Title: Programmatic Interface to the 'Dropbox' API
Description: Provides full programmatic access to the Dropbox file hosting platform (dropbox.com), including support for all standard file operations.
Author: Karthik Ram [aut, cre] (Clayton Yochum [aut])
Maintainer: Karthik Ram <karthik.ram@gmail.com>
Diff between rdrop2 versions 0.7.0 dated 2015-07-30 and 0.8 dated 2017-09-27
rdrop2-0.7.0/rdrop2/R/drop_delta.R |only rdrop2-0.7.0/rdrop2/R/drop_get.R |only rdrop2-0.7.0/rdrop2/man/drop_delta.Rd |only rdrop2-0.8/rdrop2/DESCRIPTION | 14 - rdrop2-0.8/rdrop2/MD5 | 79 +++-- rdrop2-0.8/rdrop2/NAMESPACE | 8 rdrop2-0.8/rdrop2/R/drop_acc.R | 52 ++- rdrop2-0.8/rdrop2/R/drop_auth.R | 133 ++++++--- rdrop2-0.8/rdrop2/R/drop_dir.R | 307 +++++++++++++++------- rdrop2-0.8/rdrop2/R/drop_download.R |only rdrop2-0.8/rdrop2/R/drop_file_ops.R | 334 +++++++++++++++++------- rdrop2-0.8/rdrop2/R/drop_get_metadata.R |only rdrop2-0.8/rdrop2/R/drop_history.R | 81 ++++- rdrop2-0.8/rdrop2/R/drop_media.R | 24 - rdrop2-0.8/rdrop2/R/drop_read_csv.R | 5 rdrop2-0.8/rdrop2/R/drop_search.R | 68 ++-- rdrop2-0.8/rdrop2/R/drop_shared.R | 94 +++++- rdrop2-0.8/rdrop2/R/drop_upload.R | 111 +++++-- rdrop2-0.8/rdrop2/R/drop_utils.R | 11 rdrop2-0.8/rdrop2/man/drop_acc.Rd | 40 +- rdrop2-0.8/rdrop2/man/drop_auth.Rd | 54 ++- rdrop2-0.8/rdrop2/man/drop_copy.Rd | 29 +- rdrop2-0.8/rdrop2/man/drop_create.Rd | 18 - rdrop2-0.8/rdrop2/man/drop_delete.Rd | 19 - rdrop2-0.8/rdrop2/man/drop_dir.Rd | 79 ++--- rdrop2-0.8/rdrop2/man/drop_download.Rd |only rdrop2-0.8/rdrop2/man/drop_exists.Rd | 23 - rdrop2-0.8/rdrop2/man/drop_get.Rd | 26 - rdrop2-0.8/rdrop2/man/drop_get_metadata.Rd |only rdrop2-0.8/rdrop2/man/drop_history.Rd | 38 +- rdrop2-0.8/rdrop2/man/drop_list_shared_links.Rd |only rdrop2-0.8/rdrop2/man/drop_media.Rd | 25 - rdrop2-0.8/rdrop2/man/drop_move.Rd | 29 +- rdrop2-0.8/rdrop2/man/drop_read_csv.Rd | 13 rdrop2-0.8/rdrop2/man/drop_search.Rd | 37 -- rdrop2-0.8/rdrop2/man/drop_share.Rd | 36 +- rdrop2-0.8/rdrop2/man/drop_upload.Rd | 42 +-- rdrop2-0.8/rdrop2/man/get_dropbox_token.Rd | 5 rdrop2-0.8/rdrop2/man/pipe.Rd | 3 rdrop2-0.8/rdrop2/tests |only 40 files changed, 1171 insertions(+), 666 deletions(-)
Title: Efficient Phylogenetics on Large Trees
Description: Efficient tree manipulation functions including pruning, rerooting, calculation of most-recent common ancestors, calculating distances from the tree root and calculating pairwise distance matrices. Calculation of phylogenetic signal and mean trait depth (trait conservatism). Ancestral state reconstruction and hidden character prediction of discrete characters, using Maximum Likelihood and Maximum Parsimony methods. Simulating and fitting models of trait evolution, and generating random trees using birth-death models.
Author: Stilianos Louca
Maintainer: Stilianos Louca <louca@zoology.ubc.ca>
Diff between castor versions 1.2.1 dated 2017-09-24 and 1.2.2 dated 2017-09-27
castor-1.2.1/castor/man/reconstruct_past_diversification.Rd |only castor-1.2.2/castor/DESCRIPTION | 8 castor-1.2.2/castor/MD5 | 43 castor-1.2.2/castor/NAMESPACE | 3 castor-1.2.2/castor/R/RcppExports.R | 178 castor-1.2.2/castor/R/asr_mk_model.R | 44 castor-1.2.2/castor/R/auxiliary_routines.R | 30 castor-1.2.2/castor/R/hsp_mk_model.R | 28 castor-1.2.2/castor/R/pick_random_tips.R | 4 castor-1.2.2/castor/inst/CITATION | 3 castor-1.2.2/castor/man/asr_max_parsimony.Rd | 2 castor-1.2.2/castor/man/asr_mk_model.Rd | 38 castor-1.2.2/castor/man/collapse_tree_at_resolution.Rd | 2 castor-1.2.2/castor/man/find_nearest_tips.Rd | 2 castor-1.2.2/castor/man/find_root.Rd | 2 castor-1.2.2/castor/man/get_subtree_at_node.Rd | 2 castor-1.2.2/castor/man/get_subtree_with_tips.Rd | 4 castor-1.2.2/castor/man/hsp_mk_model.Rd | 29 castor-1.2.2/castor/man/pick_random_tips.Rd | 10 castor-1.2.2/castor/man/trim_tree_at_height.Rd | 2 castor-1.2.2/castor/man/write_tree.Rd | 2 castor-1.2.2/castor/src/RcppExports.cpp | 529 - castor-1.2.2/castor/src/phylogenetics_cpp_routines.cpp | 5761 ++++++------ 23 files changed, 3406 insertions(+), 3320 deletions(-)
Title: Integrated Taxonomic Information System Client
Description: An interface to the Integrated Taxonomic Information System ('ITIS')
(<https://www.itis.gov>). Includes functions to work with the 'ITIS' REST
API methods (<https://www.itis.gov/ws_description.html>), as well as the
'Solr' web service (<https://www.itis.gov/solr_documentation.html>).
Author: Scott Chamberlain [aut, cre]
Maintainer: Scott Chamberlain <myrmecocystus@gmail.com>
Diff between ritis versions 0.5.4 dated 2016-10-12 and 0.6.0 dated 2017-09-27
DESCRIPTION | 14 +- LICENSE | 2 MD5 | 200 ++++++++++++++++++------------------- NEWS.md | 23 +++- R/accepted_names.R | 11 +- R/any_match_count.R | 2 R/comment_detail.R | 4 R/common_names.R | 2 R/core_metadata.R | 2 R/coverage.R | 2 R/credibility.R | 2 R/currency.R | 2 R/date_data.R | 2 R/description.R | 4 R/experts.R | 2 R/full_record.R | 8 + R/geographic_divisions.R | 2 R/geographic_values.R | 2 R/global_species_completeness.R | 9 + R/hierarchy.R | 17 ++- R/itis_facet.R | 2 R/itis_group.R | 2 R/itis_highlight.R | 2 R/itis_search.R | 2 R/jurisdiction.R | 5 R/kingdoms.R | 2 R/last_change_date.R | 2 R/lsid2tsn.R | 2 R/other_sources.R | 2 R/parent_tsn.R | 2 R/publications.R | 5 R/rank_name.R | 2 R/rank_names.R | 2 R/record.R | 2 R/review_year.R | 2 R/scientific_name.R | 2 R/search_any_match_paged.R | 2 R/search_anymatch.R | 5 R/search_common.R | 25 ++-- R/search_scientific.R | 2 R/synonym_names.R | 2 R/taxon_authorship.R | 2 R/terms.R | 12 +- R/tsn2lsid.R | 2 R/tsn_by_vernacular_language.R | 2 R/unacceptability_reason.R | 2 R/usage.R | 2 R/vernacular_languages.R | 2 R/zzz.R | 29 ++++- build/vignette.rds |binary man/accepted_names.Rd | 3 man/any_match_count.Rd | 3 man/comment_detail.Rd | 5 man/common_names.Rd | 3 man/core_metadata.Rd | 3 man/coverage.Rd | 3 man/credibility.Rd | 7 - man/currency.Rd | 3 man/date_data.Rd | 3 man/description.Rd | 3 man/experts.Rd | 3 man/full_record.Rd | 3 man/geographic_divisions.Rd | 3 man/geographic_values.Rd | 3 man/global_species_completeness.Rd | 3 man/hierarchy.Rd | 20 ++- man/itis_facet.Rd | 1 man/itis_group.Rd | 1 man/itis_highlight.Rd | 1 man/itis_search.Rd | 1 man/jurisdiction.Rd | 17 +-- man/kingdoms.Rd | 9 - man/last_change_date.Rd | 3 man/lsid2tsn.Rd | 3 man/other_sources.Rd | 3 man/parent_tsn.Rd | 3 man/publications.Rd | 6 - man/rank_name.Rd | 3 man/rank_names.Rd | 13 +- man/record.Rd | 7 - man/review_year.Rd | 3 man/ritis-package.Rd | 4 man/scientific_name.Rd | 7 - man/search_any_match_paged.Rd | 3 man/search_anymatch.Rd | 3 man/search_common.Rd | 17 +-- man/search_scientific.Rd | 3 man/solr.Rd | 8 - man/synonym_names.Rd | 3 man/taxon_authorship.Rd | 3 man/terms.Rd | 7 - man/tsn2lsid.Rd | 3 man/tsn_by_vernacular_language.Rd | 3 man/unacceptability_reason.Rd | 3 man/usage.Rd | 3 man/vernacular_languages.Rd | 3 tests/testthat/test-hierarchy.R | 20 +-- tests/testthat/test-itis_facet.R | 5 tests/testthat/test-jurisdiction.R | 6 - tests/testthat/test-kingdoms.R | 6 - tests/testthat/test-publications.R | 6 - 101 files changed, 346 insertions(+), 354 deletions(-)
Title: Parallel Distance Matrix Computation using Multiple Threads
Description: A fast parallelized alternative to R's native 'dist' function to
calculate distance matrices for continuous, binary, and multi-dimensional
input matrices, which supports a broad variety of 39 predefined distance
functions from the 'stats', 'proxy' and 'dtw' R packages, as well as user-
defined functions written in C++. For ease of use, the 'parDist' function
extends the signature of the 'dist' function and uses the same parameter
naming conventions as distance methods of existing R packages. The package
is mainly implemented in C++ and leverages the 'RcppParallel' package to
parallelize the distance computations with the help of the 'TinyThread'
library. Furthermore, the 'Armadillo' linear algebra library is used for
optimized matrix operations during distance calculations. The curiously
recurring template pattern (CRTP) technique is applied to avoid virtual
functions, which improves the Dynamic Time Warping calculations while
the implementation stays flexible enough to support different DTW step
patterns and normalization methods.
