Title: D-Vine Quantile Regression
Description: Implements D-vine quantile regression models with
parametric or nonparametric pair-copulas. See
Kraus and Czado (2017) <doi:10.1016/j.csda.2016.12.009> and
Schallhorn et al. (2017) <arXiv:1705.08310>.
Author: Thomas Nagler [aut, cre],
Dani Kraus [ctb]
Maintainer: Thomas Nagler <mail@tnagler.com>
Diff between vinereg versions 0.3.0 dated 2018-06-02 and 0.5.0 dated 2018-08-09
DESCRIPTION | 12 ++-- MD5 | 34 ++++++----- NAMESPACE | 3 - NEWS.md | 26 +++++++++ R/predict.vinereg.R | 18 +++--- R/vinereg.R | 56 +++++++++++++------ README.md | 51 +++++++++-------- build/vignette.rds |binary inst/doc/abalone-example.R | 3 + inst/doc/abalone-example.Rmd | 3 + inst/doc/abalone-example.html | 31 +++++----- inst/doc/bike-rental.html | 16 ++--- man/figures/README-unnamed-chunk-1-1.png |binary man/predict.vinereg.Rd | 5 + man/vinereg.Rd | 2 tests/testthat/test-generics.R |only tests/testthat/test-predict.R |only tests/testthat/test-vinereg.R | 88 +------------------------------ vignettes/abalone-example.Rmd | 3 + 19 files changed, 165 insertions(+), 186 deletions(-)
Title: Nonparametric Variable Importance
Description: Calculate point estimates of and valid confidence intervals for
nonparametric variable importance measures in high and low dimensions,
using flexible estimators of the underlying regression functions. For more information
about the methods, please see Williamson et al. (2017) <https://biostats.bepress.com/uwbiostat/paper422/>.
Author: Brian D. Williamson [aut, cre],
Noah Simon [aut],
Marco Carone [aut]
Maintainer: Brian D. Williamson <brianw26@uw.edu>
Diff between vimp versions 1.0.0 dated 2018-06-24 and 1.1.0 dated 2018-08-09
DESCRIPTION | 6 - MD5 | 8 - R/cv_vim.R | 47 +++++---- inst/doc/introduction_to_vimp.html | 188 ++++++++++++++++++------------------- man/cv_vim.Rd | 17 ++- 5 files changed, 142 insertions(+), 124 deletions(-)
Title: Social Mixing Matrices for Infectious Disease Modelling
Description: Provides methods for sampling contact matrices from diary data for use in infectious disease modelling, as discussed in Mossong et al. (2008) <doi:10.1371/journal.pmed.0050074>.
Author: Sebastian Funk [aut, cre]
Maintainer: Sebastian Funk <sebastian.funk@lshtm.ac.uk>
Diff between socialmixr versions 0.1.2 dated 2018-02-22 and 0.1.3 dated 2018-08-09
DESCRIPTION | 8 - MD5 | 29 ++-- NAMESPACE | 1 NEWS.md | 8 + R/check.r | 17 -- R/clean.r | 5 R/contact_matrix.r | 303 ++++++++++++++++++++++++++----------------- R/get_survey.r | 51 ++++--- R/lists.r | 13 - R/pop_age.r | 2 R/wpp_age.r | 10 + build/vignette.rds |binary inst/doc/introduction.html | 145 ++++++++++---------- man/contact_matrix.Rd | 5 tests/testthat/test-checks.r |only tests/testthat/test-matrix.r | 27 ++- 16 files changed, 368 insertions(+), 256 deletions(-)
Title: Core Utilities for Developing and Running Spatially Explicit
Discrete Event Simulation Models
Description: Provide the core discrete event simulation (DES) framework for
implementing spatially explicit simulation models. The core DES components
facilitate modularity, and easily enable the user to include additional
functionality by running user-built simulation modules.
Author: Alex M Chubaty [aut, cre] (<https://orcid.org/0000-0001-7146-8135>),
Eliot J B McIntire [aut] (<https://orcid.org/0000-0002-6914-8316>),
Yong Luo [ctb],
Steve Cumming [ctb],
Ceres Barros [ctb],
Her Majesty the Queen in Right of Canada, as represented by the
Minister of Natural Resources Canada [cph]
Maintainer: Alex M Chubaty <alex.chubaty@gmail.com>
Diff between SpaDES.core versions 0.2.0 dated 2018-07-10 and 0.2.1 dated 2018-08-09
SpaDES.core-0.2.0/SpaDES.core/tests/testthat/helper-cleanMessage.R |only SpaDES.core-0.2.1/SpaDES.core/DESCRIPTION | 29 SpaDES.core-0.2.1/SpaDES.core/MD5 | 185 ++-- SpaDES.core-0.2.1/SpaDES.core/NAMESPACE | 3 SpaDES.core-0.2.1/SpaDES.core/NEWS.md | 24 SpaDES.core-0.2.1/SpaDES.core/R/POM.R | 5 SpaDES.core-0.2.1/SpaDES.core/R/cache.R | 114 ++ SpaDES.core-0.2.1/SpaDES.core/R/check.R | 6 SpaDES.core-0.2.1/SpaDES.core/R/code-checking.R | 2 SpaDES.core-0.2.1/SpaDES.core/R/copy.R | 4 SpaDES.core-0.2.1/SpaDES.core/R/downloadData.R | 6 SpaDES.core-0.2.1/SpaDES.core/R/experiment.R | 2 SpaDES.core-0.2.1/SpaDES.core/R/helpers.R | 8 SpaDES.core-0.2.1/SpaDES.core/R/moduleCoverage.R | 2 SpaDES.core-0.2.1/SpaDES.core/R/moduleMetadata.R | 3 SpaDES.core-0.2.1/SpaDES.core/R/simList-accessors.R | 11 SpaDES.core-0.2.1/SpaDES.core/R/simList-class.R | 4 SpaDES.core-0.2.1/SpaDES.core/R/simulation-parseModule.R | 11 SpaDES.core-0.2.1/SpaDES.core/R/simulation-simInit.R | 36 SpaDES.core-0.2.1/SpaDES.core/R/simulation-spades.R | 57 - SpaDES.core-0.2.1/SpaDES.core/R/spades-core-package.R | 7 SpaDES.core-0.2.1/SpaDES.core/R/zzz.R | 24 SpaDES.core-0.2.1/SpaDES.core/inst/doc/i-introduction.html | 2 SpaDES.core-0.2.1/SpaDES.core/inst/doc/ii-modules.R | 136 +-- SpaDES.core-0.2.1/SpaDES.core/inst/doc/ii-modules.Rmd | 144 +-- SpaDES.core-0.2.1/SpaDES.core/inst/doc/ii-modules.html | 109 +- SpaDES.core-0.2.1/SpaDES.core/inst/examples/example_moduleMetadata.R | 7 SpaDES.core-0.2.1/SpaDES.core/inst/sampleModules/SpaDES_sampleModules/SpaDES_sampleModules.Rmd | 1 SpaDES.core-0.2.1/SpaDES.core/man/POM.Rd | 4 SpaDES.core-0.2.1/SpaDES.core/man/Plot.Rd | 5 SpaDES.core-0.2.1/SpaDES.core/man/SpaDES.core-package.Rd | 11 SpaDES.core-0.2.1/SpaDES.core/man/addChangedAttr.Rd |only SpaDES.core-0.2.1/SpaDES.core/man/addDepends.Rd | 1 SpaDES.core-0.2.1/SpaDES.core/man/addTagsToOutput.Rd | 2 SpaDES.core-0.2.1/SpaDES.core/man/checkModuleLocal.Rd | 3 SpaDES.core-0.2.1/SpaDES.core/man/checkObject.Rd | 15 SpaDES.core-0.2.1/SpaDES.core/man/checkpoint.Rd | 3 SpaDES.core-0.2.1/SpaDES.core/man/classFilter.Rd | 4 SpaDES.core-0.2.1/SpaDES.core/man/createsOutput.Rd | 4 SpaDES.core-0.2.1/SpaDES.core/man/defineParameter.Rd | 6 SpaDES.core-0.2.1/SpaDES.core/man/doEvent.Rd | 2 SpaDES.core-0.2.1/SpaDES.core/man/downloadData.Rd | 17 SpaDES.core-0.2.1/SpaDES.core/man/downloadModule.Rd | 12 SpaDES.core-0.2.1/SpaDES.core/man/emptyEventList.Rd | 4 SpaDES.core-0.2.1/SpaDES.core/man/expectsInput.Rd | 3 SpaDES.core-0.2.1/SpaDES.core/man/experiment.Rd | 8 SpaDES.core-0.2.1/SpaDES.core/man/findModuleName.Rd | 2 SpaDES.core-0.2.1/SpaDES.core/man/findSimList.Rd | 2 SpaDES.core-0.2.1/SpaDES.core/man/globals.Rd | 3 SpaDES.core-0.2.1/SpaDES.core/man/loadPackages.Rd | 6 SpaDES.core-0.2.1/SpaDES.core/man/ls-method.Rd | 1 SpaDES.core-0.2.1/SpaDES.core/man/ls_str-method.Rd | 3 SpaDES.core-0.2.1/SpaDES.core/man/moduleCoverage.Rd | 2 SpaDES.core-0.2.1/SpaDES.core/man/moduleDiagram.Rd | 3 SpaDES.core-0.2.1/SpaDES.core/man/moduleMetadata.Rd | 7 SpaDES.core-0.2.1/SpaDES.core/man/newModule.Rd | 1 SpaDES.core-0.2.1/SpaDES.core/man/newModuleCode.Rd | 4 SpaDES.core-0.2.1/SpaDES.core/man/newModuleDocumentation.Rd | 7 SpaDES.core-0.2.1/SpaDES.core/man/newModuleTests.Rd | 1 SpaDES.core-0.2.1/SpaDES.core/man/objSize.simList.Rd | 3 SpaDES.core-0.2.1/SpaDES.core/man/objects.Rd | 2 SpaDES.core-0.2.1/SpaDES.core/man/packages.Rd | 1 SpaDES.core-0.2.1/SpaDES.core/man/paddedFloatToChar.Rd | 3 SpaDES.core-0.2.1/SpaDES.core/man/params.Rd | 9 SpaDES.core-0.2.1/SpaDES.core/man/parseModule.Rd | 10 SpaDES.core-0.2.1/SpaDES.core/man/prepareOutput.Rd | 2 SpaDES.core-0.2.1/SpaDES.core/man/progress.Rd | 3 SpaDES.core-0.2.1/SpaDES.core/man/robustDigest.Rd | 19 SpaDES.core-0.2.1/SpaDES.core/man/scheduleEvent.Rd | 2 SpaDES.core-0.2.1/SpaDES.core/man/setPaths.Rd | 1 SpaDES.core-0.2.1/SpaDES.core/man/simInit.Rd | 27 SpaDES.core-0.2.1/SpaDES.core/man/simList-accessors-envir.Rd | 2 SpaDES.core-0.2.1/SpaDES.core/man/simList-accessors-events.Rd | 4 SpaDES.core-0.2.1/SpaDES.core/man/simList-accessors-inout.Rd | 9 SpaDES.core-0.2.1/SpaDES.core/man/simList-accessors-modules.Rd | 3 SpaDES.core-0.2.1/SpaDES.core/man/simList-accessors-paths.Rd | 6 SpaDES.core-0.2.1/SpaDES.core/man/simList-accessors-times.Rd | 6 SpaDES.core-0.2.1/SpaDES.core/man/simList-class.Rd | 4 SpaDES.core-0.2.1/SpaDES.core/man/spades.Rd | 15 SpaDES.core-0.2.1/SpaDES.core/tests/testthat/helper-initTests.R |only SpaDES.core-0.2.1/SpaDES.core/tests/testthat/test-cache.R | 181 ++-- SpaDES.core-0.2.1/SpaDES.core/tests/testthat/test-checkpoint.R | 45 - SpaDES.core-0.2.1/SpaDES.core/tests/testthat/test-downloadData.R | 14 SpaDES.core-0.2.1/SpaDES.core/tests/testthat/test-downloadModule.R | 14 SpaDES.core-0.2.1/SpaDES.core/tests/testthat/test-experiment.R | 22 SpaDES.core-0.2.1/SpaDES.core/tests/testthat/test-load.R | 40 SpaDES.core-0.2.1/SpaDES.core/tests/testthat/test-module-deps-methods.R | 17 SpaDES.core-0.2.1/SpaDES.core/tests/testthat/test-module-template.R | 27 SpaDES.core-0.2.1/SpaDES.core/tests/testthat/test-paths.R | 68 - SpaDES.core-0.2.1/SpaDES.core/tests/testthat/test-save.R | 37 SpaDES.core-0.2.1/SpaDES.core/tests/testthat/test-simList.R | 413 +++++----- SpaDES.core-0.2.1/SpaDES.core/tests/testthat/test-simulation.R | 149 --- SpaDES.core-0.2.1/SpaDES.core/tests/testthat/test-timeunits.R | 23 SpaDES.core-0.2.1/SpaDES.core/tests/testthat/test-userSuppliedObjs.R | 9 SpaDES.core-0.2.1/SpaDES.core/vignettes/ii-modules.Rmd | 144 +-- 95 files changed, 1262 insertions(+), 1160 deletions(-)
Title: Fast and Simple 'MongoDB' Client for R
Description: High-performance MongoDB client based on 'mongo-c-driver' and 'jsonlite'.
