Title: Polyhedra Database
Description: A polyhedra database scraped from various sources as R6 objects and 'rgl' visualizing capabilities.
Author: Alejandro Baranek [aut, com, cre, cph],
Leonardo Belen [aut, com, cph]
Maintainer: Alejandro Baranek <abaranek@dc.uba.ar>
Diff between Rpolyhedra versions 0.1.0 dated 2017-11-02 and 0.2.1 dated 2018-03-13
Rpolyhedra-0.1.0/Rpolyhedra/man/PolyhedronStateScraper.class.Rd |only Rpolyhedra-0.1.0/Rpolyhedra/man/scrapePolyhedra.Rd |only Rpolyhedra-0.2.1/Rpolyhedra/DESCRIPTION | 13 Rpolyhedra-0.2.1/Rpolyhedra/MD5 | 829 +++++++ Rpolyhedra-0.2.1/Rpolyhedra/NAMESPACE | 4 Rpolyhedra-0.2.1/Rpolyhedra/R/db-lib.R |only Rpolyhedra-0.2.1/Rpolyhedra/R/ledger-lib.R |only Rpolyhedra-0.2.1/Rpolyhedra/R/polyhedra-lib.R | 1056 ++++++---- Rpolyhedra-0.2.1/Rpolyhedra/R/xml-lib.R |only Rpolyhedra-0.2.1/Rpolyhedra/R/zzz.R | 49 Rpolyhedra-0.2.1/Rpolyhedra/README.md | 23 Rpolyhedra-0.2.1/Rpolyhedra/build/vignette.rds |binary Rpolyhedra-0.2.1/Rpolyhedra/inst/doc/Rpolyhedra.Rmd | 39 Rpolyhedra-0.2.1/Rpolyhedra/inst/doc/Rpolyhedra.html | 144 - Rpolyhedra-0.2.1/Rpolyhedra/inst/extdata/dmccooey.com |only Rpolyhedra-0.2.1/Rpolyhedra/inst/extdata/polyhedra.RDS |binary Rpolyhedra-0.2.1/Rpolyhedra/inst/extdata/polyhedra.complexity.csv |only Rpolyhedra-0.2.1/Rpolyhedra/inst/extdata/polyhedron.xsd |only Rpolyhedra-0.2.1/Rpolyhedra/inst/extdata/retrieve_dmccooey_polyhedra.sh |only Rpolyhedra-0.2.1/Rpolyhedra/inst/extdata/retrieve_netlib_polyedra.sh | 4 Rpolyhedra-0.2.1/Rpolyhedra/man/Polyhedron.class.Rd | 33 Rpolyhedra-0.2.1/Rpolyhedra/man/PolyhedronDatabase.class.Rd |only Rpolyhedra-0.2.1/Rpolyhedra/man/PolyhedronScraperConfiguration.class.Rd |only Rpolyhedra-0.2.1/Rpolyhedra/man/PolyhedronScraperConfigurationDmccoey.class.Rd |only Rpolyhedra-0.2.1/Rpolyhedra/man/PolyhedronScraperConfigurationNetlib.class.Rd |only Rpolyhedra-0.2.1/Rpolyhedra/man/PolyhedronState.class.Rd |only Rpolyhedra-0.2.1/Rpolyhedra/man/PolyhedronStateDefined.class.Rd | 62 Rpolyhedra-0.2.1/Rpolyhedra/man/PolyhedronStateDmccoeyScraper.class.Rd |only Rpolyhedra-0.2.1/Rpolyhedra/man/PolyhedronStateNetlibScraper.class.Rd |only Rpolyhedra-0.2.1/Rpolyhedra/man/PolyhedronTestTask.class.Rd |only Rpolyhedra-0.2.1/Rpolyhedra/man/PolyhedronTestTaskEdgesConsistency.class.Rd |only Rpolyhedra-0.2.1/Rpolyhedra/man/PolyhedronTestTaskScrape.class.Rd |only Rpolyhedra-0.2.1/Rpolyhedra/man/Rpolyhedra.Rd | 11 Rpolyhedra-0.2.1/Rpolyhedra/man/ScraperLedger.class.Rd |only Rpolyhedra-0.2.1/Rpolyhedra/man/compatiblePolyhedraRDS.Rd |only Rpolyhedra-0.2.1/Rpolyhedra/man/convertDFToXML.Rd |only Rpolyhedra-0.2.1/Rpolyhedra/man/getAvailablePolyhedra.Rd | 24 Rpolyhedra-0.2.1/Rpolyhedra/man/getAvailableSources.Rd |only Rpolyhedra-0.2.1/Rpolyhedra/man/getDataDir.Rd | 7 Rpolyhedra-0.2.1/Rpolyhedra/man/getGitCommit.Rd |only Rpolyhedra-0.2.1/Rpolyhedra/man/getPolyhedraRDSPath.Rd | 13 Rpolyhedra-0.2.1/Rpolyhedra/man/getPolyhedron.Rd | 15 Rpolyhedra-0.2.1/Rpolyhedra/man/norm.Rd |only Rpolyhedra-0.2.1/Rpolyhedra/man/polyhedronToXML.Rd |only Rpolyhedra-0.2.1/Rpolyhedra/man/scrapePolyhedraSources.Rd |only Rpolyhedra-0.2.1/Rpolyhedra/man/validatePolyhedronXML.Rd |only Rpolyhedra-0.2.1/Rpolyhedra/tests/testthat.R | 1 Rpolyhedra-0.2.1/Rpolyhedra/tests/testthat/test_rpolyhedra_lib.R | 50 Rpolyhedra-0.2.1/Rpolyhedra/vignettes/Rpolyhedra.Rmd | 39 49 files changed, 1883 insertions(+), 533 deletions(-)
Title: Seamless R and C++ Integration
Description: The 'Rcpp' package provides R functions as well as C++ classes which
offer a seamless integration of R and C++. Many R data types and objects can be
mapped back and forth to C++ equivalents which facilitates both writing of new
code as well as easier integration of third-party libraries. Documentation
about 'Rcpp' is provided by several vignettes included in this package, via the
'Rcpp Gallery' site at <http://gallery.rcpp.org>, the paper by Eddelbuettel and
Francois (2011, <doi:10.18637/jss.v040.i08>), the book by Eddelbuettel (2013,
<doi:10.1007/978-1-4614-6868-4>) and the paper by Eddelbuettel and Balamuta (2017,
<doi:10.7287/peerj.preprints.3188v1>); see 'citation("Rcpp")' for details.