Author: Alexander Eckert [aut, cre]
Maintainer: Alexander Eckert <info@alexandereckert.com>
Diff between parallelDist versions 0.1.1 dated 2017-06-07 and 0.2.0 dated 2017-09-27
parallelDist-0.1.1/parallelDist/src/IStepPattern.h |only parallelDist-0.1.1/parallelDist/src/parallelDist_init.c |only parallelDist-0.2.0/parallelDist/DESCRIPTION | 33 parallelDist-0.2.0/parallelDist/MD5 | 55 parallelDist-0.2.0/parallelDist/NAMESPACE | 9 parallelDist-0.2.0/parallelDist/R/RcppExports.R | 22 parallelDist-0.2.0/parallelDist/R/parDist.R | 247 +-- parallelDist-0.2.0/parallelDist/README.md | 109 - parallelDist-0.2.0/parallelDist/build/vignette.rds |binary parallelDist-0.2.0/parallelDist/inst/NEWS.Rd | 23 parallelDist-0.2.0/parallelDist/inst/doc/parallelDist.R | 544 +++--- parallelDist-0.2.0/parallelDist/inst/doc/parallelDist.Rnw | 779 +++++----- parallelDist-0.2.0/parallelDist/inst/doc/parallelDist.pdf |binary parallelDist-0.2.0/parallelDist/man/parDist.Rd | 653 ++++---- parallelDist-0.2.0/parallelDist/src/DistanceDTWFactory.cpp | 20 parallelDist-0.2.0/parallelDist/src/DistanceDTWGeneric.h | 54 parallelDist-0.2.0/parallelDist/src/DistanceDist.h | 25 parallelDist-0.2.0/parallelDist/src/DistanceFactory.cpp | 4 parallelDist-0.2.0/parallelDist/src/IDistance.h | 2 parallelDist-0.2.0/parallelDist/src/Makevars | 1 parallelDist-0.2.0/parallelDist/src/Makevars.win | 1 parallelDist-0.2.0/parallelDist/src/RcppExports.cpp | 15 parallelDist-0.2.0/parallelDist/src/StepPattern.h | 12 parallelDist-0.2.0/parallelDist/tests/testthat.R | 47 parallelDist-0.2.0/parallelDist/tests/testthat/testMatrixCustomDistances.R |only parallelDist-0.2.0/parallelDist/tests/testthat/testMatrixDTWDistances.R | 188 +- parallelDist-0.2.0/parallelDist/tests/testthat/testMatrixDistances.R | 423 ++--- parallelDist-0.2.0/parallelDist/tests/testthat/testMatrixListDistances.R | 438 ++--- parallelDist-0.2.0/parallelDist/vignettes/parallelDist.Rnw | 779 +++++----- parallelDist-0.2.0/parallelDist/vignettes/parallelDist.bib | 97 - 30 files changed, 2438 insertions(+), 2142 deletions(-)
Title: Latent Variable Models
Description: A general implementation of Structural Equation Models
with latent variables (MLE, 2SLS, and composite likelihood
estimators) with both continuous, censored, and ordinal
outcomes (Holst and Budtz-Joergensen (2013)
<doi:10.1007/s00180-012-0344-y>). The package also provides
methods for graph exploration (d-separation, back-door criterion),
simulation of general non-linear latent variable models, and
estimation of influence functions for a broad range of statistical
models.
Author: Klaus K. Holst [aut, cre],
Brice Ozenne [ctb],
Thomas Gerds [ctb]
Maintainer: Klaus K. Holst <klaus@holst.it>
Diff between lava versions 1.4.8 dated 2017-03-16 and 1.5.1 dated 2017-09-27
lava-1.4.8/lava/man/kill.Rd |only lava-1.4.8/lava/man/org.Rd |only lava-1.5.1/lava/DESCRIPTION | 18 +- lava-1.5.1/lava/INDEX | 72 ++++++++- lava-1.5.1/lava/MD5 | 133 +++++++++-------- lava-1.5.1/lava/NAMESPACE | 26 +++ lava-1.5.1/lava/NEWS | 37 ++++ lava-1.5.1/lava/R/Inverse.R |only lava-1.5.1/lava/R/addhook.R | 6 lava-1.5.1/lava/R/coef.R | 2 lava-1.5.1/lava/R/confband.R | 9 + lava-1.5.1/lava/R/confpred.R |only lava-1.5.1/lava/R/constrain.R | 33 +++- lava-1.5.1/lava/R/csplit.R |only lava-1.5.1/lava/R/curly.R |only lava-1.5.1/lava/R/cv.R |only lava-1.5.1/lava/R/deriv.R | 16 +- lava-1.5.1/lava/R/effects.R | 71 +++++---- lava-1.5.1/lava/R/endogenous.R | 6 lava-1.5.1/lava/R/estimate.default.R | 34 ++-- lava-1.5.1/lava/R/estimate.lvm.R | 32 ++-- lava-1.5.1/lava/R/estimate.multigroup.R | 2 lava-1.5.1/lava/R/eventTime.R | 88 ----------- lava-1.5.1/lava/R/exogenous.R | 6 lava-1.5.1/lava/R/fix.R | 15 +- lava-1.5.1/lava/R/functional.R | 6 lava-1.5.1/lava/R/information.R | 1 lava-1.5.1/lava/R/interactive.R | 10 - lava-1.5.1/lava/R/iv.R | 29 +++ lava-1.5.1/lava/R/kill.R | 50 +++--- lava-1.5.1/lava/R/logLik.R | 18 +- lava-1.5.1/lava/R/lvm.R | 15 +- lava-1.5.1/lava/R/matrices.R | 8 - lava-1.5.1/lava/R/measurement.error.R | 116 --------------- lava-1.5.1/lava/R/multigroup.R | 20 +- lava-1.5.1/lava/R/multinomial.R | 160 ++++++++++++++++----- lava-1.5.1/lava/R/nonlinear.R |only lava-1.5.1/lava/R/normal.R | 41 ++++- lava-1.5.1/lava/R/onload.R | 5 lava-1.5.1/lava/R/operators.R | 11 + lava-1.5.1/lava/R/optims.R | 2 lava-1.5.1/lava/R/ordinal.R | 7 lava-1.5.1/lava/R/parsedesign.R | 4 lava-1.5.1/lava/R/plotConf.R | 17 ++ lava-1.5.1/lava/R/procformula.R |only lava-1.5.1/lava/R/regression.R | 178 ------------------------ lava-1.5.1/lava/R/sim.default.R | 2 lava-1.5.1/lava/R/sim.lvm.R | 60 +++++--- lava-1.5.1/lava/R/spaghetti.R | 4 lava-1.5.1/lava/R/stack.R | 2 lava-1.5.1/lava/R/startvalues.R | 4 lava-1.5.1/lava/R/timedep.R |only lava-1.5.1/lava/R/transform.R | 1 lava-1.5.1/lava/R/twostage.R |only lava-1.5.1/lava/R/utils.R | 54 ------- lava-1.5.1/lava/R/vars.R | 6 lava-1.5.1/lava/R/zgetmplus.R | 6 lava-1.5.1/lava/R/zgetsas.R | 2 lava-1.5.1/lava/R/zorg.R | 5 lava-1.5.1/lava/inst/doc/reference.pdf |binary lava-1.5.1/lava/man/Org.Rd |only lava-1.5.1/lava/man/click.Rd | 1 lava-1.5.1/lava/man/confpred.Rd |only lava-1.5.1/lava/man/csplit.Rd |only lava-1.5.1/lava/man/curly.Rd |only lava-1.5.1/lava/man/cv.Rd |only lava-1.5.1/lava/man/multinomial.Rd | 11 + lava-1.5.1/lava/man/op_concat.Rd | 5 lava-1.5.1/lava/man/plotConf.Rd | 7 lava-1.5.1/lava/man/rmvar.Rd |only lava-1.5.1/lava/man/timedep.Rd | 2 lava-1.5.1/lava/man/twostage.Rd | 4 lava-1.5.1/lava/man/twostage.lvmfit.Rd | 74 +++++++++ lava-1.5.1/lava/tests/test-all.R | 2 lava-1.5.1/lava/tests/testthat/test-inference.R | 11 - lava-1.5.1/lava/tests/testthat/test-plot.R | 4 76 files changed, 827 insertions(+), 744 deletions(-)
Title: Extract-Transform-Load Framework for Medium Data
Description: A predictable and pipeable framework for performing ETL
(extract-transform-load) operations on publicly-accessible medium-sized data
set. This package sets up the method structure and implements generic
functions. Packages that depend on this package download specific data sets
from the Internet, clean them up, and import them into a local or remote
relational database management system.
Author: Ben Baumer [aut, cre],
Carson Sievert [ctb]
Maintainer: Ben Baumer <ben.baumer@gmail.com>
Diff between etl versions 0.3.6 dated 2017-07-21 and 0.3.7 dated 2017-09-27
DESCRIPTION | 26 +++++++------ MD5 | 34 +++++++++++------ NAMESPACE | 10 ++++- NEWS.md | 8 ++++ R/dbRunScript.R | 2 - R/etl.R | 2 - R/etl_extract.R | 45 +++++++++++++++++++++-- R/etl_load.R | 19 +-------- R/etl_transform.R | 58 ++++++++++++++++++++++++++++- R/utils.R | 2 - README.md | 90 +++++++++++++++++++--------------------------- build |only inst/CITATION |only inst/doc |only man/etl_create.Rd | 9 +++- tests/testthat/test-etl.R | 41 +++++++++++++------- vignettes |only 17 files changed, 226 insertions(+), 120 deletions(-)
Title: Ensemble Partial Least Squares Regression
Description: An algorithmic framework for measuring feature importance,
outlier detection, model applicability domain evaluation,
and ensemble predictive modeling with (sparse)
partial least squares regressions.
Author: Nan Xiao [aut, cre],
Dong-Sheng Cao [aut],
Miao-Zhu Li [aut],
Qing-Song Xu [aut]
Maintainer: Nan Xiao <me@nanx.me>
Diff between enpls versions 5.8 dated 2017-03-25 and 5.9 dated 2017-09-27
enpls-5.8/enpls/inst/CITATION |only enpls-5.8/enpls/vignettes/header.html |only enpls-5.9/enpls/DESCRIPTION | 21 +++++++------ enpls-5.9/enpls/MD5 | 22 ++++++-------- enpls-5.9/enpls/NEWS.md | 6 +++ enpls-5.9/enpls/README.md | 4 ++ enpls-5.9/enpls/TODO | 2 - enpls-5.9/enpls/build/vignette.rds |binary enpls-5.9/enpls/inst/doc/enpls.Rmd | 12 +------ enpls-5.9/enpls/inst/doc/enpls.html | 53 +++++++++++++++------------------- enpls-5.9/enpls/vignettes/enpls.Rmd | 12 +------ enpls-5.9/enpls/vignettes/enpls.bib | 9 ----- enpls-5.9/enpls/vignettes/enpls.css | 7 +++- 13 files changed, 66 insertions(+), 82 deletions(-)
Title: Depth-Based Classification and Calculation of Data Depth
Description: Contains procedures for depth-based supervised learning, which are entirely non-parametric, in particular the DDalpha-procedure (Lange, Mosler and Mozharovskyi, 2014). The training data sample is transformed by a statistical depth function to a compact low-dimensional space, where the final classification is done. It also offers an extension to functional data and routines for calculating certain notions of statistical depth functions. 50 multivariate and 5 functional classification problems are included.