Includes support for aggregation, indexing, map-reduce, streaming, encryption,
enterprise authentication, and GridFS. The online user manual provides an overview
of the available methods in the package: <https://jeroen.github.io/mongolite/>.
Author: Jeroen Ooms [aut, cre],
MongoDB, Inc [cph] (Bundled mongo-c-driver, see AUTHORS file)
Maintainer: Jeroen Ooms <jeroen@berkeley.edu>
Diff between mongolite versions 1.6 dated 2018-07-02 and 2.0 dated 2018-08-09
mongolite-1.6/mongolite/src/bson/b64_ntop.h |only mongolite-1.6/mongolite/src/bson/b64_pton.h |only mongolite-1.6/mongolite/src/bson/bson-stdint-win32.h |only mongolite-1.6/mongolite/src/bson/bson-stdint.h |only mongolite-1.6/mongolite/src/mongoc/mongoc-b64-private.h |only mongolite-1.6/mongolite/src/mongoc/mongoc-b64.c |only mongolite-1.6/mongolite/src/mongoc/mongoc-cursor-array-private.h |only mongolite-1.6/mongolite/src/mongoc/mongoc-cursor-cursorid-private.h |only mongolite-1.6/mongolite/src/mongoc/mongoc-cursor-cursorid.c |only mongolite-1.6/mongolite/src/mongoc/mongoc-cursor-transform-private.h |only mongolite-1.6/mongolite/src/mongoc/mongoc-cursor-transform.c |only mongolite-2.0/mongolite/DESCRIPTION | 16 mongolite-2.0/mongolite/MD5 | 383 +- mongolite-2.0/mongolite/NAMESPACE | 14 mongolite-2.0/mongolite/NEWS | 14 mongolite-2.0/mongolite/R/client.R | 46 mongolite-2.0/mongolite/R/gridfs.R | 264 + mongolite-2.0/mongolite/R/iter.R | 2 mongolite-2.0/mongolite/R/mongo.R | 94 mongolite-2.0/mongolite/R/pool.R |only mongolite-2.0/mongolite/R/stream.R | 8 mongolite-2.0/mongolite/configure | 5 mongolite-2.0/mongolite/inst/WORDLIST | 5 mongolite-2.0/mongolite/man/gridfs.Rd | 65 mongolite-2.0/mongolite/man/mongo.Rd | 24 mongolite-2.0/mongolite/src/Makevars.in | 20 mongolite-2.0/mongolite/src/Makevars.win | 20 mongolite-2.0/mongolite/src/bson.c | 68 mongolite-2.0/mongolite/src/bson/bcon.c | 65 mongolite-2.0/mongolite/src/bson/bcon.h | 4 mongolite-2.0/mongolite/src/bson/bson-clock.c | 8 mongolite-2.0/mongolite/src/bson/bson-compat.h | 4 mongolite-2.0/mongolite/src/bson/bson-config.h | 9 mongolite-2.0/mongolite/src/bson/bson-context-private.h | 2 mongolite-2.0/mongolite/src/bson/bson-context.c | 39 mongolite-2.0/mongolite/src/bson/bson-context.h | 2 mongolite-2.0/mongolite/src/bson/bson-decimal128.c | 39 mongolite-2.0/mongolite/src/bson/bson-decimal128.h | 4 mongolite-2.0/mongolite/src/bson/bson-fnv-private.h |only mongolite-2.0/mongolite/src/bson/bson-fnv.c |only mongolite-2.0/mongolite/src/bson/bson-iso8601.c | 10 mongolite-2.0/mongolite/src/bson/bson-iter.c | 50 mongolite-2.0/mongolite/src/bson/bson-iter.h | 11 mongolite-2.0/mongolite/src/bson/bson-json.c | 199 - mongolite-2.0/mongolite/src/bson/bson-macros.h | 8 mongolite-2.0/mongolite/src/bson/bson-md5.c | 383 -- mongolite-2.0/mongolite/src/bson/bson-md5.h | 8 mongolite-2.0/mongolite/src/bson/bson-memory.c | 5 mongolite-2.0/mongolite/src/bson/bson-oid.c | 3 mongolite-2.0/mongolite/src/bson/bson-private.h | 8 mongolite-2.0/mongolite/src/bson/bson-reader.c | 4 mongolite-2.0/mongolite/src/bson/bson-string.c | 17 mongolite-2.0/mongolite/src/bson/bson-thread-private.h | 7 mongolite-2.0/mongolite/src/bson/bson-timegm.c | 12 mongolite-2.0/mongolite/src/bson/bson-types.h | 21 mongolite-2.0/mongolite/src/bson/bson-utf8.c | 25 mongolite-2.0/mongolite/src/bson/bson-value.c | 11 mongolite-2.0/mongolite/src/bson/bson-version.h | 8 mongolite-2.0/mongolite/src/bson/bson.c | 129 mongolite-2.0/mongolite/src/bson/bson.h | 31 mongolite-2.0/mongolite/src/client.c | 29 mongolite-2.0/mongolite/src/collection.c | 111 mongolite-2.0/mongolite/src/common |only mongolite-2.0/mongolite/src/cursor.c | 34 mongolite-2.0/mongolite/src/gridfs.c | 284 + mongolite-2.0/mongolite/src/mongo_log.c | 4 mongolite-2.0/mongolite/src/mongoc/mongoc-apm-private.h | 2 mongolite-2.0/mongolite/src/mongoc/mongoc-apm.c | 9 mongolite-2.0/mongolite/src/mongoc/mongoc-apm.h | 3 mongolite-2.0/mongolite/src/mongoc/mongoc-async-cmd-private.h | 9 mongolite-2.0/mongolite/src/mongoc/mongoc-async-cmd.c | 111 mongolite-2.0/mongolite/src/mongoc/mongoc-async-private.h | 11 mongolite-2.0/mongolite/src/mongoc/mongoc-async.c | 113 mongolite-2.0/mongolite/src/mongoc/mongoc-buffer-private.h | 1 mongolite-2.0/mongolite/src/mongoc/mongoc-buffer.c | 51 mongolite-2.0/mongolite/src/mongoc/mongoc-bulk-operation-private.h | 5 mongolite-2.0/mongolite/src/mongoc/mongoc-bulk-operation.c | 529 +- mongolite-2.0/mongolite/src/mongoc/mongoc-bulk-operation.h | 1 mongolite-2.0/mongolite/src/mongoc/mongoc-change-stream-private.h | 38 mongolite-2.0/mongolite/src/mongoc/mongoc-change-stream.c | 457 +- mongolite-2.0/mongolite/src/mongoc/mongoc-change-stream.h | 4 mongolite-2.0/mongolite/src/mongoc/mongoc-client-pool.c | 4 mongolite-2.0/mongolite/src/mongoc/mongoc-client-private.h | 11 mongolite-2.0/mongolite/src/mongoc/mongoc-client-session-private.h | 48 mongolite-2.0/mongolite/src/mongoc/mongoc-client-session.c | 687 +++ mongolite-2.0/mongolite/src/mongoc/mongoc-client-session.h | 58 mongolite-2.0/mongolite/src/mongoc/mongoc-client.c | 392 +- mongolite-2.0/mongolite/src/mongoc/mongoc-client.h | 7 mongolite-2.0/mongolite/src/mongoc/mongoc-cluster-cyrus.c | 1 mongolite-2.0/mongolite/src/mongoc/mongoc-cluster-private.h | 13 mongolite-2.0/mongolite/src/mongoc/mongoc-cluster-sasl.c | 20 mongolite-2.0/mongolite/src/mongoc/mongoc-cluster-sspi.c | 111 mongolite-2.0/mongolite/src/mongoc/mongoc-cluster.c | 669 ++- mongolite-2.0/mongolite/src/mongoc/mongoc-cmd-private.h | 23 mongolite-2.0/mongolite/src/mongoc/mongoc-cmd.c | 358 + mongolite-2.0/mongolite/src/mongoc/mongoc-collection-private.h | 3 mongolite-2.0/mongolite/src/mongoc/mongoc-collection.c | 1506 +++++--- mongolite-2.0/mongolite/src/mongoc/mongoc-collection.h | 26 mongolite-2.0/mongolite/src/mongoc/mongoc-config.h | 18 mongolite-2.0/mongolite/src/mongoc/mongoc-counters-private.h | 28 mongolite-2.0/mongolite/src/mongoc/mongoc-counters.c | 19 mongolite-2.0/mongolite/src/mongoc/mongoc-crypto-cng-private.h | 28 mongolite-2.0/mongolite/src/mongoc/mongoc-crypto-cng.c | 136 mongolite-2.0/mongolite/src/mongoc/mongoc-crypto-common-crypto-private.h | 22 mongolite-2.0/mongolite/src/mongoc/mongoc-crypto-common-crypto.c | 40 mongolite-2.0/mongolite/src/mongoc/mongoc-crypto-openssl-private.h | 22 mongolite-2.0/mongolite/src/mongoc/mongoc-crypto-openssl.c | 50 mongolite-2.0/mongolite/src/mongoc/mongoc-crypto-private.h | 41 mongolite-2.0/mongolite/src/mongoc/mongoc-crypto.c | 53 mongolite-2.0/mongolite/src/mongoc/mongoc-cursor-array.c | 260 - mongolite-2.0/mongolite/src/mongoc/mongoc-cursor-cmd-deprecated.c |only mongolite-2.0/mongolite/src/mongoc/mongoc-cursor-cmd.c |only mongolite-2.0/mongolite/src/mongoc/mongoc-cursor-find-cmd.c |only mongolite-2.0/mongolite/src/mongoc/mongoc-cursor-find-opquery.c |only mongolite-2.0/mongolite/src/mongoc/mongoc-cursor-find.c |only mongolite-2.0/mongolite/src/mongoc/mongoc-cursor-legacy.c |only mongolite-2.0/mongolite/src/mongoc/mongoc-cursor-private.h | 232 - mongolite-2.0/mongolite/src/mongoc/mongoc-cursor.c | 1809 +++------- mongolite-2.0/mongolite/src/mongoc/mongoc-cursor.h | 9 mongolite-2.0/mongolite/src/mongoc/mongoc-database.c | 270 - mongolite-2.0/mongolite/src/mongoc/mongoc-database.h | 4 mongolite-2.0/mongolite/src/mongoc/mongoc-error.c |only mongolite-2.0/mongolite/src/mongoc/mongoc-error.h | 6 mongolite-2.0/mongolite/src/mongoc/mongoc-find-and-modify.c | 12 mongolite-2.0/mongolite/src/mongoc/mongoc-gridfs-file-list.c | 41 mongolite-2.0/mongolite/src/mongoc/mongoc-gridfs-file.c | 33 mongolite-2.0/mongolite/src/mongoc/mongoc-gridfs.c | 43 mongolite-2.0/mongolite/src/mongoc/mongoc-handshake-private.h | 79 mongolite-2.0/mongolite/src/mongoc/mongoc-handshake.c | 199 - mongolite-2.0/mongolite/src/mongoc/mongoc-host-list-private.h | 11 mongolite-2.0/mongolite/src/mongoc/mongoc-host-list.c | 142 mongolite-2.0/mongolite/src/mongoc/mongoc-index.h | 6 mongolite-2.0/mongolite/src/mongoc/mongoc-init.c | 25 mongolite-2.0/mongolite/src/mongoc/mongoc-matcher-op.c | 4 mongolite-2.0/mongolite/src/mongoc/mongoc-matcher.c | 34 mongolite-2.0/mongolite/src/mongoc/mongoc-memcmp-private.h | 2 mongolite-2.0/mongolite/src/mongoc/mongoc-memcmp.c | 36 mongolite-2.0/mongolite/src/mongoc/mongoc-openssl.c | 5 mongolite-2.0/mongolite/src/mongoc/mongoc-opts-helpers-private.h |only mongolite-2.0/mongolite/src/mongoc/mongoc-opts-helpers.c |only mongolite-2.0/mongolite/src/mongoc/mongoc-opts-private.h |only mongolite-2.0/mongolite/src/mongoc/mongoc-opts.c |only mongolite-2.0/mongolite/src/mongoc/mongoc-read-concern.h | 2 mongolite-2.0/mongolite/src/mongoc/mongoc-read-prefs.c | 3 mongolite-2.0/mongolite/src/mongoc/mongoc-rpc-private.h | 7 mongolite-2.0/mongolite/src/mongoc/mongoc-rpc.c | 170 mongolite-2.0/mongolite/src/mongoc/mongoc-sasl.c | 3 mongolite-2.0/mongolite/src/mongoc/mongoc-scram-private.h | 60 mongolite-2.0/mongolite/src/mongoc/mongoc-scram.c | 486 ++ mongolite-2.0/mongolite/src/mongoc/mongoc-secure-channel-private.h | 11 mongolite-2.0/mongolite/src/mongoc/mongoc-secure-channel.c | 49 mongolite-2.0/mongolite/src/mongoc/mongoc-secure-transport-private.h | 3 mongolite-2.0/mongolite/src/mongoc/mongoc-secure-transport.c | 66 mongolite-2.0/mongolite/src/mongoc/mongoc-server-description.c | 61 mongolite-2.0/mongolite/src/mongoc/mongoc-socket.c | 40 mongolite-2.0/mongolite/src/mongoc/mongoc-ssl.h | 2 mongolite-2.0/mongolite/src/mongoc/mongoc-sspi-private.h | 2 mongolite-2.0/mongolite/src/mongoc/mongoc-stream-buffered.c | 10 mongolite-2.0/mongolite/src/mongoc/mongoc-stream-file.c | 40 mongolite-2.0/mongolite/src/mongoc/mongoc-stream-socket.c | 5 mongolite-2.0/mongolite/src/mongoc/mongoc-stream-tls-openssl-bio.c | 21 mongolite-2.0/mongolite/src/mongoc/mongoc-stream-tls-openssl.c | 4 mongolite-2.0/mongolite/src/mongoc/mongoc-stream-tls-secure-channel.c | 299 - mongolite-2.0/mongolite/src/mongoc/mongoc-stream-tls-secure-transport.c | 10 mongolite-2.0/mongolite/src/mongoc/mongoc-stream.c | 84 mongolite-2.0/mongolite/src/mongoc/mongoc-thread-private.h | 2 mongolite-2.0/mongolite/src/mongoc/mongoc-topology-description.c | 6 mongolite-2.0/mongolite/src/mongoc/mongoc-topology-private.h | 14 mongolite-2.0/mongolite/src/mongoc/mongoc-topology-scanner-private.h | 52 mongolite-2.0/mongolite/src/mongoc/mongoc-topology-scanner.c | 642 ++- mongolite-2.0/mongolite/src/mongoc/mongoc-topology.c | 249 - mongolite-2.0/mongolite/src/mongoc/mongoc-uri-private.h | 5 mongolite-2.0/mongolite/src/mongoc/mongoc-uri.c | 278 - mongolite-2.0/mongolite/src/mongoc/mongoc-util-private.h | 40 mongolite-2.0/mongolite/src/mongoc/mongoc-util.c | 188 - mongolite-2.0/mongolite/src/mongoc/mongoc-version.h | 8 mongolite-2.0/mongolite/src/mongoc/mongoc-write-command-legacy.c | 17 mongolite-2.0/mongolite/src/mongoc/mongoc-write-command-private.h | 47 mongolite-2.0/mongolite/src/mongoc/mongoc-write-command.c | 316 + mongolite-2.0/mongolite/src/mongoc/mongoc-write-concern-private.h | 3 mongolite-2.0/mongolite/src/mongoc/mongoc-write-concern.c | 17 mongolite-2.0/mongolite/src/mongolite.h | 3 mongolite-2.0/mongolite/src/reader.c | 20 mongolite-2.0/mongolite/src/utils.c | 66 mongolite-2.0/mongolite/tests/testthat/specifications |only mongolite-2.0/mongolite/tests/testthat/test-bson.R | 172 mongolite-2.0/mongolite/tests/testthat/test-diamonds.R | 8 mongolite-2.0/mongolite/tests/testthat/test-flights.R | 2 188 files changed, 9288 insertions(+), 5941 deletions(-)
Title: Computation of Generalized Nash Equilibria
Description: Provide functions to compute standard and generalized Nash Equilibria.