Author: Dirk Eddelbuettel, Romain Francois, JJ Allaire, Kevin Ushey, Qiang Kou,
Nathan Russell, Douglas Bates and John Chambers
Maintainer: Dirk Eddelbuettel <edd@debian.org>
Diff between Rcpp versions 0.12.15 dated 2018-01-20 and 0.12.16 dated 2018-03-13
ChangeLog | 63 +++++++ DESCRIPTION | 8 MD5 | 62 +++---- R/Attributes.R | 2 README.md | 27 ++- build/Rcpp.pdf |binary build/vignette.rds |binary cleanup | 1 inst/NEWS.Rd | 30 +++ inst/bib/Rcpp.bib | 28 +-- inst/doc/Rcpp-FAQ.Rmd | 18 +- inst/doc/Rcpp-FAQ.pdf |binary inst/doc/Rcpp-attributes.Rmd | 2 inst/doc/Rcpp-attributes.pdf |binary inst/doc/Rcpp-extending.pdf |binary inst/doc/Rcpp-introduction.pdf |binary inst/doc/Rcpp-jss-2011.pdf |binary inst/doc/Rcpp-modules.pdf |binary inst/doc/Rcpp-package.pdf |binary inst/doc/Rcpp-quickref.pdf |binary inst/doc/Rcpp-sugar.pdf |binary inst/doc/Rcpp-unitTests.pdf |binary inst/doc/Rcpp.bib | 28 +-- inst/include/Rcpp/Rmath.h | 3 inst/include/Rcpp/config.h | 4 inst/include/Rcpp/longlong.h | 36 ++-- inst/include/Rcpp/sugar/functions/complex.h | 243 +++++++++++++--------------- inst/include/Rcpp/sugar/undoRmath.h | 2 src/api.cpp | 13 - vignettes/Rcpp-FAQ.Rmd | 18 +- vignettes/Rcpp-attributes.Rmd | 2 vignettes/Rcpp.bib | 28 +-- 32 files changed, 377 insertions(+), 241 deletions(-)
Title: Cross-Platform File System Operations Based on 'libuv'
Description: A cross-platform interface to file system operations, built on
top of the 'libuv' C library.
Author: Jim Hester [aut, cre],
Hadley Wickham [aut],
libuv project contributors [cph] (libuv library),
Joyent, Inc. and other Node contributors [cph] (libuv library),
RStudio [cph, fnd]
Maintainer: Jim Hester <james.f.hester@gmail.com>
Diff between fs versions 1.1.0 dated 2018-01-26 and 1.2.0 dated 2018-03-13
fs-1.1.0/fs/man/path_home.Rd |only fs-1.2.0/fs/DESCRIPTION | 8 - fs-1.2.0/fs/MD5 | 102 ++++++++-------- fs-1.2.0/fs/NAMESPACE | 3 fs-1.2.0/fs/NEWS.md | 35 +++++ fs-1.2.0/fs/R/RcppExports.R | 8 - fs-1.2.0/fs/R/access.R | 9 - fs-1.2.0/fs/R/copy.R | 46 +++---- fs-1.2.0/fs/R/create.R | 44 +++---- fs-1.2.0/fs/R/delete.R | 49 ++++---- fs-1.2.0/fs/R/file.R | 78 +++++++----- fs-1.2.0/fs/R/fs-package.R |only fs-1.2.0/fs/R/fs_perms.R | 24 +++ fs-1.2.0/fs/R/is.R | 28 ++-- fs-1.2.0/fs/R/link.R | 8 - fs-1.2.0/fs/R/list.R | 37 +++--- fs-1.2.0/fs/R/path.R | 153 +++++++++++++++++-------- fs-1.2.0/fs/R/path_package.R |only fs-1.2.0/fs/R/temp.R | 20 ++- fs-1.2.0/fs/R/utils.R | 7 - fs-1.2.0/fs/README.md | 41 +++--- fs-1.2.0/fs/man/copy.Rd | 3 fs-1.2.0/fs/man/create.Rd | 19 +-- fs-1.2.0/fs/man/delete.Rd | 31 ++--- fs-1.2.0/fs/man/dir_ls.Rd | 12 + fs-1.2.0/fs/man/file_chmod.Rd | 29 +++- fs-1.2.0/fs/man/file_info.Rd | 2 fs-1.2.0/fs/man/file_move.Rd | 2 fs-1.2.0/fs/man/file_temp.Rd | 11 + fs-1.2.0/fs/man/fs-package.Rd |only fs-1.2.0/fs/man/is_file.Rd | 16 +- fs-1.2.0/fs/man/link_path.Rd | 4 fs-1.2.0/fs/man/path.Rd | 8 + fs-1.2.0/fs/man/path_expand.Rd |only fs-1.2.0/fs/man/path_filter.Rd | 5 fs-1.2.0/fs/man/path_math.Rd | 11 - fs-1.2.0/fs/man/path_package.Rd |only fs-1.2.0/fs/src/Makevars | 3 fs-1.2.0/fs/src/Makevars.win | 2 fs-1.2.0/fs/src/RcppExports.cpp | 25 +++- fs-1.2.0/fs/src/dir.cc | 48 ------- fs-1.2.0/fs/src/error.cc | 4 fs-1.2.0/fs/src/file.cc | 23 ++- fs-1.2.0/fs/src/libuv/src/unix/loop.c | 2 fs-1.2.0/fs/src/link.cc | 13 ++ fs-1.2.0/fs/src/path.cc | 97 +++++++++++++++ fs-1.2.0/fs/src/utils.cc |only fs-1.2.0/fs/src/utils.h | 8 + fs-1.2.0/fs/tests/testthat/test-create.R | 7 + fs-1.2.0/fs/tests/testthat/test-delete.R | 18 ++ fs-1.2.0/fs/tests/testthat/test-file.R | 19 ++- fs-1.2.0/fs/tests/testthat/test-is.R | 6 fs-1.2.0/fs/tests/testthat/test-link.R | 7 + fs-1.2.0/fs/tests/testthat/test-list.R | 3 fs-1.2.0/fs/tests/testthat/test-path.R | 105 ++++++++++++++++- fs-1.2.0/fs/tests/testthat/test-path_package.R |only 56 files changed, 846 insertions(+), 397 deletions(-)
Title: Common Plots for Analysis
Description: Select data analysis plots, under a standardized calling interface implemented on top of 'ggplot2' and 'plotly'.