Author: Oleksii Pokotylo [aut, cre],
Pavlo Mozharovskyi [aut],
Rainer Dyckerhoff [aut],
Stanislav Nagy [aut]
Maintainer: Oleksii Pokotylo <alexey.pokotylo@gmail.com>
Diff between ddalpha versions 1.2.1 dated 2016-10-09 and 1.3.1 dated 2017-09-27
DESCRIPTION | 20 - MD5 | 135 ++++--- NAMESPACE | 17 R/compclassf.r | 18 R/dataf.population.r |only R/dataf.population2010.r |only R/dataf.sim.r | 26 - R/ddalpha.classify.r | 17 R/ddalphaf.r | 18 R/depth.fd.R |only R/depthf.r |only R/draw.ddplot.r | 3 R/plot.functional.r |only man/Cmetric.Rd |only man/FKS.Rd |only man/L2metric.Rd |only man/compclassf.classify.Rd | 9 man/compclassf.train.Rd | 9 man/dataf..Rd | 128 +++---- man/dataf.geneexp.Rd | 122 +++--- man/dataf.growth.Rd | 130 +++---- man/dataf.medflies.Rd | 138 +++---- man/dataf.population.Rd |only man/dataf.population2010.Rd |only man/dataf.tecator.Rd | 138 +++---- man/dataf2rawfd.Rd |only man/ddalpha-package.Rd | 15 man/ddalpha.classify.Rd | 13 man/ddalpha.getErrorRateCV.Rd | 150 ++++---- man/ddalpha.getErrorRatePart.Rd | 170 ++++----- man/ddalpha.test.Rd | 182 ++++----- man/ddalpha.train.Rd | 658 ++++++++++++++++++------------------ man/ddalphaf.classify.Rd | 13 man/ddalphaf.getErrorRateCV.Rd | 136 +++---- man/ddalphaf.getErrorRatePart.Rd | 156 ++++---- man/ddalphaf.test.Rd | 162 ++++---- man/ddalphaf.train.Rd | 26 - man/depth.Mahalanobis.Rd | 174 ++++----- man/depth.contours.Rd | 150 ++++---- man/depth.contours.ddalpha.Rd | 148 +++----- man/depth.graph.Rd | 152 ++++---- man/depth.halfspace.Rd | 190 +++++----- man/depth.potential.Rd | 205 +++++------ man/depth.projection.Rd | 194 +++++----- man/depth.sample.Rd |only man/depth.simplicial.Rd | 162 ++++---- man/depth.simplicialVolume.Rd | 164 ++++---- man/depth.space..Rd | 160 ++++---- man/depth.space.halfspace.Rd | 154 ++++---- man/depth.space.potential.Rd | 202 +++++------ man/depth.space.projection.Rd | 144 +++---- man/depth.space.simplicial.Rd | 124 +++--- man/depth.space.simplicialVolume.Rd | 120 +++--- man/depth.space.zonoid.Rd | 114 +++--- man/depth.spatial.Rd | 156 ++++---- man/depth.zonoid.Rd | 148 ++++---- man/depthf..Rd |only man/depthf.ABD.Rd |only man/depthf.BD.Rd |only man/depthf.HR.Rd |only man/depthf.RP1.Rd |only man/depthf.RP2.Rd |only man/depthf.fd1.Rd |only man/depthf.fd2.Rd |only man/depthf.hM.Rd |only man/depthf.hM2.Rd |only man/derivatives.est.Rd |only man/dknn.classify.Rd | 182 ++++----- man/dknn.classify.trained.Rd | 162 ++++---- man/dknn.train.Rd | 172 ++++----- man/draw.ddplot.Rd | 136 +++---- man/getdata.Rd | 384 ++++++++++----------- man/infimalRank.Rd |only man/is.in.convex.Rd | 126 +++--- man/plot.ddalpha.Rd | 108 ++--- man/plot.ddalphaf.Rd | 114 +++--- man/plot.functional.Rd | 39 +- man/rawfd2dataf.Rd |only man/resetPar.Rd | 60 +-- man/shape.fd.analysis.Rd |only man/shape.fd.outliers.Rd |only src/depth.fd.f |only src/init.c |only 83 files changed, 3520 insertions(+), 3433 deletions(-)
Title: 'Rcpp' Integration of Different "Ziggurat" Normal RNG
Implementations
Description: The Ziggurat generator for normally distributed random numbers,
originally proposed by Marsaglia and Tsang (JSS, 2000), has been improved
upon a few times starting with Leong et al (JSS, 2005). This package provides
an aggregation in order to compare different implementations. The goal is to
provide an 'faster but good enough' alternative for use with R and C++ code.
Author: Dirk Eddelbuettel <edd@debian.org>
Maintainer: Dirk Eddelbuettel <edd@debian.org>
Diff between RcppZiggurat versions 0.1.3 dated 2015-07-26 and 0.1.4 dated 2017-09-27
RcppZiggurat-0.1.3/RcppZiggurat/inst/doc/RcppZiggurat.Rnw |only RcppZiggurat-0.1.3/RcppZiggurat/inst/doc/RcppZiggurat.bib |only RcppZiggurat-0.1.3/RcppZiggurat/vignettes/RcppZiggurat.Rnw |only RcppZiggurat-0.1.4/RcppZiggurat/ChangeLog | 19 RcppZiggurat-0.1.4/RcppZiggurat/DESCRIPTION | 16 RcppZiggurat-0.1.4/RcppZiggurat/MD5 | 35 - RcppZiggurat-0.1.4/RcppZiggurat/NAMESPACE | 2 RcppZiggurat-0.1.4/RcppZiggurat/R/RcppExports.R | 52 +- RcppZiggurat-0.1.4/RcppZiggurat/README.md | 2 RcppZiggurat-0.1.4/RcppZiggurat/build/vignette.rds |binary RcppZiggurat-0.1.4/RcppZiggurat/cleanup | 3 RcppZiggurat-0.1.4/RcppZiggurat/inst/NEWS.Rd | 9 RcppZiggurat-0.1.4/RcppZiggurat/inst/doc/RcppZiggurat.R | 140 ++---- RcppZiggurat-0.1.4/RcppZiggurat/inst/doc/RcppZiggurat.Rmd |only RcppZiggurat-0.1.4/RcppZiggurat/inst/doc/RcppZiggurat.pdf |binary RcppZiggurat-0.1.4/RcppZiggurat/src/RcppExports.cpp | 244 ++++++----- RcppZiggurat-0.1.4/RcppZiggurat/tests/zigguratTest.Rout.save | 8 RcppZiggurat-0.1.4/RcppZiggurat/vignettes/RcppZiggurat.Rmd |only RcppZiggurat-0.1.4/RcppZiggurat/vignettes/figures |only 19 files changed, 283 insertions(+), 247 deletions(-)
Title: Interactive Cluster Heat Maps Using 'plotly'
Description: Create interactive cluster 'heatmaps' that can be saved as a stand-
alone HTML file, embedded in 'R Markdown' documents or in a 'Shiny' app, and
available in the 'RStudio' viewer pane. Hover the mouse pointer over a cell to
show details or drag a rectangle to zoom. A 'heatmap' is a popular graphical
method for visualizing high-dimensional data, in which a table of numbers
are encoded as a grid of colored cells. The rows and columns of the matrix
are ordered to highlight patterns and are often accompanied by 'dendrograms'.
'Heatmaps' are used in many fields for visualizing observations, correlations,
missing values patterns, and more. Interactive 'heatmaps' allow the inspection
of specific value by hovering the mouse over a cell, as well as zooming into
a region of the 'heatmap' by dragging a rectangle around the relevant area.
This work is based on the 'ggplot2' and 'plotly.js' engine. It produces
similar 'heatmaps' as 'heatmap.2' or 'd3heatmap', with the advantage of speed
('plotly.js' is able to handle larger size matrix), the ability to zoom from
the 'dendrogram' panes, and the placing of factor variables in the sides of the
'heatmap'.
Author: Tal Galili [aut, cre, cph] (https://www.r-statistics.com),
Jonathan Sidi [ctb] (https://github.com/yonicd),
Alan O'Callaghan [ctb] (https://github.com/Alanocallaghan),
Yoav Benjamini [ths]
Maintainer: Tal Galili <tal.galili@gmail.com>
Diff between heatmaply versions 0.10.1 dated 2017-05-27 and 0.11.1 dated 2017-09-27
heatmaply-0.10.1/heatmaply/man/col2plotlyrgb.Rd |only heatmaply-0.10.1/heatmaply/man/side_color_plot.Rd |only heatmaply-0.10.1/heatmaply/vignettes/heatmaply.md |only heatmaply-0.11.1/heatmaply/ChangeLog | 212 ++++ heatmaply-0.11.1/heatmaply/DESCRIPTION | 14 heatmaply-0.11.1/heatmaply/MD5 | 42 heatmaply-0.11.1/heatmaply/NAMESPACE | 1 heatmaply-0.11.1/heatmaply/NEWS | 24 heatmaply-0.11.1/heatmaply/NEWS.md | 26 heatmaply-0.11.1/heatmaply/R/heatmaply.R | 499 +++++----- heatmaply-0.11.1/heatmaply/R/plots.R | 495 +++++++-- heatmaply-0.11.1/heatmaply/README.md | 45 heatmaply-0.11.1/heatmaply/build/vignette.rds |binary heatmaply-0.11.1/heatmaply/inst/doc/heatmaply.R | 75 + heatmaply-0.11.1/heatmaply/inst/doc/heatmaply.Rmd | 83 + heatmaply-0.11.1/heatmaply/inst/doc/heatmaply.html | 205 ++-- heatmaply-0.11.1/heatmaply/man/ggplot_side_color_plot.Rd |only heatmaply-0.11.1/heatmaply/man/heatmaply.Rd | 70 - heatmaply-0.11.1/heatmaply/tests/testthat.R | 4 heatmaply-0.11.1/heatmaply/tests/testthat/test_RColorBrewer.R |only heatmaply-0.11.1/heatmaply/tests/testthat/test_heatmaply.R | 315 +++--- heatmaply-0.11.1/heatmaply/tests/testthat/test_heatmapr.R | 12 heatmaply-0.11.1/heatmaply/tests/testthat/test_misc.R | 31 heatmaply-0.11.1/heatmaply/tests/testthat/test_plots.R |only heatmaply-0.11.1/heatmaply/vignettes/heatmaply.Rmd | 83 + 25 files changed, 1556 insertions(+), 680 deletions(-)
Title: Sampling Surface Simulation for Areal Sampling Methods
Description: Sampling surface simulation is useful in the comparison of different areal sampling methods
in forestry, ecology and natural resources. The sampSurf package allows the simulation
of numerous sampling methods for standing trees and downed woody debris in a spatial context.
It also provides an S4 class and method structure that facilitates the addition of new sampling
methods.
Author: Jeffrey H. Gove
Maintainer: Jeffrey H. Gove <jgove@fs.fed.us>
Diff between sampSurf versions 0.7-3 dated 2015-05-11 and 0.7-4 dated 2017-09-27
DESCRIPTION | 18 +++++++----- MD5 | 50 ++++++++++++++++++------------------ NAMESPACE | 40 ++++++++++++++++++++++++++-- R/InclusionZoneConstructors.R | 4 +- R/InclusionZoneGridClass.R | 2 - R/InclusionZoneGridConstructors.R | 3 +- R/clipStemsToTract.R | 18 ++++++------ R/downLogs.R | 2 - R/gridCellEnhance.R | 10 ++++++- R/mirage.R | 12 ++++---- R/sampSurfConstructors.R | 27 +++++++++++++++---- R/showSampSurf.R | 6 +++- R/smithPlot.R |only R/standingTrees.R | 2 - build/vignette.rds |binary inst/doc/ArealSamplingClass.pdf |binary inst/doc/GettingStarted.Rnw | 2 - inst/doc/GettingStarted.pdf |binary inst/doc/InclusionZoneClass.pdf |binary inst/doc/InclusionZoneGridClass.pdf |binary inst/doc/Overview.pdf |binary inst/doc/StemClass.pdf |binary inst/doc/TractClass.pdf |binary inst/doc/sampSurfClass.pdf |binary man/sampSurf-package.Rd | 20 ++++++++++---- man/smithPlot.Rd |only vignettes/GettingStarted.Rnw | 2 - 27 files changed, 147 insertions(+), 71 deletions(-)
Title: Effect Size Computation for Meta Analysis
Description: Implementation of the web-based 'Practical Meta-Analysis Effect Size
Calculator' from David B. Wilson (<http://www.campbellcollaboration.org/escalc/html/EffectSizeCalculator-Home.php>)
in R. Based on the input, the effect size can be returned as standardized mean
difference, Hedges' g, correlation coefficient r or Fisher's transformation z,
odds ratio or log odds effect size.
