999.html |only microsimulation-1.4.1/microsimulation/inst/doc/html/a01000.html | 345 - microsimulation-1.4.1/microsimulation/inst/doc/html/a01001.map |only microsimulation-1.4.1/microsimulation/inst/doc/html/a01001.md5 |only microsimulation-1.4.1/microsimulation/inst/doc/html/a01001.png |only microsimulation-1.4.1/microsimulation/inst/doc/html/a01002.map | 6 microsimulation-1.4.1/microsimulation/inst/doc/html/a01002.md5 | 2 microsimulation-1.4.1/microsimulation/inst/doc/html/a01002.png |binary microsimulation-1.4.1/microsimulation/inst/doc/html/a01003.html |only microsimulation-1.4.1/microsimulation/inst/doc/html/a01004.html | 422 -- microsimulation-1.4.1/microsimulation/inst/doc/html/a01005.map |only microsimulation-1.4.1/microsimulation/inst/doc/html/a01005.md5 |only microsimulation-1.4.1/microsimulation/inst/doc/html/a01005.png |only microsimulation-1.4.1/microsimulation/inst/doc/html/a01007.html |only microsimulation-1.4.1/microsimulation/inst/doc/html/a01008.html | 364 -- microsimulation-1.4.1/microsimulation/inst/doc/html/a01009.map |only microsimulation-1.4.1/microsimulation/inst/doc/html/a01009.md5 |only microsimulation-1.4.1/microsimulation/inst/doc/html/a01009.png |only microsimulation-1.4.1/microsimulation/inst/doc/html/a01011.html |only microsimulation-1.4.1/microsimulation/inst/doc/html/a01012.html | 300 - microsimulation-1.4.1/microsimulation/inst/doc/html/a01013.map |only microsimulation-1.4.1/microsimulation/inst/doc/html/a01013.md5 |only microsimulation-1.4.1/microsimulation/inst/doc/html/a01013.png |only microsimulation-1.4.1/microsimulation/inst/doc/html/a01014.map | 6 microsimulation-1.4.1/microsimulation/inst/doc/html/a01014.md5 | 2 microsimulation-1.4.1/microsimulation/inst/doc/html/a01014.png |binary microsimulation-1.4.1/microsimulation/inst/doc/html/a01015.html |only microsimulation-1.4.1/microsimulation/inst/doc/html/a01016.html | 394 -- microsimulation-1.4.1/microsimulation/inst/doc/html/a01017.map |only microsimulation-1.4.1/microsimulation/inst/doc/html/a01017.md5 |only microsimulation-1.4.1/microsimulation/inst/doc/html/a01017.png |only microsimulation-1.4.1/microsimulation/inst/doc/html/a01019.html |only microsimulation-1.4.1/microsimulation/inst/doc/html/a01020.html | 1157 ------ microsimulation-1.4.1/microsimulation/inst/doc/html/a01021.map |only microsimulation-1.4.1/microsimulation/inst/doc/html/a01021.md5 |only microsimulation-1.4.1/microsimulation/inst/doc/html/a01021.png |only microsimulation-1.4.1/microsimulation/inst/doc/html/a01023.html |only microsimulation-1.4.1/microsimulation/inst/doc/html/a01024.html | 1314 ------- microsimulation-1.4.1/microsimulation/inst/doc/html/a01025.map |only microsimulation-1.4.1/microsimulation/inst/doc/html/a01025.md5 |only microsimulation-1.4.1/microsimulation/inst/doc/html/a01025.png |only microsimulation-1.4.1/microsimulation/inst/doc/html/a01027.html |only microsimulation-1.4.1/microsimulation/inst/doc/html/a01028.html | 863 ---- microsimulation-1.4.1/microsimulation/inst/doc/html/a01029.map |only microsimulation-1.4.1/microsimulation/inst/doc/html/a01029.md5 |only microsimulation-1.4.1/microsimulation/inst/doc/html/a01029.png |only microsimulation-1.4.1/microsimulation/inst/doc/html/a01031.html |only microsimulation-1.4.1/microsimulation/inst/doc/html/a01032.html | 304 - microsimulation-1.4.1/microsimulation/inst/doc/html/a01033.map |only microsimulation-1.4.1/microsimulation/inst/doc/html/a01033.md5 |only microsimulation-1.4.1/microsimulation/inst/doc/html/a01033.png |only microsimulation-1.4.1/microsimulation/inst/doc/html/a01035.html |only microsimulation-1.4.1/microsimulation/inst/doc/html/a01036.html | 236 - microsimulation-1.4.1/microsimulation/inst/doc/html/a01039.html |only microsimulation-1.4.1/microsimulation/inst/doc/html/a01040.html | 403 -- microsimulation-1.4.1/microsimulation/inst/doc/html/a01043.html |only microsimulation-1.4.1/microsimulation/inst/doc/html/a01047.html |only microsimulation-1.4.1/microsimulation/inst/doc/html/a01048.html | 30 microsimulation-1.4.1/microsimulation/inst/doc/html/a01049.map |only microsimulation-1.4.1/microsimulation/inst/doc/html/a01049.md5 |only microsimulation-1.4.1/microsimulation/inst/doc/html/a01049.png |only microsimulation-1.4.1/microsimulation/inst/doc/html/a01051.html |only microsimulation-1.4.1/microsimulation/inst/doc/html/a01052.html | 402 -- microsimulation-1.4.1/microsimulation/inst/doc/html/a01053.map |only microsimulation-1.4.1/microsimulation/inst/doc/html/a01053.md5 |only microsimulation-1.4.1/microsimulation/inst/doc/html/a01053.png |only microsimulation-1.4.1/microsimulation/inst/doc/html/a01055.html |only microsimulation-1.4.1/microsimulation/inst/doc/html/a01056.html | 384 -- microsimulation-1.4.1/microsimulation/inst/doc/html/a01057.map |only microsimulation-1.4.1/microsimulation/inst/doc/html/a01057.md5 |only microsimulation-1.4.1/microsimulation/inst/doc/html/a01057.png |only microsimulation-1.4.1/microsimulation/inst/doc/html/a01059.html |only microsimulation-1.4.1/microsimulation/inst/doc/html/a01060.html | 366 -- microsimulation-1.4.1/microsimulation/inst/doc/html/a01061.map |only microsimulation-1.4.1/microsimulation/inst/doc/html/a01061.md5 |only microsimulation-1.4.1/microsimulation/inst/doc/html/a01061.png |only microsimulation-1.4.1/microsimulation/inst/doc/html/a01063.html |only microsimulation-1.4.1/microsimulation/inst/doc/html/a01064.html | 346 - microsimulation-1.4.1/microsimulation/inst/doc/html/a01065.map |only microsimulation-1.4.1/microsimulation/inst/doc/html/a01065.md5 |only microsimulation-1.4.1/microsimulation/inst/doc/html/a01065.png |only microsimulation-1.4.1/microsimulation/inst/doc/html/a01067.html |only microsimulation-1.4.1/microsimulation/inst/doc/html/a01068.html | 307 - microsimulation-1.4.1/microsimulation/inst/doc/html/a01069.map |only microsimulation-1.4.1/microsimulation/inst/doc/html/a01069.md5 |only microsimulation-1.4.1/microsimulation/inst/doc/html/a01069.png |only microsimulation-1.4.1/microsimulation/inst/doc/html/a01070.map | 6 