Plots of interest include: 'ROC', gain curve, scatter plot with marginal distributions,
conditioned scatter plot with marginal densities,
box and stem with matching theoretical distribution, and density with matching theoretical distribution.
Author: John Mount [aut, cre],
Nina Zumel [aut],
Win-Vector LLC [cph]
Maintainer: John Mount <jmount@win-vector.com>
Diff between WVPlots versions 0.2.8 dated 2018-01-20 and 0.2.9 dated 2018-03-13
DESCRIPTION | 14 ++++---- MD5 | 18 ++++++---- NAMESPACE | 2 - NEWS.md | 7 +++- R/LogLogPlot.R |only R/WVPlots.R | 4 -- R/sharedFunctions.R | 11 ++++++ inst/doc/WVPlots_concept.html | 18 +++++----- inst/doc/WVPlots_examples.html | 68 ++++++++++++++++++++--------------------- man/LogLogPlot.Rd |only man/WVPlots.Rd | 3 - 11 files changed, 78 insertions(+), 67 deletions(-)
Title: A Time Series Toolbox for Official Statistics
Description: Plot official statistics' time series conveniently: automatic legends, highlight windows, stacked bar chars with positive and negative contributions, sum-as-line option, two y-axes with automatic horizontal grids that fit both axes and other popular chart types. 'tstools' comes with a plethora of defaults to let you plot without setting an abundance of parameters first, but gives you the flexibility to tweak the defaults. In addition to charts, 'tstools' provides a super fast, 'data.table' backed time series I/O that allows the user to export / import long format, wide format and transposed wide format data to various file types.
Author: Matthias Bannert [aut, cre],
Severin Thoeni [aut]
Maintainer: Matthias Bannert <bannert@kof.ethz.ch>
Diff between tstools versions 0.3.5.1 dated 2018-02-07 and 0.3.6 dated 2018-03-13
tstools-0.3.5.1/tstools/README.md |only tstools-0.3.6/tstools/DESCRIPTION | 12 - tstools-0.3.6/tstools/MD5 | 34 ++-- tstools-0.3.6/tstools/NAMESPACE | 5 tstools-0.3.6/tstools/NEWS | 2 tstools-0.3.6/tstools/R/CHGDP.R |only tstools-0.3.6/tstools/R/add_legend.R | 104 +++++++++++--- tstools-0.3.6/tstools/R/add_title.R |only tstools-0.3.6/tstools/R/color_blind.R |only tstools-0.3.6/tstools/R/import_helpers.R | 14 + tstools-0.3.6/tstools/R/set_month_to_NA.R |only tstools-0.3.6/tstools/R/themes.R | 30 ++-- tstools-0.3.6/tstools/R/tsplot.R | 170 +++++++++++------------- tstools-0.3.6/tstools/R/utils.R | 21 +- tstools-0.3.6/tstools/R/write_ts.R | 12 - tstools-0.3.6/tstools/data/CHGDP.rda |only tstools-0.3.6/tstools/inst/doc/tstools.html | 93 ++++++------- tstools-0.3.6/tstools/man/CHGDP.Rd |only tstools-0.3.6/tstools/man/color_blind.Rd |only tstools-0.3.6/tstools/man/init_tsplot_theme.Rd | 42 +++-- tstools-0.3.6/tstools/man/set_month_to_NA.Rd |only tstools-0.3.6/tstools/man/tsplot.Rd | 2 tstools-0.3.6/tstools/tests/testthat/faulty.csv |only 23 files changed, 318 insertions(+), 223 deletions(-)
Title: Improved Standard Evaluation Interfaces for Common Data
Manipulation Tasks
Description: The 'seplyr' (standard evaluation plying) package supplies improved
standard evaluation adapter methods for important common 'dplyr' data manipulation tasks.
In addition the 'seplyr' package supplies several new "key operations
bound together" methods. These include 'group_summarize()' (which
combines grouping, arranging and calculation in an atomic unit),
'add_group_summaries()' (which joins grouped summaries into a 'data.frame'
in a well documented manner), 'add_group_indices()' (which adds
per-group identifiers to a 'data.frame' without depending on row-order),
'partition_mutate_qt()' (which optimizes mutate sequences), and 'if_else_device()'
(which simulates per-row if-else blocks in expression sequences).
Author: John Mount [aut, cre],
Win-Vector LLC [cph]
Maintainer: John Mount <jmount@win-vector.com>
Diff between seplyr versions 0.5.4 dated 2018-02-22 and 0.5.5 dated 2018-03-13
seplyr-0.5.4/seplyr/inst/doc/factor_mutate.R |only seplyr-0.5.4/seplyr/inst/doc/factor_mutate.Rmd |only seplyr-0.5.4/seplyr/inst/doc/factor_mutate.html |only seplyr-0.5.4/seplyr/vignettes/factor_mutate.Rmd |only seplyr-0.5.5/seplyr/DESCRIPTION | 12 +-- seplyr-0.5.5/seplyr/MD5 | 24 ++---- seplyr-0.5.5/seplyr/NAMESPACE | 3 seplyr-0.5.5/seplyr/NEWS.md | 7 + seplyr-0.5.5/seplyr/R/package.R | 3 seplyr-0.5.5/seplyr/build/vignette.rds |binary seplyr-0.5.5/seplyr/inst/doc/MutatePartitioner.html | 4 - seplyr-0.5.5/seplyr/inst/doc/named_map_builder.html | 4 - seplyr-0.5.5/seplyr/inst/doc/rename_se.html | 4 - seplyr-0.5.5/seplyr/inst/doc/seplyr.html | 4 - seplyr-0.5.5/seplyr/inst/doc/using_seplyr.html | 72 ++++++++++---------- 15 files changed, 67 insertions(+), 70 deletions(-)
Title: Simulate a Bus Route Creel Survey of Anglers
Description: Simulate an angler population, sample the simulated population with a user-specified survey times, and calculate metrics from a bus route-type creel survey.