Author: Daniel Lüdecke <d.luedecke@uke.de>
Maintainer: Daniel Lüdecke <d.luedecke@uke.de>
Diff between esc versions 0.3.1 dated 2017-06-29 and 0.3.2 dated 2017-09-27
DESCRIPTION | 10 +- MD5 | 10 +- NEWS | 49 ++++++----- NEWS.md | 44 +++++----- R/esc_t.R | 236 +++++++++++++++++++++++++++--------------------------- build/partial.rdb |binary 6 files changed, 180 insertions(+), 169 deletions(-)
Title: An R Interface to Brazilian Central Bank and Sidra APIs and the
IPEA Data
Description: Creates an R interface to the Bacen <http://api.bcb.gov.br/> and Sidra <http://api.sidra.ibge.gov.br> APIs and IPEA data <http://www.ipeadata.gov.br/Default.aspx>.
Author: Fernando Teixeira [aut, cre],
Jonatha Azevedo [aut]
Maintainer: Fernando Teixeira <fernando.teixeira@fgv.br>
Diff between ecoseries versions 0.1.4 dated 2017-08-11 and 0.1.5 dated 2017-09-27
DESCRIPTION | 8 ++++---- MD5 | 8 ++++---- R/aux_ipeadata.R | 15 ++++++++++++--- R/series_ipeadata.R | 2 +- man/series_ipeadata.Rd | 2 +- 5 files changed, 22 insertions(+), 13 deletions(-)
Title: Selected ISO Codes
Description: ISO language, territory, currency, script and character codes.
Provides ISO 639 language codes, ISO 3166 territory codes, ISO 4217
currency codes, ISO 15924 script codes, and the ISO 8859 character codes
as well as the UN M.49 area codes.
Author: Christian Buchta [aut],
Kurt Hornik [aut, cre]
Maintainer: Kurt Hornik <Kurt.Hornik@R-project.org>
Diff between ISOcodes versions 2017.09.20 dated 2017-09-20 and 2017.09.27 dated 2017-09-27
DESCRIPTION | 6 +++--- MD5 | 6 +++--- data/UN_M.49_Countries.rda |binary data/UN_M.49_Regions.rda |binary 4 files changed, 6 insertions(+), 6 deletions(-)
Title: Mass Spectrometry Tools
Description: Common mass spectrometry tools described in John Roboz (2013) <doi:10.1201/b15436>. It allows checking element
isotopes, calculating (isotope labelled) exact monoisitopic mass, m/z values and mass accuracy, and inspecting possible contaminant mass peaks,
examining possible adducts in electrospray ionization (ESI) and matrix-assisted laser desorption ionization (MALDI)
ion sources.
Author: Yonghui Dong
Maintainer: Yonghui Dong <yonghui.dong@gmail.com>
Diff between MSbox versions 0.1.0 dated 2017-08-28 and 1.0 dated 2017-09-27
MSbox-0.1.0/MSbox/R/Ion_Mass.R |only MSbox-0.1.0/MSbox/R/Tanimoto.R |only MSbox-0.1.0/MSbox/man/tanimoto.Rd |only MSbox-1.0/MSbox/DESCRIPTION | 14 +++-- MSbox-1.0/MSbox/MD5 | 37 ++++++++------- MSbox-1.0/MSbox/NAMESPACE | 21 +++++--- MSbox-1.0/MSbox/R/Adduct.R | 85 ++++++++++++++++++------------------ MSbox-1.0/MSbox/R/Element_Isotope.R | 20 +++++--- MSbox-1.0/MSbox/R/Iso_mass.R |only MSbox-1.0/MSbox/R/Iso_mz.R |only MSbox-1.0/MSbox/R/Molecular_Mass.R | 64 +++++++++++++++------------ MSbox-1.0/MSbox/R/contaminant.R | 19 +++++--- MSbox-1.0/MSbox/R/mz.R |only MSbox-1.0/MSbox/R/ppm.R | 59 +++++++++++++++++++----- MSbox-1.0/MSbox/R/sysdata.rda |binary MSbox-1.0/MSbox/README.md |only MSbox-1.0/MSbox/man/E_iso.Rd | 41 ++++++++--------- MSbox-1.0/MSbox/man/Iso_mass.Rd |only MSbox-1.0/MSbox/man/Iso_mz.Rd |only MSbox-1.0/MSbox/man/M_mass.Rd | 35 +++++++------- MSbox-1.0/MSbox/man/adduct.Rd | 40 ++++++++-------- MSbox-1.0/MSbox/man/contam.Rd | 44 +++++++++--------- MSbox-1.0/MSbox/man/mz.Rd | 42 ++++++++--------- MSbox-1.0/MSbox/man/ppm.Rd | 41 ++++++++--------- 24 files changed, 315 insertions(+), 247 deletions(-)
Title: Text Analysis Utilities
Description: Utilities for text analysis.
Author: Christian Buchta [aut],
Kurt Hornik [aut, cre],
Ingo Feinerer [aut],
David Meyer [aut]
Maintainer: Kurt Hornik <Kurt.Hornik@R-project.org>
Diff between tau versions 0.0-19 dated 2017-02-20 and 0.0-20 dated 2017-09-27
DESCRIPTION | 6 +++--- MD5 | 8 ++++---- R/sysdata.rda |binary src/encoding.c | 10 +++++----- src/textcnt.c | 20 ++++++++++---------- 5 files changed, 22 insertions(+), 22 deletions(-)
Title: R Interface to 'TensorFlow'
Description: Interface to 'TensorFlow' <https://www.tensorflow.org/>,
an open source software library for numerical computation using data
flow graphs. Nodes in the graph represent mathematical operations,
while the graph edges represent the multidimensional data arrays
(tensors) communicated between them. The flexible architecture allows
you to deploy computation to one or more 'CPUs' or 'GPUs' in a desktop,
server, or mobile device with a single 'API'. 'TensorFlow' was originally
developed by researchers and engineers working on the Google Brain Team
within Google's Machine Intelligence research organization for the
purposes of conducting machine learning and deep neural networks research,
but the system is general enough to be applicable in a wide variety
of other domains as well.
Author: JJ Allaire [aut, cre],
RStudio [cph, fnd],
Yuan Tang [aut, cph],
Dirk Eddelbuettel [ctb, cph],
Nick Golding [ctb, cph],
Google Inc. [ctb, cph] (Examples and Tutorials)
Maintainer: JJ Allaire <jj@rstudio.com>
Diff between tensorflow versions 1.3.1 dated 2017-08-26 and 1.4 dated 2017-09-27
tensorflow-1.3.1/tensorflow/R/imperative.R |only tensorflow-1.3.1/tensorflow/inst/CITATION |only tensorflow-1.3.1/tensorflow/man/tf_imperative.Rd |only tensorflow-1.3.1/tensorflow/tests/testthat/test-imperative.R |only tensorflow-1.4/tensorflow/DESCRIPTION | 10 +-- tensorflow-1.4/tensorflow/MD5 | 20 +++--- tensorflow-1.4/tensorflow/NAMESPACE | 3 - tensorflow-1.4/tensorflow/R/install.R | 29 +++++++--- tensorflow-1.4/tensorflow/R/reexports.R | 3 + tensorflow-1.4/tensorflow/R/seed.R |only tensorflow-1.4/tensorflow/R/utils.R | 14 ++++ tensorflow-1.4/tensorflow/inst/examples/mnist/fully_connected_feed.R | 1 tensorflow-1.4/tensorflow/man/reexports.Rd | 4 + tensorflow-1.4/tensorflow/man/use_session_with_seed.Rd |only 14 files changed, 59 insertions(+), 25 deletions(-)
Title: Basic Tools for the Analysis of Disease Outbreaks
Description: Implements basic tools for storing, handling and visualizing disease outbreak data, as well as simple analysis tools. OutbreakTools defines the new formal class obkData which can be used to store any case-base outbreak data, and provides summaries for these objects, alongside a range of functions for subsetting and data manipulation. It implements a range of graphics for visualising timelines, maps, contact networks and genetic analyses. It also includes a simple case-base outbreak simulation tool.
Author: The Hackout team (In alphabetic order: David Aanensen, Marc Baguelin, Paul Birrell, Simon Cauchemez, Anton Camacho, Caroline Colijn, Anne Cori, Xavier Didelot, Ken Eames, Christophe Fraser, Simon Frost, Niel Hens, Joseph Hugues, Thibaut Jombart, Lulla Opatowski, Oliver Ratmann, Samuel Soubeyrand, Marc Suchard, Jacco Wallinga, Rolf Ypma)
Maintainer: Thibaut Jombart <thibautjombart@gmail.com>
Diff between OutbreakTools versions 0.1-14 dated 2015-12-25 and 0.1-15 dated 2017-09-27
DESCRIPTION | 8 ++++---- MD5 | 8 ++++---- R/annotatedTreeReader.R | 5 ++++- build/vignette.rds |binary inst/doc/OutbreakTools.pdf |binary 5 files changed, 12 insertions(+), 9 deletions(-)
Title: R Package for Fitting the Multinomial Probit Model
Description: Fits the Bayesian multinomial probit model via Markov chain
Monte Carlo. The multinomial probit model is often used to analyze
the discrete choices made by individuals recorded in survey data.
Examples where the multinomial probit model may be useful include the
analysis of product choice by consumers in market research and the
analysis of candidate or party choice by voters in electoral studies.
The MNP package can also fit the model with different choice sets for
each individual, and complete or partial individual choice orderings
of the available alternatives from the choice set. The estimation is
based on the efficient marginal data augmentation algorithm that is
developed by Imai and van Dyk (2005). ``A Bayesian Analysis of the
Multinomial Probit Model Using the Data Augmentation,'' Journal of
Econometrics, Vol. 124, No. 2 (February), pp. 311-334.
<DOI:10.1016/j.jeconom.2004.02.002> Detailed examples are given in
Imai and van Dyk (2005). ``MNP: R Package for Fitting the Multinomial
Probit Model.'' Journal of Statistical Software, Vol. 14, No. 3 (May),
pp. 1-32. <DOI:10.18637/jss.v014.i03>.
Author: Kosuke Imai [aut, cre],
David van Dyk [aut],
Hubert Jin [ctb]
Maintainer: Kosuke Imai <kimai@princeton.edu>
Diff between MNP versions 3.0-2 dated 2017-06-28 and 3.1-0 dated 2017-09-27
ChangeLog | 1 + DESCRIPTION | 9 +++++---- MD5 | 14 ++++++++------ build/vignette.rds |binary inst/doc/MNP.Rnw | 2 +- inst/doc/MNP.pdf |binary tests |only vignettes/MNP.Rnw | 2 +- 8 files changed, 16 insertions(+), 12 deletions(-)
Title: Dyadic Mixed Model for Pedigree Data
Description: Dyadic mixed model analysis with multi-trait responses and
pedigree-based partitioning of individual variation into a range of
environmental and genetic variance components for individual and
maternal effects.