microsimulation-1.4.1/microsimulation/inst/doc/html/a01070.md5 | 2 microsimulation-1.4.1/microsimulation/inst/doc/html/a01070.png |binary microsimulation-1.4.1/microsimulation/inst/doc/html/a01071.html |only microsimulation-1.4.1/microsimulation/inst/doc/html/a01072.html | 768 ---- microsimulation-1.4.1/microsimulation/inst/doc/html/a01074.map |only microsimulation-1.4.1/microsimulation/inst/doc/html/a01074.md5 |only microsimulation-1.4.1/microsimulation/inst/doc/html/a01074.png |only microsimulation-1.4.1/microsimulation/inst/doc/html/a01075.html |only microsimulation-1.4.1/microsimulation/inst/doc/html/a01076.html | 237 - microsimulation-1.4.1/microsimulation/inst/doc/html/a01078.map |only microsimulation-1.4.1/microsimulation/inst/doc/html/a01078.md5 |only microsimulation-1.4.1/microsimulation/inst/doc/html/a01078.png |only microsimulation-1.4.1/microsimulation/inst/doc/html/a01079.html |only microsimulation-1.4.1/microsimulation/inst/doc/html/a01080.html | 220 - microsimulation-1.4.1/microsimulation/inst/doc/html/a01081.map |only microsimulation-1.4.1/microsimulation/inst/doc/html/a01081.md5 |only microsimulation-1.4.1/microsimulation/inst/doc/html/a01081.png |only microsimulation-1.4.1/microsimulation/inst/doc/html/a01082.map | 6 microsimulation-1.4.1/microsimulation/inst/doc/html/a01082.md5 | 2 microsimulation-1.4.1/microsimulation/inst/doc/html/a01082.png |binary microsimulation-1.4.1/microsimulation/inst/doc/html/a01083.html |only microsimulation-1.4.1/microsimulation/inst/doc/html/a01084.html | 190 - microsimulation-1.4.1/microsimulation/inst/doc/html/a01087.html |only microsimulation-1.4.1/microsimulation/inst/doc/html/a01088.html | 235 - microsimulation-1.4.1/microsimulation/inst/doc/html/a01091.html |only microsimulation-1.4.1/microsimulation/inst/doc/html/a02921.html |only microsimulation-1.4.1/microsimulation/inst/doc/html/a02921_source.html |only microsimulation-1.4.1/microsimulation/inst/doc/html/a02922.map |only microsimulation-1.4.1/microsimulation/inst/doc/html/a02922.md5 |only microsimulation-1.4.1/microsimulation/inst/doc/html/a02922.png |only microsimulation-1.4.1/microsimulation/inst/doc/html/a02923.map |only microsimulation-1.4.1/microsimulation/inst/doc/html/a02923.md5 |only microsimulation-1.4.1/microsimulation/inst/doc/html/a02923.png |only microsimulation-1.4.1/microsimulation/inst/doc/html/a02924.html |only microsimulation-1.4.1/microsimulation/inst/doc/html/a02924_source.html |only microsimulation-1.4.1/microsimulation/inst/doc/html/a02925.map |only microsimulation-1.4.1/microsimulation/inst/doc/html/a02925.md5 |only microsimulation-1.4.1/microsimulation/inst/doc/html/a02925.png |only microsimulation-1.4.1/microsimulation/inst/doc/html/a02927.html |only microsimulation-1.4.1/microsimulation/inst/doc/html/a02927_source.html |only microsimulation-1.4.1/microsimulation/inst/doc/html/a02928.map |only microsimulation-1.4.1/microsimulation/inst/doc/html/a02928.md5 |only microsimulation-1.4.1/microsimulation/inst/doc/html/a02928.png |only microsimulation-1.4.1/microsimulation/inst/doc/html/a02930.html |only microsimulation-1.4.1/microsimulation/inst/doc/html/a02930_source.html |only microsimulation-1.4.1/microsimulation/inst/doc/html/a02931.map |only microsimulation-1.4.1/microsimulation/inst/doc/html/a02931.md5 |only microsimulation-1.4.1/microsimulation/inst/doc/html/a02931.png |only microsimulation-1.4.1/microsimulation/inst/doc/html/annotated.html | 87 microsimulation-1.4.1/microsimulation/inst/doc/html/classes.html | 76 microsimulation-1.4.1/microsimulation/inst/doc/html/dir_000001_000002.html | 4 microsimulation-1.4.1/microsimulation/inst/doc/html/dir_000003_000000.html | 4 microsimulation-1.4.1/microsimulation/inst/doc/html/dir_05f47c3b30cbd06df5261c168690a0c6.html | 4 microsimulation-1.4.1/microsimulation/inst/doc/html/dir_05f47c3b30cbd06df5261c168690a0c6_dep.map | 2 microsimulation-1.4.1/microsimulation/inst/doc/html/dir_05f47c3b30cbd06df5261c168690a0c6_dep.png |binary microsimulation-1.4.1/microsimulation/inst/doc/html/dir_2b5d1a398a9eec011391d543f21db223.html | 16 microsimulation-1.4.1/microsimulation/inst/doc/html/dir_2b5d1a398a9eec011391d543f21db223_dep.map | 2 microsimulation-1.4.1/microsimulation/inst/doc/html/dir_2b5d1a398a9eec011391d543f21db223_dep.md5 | 2 microsimulation-1.4.1/microsimulation/inst/doc/html/dir_2b5d1a398a9eec011391d543f21db223_dep.png |binary microsimulation-1.4.1/microsimulation/inst/doc/html/dir_920884c6b3b2f0be94e27d51660adee5.html | 2 microsimulation-1.4.1/microsimulation/inst/doc/html/dir_920884c6b3b2f0be94e27d51660adee5_dep.png |binary microsimulation-1.4.1/microsimulation/inst/doc/html/dir_c285c780dcbd4eb7e0884eb1095d0107.html | 15 microsimulation-1.4.1/microsimulation/inst/doc/html/files.html | 21 microsimulation-1.4.1/microsimulation/inst/doc/html/functions.html | 54 microsimulation-1.4.1/microsimulation/inst/doc/html/functions_.html | 14 microsimulation-1.4.1/microsimulation/inst/doc/html/functions_a.html | 80 microsimulation-1.4.1/microsimulation/inst/doc/html/functions_b.html | 8 microsimulation-1.4.1/microsimulation/inst/doc/html/functions_c.html | 58 microsimulation-1.4.1/microsimulation/inst/doc/html/functions_d.html | 32 microsimulation-1.4.1/microsimulation/inst/doc/html/functions_e.html | 22 microsimulation-1.4.1/microsimulation/inst/doc/html/functions_f.html | 6 microsimulation-1.4.1/microsimulation/inst/doc/html/functions_func.html | 48 microsimulation-1.4.1/microsimulation/inst/doc/html/functions_func_.html | 14 microsimulation-1.4.1/microsimulation/inst/doc/html/functions_func_b.html | 6 microsimulation-1.4.1/microsimulation/inst/doc/html/functions_func_c.html | 42 microsimulation-1.4.1/microsimulation/inst/doc/html/functions_func_d.html | 14 microsimulation-1.4.1/microsimulation/inst/doc/html/functions_func_e.html | 14 microsimulation-1.4.1/microsimulation/inst/doc/html/functions_func_f.html | 4 microsimulation-1.4.1/microsimulation/inst/doc/html/functions_func_g.html | 16 microsimulation-1.4.1/microsimulation/inst/doc/html/functions_func_h.html | 12 