Optimization methods are available nonsmooth reformulation, fixed-point formulation,
minimization problem and constrained-equation reformulation.
See e.g. Kanzow and Facchinei (2010), <doi:10.1007/s10479-009-0653-x>.
Author: Christophe Dutang
Maintainer: Christophe Dutang <christophe.dutang@ensimag.fr>
Diff between GNE versions 0.99-1 dated 2015-07-20 and 0.99-2 dated 2018-08-09
DESCRIPTION | 13 ++++++++----- MD5 | 20 ++++++++++---------- build/vignette.rds |binary inst/CITATION | 2 +- inst/NEWS | 6 ++++++ inst/doc/GNE-howto.R | 2 +- inst/doc/GNE-howto.Rnw | 1 - inst/doc/GNE-howto.pdf |binary man/GNE.Rd | 4 ---- src/init.c | 34 +++++++++++++++++----------------- vignettes/GNE-howto.Rnw | 1 - 11 files changed, 43 insertions(+), 40 deletions(-)
Title: An S4 Class for Functional Data
Description: S4 classes for univariate and multivariate functional data with
utility functions.
Author: Clara Happ [aut, cre]
Maintainer: Clara Happ <clara.happ@stat.uni-muenchen.de>
Diff between funData versions 1.2 dated 2018-02-21 and 1.3 dated 2018-08-09
funData-1.2/funData/man/getArgvals-funData-method.Rd |only funData-1.2/funData/man/getArgvals-irregFunData-method.Rd |only funData-1.2/funData/man/getArgvals-multiFunData-method.Rd |only funData-1.2/funData/man/getArgvals.Rd |only funData-1.2/funData/man/getX-funData-method.Rd |only funData-1.2/funData/man/getX-irregFunData-method.Rd |only funData-1.2/funData/man/getX-multiFunData-method.Rd |only funData-1.2/funData/man/ggplot.funData.Rd |only funData-1.2/funData/man/ggplot.irregFunData.Rd |only funData-1.2/funData/man/ggplot.multiFunData.Rd |only funData-1.2/funData/man/setArgvals-funData-method.Rd |only funData-1.2/funData/man/setArgvals-irregFunData-method.Rd |only funData-1.2/funData/man/setArgvals-multiFunData-method.Rd |only funData-1.2/funData/man/setX-funData-method.Rd |only funData-1.2/funData/man/setX-irregFunData-method.Rd |only funData-1.2/funData/man/setX-multiFunData-method.Rd |only funData-1.3/funData/DESCRIPTION | 15 funData-1.3/funData/MD5 | 116 +- funData-1.3/funData/NAMESPACE | 17 funData-1.3/funData/NEWS.md | 13 funData-1.3/funData/R/coerce.R |only funData-1.3/funData/R/funDataClass.R | 18 funData-1.3/funData/R/funDataMethods.R | 547 +--------- funData-1.3/funData/R/get_set.R |only funData-1.3/funData/R/plotMethods.R | 339 +++--- funData-1.3/funData/R/simulation.R | 20 funData-1.3/funData/R/str.R | 8 funData-1.3/funData/R/subset.R |only funData-1.3/funData/R/summary.R | 6 funData-1.3/funData/R/zzz.R |only funData-1.3/funData/man/Arith.funData.Rd | 50 funData-1.3/funData/man/X-funData-method.Rd |only funData-1.3/funData/man/X-irregFunData-method.Rd |only funData-1.3/funData/man/X-multiFunData-method.Rd |only funData-1.3/funData/man/X-set-funData-method.Rd |only funData-1.3/funData/man/X-set-irregFunData-method.Rd |only funData-1.3/funData/man/X-set-multiFunData-method.Rd |only funData-1.3/funData/man/argvals-funData-method.Rd |only funData-1.3/funData/man/argvals-irregFunData-method.Rd |only funData-1.3/funData/man/argvals-multiFunData-method.Rd |only funData-1.3/funData/man/argvals-set-funData-method.Rd |only funData-1.3/funData/man/argvals-set-irregFunData-method.Rd |only funData-1.3/funData/man/argvals-set-multiFunData-method.Rd |only funData-1.3/funData/man/argvals.Rd |only funData-1.3/funData/man/as.data.frame.funData.Rd |only funData-1.3/funData/man/autoplot.funData.Rd |only funData-1.3/funData/man/autoplot.irregFunData.Rd |only funData-1.3/funData/man/autoplot.multiFunData.Rd |only funData-1.3/funData/man/eFun.Rd | 2 funData-1.3/funData/man/efFourier.Rd | 2 funData-1.3/funData/man/efPoly.Rd | 2 funData-1.3/funData/man/efWiener.Rd | 2 funData-1.3/funData/man/extractObs-funData-method.Rd | 4 funData-1.3/funData/man/extractObs-irregFunData-method.Rd | 4 funData-1.3/funData/man/extractObs-multiFunData-method.Rd | 4 funData-1.3/funData/man/extractObs.Rd | 95 + funData-1.3/funData/man/fd2funData.Rd |only funData-1.3/funData/man/funData-class.Rd | 12 funData-1.3/funData/man/funData2fd.Rd |only funData-1.3/funData/man/ggplot.Rd | 33 funData-1.3/funData/man/integrate.Rd | 17 funData-1.3/funData/man/irregFunData-class.Rd | 6 funData-1.3/funData/man/scalarProduct.Rd | 10 funData-1.3/funData/man/simFunData.Rd | 2 funData-1.3/funData/man/simMultiFunData.Rd | 4 funData-1.3/funData/man/sparsify.Rd | 2 funData-1.3/funData/tests/testthat/outputs/print_funData.out | 2 funData-1.3/funData/tests/testthat/outputs/print_irregFunData.out | 4 funData-1.3/funData/tests/testthat/outputs/print_multiFunData.out | 4 funData-1.3/funData/tests/testthat/outputs/str_funData.out | 2 funData-1.3/funData/tests/testthat/outputs/str_irregFunData.out | 4 funData-1.3/funData/tests/testthat/outputs/str_irregFunData_len1.out | 4 funData-1.3/funData/tests/testthat/outputs/str_multiFunData.out | 6 funData-1.3/funData/tests/testthat/outputs/str_multiFunData_2.out |only funData-1.3/funData/tests/testthat/outputs/summary_funData_names.out |only funData-1.3/funData/tests/testthat/outputs/summary_irregFunData_names.out |only funData-1.3/funData/tests/testthat/test_funDataClass.R | 43 funData-1.3/funData/tests/testthat/test_funDataMethods.R | 142 ++ funData-1.3/funData/tests/testthat/test_plotMethods.R | 91 + funData-1.3/funData/tests/testthat/test_simulation.R | 4 80 files changed, 805 insertions(+), 851 deletions(-)
Title: Text Mining E-Mail Plug-in
Description: A plug-in for the tm text mining framework providing mail handling
functionality.
Author: Ingo Feinerer [aut] (<https://orcid.org/0000-0001-7656-8338>),
Wolfgang Mauerer [aut],
Kurt Hornik [aut, cre] (<https://orcid.org/0000-0003-4198-9911>)
Maintainer: Kurt Hornik <Kurt.Hornik@R-project.org>
Diff between tm.plugin.mail versions 0.1 dated 2014-06-11 and 0.2-0 dated 2018-08-09
DESCRIPTION | 29 ++++--- MD5 | 24 +++--- NAMESPACE | 5 + R/doc.R | 24 +++--- R/mail.R | 192 ++++++++++++++++++++++++++++--------------------- R/reader.R | 94 ++++++++++++++++++----- R/source.R | 64 ++++++++++------ man/MBoxSource.Rd | 15 ++- man/MailDocument.Rd | 39 +++++---- man/readMail.Rd | 44 ++++++----- man/removeCitation.Rd | 7 + man/removeSignature.Rd | 9 +- man/threads.Rd | 10 +- 13 files changed, 346 insertions(+), 210 deletions(-)
More information about tm.plugin.mail at CRAN
Permanent link
Title: Estimate Univariate Gaussian or Student's t Mixture
Autoregressive Model
Description: Maximum likelihood estimation of univariate Gaussian Mixture Autoregressive (GMAR),
Student's t Mixture Autoregressive (StMAR) and Gaussian and Student's t Mixture Autoregressive (G-StMAR) models,
quantile residual tests, graphical diagnostics, forecast and simulate from GMAR, StMAR and G-StMAR processes.
Also general linear constraints and restricting autoregressive parameters to be the same for all regimes are supported.
Leena Kalliovirta, Mika Meitz, Pentti Saikkonen (2015) <doi:10.1111/jtsa.12108>,
Mika Meitz, Daniel Preve, Pentti Saikkonen (2018) <arXiv:1805.04010>.