Author: Neville Jackson
Maintainer: Neville Jackson <nanddjackson@bigpond.com>
Diff between dmm versions 1.7-1 dated 2016-04-12 and 2.1-2 dated 2017-09-27
DESCRIPTION | 8 MD5 | 107 ++++++++--- NAMESPACE | 5 R/am.zandrel.R | 339 +++++++++++++++++++++++++++++-------- R/comtopar.R | 1 R/comtopar.specific.R |only R/covlyz.R | 13 - R/covtopar.R | 14 + R/crossclasscovtopar.R |only R/crosseffectcovtopar.R | 11 - R/csummary.R |only R/csummary.dmm.R |only R/csummary.specific.R |only R/dae.nonspecific.I.R |only R/dae.nonspecific.R |only R/dae.nonspecific.S.R |only R/dae.specific.I.R |only R/dae.specific.R |only R/dae.specific.S.R |only R/dmesolve.R | 176 +++++++++++++++---- R/dmm-internal.R | 251 +++++++++++++-------------- R/dmm.R | 2 R/dmm.array.R | 4 R/dmm.blockarray.R | 4 R/dmm.default.R | 9 R/dyad.am.expect.R | 381 ++++++++++++------------------------------ R/expect.v.R | 169 ------------------ R/genericvarvcnames.R |only R/genericvcnames.R |only R/gls.iter.b.R | 4 R/gprint.dmm.R | 54 ++++- R/gsummary.dmm.R | 303 +++++++++++++++++---------------- R/gsummary.specific.R |only R/is.cecov.R |only R/is.crossclass.R |only R/is.specific.R |only R/is.var.R |only R/is.withinclass.R |only R/make.csummarytables.R |only R/make.ctable.R | 16 + R/make.gsummarytables.R |only R/match.crosseffect.vars.R |only R/match.vars.R |only R/phenclasses.R |only R/print.csummary.dmm.R |only R/print.csummarytables.dmm.R |only R/print.csumspecific.dmm.R |only R/print.gsummarytables.dmm.R |only R/print.gsumspecific.dmm.R |only R/selfpaste.R |only R/siga.posdef.R | 1 R/siga.posdef.specific.R |only R/sigatoie.R |only R/sigatovc.R |only R/summary.dmm.R | 39 ++-- R/traitpairstotraits.R |only R/varlz.R | 15 + R/vc.posdef.R |only inst/doc/bugs.txt | 25 +- inst/doc/dmmClassSpecific.pdf |only inst/doc/dmmOverview.pdf |binary inst/doc/mods.txt | 11 + inst/doc/solvedme.pdf |only man/csummary.dmm.Rd |only man/dmm-internal.Rd | 95 +++++++++- man/dmm-package.Rd | 4 man/dmm.Rd | 14 + man/gprint.Rd | 1 man/gresponse.dmm.Rd | 4 man/gsummary.dmm.Rd | 4 man/make.ctable.Rd | 17 - man/make.dmmobj.Rd | 2 man/print.csummary.dmm.Rd |only man/summary.dmm.Rd | 6 74 files changed, 1160 insertions(+), 949 deletions(-)
Title: Seawater Carbonate Chemistry
Description: Calculates parameters of the seawater carbonate system and assists the design of ocean acidification perturbation experiments.
Author: Jean-Pierre Gattuso [aut, cre, cph],
Jean-Marie Epitalon [aut],
Heloise Lavigne [aut],
James Orr [aut],
Bernard Gentili [ctb],
Mathilde Hagens [ctb],
Andreas Hofmann [ctb],
Aurélien Proye [ctb],
Karline Soetaert [ctb],
James Rae [ctb]
Maintainer: Jean-Pierre Gattuso <gattuso@obs-vlfr.fr>
Diff between seacarb versions 3.2 dated 2017-06-19 and 3.2.2 dated 2017-09-27
ChangeLog | 9 +++++++++ DESCRIPTION | 8 ++++---- MD5 | 14 ++++++++++---- R/sf_calc.R |only R/sf_calib.R |only data/seaFET.txt.gz |only man/carb.Rd | 6 +++--- man/carbb.Rd | 4 ++-- man/seaFET.Rd |only man/sf_calc.Rd |only man/sf_calib.Rd |only 11 files changed, 28 insertions(+), 13 deletions(-)
Title: R Interface to Python
Description: R interface to Python modules, classes, and functions. When calling
into Python R data types are automatically converted to their equivalent Python
types. When values are returned from Python to R they are converted back to R
types. Compatible with all versions of Python >= 2.7.
Author: JJ Allaire [aut, cre],
Kevin Ushey [ctb],
RStudio [cph, fnd],
Yuan Tang [aut, cph],
Dirk Eddelbuettel [ctb, cph],
Bryan Lewis [ctb, cph],
Marcus Geelnard [aut, cph] (TinyThread library,
http://tinythreadpp.bitsnbites.eu/)
Maintainer: JJ Allaire <jj@rstudio.com>
Diff between reticulate versions 1.1 dated 2017-08-26 and 1.2 dated 2017-09-27
reticulate-1.1/reticulate/inst/CITATION |only reticulate-1.2/reticulate/DESCRIPTION | 6 - reticulate-1.2/reticulate/MD5 | 29 ++++--- reticulate-1.2/reticulate/NAMESPACE | 5 + reticulate-1.2/reticulate/NEWS.md | 38 +++++++-- reticulate-1.2/reticulate/R/array.R |only reticulate-1.2/reticulate/R/python.R | 9 ++ reticulate-1.2/reticulate/R/seed.R |only reticulate-1.2/reticulate/R/use_python.R | 36 ++++++++- reticulate-1.2/reticulate/build/vignette.rds |binary reticulate-1.2/reticulate/inst/doc/introduction.Rmd | 16 ++++ reticulate-1.2/reticulate/inst/doc/introduction.html | 19 ++++ reticulate-1.2/reticulate/man/conda-tools.Rd | 9 ++ reticulate-1.2/reticulate/man/np_array.Rd |only reticulate-1.2/reticulate/man/py_set_seed.Rd |only reticulate-1.2/reticulate/src/python.cpp | 20 ++--- reticulate-1.2/reticulate/tests/testthat/test-python-numpy.R | 42 +++++++++++ reticulate-1.2/reticulate/vignettes/introduction.Rmd | 16 ++++ 18 files changed, 199 insertions(+), 46 deletions(-)
More information about LFDREmpiricalBayes at CRAN
Permanent link
Title: Enables Importing/Loading of Packages or Functions While
Creating an Alias for Them
Description: Enables 'Python'-like importing/loading of packages or functions
with aliasing to prevent namespace conflicts.
Author: Andrea Cantieni
Maintainer: Andrea Cantieni <andrea.cantieni@phsz.ch>
Diff between importar versions 0.1.0 dated 2017-09-19 and 0.1.1 dated 2017-09-27
DESCRIPTION | 10 +++++----- MD5 | 10 +++++----- R/importar.R | 9 +++------ README.md | 16 ++++++++++------ man/import.Rd | 4 ++-- man/import_fun.Rd | 4 ++-- 6 files changed, 27 insertions(+), 26 deletions(-)
Title: Stochastic Hybrid Models in Dynamic Networks
Description: Simulates stochastic hybrid models for transmission of infectious
diseases in dynamic networks. It is a metapopulation model in which each
node in the network is a sub-population and disease spreads within nodes
and among them, combining two approaches: stochastic simulation algorithm
or its approximations (Gillespie DT (2007)
<doi:10.1146/annurev.physchem.58.032806.104637>) and individual-based
approach, respectively. Movement among nodes are data based and can be
irregular. Equations that models spread within nodes are customizable and
there are two link types among nodes: migration and influence (commuting).
Author: Fernando S. Marques [aut, cre],
Jose H. H. Grisi-Filho [aut],
Marcos Amaku [aut]
Maintainer: Fernando S. Marques <fernandosix@gmail.com>
Diff between hybridModels versions 0.2.9 dated 2016-11-08 and 0.2.15 dated 2017-09-27
DESCRIPTION | 19 +++++++++---- MD5 | 42 ++++++++++++++++-------------- NAMESPACE | 1 NEWS | 46 ++++++++++++++++++++++++++++++++- R/build_model_class.R | 5 ++- R/custom_infl.R |only R/custom_migr.R | 4 ++ R/data.R | 1 R/find_contact_chain.R | 25 +++++++++++------- R/hybrid_Model.R | 65 +++++++++++++++++++++++++++++++++++++++++------ R/plot_HM.R | 10 +++---- R/sim_custom_infl.R |only R/sim_custom_migr.R | 14 +++++----- R/summary_HM.R |only README.md | 23 ++++++++++++++-- data/networkSample.rdata |binary man/buildModelClass.Rd | 8 +++-- man/findContactChain.Rd | 1 man/hybridModel.Rd | 58 +++++++++++++++++++++++++++++++++++------ man/networkSample.Rd | 2 - man/nodesCensus.Rd | 1 man/plot.Rd | 5 +-- man/simHM.Rd | 1 man/summary.Rd |only 24 files changed, 251 insertions(+), 80 deletions(-)
Title: R Interface for H2O
Description: R scripting functionality for H2O, the open source
math engine for big data that computes parallel distributed
machine learning algorithms such as generalized linear models,
gradient boosting machines, random forests, and neural networks
(deep learning) within various cluster environments.