Author: Steven H. Ranney
Maintainer: Steven H. Ranney <steven.ranney@gmail.com>
Diff between AnglerCreelSurveySimulation versions 1.0.0 dated 2018-01-19 and 1.0.2 dated 2018-03-13
AnglerCreelSurveySimulation-1.0.0/AnglerCreelSurveySimulation/README.md |only AnglerCreelSurveySimulation-1.0.2/AnglerCreelSurveySimulation/DESCRIPTION | 8 +- AnglerCreelSurveySimulation-1.0.2/AnglerCreelSurveySimulation/MD5 | 19 +++-- AnglerCreelSurveySimulation-1.0.2/AnglerCreelSurveySimulation/R/calculate_rse.R | 12 ++- AnglerCreelSurveySimulation-1.0.2/AnglerCreelSurveySimulation/R/get_total_values.R | 7 +- AnglerCreelSurveySimulation-1.0.2/AnglerCreelSurveySimulation/R/simulate_bus_route.R | 9 +- AnglerCreelSurveySimulation-1.0.2/AnglerCreelSurveySimulation/build/vignette.rds |binary AnglerCreelSurveySimulation-1.0.2/AnglerCreelSurveySimulation/man/simulate_bus_route.Rd | 2 AnglerCreelSurveySimulation-1.0.2/AnglerCreelSurveySimulation/tests/testthat/test_calculate_rse.R |only AnglerCreelSurveySimulation-1.0.2/AnglerCreelSurveySimulation/tests/testthat/test_conduct_multiple_surveys.R |only AnglerCreelSurveySimulation-1.0.2/AnglerCreelSurveySimulation/tests/testthat/test_get_total_values.R |only AnglerCreelSurveySimulation-1.0.2/AnglerCreelSurveySimulation/tests/testthat/test_make_anglers.R | 32 +++++++++- AnglerCreelSurveySimulation-1.0.2/AnglerCreelSurveySimulation/tests/testthat/test_simulate_bus_route.R |only 13 files changed, 62 insertions(+), 27 deletions(-)
More information about AnglerCreelSurveySimulation at CRAN
Permanent link
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2018-03-13 1.3.8
Title: Analyze Healthcare Social Media Data from the 'Symplur' API
Description: Analyze data from the 'Healthcare Social Graph' via access to the 'Symplur' API.
The 'Healthcare Social Graph' contains billions of healthcare social media data points. Hundreds of published journal articles have leveraged data from the 'Healthcare Social Graph'.
About the 'Symplur' API: <https://api.symplur.com/v1/docs/>.
About 'Symplur' research: <https://www.symplur.com/healthcare-social-media-research/>.
Credit to Professor Larry Chu, MD at Stanford University School of Medicine for the idea of the 'SympluR' package.
Author: Audun Utengen
Maintainer: Audun Utengen <audun@symplur.com>
Diff between SympluR versions 0.1.0 dated 2018-02-22 and 0.2.0 dated 2018-03-13
SympluR-0.1.0/SympluR/R/symplurSummary.R |only SympluR-0.1.0/SympluR/man/symplurSummary.Rd |only SympluR-0.1.0/SympluR/man/symplurSummaryTable.Rd |only SympluR-0.2.0/SympluR/DESCRIPTION | 9 + SympluR-0.2.0/SympluR/MD5 | 24 +++-- SympluR-0.2.0/SympluR/NAMESPACE | 10 +- SympluR-0.2.0/SympluR/NEWS.md | 13 ++ SympluR-0.2.0/SympluR/R/symplurContentRetweets.R |only SympluR-0.2.0/SympluR/R/symplurContentWords.R |only SympluR-0.2.0/SympluR/R/symplurTweetsActivity.R |only SympluR-0.2.0/SympluR/R/symplurTweetsSummary.R |only SympluR-0.2.0/SympluR/README.md | 72 +++++++++++---- SympluR-0.2.0/SympluR/inst |only SympluR-0.2.0/SympluR/man/symplurContentRetweets.Rd |only SympluR-0.2.0/SympluR/man/symplurContentRetweetsTable.Rd |only SympluR-0.2.0/SympluR/man/symplurContentWords.Rd |only SympluR-0.2.0/SympluR/man/symplurContentWordsTable.Rd |only SympluR-0.2.0/SympluR/man/symplurTweetsActivity.Rd |only SympluR-0.2.0/SympluR/man/symplurTweetsActivityTable.Rd |only SympluR-0.2.0/SympluR/man/symplurTweetsSummary.Rd |only SympluR-0.2.0/SympluR/man/symplurTweetsSummaryTable.Rd |only 21 files changed, 97 insertions(+), 31 deletions(-)
Title: Estimate the Gene Expression Levels and Component Proportions of
the Normal, Stroma (Immune) and Tumor Components of Bulk Tumor
Samples
Description: Model cell type heterogeneity of bulk renal cell carcinoma. The observed gene expression in bulk tumor sample is modeled by a log-normal distribution with the location parameter structured as a linear combination of the component-specific gene expressions.
Author: Tao Wang
Maintainer: Tao Wang <tao.wang@utsouthwestern.edu>
Diff between DisHet versions 0.2.1 dated 2018-01-10 and 0.2.2 dated 2018-03-13
DESCRIPTION | 8 ++++---- MD5 | 8 ++++---- NEWS | 2 +- data/eTME_signatures.RData |binary man/eTME_signatures.Rd | 6 ++---- 5 files changed, 11 insertions(+), 13 deletions(-)
Title: Quantified Risk Assessment Toolkit
Description: An open source risk analysis toolkit based on the OpenFAIR taxonomy
<https://www2.opengroup.org/ogsys/catalog/C13K> and risk assessment standard
<https://www2.opengroup.org/ogsys/catalog/C13G>. Empowers an organization to
perform a quantifiable, repeatable, and data-driven risk review.