Author: Savi Virolainen [aut, cre]
Maintainer: Savi Virolainen <savi.virolainen@helsinki.fi>
Diff between uGMAR versions 2.0.3 dated 2018-07-20 and 3.0.0 dated 2018-08-09
uGMAR-2.0.3/uGMAR/R/forecastGMAR.R |only uGMAR-2.0.3/uGMAR/R/plotGMAR.R |only uGMAR-2.0.3/uGMAR/R/simulateGMAR.R |only uGMAR-2.0.3/uGMAR/man/checkLogicals.Rd |only uGMAR-2.0.3/uGMAR/tests/testthat/test_forecastGMAR.R |only uGMAR-2.0.3/uGMAR/tests/testthat/test_simulateGMAR.R |only uGMAR-3.0.0/uGMAR/DESCRIPTION | 14 uGMAR-3.0.0/uGMAR/MD5 | 158 - uGMAR-3.0.0/uGMAR/NAMESPACE | 23 uGMAR-3.0.0/uGMAR/R/GSMARconstructor.R |only uGMAR-3.0.0/uGMAR/R/MAINest.R | 615 +--- uGMAR-3.0.0/uGMAR/R/argumentChecks.R | 498 +-- uGMAR-3.0.0/uGMAR/R/data.R | 17 uGMAR-3.0.0/uGMAR/R/deprecatedFunctions.R |only uGMAR-3.0.0/uGMAR/R/diagnosticPlot.R |only uGMAR-3.0.0/uGMAR/R/geneticAlgorithm.R | 1384 ++++------ uGMAR-3.0.0/uGMAR/R/getOmega.R | 146 - uGMAR-3.0.0/uGMAR/R/loglikelihood.R | 591 +--- uGMAR-3.0.0/uGMAR/R/misc3methods.R |only uGMAR-3.0.0/uGMAR/R/numericalDifferentiation.R |only uGMAR-3.0.0/uGMAR/R/parameterReforms.R | 412 +- uGMAR-3.0.0/uGMAR/R/pickAndChangeParams.R |only uGMAR-3.0.0/uGMAR/R/plotMethods.R |only uGMAR-3.0.0/uGMAR/R/predictMethod.R |only uGMAR-3.0.0/uGMAR/R/printMethods.R |only uGMAR-3.0.0/uGMAR/R/quantileResidualTests.R | 451 +-- uGMAR-3.0.0/uGMAR/R/quantileResiduals.R | 610 ++-- uGMAR-3.0.0/uGMAR/R/simulateGSMAR.R |only uGMAR-3.0.0/uGMAR/R/standardErrors.R |only uGMAR-3.0.0/uGMAR/R/uGMAR.R |only uGMAR-3.0.0/uGMAR/README.md | 57 uGMAR-3.0.0/uGMAR/inst/doc/intro-to-uGMAR.Rmd | 103 uGMAR-3.0.0/uGMAR/inst/doc/intro-to-uGMAR.html | 117 uGMAR-3.0.0/uGMAR/man/GAfit.Rd | 151 - uGMAR-3.0.0/uGMAR/man/GSMAR.Rd |only uGMAR-3.0.0/uGMAR/man/VIX.Rd | 3 uGMAR-3.0.0/uGMAR/man/a_uGMAR.Rd |only uGMAR-3.0.0/uGMAR/man/add_data.Rd |only uGMAR-3.0.0/uGMAR/man/add_dfs.Rd |only uGMAR-3.0.0/uGMAR/man/all_pos_ints.Rd |only uGMAR-3.0.0/uGMAR/man/calc_gradient.Rd |only uGMAR-3.0.0/uGMAR/man/changeRegime.Rd | 46 uGMAR-3.0.0/uGMAR/man/change_parametrization.Rd |only uGMAR-3.0.0/uGMAR/man/checkAndCorrectData.Rd | 2 uGMAR-3.0.0/uGMAR/man/checkConstraintMat.Rd | 36 uGMAR-3.0.0/uGMAR/man/checkPM.Rd | 15 uGMAR-3.0.0/uGMAR/man/check_data.Rd |only uGMAR-3.0.0/uGMAR/man/check_gsmar.Rd |only uGMAR-3.0.0/uGMAR/man/check_model.Rd |only uGMAR-3.0.0/uGMAR/man/check_params_length.Rd |only uGMAR-3.0.0/uGMAR/man/diagnosticPlot.Rd |only uGMAR-3.0.0/uGMAR/man/extractRegime.Rd | 49 uGMAR-3.0.0/uGMAR/man/fitGMAR.Rd | 249 - uGMAR-3.0.0/uGMAR/man/fitGSMAR.Rd |only uGMAR-3.0.0/uGMAR/man/forecastGMAR.Rd | 160 - uGMAR-3.0.0/uGMAR/man/format_valuef.Rd |only uGMAR-3.0.0/uGMAR/man/getOmega.Rd | 70 uGMAR-3.0.0/uGMAR/man/get_IC.Rd |only uGMAR-3.0.0/uGMAR/man/get_regime_means.Rd |only uGMAR-3.0.0/uGMAR/man/isStationary.Rd | 71 uGMAR-3.0.0/uGMAR/man/isStationary_int.Rd | 58 uGMAR-3.0.0/uGMAR/man/iterate_more.Rd |only uGMAR-3.0.0/uGMAR/man/loglikelihood.Rd | 118 uGMAR-3.0.0/uGMAR/man/loglikelihood_int.Rd | 104 uGMAR-3.0.0/uGMAR/man/mixingWeights.Rd | 92 uGMAR-3.0.0/uGMAR/man/mixingWeights_int.Rd | 84 uGMAR-3.0.0/uGMAR/man/nParams.Rd | 40 uGMAR-3.0.0/uGMAR/man/parameterChecks.Rd | 46 uGMAR-3.0.0/uGMAR/man/pick_alphas.Rd |only uGMAR-3.0.0/uGMAR/man/pick_dfs.Rd |only uGMAR-3.0.0/uGMAR/man/pick_pars.Rd |only uGMAR-3.0.0/uGMAR/man/pick_phi0.Rd |only uGMAR-3.0.0/uGMAR/man/plot.gsmarpred.Rd |only uGMAR-3.0.0/uGMAR/man/plotGMAR.Rd | 149 - uGMAR-3.0.0/uGMAR/man/predict.gsmar.Rd |only uGMAR-3.0.0/uGMAR/man/print.gsmarpred.Rd |only uGMAR-3.0.0/uGMAR/man/print.gsmarsum.Rd |only uGMAR-3.0.0/uGMAR/man/quantileResidualTests.Rd | 185 - uGMAR-3.0.0/uGMAR/man/quantileResiduals.Rd | 90 uGMAR-3.0.0/uGMAR/man/quantileResiduals_int.Rd | 77 uGMAR-3.0.0/uGMAR/man/randomIndividual.Rd | 158 - uGMAR-3.0.0/uGMAR/man/randomIndividual_int.Rd | 98 uGMAR-3.0.0/uGMAR/man/random_regime.Rd |only uGMAR-3.0.0/uGMAR/man/reformConstrainedPars.Rd | 46 uGMAR-3.0.0/uGMAR/man/reformParameters.Rd | 32 uGMAR-3.0.0/uGMAR/man/reformRestrictedPars.Rd |only uGMAR-3.0.0/uGMAR/man/regime_distance.Rd |only uGMAR-3.0.0/uGMAR/man/removeAllConstraints.Rd |only uGMAR-3.0.0/uGMAR/man/simulateGMAR.Rd | 139 - uGMAR-3.0.0/uGMAR/man/simulateGSMAR.Rd |only uGMAR-3.0.0/uGMAR/man/sortComponents.Rd | 54 uGMAR-3.0.0/uGMAR/man/standardErrors.Rd | 62 uGMAR-3.0.0/uGMAR/man/swap_parametrization.Rd |only uGMAR-3.0.0/uGMAR/tests/testthat/test_GAfunctions.R | 64 uGMAR-3.0.0/uGMAR/tests/testthat/test_argumentChecks.R | 238 - uGMAR-3.0.0/uGMAR/tests/testthat/test_checkStatIdent.R | 126 uGMAR-3.0.0/uGMAR/tests/testthat/test_getOmega.R | 284 +- uGMAR-3.0.0/uGMAR/tests/testthat/test_loglikelihood.R | 259 - uGMAR-3.0.0/uGMAR/tests/testthat/test_numericalDifferentiation.R |only uGMAR-3.0.0/uGMAR/tests/testthat/test_parameterReforms.R | 355 +- uGMAR-3.0.0/uGMAR/tests/testthat/test_pickAndChangeParams.R |only uGMAR-3.0.0/uGMAR/tests/testthat/test_predictMethod.R |only uGMAR-3.0.0/uGMAR/tests/testthat/test_quantileResidualTests.R | 173 - uGMAR-3.0.0/uGMAR/tests/testthat/test_quantileResiduals.R | 38 uGMAR-3.0.0/uGMAR/tests/testthat/test_simulateGSMAR.R |only uGMAR-3.0.0/uGMAR/tests/testthat/test_standardErrors.R |only uGMAR-3.0.0/uGMAR/vignettes/intro-to-uGMAR.Rmd | 103 107 files changed, 4154 insertions(+), 5166 deletions(-)
Title: High Performance Algorithms for Vine Copula Modeling
Description: Provides an interface to 'vinecopulib', a C++ library for vine
copula modeling based on 'Boost' and 'Eigen'. The 'rvinecopulib'
package implements the core features of the popular 'VineCopula' package, in
particular inference algorithms for both vine copula and bivariate copula
models. Advantages over 'VineCopula' are a sleeker and more modern API,
improved performances, especially in high dimensions, nonparametric and
multi-parameter families. The 'rvinecopulib' package includes 'vinecopulib' as
header-only C++ library (currently version 0.3.0). Thus
users do not need to install 'vinecopulib' itself in order to use
'rvinecopulib'. Since their initial releases, 'vinecopulib' is licensed under
the MIT License, and 'rvinecopulib' is licensed under the GNU GPL version 3.
Author: Thomas Nagler [aut, cre],
Thibault Vatter [aut]
Maintainer: Thomas Nagler <info@vinecopulib.org>
Diff between rvinecopulib versions 0.2.8.1.0 dated 2018-05-09 and 0.3.0.1.0 dated 2018-08-09
rvinecopulib-0.2.8.1.0/rvinecopulib/R/rvine_matrix.R |only rvinecopulib-0.2.8.1.0/rvinecopulib/inst/include/bicop_wrappers.hpp |only rvinecopulib-0.2.8.1.0/rvinecopulib/inst/include/vinecopulib/misc/tools_parallel.hpp |only rvinecopulib-0.2.8.1.0/rvinecopulib/inst/include/vinecopulib/vinecop/implementation/rvine_matrix.ipp |only rvinecopulib-0.2.8.1.0/rvinecopulib/inst/include/vinecopulib/vinecop/rvine_matrix.hpp |only rvinecopulib-0.2.8.1.0/rvinecopulib/man/check_rvine_matrix.Rd |only rvinecopulib-0.2.8.1.0/rvinecopulib/src/bicop_wrappers.cpp |only rvinecopulib-0.2.8.1.0/rvinecopulib/src/tools_wrappers.cpp |only rvinecopulib-0.2.8.1.0/rvinecopulib/src/vinecop_wrappers.cpp |only rvinecopulib-0.3.0.1.0/rvinecopulib/DESCRIPTION | 12 rvinecopulib-0.3.0.1.0/rvinecopulib/MD5 | 216 +- rvinecopulib-0.3.0.1.0/rvinecopulib/NAMESPACE | 30 rvinecopulib-0.3.0.1.0/rvinecopulib/NEWS.md | 61 rvinecopulib-0.3.0.1.0/rvinecopulib/R/RcppExports.R | 48 rvinecopulib-0.3.0.1.0/rvinecopulib/R/as_rvine_structure.R |only rvinecopulib-0.3.0.1.0/rvinecopulib/R/bicop.R | 11 rvinecopulib-0.3.0.1.0/rvinecopulib/R/bicop_methods.R | 23 rvinecopulib-0.3.0.1.0/rvinecopulib/R/getters.R | 47 rvinecopulib-0.3.0.1.0/rvinecopulib/R/rosenblatt.R |only rvinecopulib-0.3.0.1.0/rvinecopulib/R/rvine_structure.R |only rvinecopulib-0.3.0.1.0/rvinecopulib/R/rvinecopulib.R | 6 rvinecopulib-0.3.0.1.0/rvinecopulib/R/tools.R | 66 rvinecopulib-0.3.0.1.0/rvinecopulib/R/truncate_model.R |only rvinecopulib-0.3.0.1.0/rvinecopulib/R/vine.R | 32 rvinecopulib-0.3.0.1.0/rvinecopulib/R/vine_methods.R | 111 - rvinecopulib-0.3.0.1.0/rvinecopulib/R/vinecop.R | 64 rvinecopulib-0.3.0.1.0/rvinecopulib/R/vinecop_methods.R | 267 +-- rvinecopulib-0.3.0.1.0/rvinecopulib/R/vinecop_plot.R | 35 rvinecopulib-0.3.0.1.0/rvinecopulib/inst/include/version.hpp | 4 rvinecopulib-0.3.0.1.0/rvinecopulib/inst/include/vinecopulib.hpp | 1 rvinecopulib-0.3.0.1.0/rvinecopulib/inst/include/vinecopulib/bicop/abstract.hpp | 8 rvinecopulib-0.3.0.1.0/rvinecopulib/inst/include/vinecopulib/bicop/archimedean.hpp | 4 rvinecopulib-0.3.0.1.0/rvinecopulib/inst/include/vinecopulib/bicop/bb1.hpp | 2 rvinecopulib-0.3.0.1.0/rvinecopulib/inst/include/vinecopulib/bicop/bb6.hpp | 2 rvinecopulib-0.3.0.1.0/rvinecopulib/inst/include/vinecopulib/bicop/bb7.hpp | 2 rvinecopulib-0.3.0.1.0/rvinecopulib/inst/include/vinecopulib/bicop/bb8.hpp | 2 rvinecopulib-0.3.0.1.0/rvinecopulib/inst/include/vinecopulib/bicop/class.hpp | 53 rvinecopulib-0.3.0.1.0/rvinecopulib/inst/include/vinecopulib/bicop/clayton.hpp | 2 rvinecopulib-0.3.0.1.0/rvinecopulib/inst/include/vinecopulib/bicop/fit_controls.hpp | 13 rvinecopulib-0.3.0.1.0/rvinecopulib/inst/include/vinecopulib/bicop/frank.hpp | 2 rvinecopulib-0.3.0.1.0/rvinecopulib/inst/include/vinecopulib/bicop/gaussian.hpp | 2 rvinecopulib-0.3.0.1.0/rvinecopulib/inst/include/vinecopulib/bicop/gumbel.hpp | 2 rvinecopulib-0.3.0.1.0/rvinecopulib/inst/include/vinecopulib/bicop/implementation/abstract.ipp | 10 rvinecopulib-0.3.0.1.0/rvinecopulib/inst/include/vinecopulib/bicop/implementation/bb1.ipp | 18 rvinecopulib-0.3.0.1.0/rvinecopulib/inst/include/vinecopulib/bicop/implementation/bb6.ipp | 36 rvinecopulib-0.3.0.1.0/rvinecopulib/inst/include/vinecopulib/bicop/implementation/bb7.ipp | 20 rvinecopulib-0.3.0.1.0/rvinecopulib/inst/include/vinecopulib/bicop/implementation/bb8.ipp | 20 rvinecopulib-0.3.0.1.0/rvinecopulib/inst/include/vinecopulib/bicop/implementation/class.ipp | 213 +- rvinecopulib-0.3.0.1.0/rvinecopulib/inst/include/vinecopulib/bicop/implementation/clayton.ipp | 12 rvinecopulib-0.3.0.1.0/rvinecopulib/inst/include/vinecopulib/bicop/implementation/fit_controls.ipp | 22 rvinecopulib-0.3.0.1.0/rvinecopulib/inst/include/vinecopulib/bicop/implementation/frank.ipp | 14 rvinecopulib-0.3.0.1.0/rvinecopulib/inst/include/vinecopulib/bicop/implementation/gaussian.ipp | 2 rvinecopulib-0.3.0.1.0/rvinecopulib/inst/include/vinecopulib/bicop/implementation/gumbel.ipp | 16 rvinecopulib-0.3.0.1.0/rvinecopulib/inst/include/vinecopulib/bicop/implementation/indep.ipp | 2 rvinecopulib-0.3.0.1.0/rvinecopulib/inst/include/vinecopulib/bicop/implementation/joe.ipp | 16 rvinecopulib-0.3.0.1.0/rvinecopulib/inst/include/vinecopulib/bicop/implementation/kernel.ipp | 20 rvinecopulib-0.3.0.1.0/rvinecopulib/inst/include/vinecopulib/bicop/implementation/parametric.ipp | 198 +- rvinecopulib-0.3.0.1.0/rvinecopulib/inst/include/vinecopulib/bicop/implementation/student.ipp | 26 rvinecopulib-0.3.0.1.0/rvinecopulib/inst/include/vinecopulib/bicop/implementation/tll.ipp | 41 rvinecopulib-0.3.0.1.0/rvinecopulib/inst/include/vinecopulib/bicop/implementation/tools_select.ipp | 27 rvinecopulib-0.3.0.1.0/rvinecopulib/inst/include/vinecopulib/bicop/indep.hpp | 2 rvinecopulib-0.3.0.1.0/rvinecopulib/inst/include/vinecopulib/bicop/joe.hpp | 2 rvinecopulib-0.3.0.1.0/rvinecopulib/inst/include/vinecopulib/bicop/kernel.hpp | 2 rvinecopulib-0.3.0.1.0/rvinecopulib/inst/include/vinecopulib/bicop/parametric.hpp | 4 rvinecopulib-0.3.0.1.0/rvinecopulib/inst/include/vinecopulib/bicop/student.hpp | 2 rvinecopulib-0.3.0.1.0/rvinecopulib/inst/include/vinecopulib/bicop/tll.hpp | 13 rvinecopulib-0.3.0.1.0/rvinecopulib/inst/include/vinecopulib/bicop/tools_select.hpp | 9 rvinecopulib-0.3.0.1.0/rvinecopulib/inst/include/vinecopulib/misc/implementation/tools_eigen.ipp | 57 rvinecopulib-0.3.0.1.0/rvinecopulib/inst/include/vinecopulib/misc/implementation/tools_interpolation.ipp | 230 -- rvinecopulib-0.3.0.1.0/rvinecopulib/inst/include/vinecopulib/misc/implementation/tools_optimization.ipp | 15 rvinecopulib-0.3.0.1.0/rvinecopulib/inst/include/vinecopulib/misc/implementation/tools_stats.ipp | 485 +----- rvinecopulib-0.3.0.1.0/rvinecopulib/inst/include/vinecopulib/misc/tools_batch.hpp |only rvinecopulib-0.3.0.1.0/rvinecopulib/inst/include/vinecopulib/misc/tools_bobyqa.hpp | 6 rvinecopulib-0.3.0.1.0/rvinecopulib/inst/include/vinecopulib/misc/tools_eigen.hpp | 13 rvinecopulib-0.3.0.1.0/rvinecopulib/inst/include/vinecopulib/misc/tools_interface.hpp | 8 rvinecopulib-0.3.0.1.0/rvinecopulib/inst/include/vinecopulib/misc/tools_interpolation.hpp | 24 rvinecopulib-0.3.0.1.0/rvinecopulib/inst/include/vinecopulib/misc/tools_optimization.hpp | 1 rvinecopulib-0.3.0.1.0/rvinecopulib/inst/include/vinecopulib/misc/tools_serialization.hpp | 94 + rvinecopulib-0.3.0.1.0/rvinecopulib/inst/include/vinecopulib/misc/tools_stats.hpp | 16 rvinecopulib-0.3.0.1.0/rvinecopulib/inst/include/vinecopulib/misc/tools_stats_ghalton.hpp |only rvinecopulib-0.3.0.1.0/rvinecopulib/inst/include/vinecopulib/misc/tools_stats_sobol.hpp |only rvinecopulib-0.3.0.1.0/rvinecopulib/inst/include/vinecopulib/misc/tools_stl.hpp | 27 rvinecopulib-0.3.0.1.0/rvinecopulib/inst/include/vinecopulib/misc/tools_thread.hpp | 167 +- rvinecopulib-0.3.0.1.0/rvinecopulib/inst/include/vinecopulib/misc/triangular_array.hpp |only rvinecopulib-0.3.0.1.0/rvinecopulib/inst/include/vinecopulib/vinecop/class.hpp | 125 + rvinecopulib-0.3.0.1.0/rvinecopulib/inst/include/vinecopulib/vinecop/fit_controls.hpp | 3 rvinecopulib-0.3.0.1.0/rvinecopulib/inst/include/vinecopulib/vinecop/implementation/class.ipp | 803 ++++++---- rvinecopulib-0.3.0.1.0/rvinecopulib/inst/include/vinecopulib/vinecop/implementation/fit_controls.ipp | 28 rvinecopulib-0.3.0.1.0/rvinecopulib/inst/include/vinecopulib/vinecop/implementation/rvine_structure.ipp |only rvinecopulib-0.3.0.1.0/rvinecopulib/inst/include/vinecopulib/vinecop/implementation/tools_select.ipp | 372 ++-- rvinecopulib-0.3.0.1.0/rvinecopulib/inst/include/vinecopulib/vinecop/rvine_structure.hpp |only rvinecopulib-0.3.0.1.0/rvinecopulib/inst/include/vinecopulib/vinecop/tools_select.hpp | 27 rvinecopulib-0.3.0.1.0/rvinecopulib/inst/include/wrappers.hpp |only rvinecopulib-0.3.0.1.0/rvinecopulib/man/as_rvine_structure.Rd |only rvinecopulib-0.3.0.1.0/rvinecopulib/man/bicop.Rd | 12 rvinecopulib-0.3.0.1.0/rvinecopulib/man/bicop_methods.Rd | 11 rvinecopulib-0.3.0.1.0/rvinecopulib/man/getters.Rd | 21 rvinecopulib-0.3.0.1.0/rvinecopulib/man/mBICV.Rd | 38 rvinecopulib-0.3.0.1.0/rvinecopulib/man/plot.bicop_dist.Rd | 3 rvinecopulib-0.3.0.1.0/rvinecopulib/man/plot.vinecop_dist.Rd | 3 rvinecopulib-0.3.0.1.0/rvinecopulib/man/predict_bicop.Rd | 7 rvinecopulib-0.3.0.1.0/rvinecopulib/man/predict_vine.Rd | 10 rvinecopulib-0.3.0.1.0/rvinecopulib/man/predict_vinecop.Rd | 16 rvinecopulib-0.3.0.1.0/rvinecopulib/man/rosenblatt.Rd |only rvinecopulib-0.3.0.1.0/rvinecopulib/man/rvine_structure.Rd |only rvinecopulib-0.3.0.1.0/rvinecopulib/man/rvinecopulib.Rd | 6 rvinecopulib-0.3.0.1.0/rvinecopulib/man/truncate_model.Rd | 59 rvinecopulib-0.3.0.1.0/rvinecopulib/man/vine.Rd | 28 rvinecopulib-0.3.0.1.0/rvinecopulib/man/vine_methods.Rd | 24 rvinecopulib-0.3.0.1.0/rvinecopulib/man/vinecop.Rd | 42 rvinecopulib-0.3.0.1.0/rvinecopulib/man/vinecop_methods.Rd | 45 rvinecopulib-0.3.0.1.0/rvinecopulib/src/RcppExports.cpp | 144 + rvinecopulib-0.3.0.1.0/rvinecopulib/src/wrappers.cpp |only rvinecopulib-0.3.0.1.0/rvinecopulib/tests/testthat/Rplots.pdf |only rvinecopulib-0.3.0.1.0/rvinecopulib/tests/testthat/test_bicop.R | 6 rvinecopulib-0.3.0.1.0/rvinecopulib/tests/testthat/test_bicop_dist.R | 10 rvinecopulib-0.3.0.1.0/rvinecopulib/tests/testthat/test_rosenblatt.R |only rvinecopulib-0.3.0.1.0/rvinecopulib/tests/testthat/test_rvine_structure.R |only rvinecopulib-0.3.0.1.0/rvinecopulib/tests/testthat/test_truncate_model.R |only rvinecopulib-0.3.0.1.0/rvinecopulib/tests/testthat/test_vine.R | 19 rvinecopulib-0.3.0.1.0/rvinecopulib/tests/testthat/test_vine_dist.R | 39 rvinecopulib-0.3.0.1.0/rvinecopulib/tests/testthat/test_vinecop.R | 31 rvinecopulib-0.3.0.1.0/rvinecopulib/tests/testthat/test_vinecop_dist.R | 24 123 files changed, 2839 insertions(+), 2135 deletions(-)
Title: Data-Driven Diagnostic Plots
Description: Designs plots in terms of core structure. See 'example(metaplot)'.
Primary arguments are (unquoted) column names; order and type (numeric or not)
dictate the resulting plot. Specify any y variables, x variable, any groups variable,
and any conditioning variables to metaplot() to generate density plots, boxplots,
mosaic plots, scatterplots, scatterplot matrices, or conditioned plots. Use multiplot()
to arrange plots in grids. Wherever present, scalar column attributes 'label' and 'guide'
are honored, producing fully annotated plots with minimal effort. Attribute 'guide'
is typically units, but may be encoded() to provide interpretations of categorical
values (see '?encode'). Utility unpack() transforms scalar column attributes to row
values and pack() does the reverse, supporting tool-neutral storage of metadata along
with primary data. The package supports customizable aesthetics such as such as reference
lines, unity lines, smooths, log transformation, and linear fits. The user may choose
between trellis and ggplot output. Compact syntax and integrated metadata promote workflow
scalability.
Author: Tim Bergsma
Maintainer: Tim Bergsma <bergsmat@gmail.com>
Diff between metaplot versions 0.7.0 dated 2018-08-09 and 0.7.1 dated 2018-08-09
DESCRIPTION | 8 ++++---- MD5 | 2 +- 2 files changed, 5 insertions(+), 5 deletions(-)
Title: Various Utilities for Microbial Genomics and Metagenomics
Description: A collection of functions for microbial ecology and other
applications of genomics and metagenomics. Companion package for the
Enveomics Collection (Rodriguez-R, L.M. and Konstantinidis, K.T., 2016
<DOI:10.7287/peerj.preprints.1900v1>).
Author: Luis M. Rodriguez-R [aut, cre]
Maintainer: Luis M. Rodriguez-R <lmrodriguezr@gmail.com>
Diff between enveomics.R versions 1.3 dated 2018-04-17 and 1.3.2 dated 2018-08-09
DESCRIPTION | 6 +++--- MD5 | 13 +++++++------ NAMESPACE | 2 +- R/recplot2.R | 39 +++++++++++++++++++++++++++++---------- R/utils.R | 20 +++++++++++++++++++- README.md | 3 +++ man/enve.truncate.Rd |only man/plot.enve.RecPlot2.Rd | 20 +++++++++++++------- 8 files changed, 75 insertions(+), 28 deletions(-)
Title: Moran's Eigenvector-Based Spatial Regression Models
Description: Functions for estimating fixed and random effects
eigenvector spatial filtering models.
For details see Murakami (2018) <arXiv:1703.04467>.
Author: Daisuke Murakami
Maintainer: Daisuke Murakami <dmuraka@ism.ac.jp>
Diff between spmoran versions 0.1.4 dated 2018-05-02 and 0.1.5 dated 2018-08-09
DESCRIPTION | 8 MD5 | 6 R/resf_vc.R | 1008 ++++++++++++++++++++++++++--------------------------- build/vignette.rds |binary 4 files changed, 511 insertions(+), 511 deletions(-)
Title: Record Linkage Toolkit
Description: Functions to assist in performing probabilistic record linkage and
deduplication: generating pairs, comparing records, em-algorithm for
estimating m- and u-probabilities, forcing one-to-one matching. Can also be
used for pre- and post-processing for machine learning methods for record
linkage.