Author: The H2O.ai team
Maintainer: Tom Kraljevic <tomk@0xdata.com>
Diff between h2o versions 3.10.5.3 dated 2017-07-01 and 3.14.0.3 dated 2017-09-27
DESCRIPTION | 27 - MD5 | 619 ++++++++++++------------ NAMESPACE | 6 R/automl.R |only R/classes.R | 9 R/communication.R | 37 + R/connection.R | 18 R/constants.R | 3 R/deeplearning.R | 6 R/frame.R | 100 +++ R/gbm.R | 6 R/import.R | 16 R/models.R | 19 R/parse.R | 94 +++ R/randomforest.R | 6 R/word2vec.R | 6 R/xgboost.R | 101 ++- inst/branch.txt | 2 inst/extdata/keystore.jks |only inst/extdata/prostate.csv.aes |only man/H2OAutoML-class.Rd |only man/H2OClusteringModel-class.Rd | 3 man/H2OConnection-class.Rd | 3 man/H2OFrame-Extract.Rd | 3 man/H2OFrame-class.Rd | 3 man/H2OFrame.Rd | 3 man/H2OGrid-class.Rd | 3 man/H2OModel-class.Rd | 3 man/H2OModelFuture-class.Rd | 3 man/H2OModelMetrics-class.Rd | 3 man/Logical-or.Rd | 3 man/ModelAccessors.Rd | 3 man/aaa.Rd | 3 man/and-and.Rd | 3 man/apply.Rd | 3 man/as.character.H2OFrame.Rd | 3 man/as.data.frame.H2OFrame.Rd | 3 man/as.factor.Rd | 3 man/as.h2o.Rd | 6 man/as.matrix.H2OFrame.Rd | 3 man/as.numeric.Rd | 3 man/as.vector.H2OFrame.Rd | 3 man/australia.Rd | 3 man/colnames.Rd | 3 man/dim.H2OFrame.Rd | 3 man/dimnames.H2OFrame.Rd | 3 man/h2o-package.Rd | 6 man/h2o.abs.Rd | 3 man/h2o.acos.Rd | 3 man/h2o.aic.Rd | 3 man/h2o.all.Rd | 3 man/h2o.anomaly.Rd | 3 man/h2o.any.Rd | 3 man/h2o.anyFactor.Rd | 3 man/h2o.arrange.Rd | 7 man/h2o.as_date.Rd | 3 man/h2o.ascharacter.Rd | 3 man/h2o.asfactor.Rd | 3 man/h2o.asnumeric.Rd | 3 man/h2o.assign.Rd | 3 man/h2o.auc.Rd | 3 man/h2o.automl.Rd |only man/h2o.betweenss.Rd | 3 man/h2o.biases.Rd | 3 man/h2o.bottomN.Rd | 3 man/h2o.cbind.Rd | 3 man/h2o.ceiling.Rd | 3 man/h2o.centers.Rd | 3 man/h2o.centersSTD.Rd | 3 man/h2o.centroid_stats.Rd | 3 man/h2o.clearLog.Rd | 3 man/h2o.clusterInfo.Rd | 3 man/h2o.clusterIsUp.Rd | 3 man/h2o.clusterStatus.Rd | 3 man/h2o.cluster_sizes.Rd | 3 man/h2o.coef.Rd | 3 man/h2o.coef_norm.Rd | 3 man/h2o.colnames.Rd | 3 man/h2o.columns_by_type.Rd | 3 man/h2o.computeGram.Rd | 3 man/h2o.confusionMatrix.Rd | 3 man/h2o.connect.Rd | 3 man/h2o.cor.Rd | 3 man/h2o.cos.Rd | 3 man/h2o.cosh.Rd | 3 man/h2o.createFrame.Rd | 3 man/h2o.cross_validation_fold_assignment.Rd | 3 man/h2o.cross_validation_holdout_predictions.Rd | 3 man/h2o.cross_validation_models.Rd | 3 man/h2o.cross_validation_predictions.Rd | 3 man/h2o.cummax.Rd | 3 man/h2o.cummin.Rd | 3 man/h2o.cumprod.Rd | 3 man/h2o.cumsum.Rd | 3 man/h2o.cut.Rd | 3 man/h2o.day.Rd | 3 man/h2o.dayOfWeek.Rd | 3 man/h2o.dct.Rd | 3 man/h2o.ddply.Rd | 3 man/h2o.decryptionSetup.Rd |only man/h2o.deepfeatures.Rd | 3 man/h2o.deeplearning.Rd | 7 man/h2o.deepwater.Rd | 3 man/h2o.deepwater.available.Rd | 3 man/h2o.describe.Rd | 3 man/h2o.diff.Rd | 3 man/h2o.dim.Rd | 3 man/h2o.dimnames.Rd | 3 man/h2o.distance.Rd | 3 man/h2o.downloadAllLogs.Rd | 3 man/h2o.downloadCSV.Rd | 3 man/h2o.download_mojo.Rd | 3 man/h2o.download_pojo.Rd | 3 man/h2o.entropy.Rd | 3 man/h2o.exp.Rd | 3 man/h2o.exportFile.Rd | 3 man/h2o.exportHDFS.Rd | 3 man/h2o.fillna.Rd | 3 man/h2o.filterNACols.Rd | 3 man/h2o.findSynonyms.Rd | 3 man/h2o.find_row_by_threshold.Rd | 3 man/h2o.find_threshold_by_max_metric.Rd | 3 man/h2o.floor.Rd | 3 man/h2o.flow.Rd | 3 man/h2o.gainsLift.Rd | 3 man/h2o.gbm.Rd | 7 man/h2o.getConnection.Rd | 3 man/h2o.getFrame.Rd | 3 man/h2o.getFutureModel.Rd | 7 man/h2o.getGLMFullRegularizationPath.Rd | 3 man/h2o.getGrid.Rd | 3 man/h2o.getId.Rd | 3 man/h2o.getModel.Rd | 3 man/h2o.getTimezone.Rd | 3 man/h2o.getTypes.Rd | 3 man/h2o.getVersion.Rd | 3 man/h2o.giniCoef.Rd | 3 man/h2o.glm.Rd | 3 man/h2o.glrm.Rd | 3 man/h2o.grep.Rd | 3 man/h2o.grid.Rd | 3 man/h2o.group_by.Rd | 3 man/h2o.gsub.Rd | 3 man/h2o.head.Rd | 3 man/h2o.hist.Rd | 3 man/h2o.hit_ratio_table.Rd | 3 man/h2o.hour.Rd | 3 man/h2o.ifelse.Rd | 3 man/h2o.importFile.Rd | 13 man/h2o.import_sql_select.Rd | 3 man/h2o.import_sql_table.Rd | 3 man/h2o.impute.Rd | 3 man/h2o.init.Rd | 7 man/h2o.insertMissingValues.Rd | 3 man/h2o.interaction.Rd | 3 man/h2o.is_client.Rd | 3 man/h2o.isax.Rd | 3 man/h2o.ischaracter.Rd | 3 man/h2o.isfactor.Rd | 3 man/h2o.isnumeric.Rd | 3 man/h2o.kfold_column.Rd | 3 man/h2o.killMinus3.Rd | 3 man/h2o.kmeans.Rd | 3 man/h2o.kurtosis.Rd | 3 man/h2o.levels.Rd | 3 man/h2o.listTimezones.Rd | 3 man/h2o.list_all_extensions.Rd | 3 man/h2o.list_api_extensions.Rd | 3 man/h2o.list_core_extensions.Rd | 3 man/h2o.loadModel.Rd | 3 man/h2o.log.Rd | 3 man/h2o.log10.Rd | 3 man/h2o.log1p.Rd | 3 man/h2o.log2.Rd | 3 man/h2o.logAndEcho.Rd | 3 man/h2o.logloss.Rd | 3 man/h2o.ls.Rd | 3 man/h2o.lstrip.Rd | 3 man/h2o.mae.Rd | 3 man/h2o.makeGLMModel.Rd | 3 man/h2o.make_metrics.Rd | 3 man/h2o.match.Rd | 3 man/h2o.max.Rd | 3 man/h2o.mean.Rd | 3 man/h2o.mean_per_class_error.Rd | 3 man/h2o.mean_residual_deviance.Rd | 3 man/h2o.median.Rd | 3 man/h2o.merge.Rd | 3 man/h2o.metric.Rd | 3 man/h2o.min.Rd | 3 man/h2o.mktime.Rd | 3 man/h2o.month.Rd | 3 man/h2o.mse.Rd | 3 man/h2o.na_omit.Rd | 3 man/h2o.nacnt.Rd | 3 man/h2o.naiveBayes.Rd | 3 man/h2o.names.Rd | 3 man/h2o.nchar.Rd | 3 man/h2o.ncol.Rd | 3 man/h2o.networkTest.Rd | 3 man/h2o.nlevels.Rd | 3 man/h2o.no_progress.Rd | 3 man/h2o.nrow.Rd | 3 man/h2o.null_deviance.Rd | 3 man/h2o.null_dof.Rd | 3 man/h2o.num_iterations.Rd | 3 man/h2o.num_valid_substrings.Rd | 3 man/h2o.openLog.Rd | 3 man/h2o.parseRaw.Rd | 9 man/h2o.parseSetup.Rd | 8 man/h2o.partialPlot.Rd | 3 man/h2o.performance.Rd | 3 man/h2o.pivot.Rd | 3 man/h2o.prcomp.Rd | 3 man/h2o.predict_json.Rd | 3 man/h2o.print.Rd | 3 man/h2o.prod.Rd | 3 man/h2o.proj_archetypes.Rd | 3 man/h2o.quantile.Rd | 3 man/h2o.r2.Rd | 3 man/h2o.randomForest.Rd | 7 man/h2o.range.Rd | 3 man/h2o.rbind.Rd | 3 man/h2o.reconstruct.Rd | 3 man/h2o.relevel.Rd | 3 man/h2o.removeAll.Rd | 3 man/h2o.removeVecs.Rd | 3 man/h2o.rep_len.Rd | 3 man/h2o.residual_deviance.Rd | 3 man/h2o.residual_dof.Rd | 3 man/h2o.rm.Rd | 3 man/h2o.rmse.Rd | 3 man/h2o.rmsle.Rd | 3 man/h2o.round.Rd | 3 man/h2o.rstrip.Rd | 3 man/h2o.runif.Rd | 3 man/h2o.saveModel.Rd | 3 man/h2o.saveModelDetails.Rd | 3 man/h2o.saveMojo.Rd | 3 man/h2o.scale.Rd | 3 man/h2o.scoreHistory.Rd | 3 man/h2o.sd.Rd | 3 man/h2o.sdev.Rd | 3 man/h2o.setLevels.Rd | 20 man/h2o.setTimezone.Rd | 3 man/h2o.show_progress.Rd | 3 man/h2o.shutdown.Rd | 3 man/h2o.signif.Rd | 3 man/h2o.sin.Rd | 3 man/h2o.skewness.Rd | 3 man/h2o.splitFrame.Rd | 3 man/h2o.sqrt.Rd | 3 man/h2o.stackedEnsemble.Rd | 3 man/h2o.startLogging.Rd | 3 man/h2o.std_coef_plot.Rd | 3 man/h2o.stopLogging.Rd | 3 man/h2o.str.Rd | 3 man/h2o.stringdist.Rd | 3 man/h2o.strsplit.Rd | 3 man/h2o.sub.Rd | 3 man/h2o.substring.Rd | 3 man/h2o.sum.Rd | 3 man/h2o.summary.Rd | 3 man/h2o.svd.Rd | 3 man/h2o.table.Rd | 3 man/h2o.tabulate.Rd | 3 man/h2o.tan.Rd | 3 man/h2o.tanh.Rd | 3 man/h2o.toFrame.Rd | 3 man/h2o.tokenize.Rd | 3 man/h2o.tolower.Rd | 3 man/h2o.topN.Rd | 3 man/h2o.tot_withinss.Rd | 3 man/h2o.totss.Rd | 3 man/h2o.toupper.Rd | 3 man/h2o.transform.Rd | 3 man/h2o.trim.Rd | 3 man/h2o.trunc.Rd | 3 man/h2o.unique.Rd | 3 man/h2o.var.Rd | 3 man/h2o.varimp.Rd | 3 man/h2o.varimp_plot.Rd | 3 man/h2o.week.Rd | 3 man/h2o.weights.Rd | 3 man/h2o.which.Rd | 3 man/h2o.which_max.Rd | 3 man/h2o.which_min.Rd | 3 man/h2o.withinss.Rd | 3 man/h2o.word2vec.Rd | 7 man/h2o.xgboost.Rd | 74 +- man/h2o.xgboost.available.Rd | 3 man/h2o.year.Rd | 3 man/housevotes.Rd | 3 man/iris.Rd | 3 man/is.character.Rd | 3 man/is.factor.Rd | 3 man/is.h2o.Rd | 3 man/is.numeric.Rd | 3 man/names.H2OFrame.Rd | 3 man/plot.H2OModel.Rd | 3 man/plot.H2OTabulate.Rd | 3 man/predict.H2OAutoML.Rd |only man/predict.H2OModel.Rd | 3 man/predict_leaf_node_assignment.H2OModel.Rd | 3 man/print.H2OFrame.Rd | 3 man/print.H2OTable.Rd | 3 man/prostate.Rd | 3 man/range.H2OFrame.Rd | 3 man/str.H2OFrame.Rd | 3 man/summary-H2OGrid-method.Rd | 3 man/summary-H2OModel-method.Rd | 3 man/use.package.Rd | 3 man/walking.Rd | 3 man/zzz.Rd | 3 314 files changed, 1350 insertions(+), 738 deletions(-)
Title: A Colour Picker Tool for Shiny and for Selecting Colours in
Plots
Description: A colour picker that can be used as an input in Shiny apps
or Rmarkdown documents. The colour picker supports alpha opacity, custom
colour palettes, and many more options. A Plot Colour Helper tool is
available as an RStudio Addin, which helps you pick colours to use in your
plots. A more generic Colour Picker RStudio Addin is also provided to let
you select colours to use in your R code.