Author: David Severski [aut, cre]
Maintainer: David Severski <davidski@deadheaven.com>
Diff between evaluator versions 0.1.1 dated 2017-11-20 and 0.2.0 dated 2018-03-13
evaluator-0.1.1/evaluator/man/calculate_ale.Rd |only evaluator-0.1.1/evaluator/man/convert_qual_to_quant.Rd |only evaluator-0.1.1/evaluator/man/select_events.Rd |only evaluator-0.2.0/evaluator/DESCRIPTION | 25 evaluator-0.2.0/evaluator/MD5 | 161 +-- evaluator-0.2.0/evaluator/NAMESPACE | 77 + evaluator-0.2.0/evaluator/NEWS.md | 51 evaluator-0.2.0/evaluator/R/common_graphs.R | 117 +- evaluator-0.2.0/evaluator/R/data.R | 92 + evaluator-0.2.0/evaluator/R/encode.R | 128 +- evaluator-0.2.0/evaluator/R/evaluator.R | 2 evaluator-0.2.0/evaluator/R/import.R | 168 +-- evaluator-0.2.0/evaluator/R/load_data.R | 79 + evaluator-0.2.0/evaluator/R/openfair.R | 427 +++++--- evaluator-0.2.0/evaluator/R/report.R | 161 ++- evaluator-0.2.0/evaluator/R/simulate.R | 71 - evaluator-0.2.0/evaluator/R/summarize.R | 98 + evaluator-0.2.0/evaluator/R/utils.R | 137 +- evaluator-0.2.0/evaluator/R/validate.R | 114 +- evaluator-0.2.0/evaluator/R/zzz.R |only evaluator-0.2.0/evaluator/README.md | 161 --- evaluator-0.2.0/evaluator/build/vignette.rds |binary evaluator-0.2.0/evaluator/data/capabilities.rda |only evaluator-0.2.0/evaluator/data/datalist | 3 evaluator-0.2.0/evaluator/data/domain_summary.rda |binary evaluator-0.2.0/evaluator/data/domains.rda |binary evaluator-0.2.0/evaluator/data/mappings.rda |only evaluator-0.2.0/evaluator/data/qualitative_scenarios.rda |only evaluator-0.2.0/evaluator/data/quantitative_scenarios.rda |binary evaluator-0.2.0/evaluator/data/scenario_summary.rda |binary evaluator-0.2.0/evaluator/data/simulation_results.rda |binary evaluator-0.2.0/evaluator/inst/doc/customization.Rmd |only evaluator-0.2.0/evaluator/inst/doc/customization.html |only evaluator-0.2.0/evaluator/inst/doc/process.R |only evaluator-0.2.0/evaluator/inst/doc/process.Rmd |only evaluator-0.2.0/evaluator/inst/doc/process.html |only evaluator-0.2.0/evaluator/inst/doc/usage.R | 81 - evaluator-0.2.0/evaluator/inst/doc/usage.Rmd | 352 ++---- evaluator-0.2.0/evaluator/inst/doc/usage.html | 522 ++++++---- evaluator-0.2.0/evaluator/inst/rmd/analyze_risk.Rmd | 27 evaluator-0.2.0/evaluator/inst/rmd/explore_scenarios.Rmd | 16 evaluator-0.2.0/evaluator/inst/rmd/openfair_example.Rmd | 52 evaluator-0.2.0/evaluator/inst/rmd/risk_dashboard.Rmd | 10 evaluator-0.2.0/evaluator/inst/run_analysis.R |only evaluator-0.2.0/evaluator/man/calculate_domain_impact.Rd | 18 evaluator-0.2.0/evaluator/man/calculate_max_losses.Rd | 18 evaluator-0.2.0/evaluator/man/calculate_weak_domains.Rd | 13 evaluator-0.2.0/evaluator/man/capabilities.Rd |only evaluator-0.2.0/evaluator/man/compare_tef_vuln.Rd |only evaluator-0.2.0/evaluator/man/create_templates.Rd |only evaluator-0.2.0/evaluator/man/derive_controls.Rd | 24 evaluator-0.2.0/evaluator/man/dollar_millions.Rd | 9 evaluator-0.2.0/evaluator/man/domain_summary.Rd | 10 evaluator-0.2.0/evaluator/man/domains.Rd | 4 evaluator-0.2.0/evaluator/man/encode_scenarios.Rd | 24 evaluator-0.2.0/evaluator/man/explore_scenarios.Rd | 27 evaluator-0.2.0/evaluator/man/generate_event_outcomes_plot.Rd | 15 evaluator-0.2.0/evaluator/man/generate_heatmap.Rd | 14 evaluator-0.2.0/evaluator/man/generate_report.Rd | 37 evaluator-0.2.0/evaluator/man/generate_scatterplot.Rd | 17 evaluator-0.2.0/evaluator/man/get_base_fontfamily.Rd | 8 evaluator-0.2.0/evaluator/man/get_mean_control_strength.Rd |only evaluator-0.2.0/evaluator/man/import_capabilities.Rd | 14 evaluator-0.2.0/evaluator/man/import_scenarios.Rd | 12 evaluator-0.2.0/evaluator/man/import_spreadsheet.Rd | 14 evaluator-0.2.0/evaluator/man/load_data.Rd | 17 evaluator-0.2.0/evaluator/man/mappings.Rd |only evaluator-0.2.0/evaluator/man/openfair_example.Rd | 12 evaluator-0.2.0/evaluator/man/openfair_tef_tc_diff_lm.Rd |only evaluator-0.2.0/evaluator/man/qualitative_scenarios.Rd |only evaluator-0.2.0/evaluator/man/quantitative_scenarios.Rd | 39 evaluator-0.2.0/evaluator/man/risk_dashboard.Rd | 18 evaluator-0.2.0/evaluator/man/run_simulations.Rd | 24 evaluator-0.2.0/evaluator/man/sample_diff.Rd |only evaluator-0.2.0/evaluator/man/sample_lef.Rd |only evaluator-0.2.0/evaluator/man/sample_lm.Rd | 23 evaluator-0.2.0/evaluator/man/sample_tc.Rd |only evaluator-0.2.0/evaluator/man/sample_tef.Rd |only evaluator-0.2.0/evaluator/man/sample_vuln.Rd |only evaluator-0.2.0/evaluator/man/scenario_summary.Rd | 36 evaluator-0.2.0/evaluator/man/select_loss_opportunities.Rd |only evaluator-0.2.0/evaluator/man/simulation_results.Rd | 26 evaluator-0.2.0/evaluator/man/split_sheet.Rd | 12 evaluator-0.2.0/evaluator/man/summarize_domains.Rd | 27 evaluator-0.2.0/evaluator/man/summarize_scenarios.Rd | 27 evaluator-0.2.0/evaluator/man/summarize_to_disk.Rd | 23 evaluator-0.2.0/evaluator/man/theme_evaluator.Rd | 14 evaluator-0.2.0/evaluator/man/validate_scenarios.Rd | 30 evaluator-0.2.0/evaluator/tests/testthat/test-common-graphs.R |only evaluator-0.2.0/evaluator/tests/testthat/test-encode.R |only evaluator-0.2.0/evaluator/tests/testthat/test-import.R |only evaluator-0.2.0/evaluator/tests/testthat/test-load-data.R |only evaluator-0.2.0/evaluator/tests/testthat/test-openfair.R |only evaluator-0.2.0/evaluator/tests/testthat/test-reports.R |only evaluator-0.2.0/evaluator/tests/testthat/test-summarize.R |only evaluator-0.2.0/evaluator/tests/testthat/test-utils.R |only evaluator-0.2.0/evaluator/tests/testthat/test-validate.R |only evaluator-0.2.0/evaluator/vignettes/customization.Rmd |only evaluator-0.2.0/evaluator/vignettes/process.Rmd |only evaluator-0.2.0/evaluator/vignettes/usage.Rmd | 352 ++---- 100 files changed, 2470 insertions(+), 1620 deletions(-)
Title: An Arsenal of 'R' Functions for Large-Scale Statistical
Summaries
Description: An Arsenal of 'R' functions for large-scale statistical summaries,
which are streamlined to work within the latest reporting tools in 'R' and
'RStudio' and which use formulas and versatile summary statistics for summary
tables and models. The primary functions include tableby(), a Table-1-like
summary of multiple variable types 'by' the levels of a categorical
variable; modelsum(), which performs simple model fits on the same endpoint
for many variables (univariate or adjusted for standard covariates);
freqlist(), a powerful frequency table across many categorical variables;
compare.data.frame(), the S3 method for comparing data.frames; and
write2(), a function to output tables to a document.