microsimulation-1.4.1/microsimulation/inst/doc/html/functions_func_i.html | 38 microsimulation-1.4.1/microsimulation/inst/doc/html/functions_func_l.html | 6 microsimulation-1.4.1/microsimulation/inst/doc/html/functions_func_m.html | 10 microsimulation-1.4.1/microsimulation/inst/doc/html/functions_func_n.html | 8 microsimulation-1.4.1/microsimulation/inst/doc/html/functions_func_o.html | 30 microsimulation-1.4.1/microsimulation/inst/doc/html/functions_func_p.html | 39 microsimulation-1.4.1/microsimulation/inst/doc/html/functions_func_r.html | 38 microsimulation-1.4.1/microsimulation/inst/doc/html/functions_func_s.html | 77 microsimulation-1.4.1/microsimulation/inst/doc/html/functions_func_t.html | 14 microsimulation-1.4.1/microsimulation/inst/doc/html/functions_func_u.html | 6 microsimulation-1.4.1/microsimulation/inst/doc/html/functions_func_v.html | 4 microsimulation-1.4.1/microsimulation/inst/doc/html/functions_func_w.html | 18 microsimulation-1.4.1/microsimulation/inst/doc/html/functions_g.html | 18 microsimulation-1.4.1/microsimulation/inst/doc/html/functions_h.html | 16 microsimulation-1.4.1/microsimulation/inst/doc/html/functions_i.html | 70 microsimulation-1.4.1/microsimulation/inst/doc/html/functions_k.html | 12 microsimulation-1.4.1/microsimulation/inst/doc/html/functions_l.html | 6 microsimulation-1.4.1/microsimulation/inst/doc/html/functions_m.html | 24 microsimulation-1.4.1/microsimulation/inst/doc/html/functions_n.html | 28 microsimulation-1.4.1/microsimulation/inst/doc/html/functions_o.html | 40 microsimulation-1.4.1/microsimulation/inst/doc/html/functions_p.html | 74 microsimulation-1.4.1/microsimulation/inst/doc/html/functions_r.html | 44 microsimulation-1.4.1/microsimulation/inst/doc/html/functions_rela.html | 14 microsimulation-1.4.1/microsimulation/inst/doc/html/functions_s.html | 106 microsimulation-1.4.1/microsimulation/inst/doc/html/functions_t.html | 28 microsimulation-1.4.1/microsimulation/inst/doc/html/functions_type.html | 88 microsimulation-1.4.1/microsimulation/inst/doc/html/functions_u.html | 16 microsimulation-1.4.1/microsimulation/inst/doc/html/functions_v.html | 4 microsimulation-1.4.1/microsimulation/inst/doc/html/functions_vars.html | 226 - microsimulation-1.4.1/microsimulation/inst/doc/html/functions_w.html | 18 microsimulation-1.4.1/microsimulation/inst/doc/html/functions_x.html | 6 microsimulation-1.4.1/microsimulation/inst/doc/html/functions_y.html | 6 microsimulation-1.4.1/microsimulation/inst/doc/html/functions_z.html | 4 microsimulation-1.4.1/microsimulation/inst/doc/html/globals.html | 22 microsimulation-1.4.1/microsimulation/inst/doc/html/globals_defs.html | 10 microsimulation-1.4.1/microsimulation/inst/doc/html/globals_enum.html | 2 microsimulation-1.4.1/microsimulation/inst/doc/html/globals_eval.html | 2 microsimulation-1.4.1/microsimulation/inst/doc/html/globals_func.html | 4 microsimulation-1.4.1/microsimulation/inst/doc/html/globals_vars.html | 14 microsimulation-1.4.1/microsimulation/inst/doc/html/graph_legend.html | 2 microsimulation-1.4.1/microsimulation/inst/doc/html/graph_legend.png |binary microsimulation-1.4.1/microsimulation/inst/doc/html/hierarchy.html | 80 microsimulation-1.4.1/microsimulation/inst/doc/html/index.html | 16 microsimulation-1.4.1/microsimulation/inst/doc/html/inherit_graph_0.map | 2 microsimulation-1.4.1/microsimulation/inst/doc/html/inherit_graph_0.md5 | 2 microsimulation-1.4.1/microsimulation/inst/doc/html/inherit_graph_0.png |binary microsimulation-1.4.1/microsimulation/inst/doc/html/inherit_graph_1.map | 2 microsimulation-1.4.1/microsimulation/inst/doc/html/inherit_graph_1.md5 | 2 microsimulation-1.4.1/microsimulation/inst/doc/html/inherit_graph_1.png |binary microsimulation-1.4.1/microsimulation/inst/doc/html/inherit_graph_10.map | 2 microsimulation-1.4.1/microsimulation/inst/doc/html/inherit_graph_10.md5 | 2 microsimulation-1.4.1/microsimulation/inst/doc/html/inherit_graph_10.png |binary microsimulation-1.4.1/microsimulation/inst/doc/html/inherit_graph_11.map | 2 microsimulation-1.4.1/microsimulation/inst/doc/html/inherit_graph_11.md5 | 2 microsimulation-1.4.1/microsimulation/inst/doc/html/inherit_graph_11.png |binary microsimulation-1.4.1/microsimulation/inst/doc/html/inherit_graph_12.map | 2 microsimulation-1.4.1/microsimulation/inst/doc/html/inherit_graph_12.md5 | 2 microsimulation-1.4.1/microsimulation/inst/doc/html/inherit_graph_12.png |binary microsimulation-1.4.1/microsimulation/inst/doc/html/inherit_graph_13.map | 2 microsimulation-1.4.1/microsimulation/inst/doc/html/inherit_graph_13.md5 | 2 microsimulation-1.4.1/microsimulation/inst/doc/html/inherit_graph_13.png |binary microsimulation-1.4.1/microsimulation/inst/doc/html/inherit_graph_14.map | 2 microsimulation-1.4.1/microsimulation/inst/doc/html/inherit_graph_14.md5 | 2 microsimulation-1.4.1/microsimulation/inst/doc/html/inherit_graph_14.png |binary microsimulation-1.4.1/microsimulation/inst/doc/html/inherit_graph_15.map | 5 microsimulation-1.4.1/microsimulation/inst/doc/html/inherit_graph_15.md5 | 2 microsimulation-1.4.1/microsimulation/inst/doc/html/inherit_graph_15.png |binary microsimulation-1.4.1/microsimulation/inst/doc/html/inherit_graph_16.map | 4 microsimulation-1.4.1/microsimulation/inst/doc/html/inherit_graph_16.md5 | 2 microsimulation-1.4.1/microsimulation/inst/doc/html/inherit_graph_16.png |binary microsimulation-1.4.1/microsimulation/inst/doc/html/inherit_graph_17.map | 5 microsimulation-1.4.1/microsimulation/inst/doc/html/inherit_graph_17.md5 | 2 microsimulation-1.4.1/microsimulation/inst/doc/html/inherit_graph_17.png |binary microsimulation-1.4.1/microsimulation/inst/doc/html/inherit_graph_18.map | 4 microsimulation-1.4.1/microsimulation/inst/doc/html/inherit_graph_18.md5 | 2 microsimulation-1.4.1/microsimulation/inst/doc/html/inherit_graph_18.png |binary microsimulation-1.4.1/microsimulation/inst/doc/html/inherit_graph_19.map | 2 microsimulation-1.4.1/microsimulation/inst/doc/html/inherit_graph_19.md5 | 2 microsimulation-1.4.1/microsimulation/inst/doc/html/inherit_graph_19.png |binary