Author: Dean Attali [aut, cre],
David Griswold [ctb]
Maintainer: Dean Attali <daattali@gmail.com>
Diff between colourpicker versions 0.3 dated 2016-12-05 and 1.0 dated 2017-09-27
DESCRIPTION | 32 MD5 | 58 - NEWS.md | 19 R/colourInput.R | 134 -- R/colourPickerGadget.R | 23 R/colourPickerGadgetUtils.R | 49 R/colourWidget.R | 36 R/plotHelper.R | 31 README.md | 157 +- build/vignette.rds |binary inst/doc/colourpicker.Rmd | 69 - inst/doc/colourpicker.html | 91 - inst/examples/colourInput/app.R | 211 +-- inst/examples/colourInput/www/app.css | 43 inst/examples/colourInput/www/salvattore.min.js |only inst/gadgets/colourpicker/css/app.css | 7 inst/htmlwidgets/colourWidget.yaml | 2 inst/htmlwidgets/lib/jquery/jquery.min.js | 10 inst/img/colourinputnew.PNG |only inst/srcjs/input_binding_colour.js | 14 inst/www/shared/colourpicker/css/colourpicker.css | 124 +- inst/www/shared/colourpicker/css/colourpicker.min.css | 2 inst/www/shared/colourpicker/js/colourpicker.js | 1019 ++++++++++++------ inst/www/shared/colourpicker/js/colourpicker.min.js | 17 man/colourInput.Rd | 53 man/colourPicker.Rd | 1 man/colourWidget.Rd | 11 man/plotHelper.Rd | 7 man/runExample.Rd | 1 man/updateColourInput.Rd | 26 vignettes/colourpicker.Rmd | 69 - 31 files changed, 1486 insertions(+), 830 deletions(-)
Title: Geo-Processing Helper Functions
Description: Helper tools for facilitating basic geo-processing tasks, such as reading/writing
Shapefiles, merging polygons or generating terrain contours.
Author: Andrew Plowright
Maintainer: Andrew Plowright <andrew.plowright@alumni.ubc.ca>
Diff between APfun versions 0.1.1 dated 2017-04-16 and 0.1.2 dated 2017-09-27
DESCRIPTION | 19 ++++++++++--------- MD5 | 32 +++++++++++++++++++++----------- NAMESPACE | 6 ++++++ NEWS.md | 12 ++++++++++++ R/APSHP.R |only R/APpolyMerge.R |only R/APpolygonize.R | 13 ++++++++++--- R/APprecise.R | 3 ++- data |only man/APKML2SHP.Rd |only man/APSHPdel.Rd |only man/APSHPfiles.Rd |only man/APSHPread.Rd |only man/APSHPsave.Rd |only man/APcontours.Rd | 1 - man/APopen.Rd | 1 - man/APpolyMerge.Rd |only man/APpolygonize.Rd | 1 - man/APprecise.Rd | 3 +-- man/AProunder.Rd | 1 - man/APtimer.Rd | 1 - man/SHPextensions.Rd |only 22 files changed, 62 insertions(+), 31 deletions(-)
Title: Trust, but Verify
Description: Declarative template-based framework for verifying that objects
meet structural requirements, and auto-composing error messages when they do
not.
Author: Brodie Gaslam [aut, cre],
Paxdiablo [cph] (Hash table implementation in src/pfhash.h),
R Core Team [cph] (Used/adapted several code snippets from R sources,
see src/misc-alike.c and src/valname.c)
Maintainer: Brodie Gaslam <brodie.gaslam@yahoo.com>
Diff between vetr versions 0.2.1 dated 2017-09-22 and 0.2.2 dated 2017-09-27
DESCRIPTION | 6 +++--- MD5 | 16 ++++++++-------- NEWS.md | 4 ++++ inst/doc/alike.html | 16 ++++++++-------- inst/doc/vetr.html | 10 +++++----- tests/unitizer/all-bw.R | 7 +++++-- tests/unitizer/all-bw.unitizer/data.rds |binary tests/unitizer/cstringr.R | 2 +- tests/unitizer/cstringr.unitizer/data.rds |binary 9 files changed, 34 insertions(+), 27 deletions(-)
Title: Evaluation of Failure Time Surrogate Endpoints in Individual
Patient Data Meta-Analyses
Description: Provides functions for the evaluation of
surrogate endpoints when both the surrogate and the true endpoint are failure
time variables. The approaches implemented are:
(1) the two-step approach (Burzykowski et al, 2001) <DOI:10.1111/1467-9876.00244> with a copula model (Clayton, Plackett, Hougaard) at
the first step and either a linear regression of log-hazard ratios at the second
step (either adjusted or not for measurement error);
(2) mixed proportional hazard models estimated via mixed Poisson GLM
(Rotolo et al, 2017 <DOI:10.1177/0962280217718582>).
Author: Federico Rotolo [aut, cre],
Xavier Paoletti [ctr], Marc Buyse [ctr], Tomasz Burzykowski [ctr], Stefan Michiels [ctr]
Maintainer: Federico Rotolo <federico.rotolo@gustaveroussy.fr>
Diff between surrosurv versions 1.1.15 dated 2017-05-03 and 1.1.24 dated 2017-09-27
surrosurv-1.1.15/surrosurv/vignettes/figs |only surrosurv-1.1.15/surrosurv/vignettes/surrosurv.pdf |only surrosurv-1.1.24/surrosurv/.Rinstignore |only surrosurv-1.1.24/surrosurv/DESCRIPTION | 26 surrosurv-1.1.24/surrosurv/MD5 | 58 - surrosurv-1.1.24/surrosurv/NAMESPACE | 5 surrosurv-1.1.24/surrosurv/NEWS | 3 surrosurv-1.1.24/surrosurv/R/convergence.R | 38 surrosurv-1.1.24/surrosurv/R/loocv.R | 97 + surrosurv-1.1.24/surrosurv/R/poisson_functions.R | 14 surrosurv-1.1.24/surrosurv/R/predict.R | 36 surrosurv-1.1.24/surrosurv/R/simData.R | 540 +---------- surrosurv-1.1.24/surrosurv/R/surrosurv.R | 4 surrosurv-1.1.24/surrosurv/README.md |only surrosurv-1.1.24/surrosurv/build/partial.rdb |binary surrosurv-1.1.24/surrosurv/build/vignette.rds |binary surrosurv-1.1.24/surrosurv/data/gastadj.RData |binary surrosurv-1.1.24/surrosurv/data/gastadv.RData |binary surrosurv-1.1.24/surrosurv/inst/doc/copulas.Rnw | 170 ++- surrosurv-1.1.24/surrosurv/inst/doc/copulas.pdf |binary surrosurv-1.1.24/surrosurv/inst/doc/surrosurv.pdf |only surrosurv-1.1.24/surrosurv/inst/doc/surrosurv.pdf.asis |only surrosurv-1.1.24/surrosurv/man/convergence.Rd | 9 surrosurv-1.1.24/surrosurv/man/loocv.Rd | 10 surrosurv-1.1.24/surrosurv/man/simData.Rd | 19 surrosurv-1.1.24/surrosurv/man/surrosurv-package.Rd | 10 surrosurv-1.1.24/surrosurv/man/surrosurv.Rd | 10 surrosurv-1.1.24/surrosurv/vignettes/copulas-concordance.tex |only surrosurv-1.1.24/surrosurv/vignettes/copulas.Rnw | 170 ++- surrosurv-1.1.24/surrosurv/vignettes/figloocv-1.pdf |only surrosurv-1.1.24/surrosurv/vignettes/figpoissonize-1.pdf |only surrosurv-1.1.24/surrosurv/vignettes/figpredictions-1.pdf |only surrosurv-1.1.24/surrosurv/vignettes/figsurvCurves-1.pdf |only surrosurv-1.1.24/surrosurv/vignettes/refs.bib | 19 surrosurv-1.1.24/surrosurv/vignettes/surrosurv.pdf.asis |only surrosurv-1.1.24/surrosurv/vignettes/surrosurv.tex | 132 +- 36 files changed, 641 insertions(+), 729 deletions(-)
Title: Tools for Natural Language Processing in French
Description: Tools for Natural Language Processing in French and texts from Marcel Proust's collection
"A La Recherche Du Temps Perdu". The novels contained in this collection are
"Du cote de chez Swann ", "A l'ombre des jeunes filles en fleurs","Le Cote de Guermantes",
"Sodome et Gomorrhe I et II", "La Prisonniere", "Albertine disparue", and "Le Temps retrouve".