Author: Jan van der Laan
Maintainer: Jan van der Laan <r@eoos.dds.nl>
Diff between reclin versions 0.1.0 dated 2018-06-06 and 0.1.1 dated 2018-08-09
DESCRIPTION | 9 ++--- MD5 | 60 +++++++++++++++++----------------- NEWS | 6 +++ R/add_from_xy.R | 2 + R/comparators.R | 2 + R/compare_pairs.R | 2 + R/match_n_to_m.R | 2 + R/pair_blocking.R | 2 + R/problink_em.R | 2 + R/score_problink.R | 2 + R/score_simsum.R | 2 + R/select_n_to_m.R | 2 + R/select_threshold.R | 2 + R/tabulate_patterns.R | 2 + man/add_from_x.Rd | 2 + man/comparators.Rd | 2 + man/compare_pairs.Rd | 2 + man/match_n_to_m.Rd | 2 + man/pair_blocking.Rd | 2 + man/problink_em.Rd | 2 + man/score_problink.Rd | 2 + man/score_simsum.Rd | 2 + man/select_n_to_m.Rd | 2 + man/select_threshold.Rd | 2 + man/tabulate_patterns.Rd | 2 + tests/testthat/test_compare_pairs.R | 4 +- tests/testthat/test_pairs_blocking.R | 6 +++ tests/testthat/test_score_problinkR.R | 4 ++ tests/testthat/test_score_simsum.R | 3 + tests/testthat/test_select_greedy.R | 3 + tests/testthat/test_select_n_to_m.R | 3 + 31 files changed, 107 insertions(+), 35 deletions(-)
Title: Bayesian Classification and Information Sharing (BaCIS) Tool for
the Design of Multi-Group Phase II Clinical Trials
Description: Provides the design of multi-group phase
II clinical trials with binary outcomes using the hierarchical Bayesian
classification and information sharing (BaCIS) model. Subgroups are classified
into two clusters on the basis of their outcomes mimicking the hypothesis
testing framework. Subsequently, information sharing takes place within
subgroups in the same cluster, rather than across all subgroups. This method can
be applied to the design and analysis of multi-group clinical trials with binary
outcomes.
Author: Nan Chen and J. Jack Lee
Maintainer: Nan Chen <nchen2@mdanderson.org>
Diff between bacistool versions 0.9.5 dated 2018-07-24 and 0.9.6 dated 2018-08-09
DESCRIPTION | 6 +++--- MD5 | 28 ++++++++++++++-------------- R/bacisCheckDIC.R | 5 ----- R/bacisClassification.R | 4 ---- R/bacisOneTrial.R | 5 +---- R/bacisPlotClassification.R | 5 +---- R/bacisSubgroupPosterior.R | 5 +---- R/bacisThetaPosterior.R | 4 ---- R/internal.R | 3 --- man/bacisCheckDIC.Rd | 7 +++---- man/bacisClassification.Rd | 7 +++---- man/bacisOneTrial.Rd | 6 ++---- man/bacisPlotClassification.Rd | 7 +++---- man/bacisSubgroupPosterior.Rd | 5 +++-- man/bacisThetaPosterior.Rd | 7 +++---- 15 files changed, 37 insertions(+), 67 deletions(-)
Title: Thematic Maps
Description: Thematic maps are geographical maps in which spatial data distributions are visualized. This package offers a flexible, layer-based, and easy to use approach to create thematic maps, such as choropleths and bubble maps.
Author: Martijn Tennekes [aut, cre],
Joel Gombin [ctb],
Sebastian Jeworutzki [ctb],
Kent Russell [ctb],
Richard Zijdeman [ctb],
John Clouse [ctb],
Robin Lovelace [ctb],
Jakub Nowosad [ctb],
Jannes Muenchow [ctb]
Maintainer: Martijn Tennekes <mtennekes@gmail.com>
Diff between tmap versions 2.1 dated 2018-08-06 and 2.1-1 dated 2018-08-09
DESCRIPTION | 13 ++++++------- MD5 | 28 ++++++++++++++-------------- NAMESPACE | 9 --------- NEWS | 3 +++ R/gridplot.R | 9 +-------- R/onLoad.R | 6 ------ R/order_x.R | 16 ++++++++++++++-- R/plot_all.R | 10 +--------- R/plot_misc_functions.R | 5 ----- R/print_tmap.R | 2 -- R/tmap_tip.R | 1 + inst/doc/tmap-changes-v2.html | 6 +++--- inst/doc/tmap-getstarted.html | 20 ++++++++++---------- inst/tips.txt | 1 + man/tm_tiles.Rd | 8 ++++---- 15 files changed, 58 insertions(+), 79 deletions(-)
Title: Data-Driven Diagnostic Plots
Description: Designs plots in terms of core structure. See 'example(metaplot)'.
Primary arguments are (unquoted) column names; order and type (numeric or not)
dictate the resulting plot. Specify any y variables, x variable, any groups variable,
and any conditoning variables to metaplot() to generate density plots, boxplots,
mosaic plots, scatterplots, scatterplot matrices, or conditioned plots. Use multiplot()
to arrange plots in grids. Wherever present, scalar column attributes 'label' and 'guide'
are honored, producing fully annotated plots with minimal effort. Attribute 'guide'
is typically units, but may be encoded() to provide interpretations of categorical
values (see '?encode'). Utility unpack() transforms scalar column attributes to row
values and pack() does the reverse, supporting tool-neutral storage of metadata along
with primary data. The package supports customizable aesthetics such as such as reference
lines, unity lines, smooths, log transformation, and linear fits. The user may choose
between trellis and ggplot output. Compact syntax and integrated metadata promote workflow
scalability.
Author: Tim Bergsma
Maintainer: Tim Bergsma <bergsmat@gmail.com>
Diff between metaplot versions 0.4.9 dated 2018-03-31 and 0.7.0 dated 2018-08-09
DESCRIPTION | 15 MD5 | 112 +++-- NAMESPACE | 20 + R/box.R | 185 +++++++-- R/categorical.R | 587 +++++++++++++++++++---------- R/corsplom.R | 554 +++++++++++++++++++++++++++- R/density.R | 384 ++++++++++++++++--- R/metaplot.R | 597 +++++++++++++++++++++++++++++- R/multiplot.R | 46 +- R/pack.R | 6 R/scatter.R | 749 +++++++++++++++++++++++++++++++------- R/utils.R | 470 ++++++++++++++++++++--- man/as_factor.Rd | 2 man/axislabel.Rd | 3 man/axislabel.data.frame.Rd | 2 man/boxplot.Rd | 1 man/boxplot.data.frame.Rd | 15 man/boxplot_data_frame.Rd | 66 ++- man/boxplot_panel.Rd | 11 man/categorical.Rd | 3 man/categorical.data.frame.Rd | 7 man/categorical_data_frame.Rd | 86 ++-- man/categorical_panel.Rd | 22 - man/cax.Rd |only man/corsplom.Rd | 12 man/corsplom.data.frame.Rd | 16 man/corsplom_data_frame.Rd | 118 +++++ man/corsplom_gg_correlation.Rd |only man/corsplom_gg_diagonal.Rd |only man/corsplom_gg_scatter.Rd |only man/corsplom_panel_correlation.Rd | 21 - man/corsplom_panel_diagonal.Rd | 27 - man/corsplom_panel_scatter.Rd | 35 + man/dens_panel.Rd | 15 man/densplot.Rd | 6 man/densplot.data.frame.Rd | 15 man/densplot_data_frame.Rd | 79 ++-- man/diag_label.Rd | 13 man/diag_pin.Rd | 7 man/iso_prepanel.Rd | 7 man/merge.list.Rd |only man/metOption.Rd |only man/metaplot.Rd | 43 +- man/metaplot.data.frame.Rd | 15 man/metaplot_key.Rd |only man/metaplot_ref.Rd | 5 man/multiplot.Rd | 10 man/pack.Rd | 3 man/pack.data.frame.Rd | 6 man/panel.meta_densityplot.Rd |only man/panel_tile.Rd | 22 - man/plot.metaplot_gtable.Rd |only man/print.metaplot_gtable.Rd |only man/scatter.Rd | 6 man/scatter.data.frame.Rd | 12 man/scatter_data_frame.Rd | 173 +++++++- man/scatter_panel.Rd | 93 +++- man/scatter_panel_ref.Rd | 8 man/test_metaplot.Rd |only man/tiles.Rd |only man/tilestats.Rd | 3 man/unpack.Rd | 3 man/unpack.data.frame.Rd | 2 63 files changed, 3876 insertions(+), 842 deletions(-)
Title: Dynamic Modeling and Parameter Estimation in ODE Models
Description: The framework provides functions to generate ODEs of reaction
networks, parameter transformations, observation functions, residual functions,
etc. The framework follows the paradigm that derivative information should be
used for optimization whenever possible. Therefore, all major functions produce
and can handle expressions for symbolic derivatives.
Author: Daniel Kaschek
Maintainer: Daniel Kaschek <daniel.kaschek@gmail.com>
Diff between dMod versions 0.4 dated 2017-09-08 and 0.4.2 dated 2018-08-09
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dMod-0.4/dMod/man/runbg.Rd |only dMod-0.4/dMod/man/runbgInstall.Rd |only dMod-0.4/dMod/man/runbg_bwfor.Rd |only dMod-0.4/dMod/man/steadyStates.Rd |only dMod-0.4/dMod/vignettes/topology.csv |only 181 files changed, 3861 insertions(+), 2017 deletions(-)
Title: Tools for Parsing and Generating XML Within R and S-Plus
Description: Many approaches for both reading and
creating XML (and HTML) documents (including DTDs), both local
and accessible via HTTP or FTP. Also offers access to an
'XPath' "interpreter".
Author: Duncan Temple Lang and the CRAN Team
Maintainer: ORPHANED
Diff between XML versions 3.98-1.13 dated 2018-08-01 and 3.98-1.14 dated 2018-08-09
DESCRIPTION | 6 ++--- MD5 | 30 +++++++++++++------------- inst/scripts/RSXML.bsh.in | 2 - inst/scripts/RSXML.csh.in | 2 - src/DocParse.c | 12 ++++++---- src/EventParse.c | 8 +++---- src/RSDTD.c | 14 ++++++------ src/RUtils.c | 14 ++++++------ src/Utils.h | 3 +- src/XMLEventParse.c | 14 +++++++----- src/XMLHashTree.c | 8 +++---- src/XMLTree.c | 52 +++++++++++++++++++++++----------------------- src/fixNS.c | 4 +-- src/schema.c | 4 +-- src/xmlsecurity.c | 1 src/xpath.c | 2 - 16 files changed, 91 insertions(+), 85 deletions(-)
Title: Clinical Trial Designs in 'RStan'
Description: A showcase of Bayesian clinical trial designs, implemented in
'RStan' and R. Some designs are implemented in R for the first
time (e.g. 'EffTox' by Thall and Cook, 2004,
<https://biostatistics.mdanderson.org/softwaredownload/SingleSoftware.aspx?Software_Id=2>).
Given the emphasis on flexibility in Bayesian analysis,
the implementations in a common language and style may serve as a cookbook
to encourage the use of Bayesian methods in trials. Compiled 'RStan' models
are provided in addition to helper classes and functions to perform
simulations and inference on observed trial outcomes.
There is a preponderance of early phase trial designs because this is where
Bayesian methods are used most. If there is a published Bayesian design you
want implemented in 'Stan', get in touch.
Author: Kristian Brock [aut, cre],
Trustees of Columbia University [cph]
Maintainer: Kristian Brock <kristian.brock@gmail.com>
Diff between trialr versions 0.0.2 dated 2018-08-08 and 0.0.3 dated 2018-08-09
DESCRIPTION | 8 - MD5 | 48 +++++----- NEWS.md | 6 + build/partial.rdb |binary exec/BebopInPeps2.stan | 9 + exec/EffTox.stan | 7 - inst/doc/BEBOP.html | 4 inst/doc/CRM-visualisation.Rmd | 2 inst/doc/CRM-visualisation.html | 8 - inst/doc/CRM.Rmd | 2 inst/doc/CRM.html | 8 - inst/doc/EffTox.R | 7 + inst/doc/EffTox.html | 6 - inst/doc/HierarchicalBayesianResponse.html | 44 +++------ inst/doc/trialr-overview.Rmd | 2 inst/doc/trialr-overview.html | 6 - man/figures/README-unnamed-chunk-11-1.png |binary man/figures/README-unnamed-chunk-14-1.png |binary man/figures/README-unnamed-chunk-6-1.png |binary src/include/models.hpp | 44 ++++----- vignettes/CRM-visualisation.Rmd | 2 vignettes/CRM.Rmd | 2 vignettes/EffTox_cache/html/run_sims_f82b60090eba4ebe42c302621d520c5f.RData |binary vignettes/library.bib | 11 +- vignettes/trialr-overview.Rmd | 2 25 files changed, 117 insertions(+), 111 deletions(-)
Title: Scale Functions for Visualization
Description: Graphical scales map data to aesthetics, and provide
methods for automatically determining breaks and labels
for axes and legends.