microsimulation-1.4.1/microsimulation/inst/doc/html/inherit_graph_2.map | 2 microsimulation-1.4.1/microsimulation/inst/doc/html/inherit_graph_2.md5 | 2 microsimulation-1.4.1/microsimulation/inst/doc/html/inherit_graph_2.png |binary microsimulation-1.4.1/microsimulation/inst/doc/html/inherit_graph_20.map | 2 microsimulation-1.4.1/microsimulation/inst/doc/html/inherit_graph_20.md5 | 2 microsimulation-1.4.1/microsimulation/inst/doc/html/inherit_graph_20.png |binary microsimulation-1.4.1/microsimulation/inst/doc/html/inherit_graph_21.map | 2 microsimulation-1.4.1/microsimulation/inst/doc/html/inherit_graph_21.md5 | 2 microsimulation-1.4.1/microsimulation/inst/doc/html/inherit_graph_21.png |binary microsimulation-1.4.1/microsimulation/inst/doc/html/inherit_graph_22.map | 2 microsimulation-1.4.1/microsimulation/inst/doc/html/inherit_graph_22.md5 | 2 microsimulation-1.4.1/microsimulation/inst/doc/html/inherit_graph_22.png |binary microsimulation-1.4.1/microsimulation/inst/doc/html/inherit_graph_23.map | 2 microsimulation-1.4.1/microsimulation/inst/doc/html/inherit_graph_23.md5 | 2 microsimulation-1.4.1/microsimulation/inst/doc/html/inherit_graph_23.png |binary microsimulation-1.4.1/microsimulation/inst/doc/html/inherit_graph_24.map | 2 microsimulation-1.4.1/microsimulation/inst/doc/html/inherit_graph_24.md5 | 2 microsimulation-1.4.1/microsimulation/inst/doc/html/inherit_graph_24.png |binary microsimulation-1.4.1/microsimulation/inst/doc/html/inherit_graph_25.map | 2 microsimulation-1.4.1/microsimulation/inst/doc/html/inherit_graph_25.md5 | 2 microsimulation-1.4.1/microsimulation/inst/doc/html/inherit_graph_25.png |binary microsimulation-1.4.1/microsimulation/inst/doc/html/inherit_graph_26.map | 2 microsimulation-1.4.1/microsimulation/inst/doc/html/inherit_graph_26.md5 | 2 microsimulation-1.4.1/microsimulation/inst/doc/html/inherit_graph_26.png |binary microsimulation-1.4.1/microsimulation/inst/doc/html/inherit_graph_27.map | 2 microsimulation-1.4.1/microsimulation/inst/doc/html/inherit_graph_27.md5 | 2 microsimulation-1.4.1/microsimulation/inst/doc/html/inherit_graph_27.png |binary microsimulation-1.4.1/microsimulation/inst/doc/html/inherit_graph_28.map | 2 microsimulation-1.4.1/microsimulation/inst/doc/html/inherit_graph_28.md5 | 2 microsimulation-1.4.1/microsimulation/inst/doc/html/inherit_graph_28.png |binary microsimulation-1.4.1/microsimulation/inst/doc/html/inherit_graph_29.map | 2 microsimulation-1.4.1/microsimulation/inst/doc/html/inherit_graph_29.md5 | 2 microsimulation-1.4.1/microsimulation/inst/doc/html/inherit_graph_29.png |binary microsimulation-1.4.1/microsimulation/inst/doc/html/inherit_graph_3.map | 2 microsimulation-1.4.1/microsimulation/inst/doc/html/inherit_graph_3.md5 | 2 microsimulation-1.4.1/microsimulation/inst/doc/html/inherit_graph_3.png |binary microsimulation-1.4.1/microsimulation/inst/doc/html/inherit_graph_4.map | 3 microsimulation-1.4.1/microsimulation/inst/doc/html/inherit_graph_4.md5 | 2 microsimulation-1.4.1/microsimulation/inst/doc/html/inherit_graph_4.png |binary microsimulation-1.4.1/microsimulation/inst/doc/html/inherit_graph_5.map | 2 microsimulation-1.4.1/microsimulation/inst/doc/html/inherit_graph_5.md5 | 2 microsimulation-1.4.1/microsimulation/inst/doc/html/inherit_graph_5.png |binary microsimulation-1.4.1/microsimulation/inst/doc/html/inherit_graph_6.map | 3 microsimulation-1.4.1/microsimulation/inst/doc/html/inherit_graph_6.md5 | 2 microsimulation-1.4.1/microsimulation/inst/doc/html/inherit_graph_6.png |binary microsimulation-1.4.1/microsimulation/inst/doc/html/inherit_graph_7.map | 3 microsimulation-1.4.1/microsimulation/inst/doc/html/inherit_graph_7.md5 | 2 microsimulation-1.4.1/microsimulation/inst/doc/html/inherit_graph_7.png |binary microsimulation-1.4.1/microsimulation/inst/doc/html/inherit_graph_8.map | 2 microsimulation-1.4.1/microsimulation/inst/doc/html/inherit_graph_8.md5 | 2 microsimulation-1.4.1/microsimulation/inst/doc/html/inherit_graph_8.png |binary microsimulation-1.4.1/microsimulation/inst/doc/html/inherit_graph_9.map | 3 microsimulation-1.4.1/microsimulation/inst/doc/html/inherit_graph_9.md5 | 2 microsimulation-1.4.1/microsimulation/inst/doc/html/inherit_graph_9.png |binary microsimulation-1.4.1/microsimulation/inst/doc/html/inherits.html | 138 microsimulation-1.4.1/microsimulation/inst/doc/html/menudata.js | 6 microsimulation-1.4.1/microsimulation/inst/doc/html/namespacemembers.html | 163 microsimulation-1.4.1/microsimulation/inst/doc/html/namespacemembers_enum.html | 8 microsimulation-1.4.1/microsimulation/inst/doc/html/namespacemembers_eval.html | 20 microsimulation-1.4.1/microsimulation/inst/doc/html/namespacemembers_func.html | 86 microsimulation-1.4.1/microsimulation/inst/doc/html/namespacemembers_type.html | 16 microsimulation-1.4.1/microsimulation/inst/doc/html/namespacemembers_vars.html | 37 microsimulation-1.4.1/microsimulation/inst/doc/html/namespaces.html | 18 microsimulation-1.4.1/microsimulation/inst/doc/html/search/all_0.js | 39 microsimulation-1.4.1/microsimulation/inst/doc/html/search/all_1.js | 59 microsimulation-1.4.1/microsimulation/inst/doc/html/search/all_10.js | 83 microsimulation-1.4.1/microsimulation/inst/doc/html/search/all_11.js | 120 microsimulation-1.4.1/microsimulation/inst/doc/html/search/all_12.js | 46 microsimulation-1.4.1/microsimulation/inst/doc/html/search/all_13.js | 16 microsimulation-1.4.1/microsimulation/inst/doc/html/search/all_14.js | 10 microsimulation-1.4.1/microsimulation/inst/doc/html/search/all_15.js | 14 microsimulation-1.4.1/microsimulation/inst/doc/html/search/all_16.js | 2 microsimulation-1.4.1/microsimulation/inst/doc/html/search/all_17.js | 2 microsimulation-1.4.1/microsimulation/inst/doc/html/search/all_18.js | 4 microsimulation-1.4.1/microsimulation/inst/doc/html/search/all_19.js | 12 microsimulation-1.4.1/microsimulation/inst/doc/html/search/all_2.js | 18 microsimulation-1.4.1/microsimulation/inst/doc/html/search/all_3.js | 89 microsimulation-1.4.1/microsimulation/inst/doc/html/search/all_4.js | 27 microsimulation-1.4.1/microsimulation/inst/doc/html/search/all_5.js | 20 microsimulation-1.4.1/microsimulation/inst/doc/html/search/all_6.js | 6 microsimulation-1.4.1/microsimulation/inst/doc/html/search/all_7.js | 16 microsimulation-1.4.1/microsimulation/inst/doc/html/search/all_8.js | 27 microsimulation-1.4.1/microsimulation/inst/doc/html/search/all_9.js | 44 microsimulation-1.4.1/microsimulation/inst/doc/html/search/all_a.js | 6 microsimulation-1.4.1/microsimulation/inst/doc/html/search/all_b.js | 18 microsimulation-1.4.1/microsimulation/inst/doc/html/search/all_c.js | 42 microsimulation-1.4.1/microsimulation/inst/doc/html/search/all_d.js | 28 microsimulation-1.4.1/microsimulation/inst/doc/html/search/all_e.js | 22 microsimulation-1.4.1/microsimulation/inst/doc/html/search/all_f.js | 83 microsimulation-1.4.1/microsimulation/inst/doc/html/search/classes_0.js | 2 microsimulation-1.4.1/microsimulation/inst/doc/html/search/classes_1.js | 6 microsimulation-1.4.1/microsimulation/inst/doc/html/search/classes_2.js | 2 microsimulation-1.4.1/microsimulation/inst/doc/html/search/classes_3.js | 4 microsimulation-1.4.1/microsimulation/inst/doc/html/search/classes_4.js | 6 microsimulation-1.4.1/microsimulation/inst/doc/html/search/classes_5.js | 2 microsimulation-1.4.1/microsimulation/inst/doc/html/search/classes_6.js | 2 microsimulation-1.4.1/microsimulation/inst/doc/html/search/classes_7.js | 4 microsimulation-1.4.1/microsimulation/inst/doc/html/search/classes_8.js | 14 microsimulation-1.4.1/microsimulation/inst/doc/html/search/classes_9.js | 6 microsimulation-1.4.1/microsimulation/inst/doc/html/search/classes_a.js | 12 microsimulation-1.4.1/microsimulation/inst/doc/html/search/classes_b.js | 10 microsimulation-1.4.1/microsimulation/inst/doc/html/search/defines_0.js | 2 microsimulation-1.4.1/microsimulation/inst/doc/html/search/enums_0.js | 2 microsimulation-1.4.1/microsimulation/inst/doc/html/search/enums_1.js | 2 microsimulation-1.4.1/microsimulation/inst/doc/html/search/enums_3.js | 2 microsimulation-1.4.1/microsimulation/inst/doc/html/search/enumvalues_0.js | 8 microsimulation-1.4.1/microsimulation/inst/doc/html/search/enumvalues_1.js | 2 microsimulation-1.4.1/microsimulation/inst/doc/html/search/enumvalues_4.js | 2 microsimulation-1.4.1/microsimulation/inst/doc/html/search/enumvalues_8.js | 6 microsimulation-1.4.1/microsimulation/inst/doc/html/search/files_0.js | 4 microsimulation-1.4.1/microsimulation/inst/doc/html/search/files_1.js | 2 microsimulation-1.4.1/microsimulation/inst/doc/html/search/files_2.js | 2 microsimulation-1.4.1/microsimulation/inst/doc/html/search/files_3.js | 4 microsimulation-1.4.1/microsimulation/inst/doc/html/search/files_4.js | 6 microsimulation-1.4.1/microsimulation/inst/doc/html/search/files_5.js | 6 microsimulation-1.4.1/microsimulation/inst/doc/html/search/files_6.js | 10 microsimulation-1.4.1/microsimulation/inst/doc/html/search/files_7.js | 8 microsimulation-1.4.1/microsimulation/inst/doc/html/search/functions_0.js | 31 microsimulation-1.4.1/microsimulation/inst/doc/html/search/functions_1.js | 6 microsimulation-1.4.1/microsimulation/inst/doc/html/search/functions_10.js | 10 microsimulation-1.4.1/microsimulation/inst/doc/html/search/functions_11.js | 6 microsimulation-1.4.1/microsimulation/inst/doc/html/search/functions_12.js | 2 microsimulation-1.4.1/microsimulation/inst/doc/html/search/functions_13.js | 8 microsimulation-1.4.1/microsimulation/inst/doc/html/search/functions_14.js | 12 microsimulation-1.4.1/microsimulation/inst/doc/html/search/functions_2.js | 37 microsimulation-1.4.1/microsimulation/inst/doc/html/search/functions_3.js | 15 microsimulation-1.4.1/microsimulation/inst/doc/html/search/functions_4.js | 10 microsimulation-1.4.1/microsimulation/inst/doc/html/search/functions_5.js | 2 microsimulation-1.4.1/microsimulation/inst/doc/html/search/functions_6.js | 14 microsimulation-1.4.1/microsimulation/inst/doc/html/search/functions_7.js | 7 microsimulation-1.4.1/microsimulation/inst/doc/html/search/functions_8.js | 18 microsimulation-1.4.1/microsimulation/inst/doc/html/search/functions_9.js | 4 microsimulation-1.4.1/microsimulation/inst/doc/html/search/functions_a.js | 10 microsimulation-1.4.1/microsimulation/inst/doc/html/search/functions_b.js | 8 microsimulation-1.4.1/microsimulation/inst/doc/html/search/functions_c.js | 10 microsimulation-1.4.1/microsimulation/inst/doc/html/search/functions_d.js | 49 microsimulation-1.4.1/microsimulation/inst/doc/html/search/functions_e.js | 59 microsimulation-1.4.1/microsimulation/inst/doc/html/search/functions_f.js | 67 microsimulation-1.4.1/microsimulation/inst/doc/html/search/namespaces_0.js | 6 microsimulation-1.4.1/microsimulation/inst/doc/html/search/namespaces_1.js | 2 microsimulation-1.4.1/microsimulation/inst/doc/html/search/namespaces_2.js | 4 microsimulation-1.4.1/microsimulation/inst/doc/html/search/namespaces_3.js | 2 microsimulation-1.4.1/microsimulation/inst/doc/html/search/pages_0.js | 2 microsimulation-1.4.1/microsimulation/inst/doc/html/search/related_0.js | 8 microsimulation-1.4.1/microsimulation/inst/doc/html/search/related_1.js | 4 microsimulation-1.4.1/microsimulation/inst/doc/html/search/searchdata.js | 4 microsimulation-1.4.1/microsimulation/inst/doc/html/search/typedefs_0.js | 4 microsimulation-1.4.1/microsimulation/inst/doc/html/search/typedefs_1.js | 4 microsimulation-1.4.1/microsimulation/inst/doc/html/search/typedefs_2.js | 6 microsimulation-1.4.1/microsimulation/inst/doc/html/search/typedefs_3.js | 2 microsimulation-1.4.1/microsimulation/inst/doc/html/search/typedefs_4.js | 6 microsimulation-1.4.1/microsimulation/inst/doc/html/search/typedefs_5.js | 2 microsimulation-1.4.1/microsimulation/inst/doc/html/search/typedefs_6.js | 4 microsimulation-1.4.1/microsimulation/inst/doc/html/search/typedefs_7.js | 12 microsimulation-1.4.1/microsimulation/inst/doc/html/search/typedefs_8.js | 2 microsimulation-1.4.1/microsimulation/inst/doc/html/search/typedefs_9.js | 4 microsimulation-1.4.1/microsimulation/inst/doc/html/search/typedefs_a.js | 6 microsimulation-1.4.1/microsimulation/inst/doc/html/search/typedefs_b.js | 2 microsimulation-1.4.1/microsimulation/inst/doc/html/search/variables_0.js | 38 microsimulation-1.4.1/microsimulation/inst/doc/html/search/variables_1.js | 16 microsimulation-1.4.1/microsimulation/inst/doc/html/search/variables_10.js | 10 microsimulation-1.4.1/microsimulation/inst/doc/html/search/variables_11.js | 21 microsimulation-1.4.1/microsimulation/inst/doc/html/search/variables_12.js | 10 microsimulation-1.4.1/microsimulation/inst/doc/html/search/variables_13.js | 6 microsimulation-1.4.1/microsimulation/inst/doc/html/search/variables_14.js | 2 microsimulation-1.4.1/microsimulation/inst/doc/html/search/variables_16.js | 2 microsimulation-1.4.1/microsimulation/inst/doc/html/search/variables_17.js | 2 microsimulation-1.4.1/microsimulation/inst/doc/html/search/variables_18.js | 4 microsimulation-1.4.1/microsimulation/inst/doc/html/search/variables_2.js | 6 microsimulation-1.4.1/microsimulation/inst/doc/html/search/variables_3.js | 42 microsimulation-1.4.1/microsimulation/inst/doc/html/search/variables_4.js | 16 microsimulation-1.4.1/microsimulation/inst/doc/html/search/variables_5.js | 4 microsimulation-1.4.1/microsimulation/inst/doc/html/search/variables_6.js | 6 microsimulation-1.4.1/microsimulation/inst/doc/html/search/variables_7.js | 2 microsimulation-1.4.1/microsimulation/inst/doc/html/search/variables_8.js | 10 microsimulation-1.4.1/microsimulation/inst/doc/html/search/variables_9.js | 14 microsimulation-1.4.1/microsimulation/inst/doc/html/search/variables_a.js | 4 microsimulation-1.4.1/microsimulation/inst/doc/html/search/variables_b.js | 10 microsimulation-1.4.1/microsimulation/inst/doc/html/search/variables_c.js | 18 microsimulation-1.4.1/microsimulation/inst/doc/html/search/variables_d.js | 18 microsimulation-1.4.1/microsimulation/inst/doc/html/search/variables_e.js | 4 microsimulation-1.4.1/microsimulation/inst/doc/html/search/variables_f.js | 24 microsimulation-1.4.1/microsimulation/inst/doc/illness_death.png |only microsimulation-1.4.1/microsimulation/inst/doc/index.html | 8 microsimulation-1.4.1/microsimulation/inst/doc/rates.png |only microsimulation-1.4.1/microsimulation/inst/doc/reporting.png |only microsimulation-1.4.1/microsimulation/inst/doc/tick_tock.png |only microsimulation-1.4.1/microsimulation/inst/include/c_optim.h |only microsimulation-1.4.1/microsimulation/inst/include/gsm.h |only microsimulation-1.4.1/microsimulation/inst/include/microsimulation.h | 616 ++- microsimulation-1.4.1/microsimulation/inst/include/rcpp_table.h | 21 microsimulation-1.4.1/microsimulation/inst/include/siena/ssim.h | 46 microsimulation-1.4.1/microsimulation/inst/include/splines.h |only microsimulation-1.4.1/microsimulation/inst/include/ssim.cc | 2 microsimulation-1.4.1/microsimulation/man/simulate.Rd |only microsimulation-1.4.1/microsimulation/src/Makevars | 6 microsimulation-1.4.1/microsimulation/src/Makevars.win | 6 microsimulation-1.4.1/microsimulation/src/doc/Doxyfile | 640 ++- microsimulation-1.4.1/microsimulation/src/doc/maindoc.h | 50 microsimulation-1.4.1/microsimulation/src/gsm.cpp |only microsimulation-1.4.1/microsimulation/src/illness-death.cpp | 6 microsimulation-1.4.1/microsimulation/src/init.c | 8 microsimulation-1.4.1/microsimulation/src/microsimulation.cc | 10 microsimulation-1.4.1/microsimulation/src/simple-example.cc | 2 microsimulation-1.4.1/microsimulation/src/simple-example2.cc | 2 microsimulation-1.4.1/microsimulation/src/splines.cpp |only microsimulation-1.4.1/microsimulation/src/ssim.cc | 2 817 files changed, 9011 insertions(+), 19522 deletions(-)
More information about microsimulation at CRAN
Permanent link
Title: A Machine-Learning Based Tool to Automate the Identification of
Biological Database IDs
Description: The number of biological databases is growing rapidly, but different databases use different IDs to refer to the same biological entity. The inconsistency in IDs impedes the integration of various types of biological data. To resolve the problem, we developed 'MantaID', a data-driven, machine-learning based approach that automates identifying IDs on a large scale. The 'MantaID' model's prediction accuracy was proven to be 99%, and it correctly and effectively predicted 100,000 ID entries within two minutes. 'MantaID' supports the discovery and exploitation of ID patterns from large quantities of databases. (e.g., up to 542 biological databases). An easy-to-use freely available open-source software R package, a user-friendly web application, and APIs were also developed for 'MantaID' to improve applicability. To our knowledge, 'MantaID' is the first tool that enables an automatic, quick, accurate, and comprehensive identification of large quantities of IDs, and can therefore be used as [...truncated...]
Author: Zeng Zhengpeng [aut, cre, ctb]
,
Mao Longfei [aut] ,
Yu Feng [aut]
Maintainer: Zeng Zhengpeng <molaison@foxmail.com>
Diff between MantaID versions 1.0.1 dated 2022-10-17 and 1.0.2 dated 2022-10-18
DESCRIPTION | 17 +++++++++-------- MD5 | 2 +- 2 files changed, 10 insertions(+), 9 deletions(-)
Title: Kernel Based Regression Models
Description: Implements several methods for testing the variance component parameter in regression models that contain kernel-based random effects, including a maximum of adjusted scores test. Several kernels are supported, including a profile hidden Markov model mutual information kernel for protein sequence. This package is described in Fong et al. (2015) <DOI:10.1093/biostatistics/kxu056>.
Author: Youyi Fong [cre],
Saheli Datta [aut],
Krisztian Sebestyen [aut],
Steve Park [ctb],
Dave Geyer [ctb]
Maintainer: Youyi Fong <youyifong@gmail.com>
Diff between krm versions 2020.5-20 dated 2020-05-21 and 2022.10-17 dated 2022-10-18
ChangeLog | 3 +++ DESCRIPTION | 6 +++--- MD5 | 10 +++++----- R/krm.most.R | 2 +- inst/unitTests/runit.krm.most.R | 3 ++- src/ProteinSequence.cpp | 2 +- 6 files changed, 15 insertions(+), 11 deletions(-)
Title: In Silico Quantitative Genetics
Description: Accomplish high performance simulations in quantitative genetics.