Author: Colin FAY [aut, cre]
Maintainer: Colin FAY <contact@colinfay.me>
Diff between proustr versions 0.1.0 dated 2017-06-06 and 0.2.0 dated 2017-09-27
proustr-0.1.0/proustr/R/novels.R |only proustr-0.1.0/proustr/data/alombredesjeunesfillesenfleurs1.rda |only proustr-0.1.0/proustr/data/alombredesjeunesfillesenfleurs2.rda |only proustr-0.1.0/proustr/data/alombredesjeunesfillesenfleurs3.rda |only proustr-0.1.0/proustr/data/ducotedechezswann1.rda |only proustr-0.1.0/proustr/data/ducotedechezswann2.rda |only proustr-0.1.0/proustr/data/laprisonniere1.rda |only proustr-0.1.0/proustr/data/laprisonniere2.rda |only proustr-0.1.0/proustr/data/lecotedeguermantes1.rda |only proustr-0.1.0/proustr/data/lecotedeguermantes2.rda |only proustr-0.1.0/proustr/data/lecotedeguermantes3.rda |only proustr-0.1.0/proustr/data/letempretrouve1.rda |only proustr-0.1.0/proustr/data/letempretrouve2.rda |only proustr-0.1.0/proustr/data/sodomeetgomorrhe1.rda |only proustr-0.1.0/proustr/data/sodomeetgomorrhe2.rda |only proustr-0.1.0/proustr/man/alombredesjeunesfillesenfleurs1.Rd |only proustr-0.1.0/proustr/man/alombredesjeunesfillesenfleurs2.Rd |only proustr-0.1.0/proustr/man/alombredesjeunesfillesenfleurs3.Rd |only proustr-0.1.0/proustr/man/ducotedechezswann1.Rd |only proustr-0.1.0/proustr/man/ducotedechezswann2.Rd |only proustr-0.1.0/proustr/man/laprisonniere1.Rd |only proustr-0.1.0/proustr/man/laprisonniere2.Rd |only proustr-0.1.0/proustr/man/lecotedeguermantes1.Rd |only proustr-0.1.0/proustr/man/lecotedeguermantes2.Rd |only proustr-0.1.0/proustr/man/lecotedeguermantes3.Rd |only proustr-0.1.0/proustr/man/letempretrouve1.Rd |only proustr-0.1.0/proustr/man/letempretrouve2.Rd |only proustr-0.1.0/proustr/man/proustr.Rd |only proustr-0.1.0/proustr/man/sodomeetgomorrhe1.Rd |only proustr-0.1.0/proustr/man/sodomeetgomorrhe2.Rd |only proustr-0.2.0/proustr/DESCRIPTION | 26 proustr-0.2.0/proustr/LICENSE | 2 proustr-0.2.0/proustr/MD5 | 104 ++- proustr-0.2.0/proustr/NAMESPACE | 25 proustr-0.2.0/proustr/NEWS.md |only proustr-0.2.0/proustr/R/globalVariables.R | 23 proustr-0.2.0/proustr/R/pr_detect_calendar.R |only proustr-0.2.0/proustr/R/pr_detect_pronouns.R |only proustr-0.2.0/proustr/R/pr_norm_punct.R |only proustr-0.2.0/proustr/R/pr_stem.R |only proustr-0.2.0/proustr/R/proust_books.R | 38 - proustr-0.2.0/proustr/R/proust_char.R |only proustr-0.2.0/proustr/R/proust_datasets.R |only proustr-0.2.0/proustr/R/proust_novels.R |only proustr-0.2.0/proustr/R/proust_random.R |only proustr-0.2.0/proustr/R/proust_sentiments.R |only proustr-0.2.0/proustr/R/proust_stop_words.R |only proustr-0.2.0/proustr/R/sysdata.rda |only proustr-0.2.0/proustr/R/utils.R |only proustr-0.2.0/proustr/README.md | 271 +++++++++- proustr-0.2.0/proustr/build |only proustr-0.2.0/proustr/data/albertinedisparue.rda |binary proustr-0.2.0/proustr/data/alombredesjeunesfillesenfleurs.rda |only proustr-0.2.0/proustr/data/datalist | 23 proustr-0.2.0/proustr/data/ducotedechezswann.rda |only proustr-0.2.0/proustr/data/laprisonniere.rda |only proustr-0.2.0/proustr/data/lecotedeguermantes.rda |only proustr-0.2.0/proustr/data/letempretrouve.rda |only proustr-0.2.0/proustr/data/proust_char.rda |only proustr-0.2.0/proustr/data/sentiments_polarity.rda |only proustr-0.2.0/proustr/data/sentiments_score.rda |only proustr-0.2.0/proustr/data/sodomeetgomorrhe.rda |only proustr-0.2.0/proustr/inst |only proustr-0.2.0/proustr/man/albertinedisparue.Rd | 10 proustr-0.2.0/proustr/man/alombredesjeunesfillesenfleurs.Rd |only proustr-0.2.0/proustr/man/ducotedechezswann.Rd |only proustr-0.2.0/proustr/man/laprisonniere.Rd |only proustr-0.2.0/proustr/man/lecotedeguermantes.Rd |only proustr-0.2.0/proustr/man/letempretrouve.Rd |only proustr-0.2.0/proustr/man/pr_detect_days.Rd |only proustr-0.2.0/proustr/man/pr_detect_months.Rd |only proustr-0.2.0/proustr/man/pr_detect_pro.Rd |only proustr-0.2.0/proustr/man/pr_normalize_punc.Rd |only proustr-0.2.0/proustr/man/pr_stem_sentences.Rd |only proustr-0.2.0/proustr/man/pr_stem_words.Rd |only proustr-0.2.0/proustr/man/proust_books.Rd | 9 proustr-0.2.0/proustr/man/proust_char.Rd |only proustr-0.2.0/proustr/man/proust_characters.Rd |only proustr-0.2.0/proustr/man/proust_random.Rd |only proustr-0.2.0/proustr/man/proust_sentiments.Rd |only proustr-0.2.0/proustr/man/proust_stopwords.Rd |only proustr-0.2.0/proustr/man/reexports.Rd |only proustr-0.2.0/proustr/man/sentiments_polarity.Rd |only proustr-0.2.0/proustr/man/sentiments_score.Rd |only proustr-0.2.0/proustr/man/sodomeetgomorrhe.Rd |only proustr-0.2.0/proustr/tests |only proustr-0.2.0/proustr/vignettes |only 87 files changed, 409 insertions(+), 122 deletions(-)
Title: Linear Mixed-Effects Models using 'Eigen' and S4
Description: Fit linear and generalized linear mixed-effects models.
The models and their components are represented using S4 classes and
methods. The core computational algorithms are implemented using the
'Eigen' C++ library for numerical linear algebra and 'RcppEigen' "glue".
Author: Douglas Bates [aut],
Martin Maechler [aut],
Ben Bolker [aut, cre],
Steven Walker [aut],
Rune Haubo Bojesen Christensen [ctb],
Henrik Singmann [ctb],
Bin Dai [ctb],
Gabor Grothendieck [ctb],
Peter Green [ctb]
Maintainer: Ben Bolker <bbolker+lme4@gmail.com>
Diff between lme4 versions 1.1-13 dated 2017-04-19 and 1.1-14 dated 2017-09-27
lme4-1.1-13/lme4/ToDo |only lme4-1.1-13/lme4/tests/bootMer.Rout |only lme4-1.1-13/lme4/tests/confint.Rout |only lme4-1.1-13/lme4/tests/offset.Rout |only lme4-1.1-13/lme4/tests/predict.Rout |only lme4-1.1-13/lme4/tests/predict_basis.Rout |only lme4-1.1-13/lme4/tests/predsim.Rout |only lme4-1.1-13/lme4/tests/refit.Rout |only lme4-1.1-13/lme4/tests/test-refit.Rout |only lme4-1.1-13/lme4/vignettes/blkarray.sty |only lme4-1.1-14/lme4/DESCRIPTION | 6 lme4-1.1-14/lme4/MD5 | 58 ++--- lme4-1.1-14/lme4/NAMESPACE | 1 lme4-1.1-14/lme4/R/AllClass.R | 4 lme4-1.1-14/lme4/R/bootMer.R | 1 lme4-1.1-14/lme4/R/lmer.R | 144 +++++++++++--- lme4-1.1-14/lme4/R/nbinom.R | 24 +- lme4-1.1-14/lme4/R/predict.R | 14 - lme4-1.1-14/lme4/R/profile.R | 8 lme4-1.1-14/lme4/R/utilities.R | 19 + lme4-1.1-14/lme4/inst/NEWS.Rd | 43 ++++ lme4-1.1-14/lme4/man/bootMer.Rd | 124 ++++++------ lme4-1.1-14/lme4/man/confint.merMod.Rd | 12 - lme4-1.1-14/lme4/man/glmer.nb.Rd | 15 + lme4-1.1-14/lme4/man/merMod-class.Rd | 2 lme4-1.1-14/lme4/man/mkReTrms.Rd | 7 lme4-1.1-14/lme4/man/ranef.Rd | 15 + lme4-1.1-14/lme4/man/simulate.merMod.Rd | 24 +- lme4-1.1-14/lme4/tests/testthat/test-NAhandling.R | 7 lme4-1.1-14/lme4/tests/testthat/test-doubleVertNotation.R | 27 ++ lme4-1.1-14/lme4/tests/testthat/test-formulaEval.R | 12 + lme4-1.1-14/lme4/tests/testthat/test-glmer.R | 10 lme4-1.1-14/lme4/tests/testthat/test-lmer.R | 9 lme4-1.1-14/lme4/tests/testthat/test-nbinom.R | 9 lme4-1.1-14/lme4/tests/testthat/test-nlmer.R |only lme4-1.1-14/lme4/tests/testthat/test-ranef.R |only 36 files changed, 432 insertions(+), 163 deletions(-)
Title: Event Study Analysis
Description: Perform Event Studies from through our <http://EventStudyTools.com> Application Programming Interface, parse the results, visualize it, and / or use the results in further analysis.
Author: Dr. Simon Mueller
Maintainer: Dr. Simon Mueller <simon.mueller@muon-stat.com>
Diff between EventStudy versions 0.33 dated 2017-09-07 and 0.34 dated 2017-09-27
DESCRIPTION | 8 +++--- MD5 | 24 ++++++++++---------- NEWS.md | 10 ++++++++ R/ARCApplicationInput.R | 2 - R/AVCApplicationInput.R | 2 - R/AVyCApplicationInput.R | 2 - R/EventStudyAddin.R | 39 +++++++++++++++++++++------------- R/EventStudyApplicationInput.R | 2 - R/ResultParser.R | 14 ++++++++---- inst/doc/addin_eventstudy.html | 4 +-- inst/doc/howto_eventstudy.html | 4 +-- inst/doc/introduction_eventstudy.html | 4 +-- inst/doc/parameters_eventstudy.html | 4 +-- 13 files changed, 73 insertions(+), 46 deletions(-)
Title: Store and Manage Arbitrarily Large Integers
Description: Multi-precission library that allows to store and manage arbitrarily big integers without
loss of precision. It includes a large list of tools to work with them, like:
- Arithmetic and logic operators
- Modular-arithmetic operators
- Computer Number Theory utilities
- Probabilistic primality tests
- Factorization algorithms
- Random generators of diferent types of integers.
Author: Javier Leiva Cuadrado
Maintainer: Javier Leiva Cuadrado <jleivacuadrado@gmail.com>
Diff between VeryLargeIntegers versions 0.1.0 dated 2017-09-04 and 0.1.4 dated 2017-09-27
DESCRIPTION | 20 ++++++++++---------- MD5 | 38 +++++++++++++++++++------------------- R/arithmeticlogic.R | 2 +- R/binom.R | 2 +- R/divisor.R | 2 +- R/exteuclid.R | 2 +- R/factors.R | 2 +- R/nextprime.R | 2 +- R/perfectpow.R | 2 +- R/primality.R | 4 ++-- R/vli.R | 2 +- man/arithmeticlogic.Rd | 2 +- man/binom.Rd | 2 +- man/divisor.Rd | 2 +- man/exteuclid.Rd | 2 +- man/factors.Rd | 2 +- man/nextprime.Rd | 2 +- man/perfectpow.Rd | 2 +- man/primality.Rd | 4 ++-- man/vli.Rd | 2 +- 20 files changed, 49 insertions(+), 49 deletions(-)
More information about VeryLargeIntegers at CRAN
Permanent link
Title: Gene ID Mapping for Genotype-Tissue Expression (GTEx) Data
Description: Convert 'Ensembl' gene identifiers from Genotype-Tissue
Expression (GTEx) data to identifiers in other annotation systems,
including 'Entrez', 'HGNC', and 'UniProt'.
Author: Nan Xiao [aut, cre],
Gao Wang [aut],
Lei Sun [aut]
Maintainer: Nan Xiao <me@nanx.me>
Diff between grex versions 1.5 dated 2017-06-05 and 1.6 dated 2017-09-27
grex-1.5/grex/vignettes/header.html |only grex-1.6/grex/DESCRIPTION | 9 +++++---- grex-1.6/grex/MD5 | 29 ++++++++++++++--------------- grex-1.6/grex/NEWS.md | 18 ++++++++++++------ grex-1.6/grex/README.md | 6 +++++- grex-1.6/grex/build/vignette.rds |binary grex-1.6/grex/inst/doc/grex.Rmd | 4 +--- grex-1.6/grex/inst/doc/grex.html | 11 +++++------ grex-1.6/grex/man/cleanid.Rd | 1 - grex-1.6/grex/man/grex-package.Rd | 1 - grex-1.6/grex/man/grex.Rd | 1 - grex-1.6/grex/man/gtexv6.Rd | 1 - grex-1.6/grex/man/gtexv6p.Rd | 1 - grex-1.6/grex/vignettes/grex.Rmd | 4 +--- grex-1.6/grex/vignettes/grex.bib | 4 ++-- grex-1.6/grex/vignettes/grex.css | 7 +++++-- 16 files changed, 50 insertions(+), 47 deletions(-)