Author: Ethan Heinzen [aut, cre],
Jason Sinnwell [aut],
Elizabeth Atkinson [aut],
Tina Gunderson [aut],
Gregory Dougherty [aut],
Patrick Votruba [ctb],
Ryan Lennon [ctb],
Andrew Hanson [ctb],
Krista Goergen [ctb],
Emily Lundt [ctb],
Brendan Broderick [ctb]
Maintainer: Ethan Heinzen <heinzen.ethan@mayo.edu>
Diff between arsenal versions 1.0.0 dated 2018-02-02 and 1.1.0 dated 2018-03-13
arsenal-1.0.0/arsenal/man/summary.compare.data.frame.Rd |only arsenal-1.1.0/arsenal/DESCRIPTION | 8 arsenal-1.1.0/arsenal/MD5 | 100 - arsenal-1.1.0/arsenal/NAMESPACE | 6 arsenal-1.1.0/arsenal/NEWS.md | 64 arsenal-1.1.0/arsenal/R/internal.functions.R |only arsenal-1.1.0/arsenal/R/keep.labels.R | 7 arsenal-1.1.0/arsenal/R/labels.R | 3 arsenal-1.1.0/arsenal/R/na.operations.R | 21 arsenal-1.1.0/arsenal/R/summary.compare.R | 17 arsenal-1.1.0/arsenal/R/summary.freqlist.R | 78 - arsenal-1.1.0/arsenal/R/summary.modelsum.R | 46 arsenal-1.1.0/arsenal/R/summary.tableby.R | 72 - arsenal-1.1.0/arsenal/R/tableby.R | 24 arsenal-1.1.0/arsenal/R/tableby.internal.R | 11 arsenal-1.1.0/arsenal/R/tableby.stat.tests.R | 13 arsenal-1.1.0/arsenal/R/tableby.stats.R | 72 - arsenal-1.1.0/arsenal/README.md | 2 arsenal-1.1.0/arsenal/build/vignette.rds |binary arsenal-1.1.0/arsenal/inst/doc/compare.html | 2 arsenal-1.1.0/arsenal/inst/doc/freqlist.R | 5 arsenal-1.1.0/arsenal/inst/doc/freqlist.Rmd | 9 arsenal-1.1.0/arsenal/inst/doc/freqlist.html | 70 arsenal-1.1.0/arsenal/inst/doc/labels.html | 68 arsenal-1.1.0/arsenal/inst/doc/modelsum.html | 482 +++--- arsenal-1.1.0/arsenal/inst/doc/tableby.Rmd | 1 arsenal-1.1.0/arsenal/inst/doc/tableby.html | 783 +++++------ arsenal-1.1.0/arsenal/inst/doc/write2.html | 2 arsenal-1.1.0/arsenal/man/NA.operations.Rd | 13 arsenal-1.1.0/arsenal/man/internal.functions.Rd |only arsenal-1.1.0/arsenal/man/keep.labels.Rd | 3 arsenal-1.1.0/arsenal/man/labels.Rd | 3 arsenal-1.1.0/arsenal/man/summary.compare.Rd |only arsenal-1.1.0/arsenal/man/summary.freqlist.Rd | 22 arsenal-1.1.0/arsenal/man/summary.modelsum.Rd | 17 arsenal-1.1.0/arsenal/man/summary.tableby.Rd | 21 arsenal-1.1.0/arsenal/man/tableby.stats.Rd | 3 arsenal-1.1.0/arsenal/tests/testthat/helper-data.R |only arsenal-1.1.0/arsenal/tests/testthat/helper-script.R |only arsenal-1.1.0/arsenal/tests/testthat/test_freqlist.R | 112 - arsenal-1.1.0/arsenal/tests/testthat/test_keep.labels.R | 14 arsenal-1.1.0/arsenal/tests/testthat/test_modelsum.R | 176 +- arsenal-1.1.0/arsenal/tests/testthat/test_tableby.R | 374 ++--- arsenal-1.1.0/arsenal/tests/testthat/test_write2.R | 32 arsenal-1.1.0/arsenal/tests/testthat/write2.freqlist.doc.md | 1 arsenal-1.1.0/arsenal/tests/testthat/write2.freqlist.html.md | 1 arsenal-1.1.0/arsenal/tests/testthat/write2.modelsum.html.md | 1 arsenal-1.1.0/arsenal/tests/testthat/write2.mylist.pdf.md | 2 arsenal-1.1.0/arsenal/tests/testthat/write2.mylist2.doc.md | 1 arsenal-1.1.0/arsenal/tests/testthat/write2.mylists.pdf.md | 3 arsenal-1.1.0/arsenal/tests/testthat/write2.tableby.html.md | 1 arsenal-1.1.0/arsenal/tests/testthat/write2.yaml.pdf.md | 1 arsenal-1.1.0/arsenal/vignettes/freqlist.Rmd | 9 arsenal-1.1.0/arsenal/vignettes/tableby.Rmd | 1 54 files changed, 1537 insertions(+), 1240 deletions(-)
Title: Generation of ENVIREM Variables
Description: Generation of bioclimatic rasters that will be particularly
useful for species distribution modeling.