Author: Hadley Wickham [aut, cre],
RStudio [cph]
Maintainer: Hadley Wickham <hadley@rstudio.com>
Diff between scales versions 0.5.0 dated 2017-08-24 and 1.0.0 dated 2018-08-09
scales-0.5.0/scales/man/comma_format.Rd |only scales-0.5.0/scales/man/percent_format.Rd |only scales-0.5.0/scales/man/unit_format.Rd |only scales-1.0.0/scales/DESCRIPTION | 25 scales-1.0.0/scales/MD5 | 173 +-- scales-1.0.0/scales/NAMESPACE | 18 scales-1.0.0/scales/NEWS.md | 149 ++- scales-1.0.0/scales/R/bounds.r | 46 scales-1.0.0/scales/R/breaks.r | 98 +- scales-1.0.0/scales/R/colour-manip.r | 23 scales-1.0.0/scales/R/colour-mapping.r | 160 +-- scales-1.0.0/scales/R/date-time.r | 8 scales-1.0.0/scales/R/formatter.r | 741 +++++++++++++--- scales-1.0.0/scales/R/full-seq.r | 12 scales-1.0.0/scales/R/pal-area.r | 6 scales-1.0.0/scales/R/pal-brewer.r | 35 scales-1.0.0/scales/R/pal-dichromat.r | 10 scales-1.0.0/scales/R/pal-gradient.r | 12 scales-1.0.0/scales/R/pal-grey.r | 7 scales-1.0.0/scales/R/pal-hue.r | 10 scales-1.0.0/scales/R/pal-identity.r | 2 scales-1.0.0/scales/R/pal-linetype.r | 11 scales-1.0.0/scales/R/pal-manual.r | 5 scales-1.0.0/scales/R/pal-rescale.r | 1 scales-1.0.0/scales/R/pal-shape.r | 11 scales-1.0.0/scales/R/pal-viridis.r | 5 scales-1.0.0/scales/R/range.r | 6 scales-1.0.0/scales/R/round-any.r |only scales-1.0.0/scales/R/scale-continuous.r | 3 scales-1.0.0/scales/R/scale-discrete.r | 8 scales-1.0.0/scales/R/scales.r | 1 scales-1.0.0/scales/R/trans-date.r | 29 scales-1.0.0/scales/R/trans-numeric.r | 124 ++ scales-1.0.0/scales/R/trans.r | 10 scales-1.0.0/scales/R/utils.r |only scales-1.0.0/scales/README.md | 206 +++- scales-1.0.0/scales/build/partial.rdb |binary scales-1.0.0/scales/man/abs_area.Rd | 2 scales-1.0.0/scales/man/boxcox_trans.Rd | 39 scales-1.0.0/scales/man/brewer_pal.Rd | 10 scales-1.0.0/scales/man/cbreaks.Rd | 3 scales-1.0.0/scales/man/col_numeric.Rd | 64 - scales-1.0.0/scales/man/colour_ramp.Rd | 37 scales-1.0.0/scales/man/cscale.Rd | 12 scales-1.0.0/scales/man/date_breaks.Rd | 2 scales-1.0.0/scales/man/date_format.Rd | 28 scales-1.0.0/scales/man/div_gradient_pal.Rd | 6 scales-1.0.0/scales/man/dollar_format.Rd | 45 scales-1.0.0/scales/man/expand_range.Rd | 2 scales-1.0.0/scales/man/extended_breaks.Rd | 6 scales-1.0.0/scales/man/figures |only scales-1.0.0/scales/man/format_format.Rd | 8 scales-1.0.0/scales/man/fullseq.Rd | 2 scales-1.0.0/scales/man/gradient_n_pal.Rd | 6 scales-1.0.0/scales/man/grey_pal.Rd | 6 scales-1.0.0/scales/man/log_breaks.Rd | 3 scales-1.0.0/scales/man/math_format.Rd | 4 scales-1.0.0/scales/man/number_bytes_format.Rd |only scales-1.0.0/scales/man/number_format.Rd |only scales-1.0.0/scales/man/ordinal_format.Rd | 48 - scales-1.0.0/scales/man/parse_format.Rd | 4 scales-1.0.0/scales/man/pretty_breaks.Rd | 6 scales-1.0.0/scales/man/pseudo_log_trans.Rd |only scales-1.0.0/scales/man/pvalue_format.Rd |only scales-1.0.0/scales/man/regular_minor_breaks.Rd | 4 scales-1.0.0/scales/man/rescale.Rd | 18 scales-1.0.0/scales/man/rescale_mid.Rd | 16 scales-1.0.0/scales/man/rescale_none.Rd | 4 scales-1.0.0/scales/man/scientific_format.Rd | 29 scales-1.0.0/scales/man/seq_gradient_pal.Rd | 4 scales-1.0.0/scales/man/show_col.Rd | 6 scales-1.0.0/scales/man/squish.Rd | 2 scales-1.0.0/scales/man/trans_format.Rd | 2 scales-1.0.0/scales/man/trans_new.Rd | 2 scales-1.0.0/scales/man/trans_range.Rd | 2 scales-1.0.0/scales/man/viridis_pal.Rd | 2 scales-1.0.0/scales/man/wrap_format.Rd | 2 scales-1.0.0/scales/src/colors.cpp | 8 scales-1.0.0/scales/tests/testthat/test-alpha.r | 9 scales-1.0.0/scales/tests/testthat/test-bounds.r | 43 scales-1.0.0/scales/tests/testthat/test-breaks-log.r | 62 + scales-1.0.0/scales/tests/testthat/test-breaks.r |only scales-1.0.0/scales/tests/testthat/test-colors.r | 12 scales-1.0.0/scales/tests/testthat/test-colour-ramp.R | 28 scales-1.0.0/scales/tests/testthat/test-formatter.r | 237 ++++- scales-1.0.0/scales/tests/testthat/test-pal-hue.r |only scales-1.0.0/scales/tests/testthat/test-range.r | 1 scales-1.0.0/scales/tests/testthat/test-round-any.R |only scales-1.0.0/scales/tests/testthat/test-scale.r | 7 scales-1.0.0/scales/tests/testthat/test-trans-date.r | 32 scales-1.0.0/scales/tests/testthat/test-trans-numeric.r |only scales-1.0.0/scales/tests/testthat/test-trans.r | 4 scales-1.0.0/scales/tests/testthat/test-zero-range.r | 34 93 files changed, 2109 insertions(+), 759 deletions(-)
Title: High Density Genetic Linkage Mapping using Multidimensional
Scaling
Description: Estimate genetic linkage maps for markers on a single chromosome (or in a single linkage group) from pairwise recombination fractions or intermarker distances using weighted metric multidimensional scaling. The methods are suitable for autotetraploid as well as diploid populations. Options for assessing the fit to a known map are also provided. Methods are discussed in detail in Preedy and Hackett (2016) <doi:10.1007/s00122-016-2761-8>.
Author: Katharine F. Preedy <Katharine.preedy@bioss.ac.uk>, Christine A. Hackett <christine.hackett@bioss.ac.uk>
Maintainer: Bram Boskamp <bram.boskamp@bioss.ac.uk>
Diff between MDSMap versions 1.0 dated 2017-11-29 and 1.1 dated 2018-08-09
DESCRIPTION | 14 +++++++------- MD5 | 14 +++++++------- R/mds.R | 22 +++++++++++----------- build/vignette.rds |binary inst/doc/MDSMap.pdf |binary man/calc.maps.pc.Rd | 8 ++++---- man/estimate.map.Rd | 6 +++--- man/plot.pcmap.Rd | 4 ++-- 8 files changed, 34 insertions(+), 34 deletions(-)
Title: Colors Palettes for R and 'ggplot2', Additional Themes for
'ggplot2'
Description: Contains a selection of color palettes and 'ggplot2' themes designed by the package author.
Author: Jared Huling [aut, cre]
Maintainer: Jared Huling <jaredhuling@gmail.com>
Diff between jcolors versions 0.0.2 dated 2018-03-05 and 0.0.3 dated 2018-08-09
DESCRIPTION | 12 MD5 | 20 - R/ggplot2_themes.R | 55 ++- build/vignette.rds |binary inst/doc/using_the_jcolors_package.html | 492 +++++++++----------------------- man/display_jcolors.Rd | 4 man/display_jcolors_contin.Rd | 4 man/jcolors.Rd | 4 man/jcolors_contin.Rd | 4 man/scale_jcolors.Rd | 17 - man/theme_jcolors.Rd | 10 11 files changed, 226 insertions(+), 396 deletions(-)
Title: Visualization using Graph Traversal
Description: Improving graphics by ameliorating order effects, using Eulerian tours and Hamiltonian decompositions of graphs.
Author: C.B. Hurley and R.W. Oldford
Maintainer: Catherine Hurley <catherine.hurley@mu.ie>
Diff between PairViz versions 1.3.1 dated 2018-07-24 and 1.3.2 dated 2018-08-09
DESCRIPTION | 12 +++++++----- MD5 | 14 +++++++++----- build/vignette.rds |binary inst/doc/MultipleComparisons.html | 4 ++-- inst/doc/PairVizIntroduction.html | 6 +++--- inst/doc/pcp.R |only inst/doc/pcp.Rmd |only inst/doc/pcp.html |only man/order_best.Rd | 4 ++-- vignettes/pcp.Rmd |only 10 files changed, 23 insertions(+), 17 deletions(-)
Title: Read Human Mortality Database and Human Fertility Database Data
from the Web
Description: Utilities for reading data from the Human Mortality Database (<https://www.mortality.org>), Human Fertility Database (<https://www.humanfertility.org>), and similar databases from the web or locally into an R session as data.frame objects. These are the two most widely used sources of demographic data to study basic demographic change, trends, and develop new demographic methods. Other supported databases at this time include the Human Fertility Collection (<http://www.fertilitydata.org/>), The Japanese Mortality Database (<http://www.ipss.go.jp/p-toukei/JMD>), and the Canadian Human Mortality Database (<http://www.bdlc.umontreal.ca/chmd/>). Arguments and data are standardized.
Author: Tim Riffe [aut, cre],
Carl Boe [aut],
Jason Hilton [aut],
Josh Goldstein [ctb],
Stephen Holzman [ctb]
Maintainer: Tim Riffe <tim.riffe@gmail.com>
Diff between HMDHFDplus versions 1.1.8 dated 2015-09-20 and 1.9.1 dated 2018-08-09
DESCRIPTION | 32 +++++++--- MD5 | 52 +++++++++-------- NAMESPACE | 9 ++- R/HFDutils.R | 98 ++++++++++++++++++++++++--------- R/HMDutils.R | 35 +++++++++++ R/readHFD.R | 66 +++++++--------------- R/readHMD.R | 138 +++++++++++++++++------------------------------ man/HFCparse.Rd | 5 - man/HFDparse.Rd | 5 - man/HMDparse.Rd | 5 - man/age2int.Rd | 5 - man/extract_HFD_items.Rd |only man/getCHMDprovinces.Rd | 4 - man/getHFCcountries.Rd | 3 - man/getHFDcountries.Rd | 3 - man/getHFDdate.Rd | 3 - man/getHFDitemavail.Rd | 5 - man/getHMDcountries.Rd | 3 - man/getHMDitemavail.Rd |only man/getJMDprefectures.Rd | 4 - man/readCHMDweb.Rd | 10 +-- man/readHFCweb.Rd | 6 +- man/readHFD.Rd | 5 - man/readHFDweb.Rd | 22 +++---- man/readHMD.Rd | 5 - man/readHMDweb.Rd | 16 ++--- man/readJMDweb.Rd | 10 +-- man/userInput.Rd | 4 - 28 files changed, 283 insertions(+), 270 deletions(-)
Title: High-Dimensional Screening for Semiparametric Longitudinal
Regression
Description: Implements variable screening techniques for ultra-high
dimensional regression settings. Techniques for independent (iid) data,
varying-coefficient models, and longitudinal data are implemented. The package
currently contains three screen functions: screenIID(), screenLD() and screenVCM(),
and six methods for simulating dataset: simulateDCSIS(), simulateLD, simulateMVSIS(),
simulateMVSISNY(), simulateSIRS() and simulateVCM(). The package is based on the work of
Li-Ping ZHU, Lexin LI, Runze LI, and Li-Xing ZHU (2011) <DOI:10.1198/jasa.2011.tm10563>,
Runze LI, Wei ZHONG, & Liping ZHU (2012) <DOI:10.1080/01621459.2012.695654>,
Jingyuan LIU, Runze LI, & Rongling WU (2014) <DOI:10.1080/01621459.2013.850086>
Hengjian CUI, Runze LI, & Wei ZHONG (2015) <DOI:10.1080/01621459.2014.920256>, and
Wanghuan CHU, Runze LI and Matthew REIMHERR (2016) <DOI:10.1214/16-AOAS912>.
Special thanks are due to Ling Zhang for providing detailed testing and proposing
a method for speed improvement on the simulation of data with AR-1 structure.
Author: Runze Li [aut],
Liying Huang [aut, cre],
John Dziak [aut]
Maintainer: Liying Huang <lxh37@PSU.EDU>
Diff between VariableScreening versions 0.1.1 dated 2016-07-28 and 0.2.0 dated 2018-08-09
VariableScreening-0.1.1/VariableScreening/R/screenlong.R |only VariableScreening-0.1.1/VariableScreening/man/screenlong.Rd |only VariableScreening-0.2.0/VariableScreening/DESCRIPTION | 30 +++--- VariableScreening-0.2.0/VariableScreening/MD5 | 26 ++++- VariableScreening-0.2.0/VariableScreening/NAMESPACE | 13 ++ VariableScreening-0.2.0/VariableScreening/R/screenIID.R |only VariableScreening-0.2.0/VariableScreening/R/screenLD.R |only VariableScreening-0.2.0/VariableScreening/R/screenVCM.R |only VariableScreening-0.2.0/VariableScreening/R/simulateDCSIS.r |only VariableScreening-0.2.0/VariableScreening/R/simulateLD.R | 44 +++++----- VariableScreening-0.2.0/VariableScreening/R/simulateMVSIS.R |only VariableScreening-0.2.0/VariableScreening/R/simulateMVSISNY.R |only VariableScreening-0.2.0/VariableScreening/R/simulateSIRS.r |only VariableScreening-0.2.0/VariableScreening/R/simulateVCM.R |only VariableScreening-0.2.0/VariableScreening/man/screenIID.Rd |only VariableScreening-0.2.0/VariableScreening/man/screenLD.Rd |only VariableScreening-0.2.0/VariableScreening/man/screenVCM.Rd |only VariableScreening-0.2.0/VariableScreening/man/simulateDCSIS.Rd |only VariableScreening-0.2.0/VariableScreening/man/simulateLD.Rd | 35 ++++--- VariableScreening-0.2.0/VariableScreening/man/simulateMVSIS.Rd |only VariableScreening-0.2.0/VariableScreening/man/simulateMVSISNY.Rd |only VariableScreening-0.2.0/VariableScreening/man/simulateSIRS.Rd |only VariableScreening-0.2.0/VariableScreening/man/simulateVCM.Rd |only 23 files changed, 93 insertions(+), 55 deletions(-)
More information about VariableScreening at CRAN
Permanent link
Title: The Integration Between 'IBM COGNOS TM1' and R
Description: Useful functions to connect to 'TM1' <https://www.ibm.com/uk-en/marketplace/planning-and-analytics> instance from R via REST API. With the functions in the package, data can be imported from 'TM1' via mdx view or native view, data can be sent to 'TM1', processes and chores can be executed, and cube and dimension metadata information can be taken.