The molecular genetic components are represented by R6/C++ classes and methods.
The core computational algorithm is implemented using bitsets according to
<doi:10.1534/g3.119.400373>. A mix between low and high level interfaces
provides great flexibility and allows user defined extensions and a wide range of
applications.
Author: Fernando H. Toledo [aut, cre]
International Maize and Wheat Improvement Center [cph]
Maintainer: Fernando H. Toledo <f.toledo@cgiar.org>
Diff between isqg versions 1.3 dated 2020-06-02 and 1.4 dated 2022-10-18
DESCRIPTION | 14 ++++---- MD5 | 34 ++++++++++---------- NAMESPACE | 1 R/Functions.R | 70 ++++++++++++++++++++---------------------- R/ISQG.R | 1 R/Mating.R | 6 +-- R/RcppExports.R | 8 ++++ build/partial.rdb |binary inst/REFERENCES.bib | 4 +- inst/include/isqg/FwdDefs.hpp | 24 ++++++++++++++ inst/include/isqg/Sifter.hpp |only inst/include/isqg/isqg.hpp | 1 man/Founder.Rd | 8 ++-- man/Genotype.Rd | 2 - man/Import.Rd | 4 +- man/set_specie.Rd | 6 +-- src/Genetics.cpp | 8 ++-- src/RcppExports.cpp | 27 ++++++++++++++++ src/Sifter.cpp |only 19 files changed, 139 insertions(+), 79 deletions(-)
Title: False Discovery Exceedance Controlling Multiple Testing
Procedures
Description: Multiple testing procedures for heterogeneous and discrete tests as described in Döhler and Roquain (2019) <arXiv:1912.04607v1>. The main algorithms of the paper are available as continuous, discrete and weighted versions.
Author: Sebastian Doehler [aut],
Florian Junge [aut, cre],
Etienne Roquain [ctb]
Maintainer: Florian Junge <florian.junge@h-da.de>
Diff between FDX versions 1.0.5 dated 2022-10-16 and 1.0.6 dated 2022-10-18
DESCRIPTION | 8 ++++---- MD5 | 8 ++++---- NEWS.md | 5 ++++- R/continuousGR.R | 4 ++-- R/continuousLR.R | 4 ++-- 5 files changed, 16 insertions(+), 13 deletions(-)
Title: Drug Target Set Enrichment Analysis
Description: It is a novel tool used to identify the candidate drugs against a particular disease based on a drug target set enrichment analysis. It assumes the most effective drugs are those with a closer affinity in the protein-protein interaction network to the specified disease. (See Gómez-Carballa et al. (2022) <doi: 10.1016/j.envres.2022.112890> and Feng et al. (2022) <doi: 10.7150/ijms.67815> for disease expression profiles; see Wishart et al. (2018) <doi: 10.1093/nar/gkx1037> and Gaulton et al. (2017) <doi: 10.1093/nar/gkw1074> for drug target information; see Kanehisa et al. (2021) <doi: 10.1093/nar/gkaa970> for the details of KEGG database.)
Author: Junwei Han [aut, cre, cph],
Yinchun Su [aut]
Maintainer: Junwei Han <hanjunwei1981@163.com>
Diff between DTSEA versions 0.0.1 dated 2022-10-12 and 0.0.2 dated 2022-10-18
DESCRIPTION | 10 MD5 | 26 NAMESPACE | 3 R/DTSEA.R | 52 - data/example_disease_list.rda |binary data/example_drug_target_list.rda |binary data/example_ppi.rda |binary inst/doc/DTSEA.R | 26 inst/doc/DTSEA.Rmd | 30 - inst/doc/DTSEA.html | 996 ++++++++++++++++++++++++++------------ man/DTSEA.Rd | 43 - man/example_disease_list.Rd | 2 man/figures/manual.pdf |binary vignettes/DTSEA.Rmd | 30 - 14 files changed, 816 insertions(+), 402 deletions(-)
Title: Testing DBI Backends
Description: A helper that tests DBI back ends for conformity
to the interface.
Author: Kirill Mueller [aut, cre] ,
RStudio [cph],
R Consortium [fnd]
Maintainer: Kirill Mueller <kirill@cynkra.com>
Diff between DBItest versions 1.7.2 dated 2021-12-17 and 1.7.3 dated 2022-10-18
DESCRIPTION | 23 - MD5 | 129 +++---- NAMESPACE | 8 NEWS.md | 25 + R/compat-purrr.R |only R/dbi.R |only R/dummy.R |only R/expectations.R | 5 R/generics.R |only R/import-testthat.R | 3 R/run.R | 1 R/spec-compliance-methods.R | 94 ++--- R/spec-connection-disconnect.R | 8 R/spec-connection-get-info.R | 4 R/spec-connection.R | 4 R/spec-driver-connect.R | 38 +- R/spec-driver-get-info.R | 4 R/spec-driver.R | 4 R/spec-getting-started.R | 5 R/spec-meta-bind-.R | 2 R/spec-meta-bind.R | 54 +-- R/spec-meta-column-info.R | 14 R/spec-meta-get-row-count.R | 12 R/spec-meta-get-rows-affected.R | 8 R/spec-meta-get-statement.R | 6 R/spec-meta-has-completed.R | 10 R/spec-meta-is-valid.R | 12 R/spec-meta.R | 4 R/spec-result-clear-result.R | 14 R/spec-result-create-table-with-data-type.R | 6 R/spec-result-execute.R | 22 - R/spec-result-fetch.R | 58 +-- R/spec-result-get-query.R | 116 +++--- R/spec-result-roundtrip.R | 139 ++++---- R/spec-result-send-query.R | 30 - R/spec-result-send-statement.R | 34 - R/spec-result.R | 8 R/spec-sql-append-table.R | 102 ++--- R/spec-sql-create-table.R | 36 +- R/spec-sql-exists-table.R | 22 - R/spec-sql-list-fields.R | 36 +- R/spec-sql-list-objects.R | 45 +- R/spec-sql-list-tables.R | 14 R/spec-sql-quote-identifier.R | 16 R/spec-sql-quote-literal.R | 10 R/spec-sql-quote-string.R | 8 R/spec-sql-read-table.R | 42 +- R/spec-sql-remove-table.R | 44 +- R/spec-sql-unquote-identifier.R | 24 - R/spec-sql-write-table.R | 120 +++---- R/spec-sql.R | 4 R/spec-stress-connection.R | 4 R/spec-transaction-begin-commit-rollback.R | 22 - R/spec-transaction-with-transaction.R | 32 - R/test-all.R | 2 R/tweaks.R | 3 R/utf8.R | 4 R/utils.R | 4 build/vignette.rds |binary inst/doc/DBItest.html | 480 ++++++++++++++++++++++------ man/spec_sql_list_objects.Rd | 17 man/spec_sql_read_table.Rd | 2 tests/testthat.R | 8 tests/testthat/test-consistency.R | 2 tests/testthat/test-context.R | 2 tests/testthat/test-dbi.R |only tests/testthat/test-lint.R | 2 tests/testthat/test-tweaks.R | 2 68 files changed, 1171 insertions(+), 842 deletions(-)
More information about simuclustfactor at CRAN
Permanent link
Title: 3D Software Rasterizer
Description: Rasterize images using a 3D software renderer. 3D scenes are created either by importing external files, building scenes out of the included objects, or by constructing meshes manually. Supports point and directional lights, anti-aliased lines, shadow mapping, transparent objects, translucent objects, multiple materials types, reflection, refraction, environment maps, multicore rendering, bloom, tone-mapping, and screen-space ambient occlusion.