Author: Pascal O. Title, Jordan B. Bemmels
Maintainer: Pascal Title <ptitle@umich.edu>
Diff between envirem versions 1.1 dated 2017-02-02 and 1.2 dated 2018-03-13
DESCRIPTION | 11 +++--- MD5 | 71 ++++++++++++++++++++-------------------- R/PETseasonality.R | 4 +- R/aridityIndexThornthwaite.R | 2 - R/climaticMoistureIndex.R | 2 + R/continentality.R | 15 +++++--- R/embergerQ.R | 12 +++--- R/envirem-package.R | 31 ++++++++++++++--- R/generateRasters.R | 9 +++-- R/growingDegDays.R | 12 +++--- R/layerCreation.R | 19 +++++++++- R/monthCountByTemp.R | 15 +++++--- R/monthlyPET.R | 14 ++++++- R/otherTempExtremes.R | 10 +++-- R/petExtremes.R | 2 - R/thermicityIndex.R | 15 ++++++-- R/topoWetnessIndex.R | 9 ++--- R/zzz.R |only man/PETseasonality.Rd | 7 ++- man/aridityIndexThornthwaite.Rd | 9 ++--- man/climaticMoistureIndex.Rd | 7 ++- man/continentality.Rd | 14 +++++-- man/dataTypeCheck.Rd | 1 man/embergerQ.Rd | 14 ++++--- man/envirem.Rd | 38 ++++++++++++++++----- man/generateRasters.Rd | 16 +++++---- man/growingDegDays.Rd | 14 ++++--- man/layerCreation.Rd | 12 +++--- man/monthCountByTemp.Rd | 16 +++++---- man/monthlyPET.Rd | 16 +++++---- man/otherTempExtremes.Rd | 6 ++- man/pacificCentric.Rd | 1 man/petExtremes.Rd | 9 ++--- man/split_raster.Rd | 7 +-- man/thermicityIndex.Rd | 16 +++++---- man/topoWetnessIndex.Rd | 15 ++++---- man/verifyFileStructure.Rd | 1 37 files changed, 292 insertions(+), 180 deletions(-)
Title: A Package to Calculate and Visualize Dominance Hierarchies
Description: Functions to calculate ADI (Average Dominance Index) and FDI (Frequency-Based Dominance Index). Functions to visualize the Data with Social Network Graphs with Dual
Directions and Music Notation Graph.
Author: Knut Krueger [aut, cre],
Konstanze Krueger [aut]
Maintainer: Knut Krueger <Knut.Krueger@equine-science.de>
Diff between Dominance versions 1.0.17 dated 2016-06-02 and 1.1.0 dated 2018-03-13
Dominance-1.0.17/Dominance/INDEX |only Dominance-1.0.17/Dominance/man/sociogram.Rd |only Dominance-1.1.0/Dominance/DESCRIPTION | 21 - Dominance-1.1.0/Dominance/MD5 | 31 - Dominance-1.1.0/Dominance/NAMESPACE | 45 ++ Dominance-1.1.0/Dominance/R/ADI.R | 98 +++++ Dominance-1.1.0/Dominance/R/FDI.r | 103 +++++- Dominance-1.1.0/Dominance/R/Musicnotation.R | 100 +++++- Dominance-1.1.0/Dominance/R/Sociogram.R | 81 ++++ Dominance-1.1.0/Dominance/R/change.action.without.response.r | 4 Dominance-1.1.0/Dominance/R/detect_bits.R | 40 +- Dominance-1.1.0/Dominance/R/search.win.lose.R | 17 - Dominance-1.1.0/Dominance/man/ADI.Rd | 132 +++---- Dominance-1.1.0/Dominance/man/FDI.Rd | 123 +++---- Dominance-1.1.0/Dominance/man/Sociogram.Rd |only Dominance-1.1.0/Dominance/man/data_ADI.Rd | 78 ++-- Dominance-1.1.0/Dominance/man/dominance-package.rd | 75 ++-- Dominance-1.1.0/Dominance/man/musicnotation.Rd | 183 ++++------- 18 files changed, 699 insertions(+), 432 deletions(-)
Title: Approximate String Matching and String Distance Functions
Description: Implements an approximate string matching version of R's native
'match' function. Can calculate various string distances based on edits
(Damerau-Levenshtein, Hamming, Levenshtein, optimal sting alignment), qgrams (q-
gram, cosine, jaccard distance) or heuristic metrics (Jaro, Jaro-Winkler). An
implementation of soundex is provided as well. Distances can be computed between
character vectors while taking proper care of encoding or between integer
vectors representing generic sequences.
Author: Mark van der Loo [aut, cre],
Jan van der Laan [ctb],
R Core Team [ctb],
Nick Logan [ctb]
Maintainer: Mark van der Loo <mark.vanderloo@gmail.com>
Diff between stringdist versions 0.9.4.6 dated 2017-07-31 and 0.9.4.7 dated 2018-03-13
DESCRIPTION | 8 ++++---- MD5 | 16 ++++++++-------- NEWS | 4 ++++ R/doc_metrics.R | 2 +- R/phonetic.R | 2 +- man/phonetic.Rd | 2 +- man/stringdist-metrics.Rd | 2 +- src/qgram.c | 5 +++-- tests/testthat/testStringdist.R | 2 ++ 9 files changed, 25 insertions(+), 18 deletions(-)
Title: Supplementary Item Response Theory Models
Description: Supplementary functions for item response models aiming
to complement existing R packages. The functionality includes among others
multidimensional compensatory and noncompensatory IRT models
(Reckase, 2009, <doi:10.1007/978-0-387-89976-3>),
MCMC for hierarchical IRT models and testlet models
(Fox, 2010, <doi:10.1007/978-1-4419-0742-4>),
NOHARM (Fraser & McDonald, 1982, <doi:10.1207/s15327906mbr2302_9>),
Rasch copula model (Braeken, 2011, <doi:10.1007/s11336-010-9190-4>;
Schroeders, Robitzsch & Schipolowski, 2014, <doi:10.1111/jedm.12054>),
faceted and hierarchical rater models (DeCarlo, Kim & Johnson, 2011,
<doi:10.1111/j.1745-3984.2011.00143.x>),
ordinal IRT model (ISOP; Scheiblechner, 1995, <doi:10.1007/BF02301417>),
DETECT statistic (Stout et al., 1996, <doi:10.1177/014662169602000403>),
local structural equation modeling (LSEM; Hildebrandt et al., 2016,
<doi:10.1080/00273171.2016.1142856>).