Author: Muhammed Ali Onder
Maintainer: Muhammed Ali Onder <muhammedalionder@gmail.com>
Diff between tm1r versions 1.0.0 dated 2018-07-31 and 1.0.1 dated 2018-08-09
DESCRIPTION | 7 ++++--- MD5 | 28 ++++++++++++++-------------- R/tm1_connection.R | 8 ++++---- R/tm1_get_config.R | 4 +++- R/tm1_get_cube_dimensions.R | 5 ++++- R/tm1_get_data.R | 4 +++- R/tm1_get_dimension_elements.R | 4 +++- R/tm1_get_log.R | 4 +++- R/tm1_get_mdx_view.R | 4 +++- R/tm1_get_native_view.R | 4 +++- R/tm1_logout.R | 4 +++- R/tm1_run_chore.R | 4 +++- R/tm1_run_process.R | 4 +++- R/tm1_send_data.R | 4 +++- man/tm1_connection.Rd | 4 ++-- 15 files changed, 58 insertions(+), 34 deletions(-)
Title: Spatio-Temporal Uncertainty Propagation Across Multiple Scales
Description: Integrated environmental modelling requires coupling sub-models at
different spatial and temporal scales, thus accounting for change of support
procedures (aggregation and disaggregation). We contribute to state-of-the-art
open source tools that support uncertainty propagation analysis in temporal and
spatio-temporal domains. We implement the tool for uncertainty propagation in
environmental modelling, with examples in the urban water domain.
The functionalities of the class setup and the methods and functions MC.setup,
MC.sim, MC.analysis and Agg.t are contained, which are used for setting up,
running and analysing Monte Carlo uncertainty propagation simulations, and for
spatio-temporal aggregation. We also implement functionalities to model and predict
variables that vary in space and time. stUPscales takes uncertainty characterisation
and propagation a step further by including temporal and spatio-temporal auto- and
cross-correlation, resulting in more realistic (spatio-)temporal series of environmental
variables. Due to its modularity, the package allows the implementation of additional
methods and functions for spatio-temporal disaggregation of model inputs and outputs,
when linking models across multiple space-time scales.
Author: J.A. Torres-Matallana [aut, cre]
U. Leopold [ctb]
G.B.M. Heuvelink [ctb]
Maintainer: J.A. Torres-Matallana <arturo.torres@list.lu>
Diff between stUPscales versions 1.0.3.2 dated 2018-07-10 and 1.0.3.3 dated 2018-08-09
DESCRIPTION | 29 ++++++++++++++++++++--------- MD5 | 4 ++-- man/stUPscales-package.Rd | 11 +++-------- 3 files changed, 25 insertions(+), 19 deletions(-)
Title: Flexible Tools for Multiple Imputation
Description: Provides a set of tools that can be used across 'data.frame' and
'imputationList' objects.
Author: James Conigrave
Maintainer: James Conigrave <james.conigrave@gmail.com>
Diff between Conigrave versions 0.4.0 dated 2018-08-03 and 0.4.1 dated 2018-08-09
DESCRIPTION | 10 +- MD5 | 12 +- NAMESPACE | 2 R/check_names.R | 7 - R/correlatrix.R | 265 ++++++++++++++++++++++++++++++++++++----------------- man/check_names.Rd | 6 - man/correlatrix.Rd | 4 7 files changed, 206 insertions(+), 100 deletions(-)
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2018-04-23 0.2.6
2018-01-07 0.2.5
2017-11-30 0.2.4
2017-08-14 0.2.2
2017-07-10 0.2.1
2017-07-03 0.1.3
2017-04-27 0.1.2
2017-04-17 0.1.1
2017-04-13 0.1
Title: Computing Log-Transformed Kernel Density Estimates for Positive
Data
Description: Computes log-transformed kernel density estimates for positive data using a variety of kernels. It follows the methods described in Jones, Nguyen and McLachlan (2018) <doi:10.21105/joss.00870>.
Author: Hien D. Nguyen, Andrew T. Jones, and Geoffrey J. McLachlan
Maintainer: Andrew Thomas Jones <andrewthomasjones@gmail.com>
Diff between logKDE versions 0.3.1 dated 2018-07-24 and 0.3.2 dated 2018-08-09
DESCRIPTION | 13 ++++------ MD5 | 25 ++++++++++++-------- NEWS.md | 7 +++++ R/logKDE.R | 20 +++++++++++++++- README.md | 46 +++++++++++++++++++++++++++++++------- inst/doc/logKDE.pdf |binary man/bw.logCV.Rd | 5 ++++ man/bw.logG.Rd | 5 ++++ man/figures/README-example4-1.png |binary man/logdensity.Rd | 5 ++++ man/logdensity_fft.Rd | 7 +++++ tests |only 12 files changed, 107 insertions(+), 26 deletions(-)
Title: Relative Survival
Description: Contains functions for analysing relative survival data, including nonparametric estimators of net (marginal relative) survival, relative survival ratio, crude mortality, methods for fitting and checking additive and multiplicative regression models, transformation approach, methods for dealing with population mortality tables.
Author: Maja Pohar Perme [aut, cre],
Klemen Pavlic [ctb]
Maintainer: Maja Pohar Perme <maja.pohar@mf.uni-lj.si>
Diff between relsurv versions 2.1-2 dated 2018-04-05 and 2.2 dated 2018-08-09
relsurv-2.1-2/relsurv/R/slopop1930_2014.r |only relsurv-2.2/relsurv/DESCRIPTION | 12 relsurv-2.2/relsurv/MD5 | 58 ++-- relsurv-2.2/relsurv/NAMESPACE | 2 relsurv-2.2/relsurv/R/Rcode.r | 83 +++-- relsurv-2.2/relsurv/R/cmprel.r | 9 relsurv-2.2/relsurv/R/rformulate.r | 416 ++++++++++++++--------------- relsurv-2.2/relsurv/R/rsdiff.r | 9 relsurv-2.2/relsurv/R/survfitrsadd.r | 30 +- relsurv-2.2/relsurv/data/colrec.rda |binary relsurv-2.2/relsurv/data/rdata.rda |binary relsurv-2.2/relsurv/data/slopop.rda |binary relsurv-2.2/relsurv/inst/citation.txt | 23 + relsurv-2.2/relsurv/inst/news.Rd |only relsurv-2.2/relsurv/man/cmprel.Rd | 33 +- relsurv-2.2/relsurv/man/epa.Rd | 4 relsurv-2.2/relsurv/man/invtime.Rd | 2 relsurv-2.2/relsurv/man/nessie.Rd | 9 relsurv-2.2/relsurv/man/plotcmprel.Rd | 7 relsurv-2.2/relsurv/man/plotrszph.Rd | 4 relsurv-2.2/relsurv/man/resid.Rd | 2 relsurv-2.2/relsurv/man/rsadd.Rd | 34 +- relsurv-2.2/relsurv/man/rsbr.Rd | 4 relsurv-2.2/relsurv/man/rsdiff.Rd | 23 - relsurv-2.2/relsurv/man/rsmul.Rd | 31 -- relsurv-2.2/relsurv/man/rssurv.Rd | 24 - relsurv-2.2/relsurv/man/rssurvrsadd.Rd | 2 relsurv-2.2/relsurv/man/rstrans.Rd | 29 -- relsurv-2.2/relsurv/man/rszph.Rd | 4 relsurv-2.2/relsurv/man/summary.cmp.rel.Rd | 8 relsurv-2.2/relsurv/man/survfitrsadd.rd | 6 31 files changed, 456 insertions(+), 412 deletions(-)
Title: Semi-Confirmatory Structural Equation Modeling via Penalized
Likelihood
Description: Fits semi-confirmatory structural equation modeling (SEM) via penalized likelihood (PL) with LASSO or minimax concave penalty (MCP).
Author: Po-Hsien Huang [cre, aut],
Wen-Hsin Hu [aut]
Maintainer: Po-Hsien Huang <psyphh@gmail.com>
Diff between lslx versions 0.6.2 dated 2018-03-05 and 0.6.3 dated 2018-08-09
DESCRIPTION | 18 MD5 | 96 +-- NAMESPACE | 8 R/RcppExports.R | 12 R/lslx-extract-method.R | 770 ++++++++++++++++++++++------- R/lslx-fit-method.R | 224 +++++++- R/lslx-initialize-method.R | 302 +---------- R/lslx-plot-method.R | 378 ++++++++++---- R/lslx-print-method.R | 14 R/lslx-s3-interface.R |only R/lslx-set-block-method.R | 12 R/lslx-set-coefficient-method.R | 352 +++++++------ R/lslx-set-data-method.R |only R/lslx-set-directed-method.R | 2 R/lslx-set-heterogeneity-method.R | 2 R/lslx-set-undirected-method.R | 2 R/lslx-summarize-method.R | 597 ++++++++++++---------- R/lslx-test-method.R | 216 ++++++-- R/lslx-validate-method.R |only R/lslx.R | 572 ++++++++++++--------- R/lslxData.R | 245 +++++++++ R/lslxFitting.R | 318 +++++++++-- R/lslxModel.R | 159 +++-- R/polyhedral.R |only build/vignette.rds |binary inst/doc/factor-analysis.R | 67 +- inst/doc/factor-analysis.Rmd | 109 ++-- inst/doc/factor-analysis.html | 532 +++++++++++--------- inst/doc/missing-data-analysis.R | 42 - inst/doc/missing-data-analysis.Rmd | 84 +-- inst/doc/missing-data-analysis.html | 268 ++++------ inst/doc/multi-group-analysis.R | 28 - inst/doc/multi-group-analysis.Rmd | 60 -- inst/doc/multi-group-analysis.html | 274 ++++------ inst/doc/regression-analysis.R | 28 - inst/doc/regression-analysis.Rmd | 68 +- inst/doc/regression-analysis.html | 320 ++++-------- inst/doc/structural-equation-modeling.R | 36 - inst/doc/structural-equation-modeling.Rmd | 66 +- inst/doc/structural-equation-modeling.html | 305 ++++------- man/coef.lslx.Rd |only man/fitted.lslx.Rd |only man/lslx.Rd | 660 ++++++++++++++---------- man/plsem.Rd |only man/residuals.lslx.Rd |only man/summary.lslx.Rd |only man/vcov.lslx.Rd |only src/RcppExports.cpp | 30 - src/lslxOptimizer.cpp | 268 +++++----- vignettes/factor-analysis.Rmd | 109 ++-- vignettes/missing-data-analysis.Rmd | 84 +-- vignettes/multi-group-analysis.Rmd | 60 -- vignettes/regression-analysis.Rmd | 68 +- vignettes/structural-equation-modeling.Rmd | 66 +- 54 files changed, 4670 insertions(+), 3261 deletions(-)
Title: Functions to Automate Downloading Geospatial Data Available from
Several Federated Data Sources
Description: Functions to automate downloading geospatial data available from
several federated data sources (mainly sources maintained by the US Federal
government). Currently, the package enables extraction from seven datasets:
The National Elevation Dataset digital elevation models (1 and 1/3 arc-second;
USGS); The National Hydrography Dataset (USGS); The Soil Survey Geographic
(SSURGO) database from the National Cooperative Soil Survey (NCSS), which is
led by the Natural Resources Conservation Service (NRCS) under the USDA; the
Global Historical Climatology Network (GHCN), coordinated by National Climatic
Data Center at NOAA; the Daymet gridded estimates of daily weather parameters
for North America, version 3, available from the Oak Ridge National Laboratory's
Distributed Active Archive Center (DAAC); the International Tree Ring Data Bank;
and the National Land Cover Database (NLCD).
Author: R. Kyle Bocinsky [aut, cre],
Dylan Beaudette [ctb],
Scott Chamberlain [ctb]
Maintainer: R. Kyle Bocinsky <bocinsky@gmail.com>
Diff between FedData versions 2.5.4 dated 2018-07-05 and 2.5.5 dated 2018-08-09
DESCRIPTION | 10 +++++----- LICENSE | 2 +- MD5 | 22 +++++++++++----------- NEWS.md | 7 +++++++ R/NLCD_FUNCTIONS.R | 14 +++++++++++--- man/download_nlcd_tile.Rd | 3 ++- man/get_daymet.Rd | 4 ++-- man/get_daymet_tile.Rd | 3 ++- man/get_itrdb.Rd | 4 ++-- man/get_ned_tile.Rd | 3 ++- man/get_nlcd.Rd | 4 ++-- tests/testthat/test.NLCD.R | 14 ++++++++++++++ 12 files changed, 61 insertions(+), 29 deletions(-)