Author: Tyler Morgan-Wall [aut, cph, cre]
,
Syoyo Fujita [ctb, cph],
Vilya Harvey [ctb, cph],
G-Truc Creation [ctb, cph],
Sean Barrett [ctb, cph]
Maintainer: Tyler Morgan-Wall <tylermw@gmail.com>
Diff between rayvertex versions 0.3.3 dated 2021-10-10 and 0.4.11 dated 2022-10-18
rayvertex-0.3.3/rayvertex/man/pipe.Rd |only rayvertex-0.3.3/rayvertex/man/raysterizer-package.Rd |only rayvertex-0.4.11/rayvertex/DESCRIPTION | 14 rayvertex-0.4.11/rayvertex/MD5 | 123 +- rayvertex-0.4.11/rayvertex/NAMESPACE | 4 rayvertex-0.4.11/rayvertex/R/RcppExports.R | 4 rayvertex-0.4.11/rayvertex/R/add_shape.R | 489 +++++------ rayvertex-0.4.11/rayvertex/R/construct_mesh.R | 19 rayvertex-0.4.11/rayvertex/R/lights.R | 85 - rayvertex-0.4.11/rayvertex/R/lines.R | 167 +-- rayvertex-0.4.11/rayvertex/R/objects.R | 434 ++++----- rayvertex-0.4.11/rayvertex/R/rasterize_lines.R | 33 rayvertex-0.4.11/rayvertex/R/rasterize_scene.R | 94 +- rayvertex-0.4.11/rayvertex/R/readobj.R | 36 rayvertex-0.4.11/rayvertex/R/save_png.R | 6 rayvertex-0.4.11/rayvertex/R/scene_from_list.R |only rayvertex-0.4.11/rayvertex/R/util_functions.R | 53 + rayvertex-0.4.11/rayvertex/R/utils-pipe.R | 14 rayvertex-0.4.11/rayvertex/R/zzz.R |only rayvertex-0.4.11/rayvertex/man/add_light.Rd | 17 rayvertex-0.4.11/rayvertex/man/add_lines.Rd | 24 rayvertex-0.4.11/rayvertex/man/add_shape.Rd | 13 rayvertex-0.4.11/rayvertex/man/arrow_mesh.Rd | 36 rayvertex-0.4.11/rayvertex/man/center_mesh.Rd | 19 rayvertex-0.4.11/rayvertex/man/change_material.Rd | 23 rayvertex-0.4.11/rayvertex/man/color_lines.Rd | 30 rayvertex-0.4.11/rayvertex/man/cone_mesh.Rd | 23 rayvertex-0.4.11/rayvertex/man/construct_mesh.Rd | 9 rayvertex-0.4.11/rayvertex/man/cube_mesh.Rd | 23 rayvertex-0.4.11/rayvertex/man/cylinder_mesh.Rd | 23 rayvertex-0.4.11/rayvertex/man/directional_light.Rd | 17 rayvertex-0.4.11/rayvertex/man/generate_cornell_mesh.Rd | 33 rayvertex-0.4.11/rayvertex/man/generate_line.Rd | 15 rayvertex-0.4.11/rayvertex/man/get_time.Rd |only rayvertex-0.4.11/rayvertex/man/init_time.Rd |only rayvertex-0.4.11/rayvertex/man/material_list.Rd | 12 rayvertex-0.4.11/rayvertex/man/merge_shapes.Rd | 8 rayvertex-0.4.11/rayvertex/man/mesh3d_mesh.Rd | 7 rayvertex-0.4.11/rayvertex/man/obj_mesh.Rd | 11 rayvertex-0.4.11/rayvertex/man/point_light.Rd | 49 - rayvertex-0.4.11/rayvertex/man/preprocess_scene.Rd |only rayvertex-0.4.11/rayvertex/man/print_time.Rd |only rayvertex-0.4.11/rayvertex/man/rasterize_lines.Rd | 33 rayvertex-0.4.11/rayvertex/man/rasterize_scene.Rd | 51 - rayvertex-0.4.11/rayvertex/man/read_obj.Rd | 13 rayvertex-0.4.11/rayvertex/man/remove_duplicate_materials.Rd | 4 rayvertex-0.4.11/rayvertex/man/rotate_lines.Rd | 33 rayvertex-0.4.11/rayvertex/man/rotate_mesh.Rd | 13 rayvertex-0.4.11/rayvertex/man/run_documentation.Rd |only rayvertex-0.4.11/rayvertex/man/scale_lines.Rd | 30 rayvertex-0.4.11/rayvertex/man/scale_mesh.Rd | 13 rayvertex-0.4.11/rayvertex/man/scene_from_list.Rd |only rayvertex-0.4.11/rayvertex/man/segment_mesh.Rd | 55 - rayvertex-0.4.11/rayvertex/man/set_material.Rd | 21 rayvertex-0.4.11/rayvertex/man/sphere_mesh.Rd | 29 rayvertex-0.4.11/rayvertex/man/text3d_mesh.Rd | 38 rayvertex-0.4.11/rayvertex/man/torus_mesh.Rd | 15 rayvertex-0.4.11/rayvertex/man/translate_lines.Rd | 35 rayvertex-0.4.11/rayvertex/man/translate_mesh.Rd | 15 rayvertex-0.4.11/rayvertex/man/xy_rect_mesh.Rd | 16 rayvertex-0.4.11/rayvertex/man/xz_rect_mesh.Rd | 16 rayvertex-0.4.11/rayvertex/man/yz_rect_mesh.Rd | 16 rayvertex-0.4.11/rayvertex/src/RcppExports.cpp | 11 rayvertex-0.4.11/rayvertex/src/earcut.h |only rayvertex-0.4.11/rayvertex/src/load_obj.cpp | 17 rayvertex-0.4.11/rayvertex/src/model.h | 5 rayvertex-0.4.11/rayvertex/src/rayraster.cpp | 36 rayvertex-0.4.11/rayvertex/src/tiny_obj_loader.h | 304 +++++- 68 files changed, 1452 insertions(+), 1334 deletions(-)
Title: Propensity Score Weighting for Causal Inference with
Observational Studies and Randomized Trials
Description: Supports propensity score weighting analysis of observational studies and randomized trials. Enables the estimation and inference of average causal effects with binary and multiple treatments using overlap weights (ATO), inverse probability of treatment weights (ATE), average treatment effect among the treated weights (ATT), matching weights (ATM) and entropy weights (ATEN), with and without propensity score trimming. These weights are members of the family of balancing weights introduced in Li, Morgan and Zaslavsky (2018) <doi:10.1080/01621459.2016.1260466> and Li and Li (2019) <doi:10.1214/19-AOAS1282>.
Author: Tianhui Zhou [aut, cre],
Guangyu Tong [aut],
Fan Li [aut],
Laine Thomas [aut],
Fan Li [aut]
Maintainer: Tianhui Zhou <thuizhou@outlook.com>
Diff between PSweight versions 1.1.7 dated 2022-05-11 and 1.1.8 dated 2022-10-18
DESCRIPTION | 8 ++++---- MD5 | 6 +++--- inst/doc/vignette.pdf |binary vignettes/Software_vig.pdf |binary 4 files changed, 7 insertions(+), 7 deletions(-)