Author: Alexander Robitzsch [aut,cre]
Maintainer: Alexander Robitzsch <robitzsch@ipn.uni-kiel.de>
Diff between sirt versions 2.4-20 dated 2018-01-29 and 2.5-45 dated 2018-03-13
sirt-2.4-20/sirt/src/eigenvaluessirt.cpp |only sirt-2.4-20/sirt/src/evm_comp_matrix_poly.cpp |only sirt-2.4-20/sirt/src/first_eigenvalue_sirt.h |only sirt-2.4-20/sirt/src/gooijer_isop.cpp |only sirt-2.4-20/sirt/src/gooijercsntableaux.h |only sirt-2.4-20/sirt/src/invariance_alignment.cpp |only sirt-2.4-20/sirt/src/matrixfunctions_sirt.cpp |only sirt-2.4-20/sirt/src/mle_pcm_group_c.cpp |only sirt-2.4-20/sirt/src/noharm_sirt_auxfunctions.cpp |only sirt-2.4-20/sirt/src/pbivnorm_rcpp_aux.h |only sirt-2.4-20/sirt/src/polychoric2_tetrachoric2_rcpp_aux.cpp |only sirt-2.4-20/sirt/src/probs_multcat_items_counts_csirt.cpp |only sirt-2.4-20/sirt/src/rm_smirt_mml2_code.cpp |only sirt-2.4-20/sirt/src/xxirt_functions.cpp |only sirt-2.5-45/sirt/DESCRIPTION | 35 +- sirt-2.5-45/sirt/MD5 | 181 ++++++------- sirt-2.5-45/sirt/NAMESPACE | 1 sirt-2.5-45/sirt/R/RcppExports.R | 38 ++ sirt-2.5-45/sirt/R/mcmc_WaldTest.R | 35 +- sirt-2.5-45/sirt/R/mcmc_as_formula.R |only sirt-2.5-45/sirt/R/mcmc_coef.R | 8 sirt-2.5-45/sirt/R/mcmc_derivedPars.R | 29 +- sirt-2.5-45/sirt/R/mcmc_extract_samples_first_chain.R |only sirt-2.5-45/sirt/R/mcmc_plot.R | 6 sirt-2.5-45/sirt/R/mcmc_rename_define_symbols.R |only sirt-2.5-45/sirt/R/mcmc_rename_helper.R |only sirt-2.5-45/sirt/R/mcmc_rename_parameter_names.R |only sirt-2.5-45/sirt/R/mcmc_rename_undo_parameter_names.R |only sirt-2.5-45/sirt/R/mcmc_summary.R | 59 ++-- sirt-2.5-45/sirt/R/mcmc_vcov.R | 8 sirt-2.5-45/sirt/R/noharm.sirt.R | 112 +++----- sirt-2.5-45/sirt/R/reliability.nonlinear.sem.R | 2 sirt-2.5-45/sirt/R/rm.sdt.R | 2 sirt-2.5-45/sirt/R/rm_proc_data.R | 9 sirt-2.5-45/sirt/R/summary.noharm.sirt.R | 34 +- sirt-2.5-45/sirt/README.md | 1 sirt-2.5-45/sirt/data/data.activity.itempars.rda |binary sirt-2.5-45/sirt/data/data.befki.rda |binary sirt-2.5-45/sirt/data/data.befki_resp.rda |binary sirt-2.5-45/sirt/data/data.big5.qgraph.rda |binary sirt-2.5-45/sirt/data/data.big5.rda |binary sirt-2.5-45/sirt/data/data.bs07a.rda |binary sirt-2.5-45/sirt/data/data.eid.kap4.rda |binary sirt-2.5-45/sirt/data/data.eid.kap5.rda |binary sirt-2.5-45/sirt/data/data.eid.kap6.rda |binary sirt-2.5-45/sirt/data/data.eid.kap7.rda |binary sirt-2.5-45/sirt/data/data.eid.rda |binary sirt-2.5-45/sirt/data/data.ess2005.rda |binary sirt-2.5-45/sirt/data/data.g308.rda |binary sirt-2.5-45/sirt/data/data.inv4gr.rda |binary sirt-2.5-45/sirt/data/data.liking.science.rda |binary sirt-2.5-45/sirt/data/data.long.rda |binary sirt-2.5-45/sirt/data/data.lsem01.rda |binary sirt-2.5-45/sirt/data/data.math.rda |binary sirt-2.5-45/sirt/data/data.mcdonald.LSAT6.rda |binary sirt-2.5-45/sirt/data/data.mcdonald.act15.rda |binary sirt-2.5-45/sirt/data/data.mcdonald.rape.rda |binary sirt-2.5-45/sirt/data/data.mixed1.rda |binary sirt-2.5-45/sirt/data/data.ml1.rda |binary sirt-2.5-45/sirt/data/data.ml2.rda |binary sirt-2.5-45/sirt/data/data.noharm18.rda |binary sirt-2.5-45/sirt/data/data.noharmExC.rda |binary sirt-2.5-45/sirt/data/data.pars1.2pl.rda |binary sirt-2.5-45/sirt/data/data.pars1.rasch.rda |binary sirt-2.5-45/sirt/data/data.pirlsmissing.rda |binary sirt-2.5-45/sirt/data/data.pisaMath.rda |binary sirt-2.5-45/sirt/data/data.pisaPars.rda |binary sirt-2.5-45/sirt/data/data.pisaRead.rda |binary sirt-2.5-45/sirt/data/data.pw01.rda |binary sirt-2.5-45/sirt/data/data.ratings1.rda |binary sirt-2.5-45/sirt/data/data.ratings2.rda |binary sirt-2.5-45/sirt/data/data.ratings3.rda |binary sirt-2.5-45/sirt/data/data.raw1.rda |binary sirt-2.5-45/sirt/data/data.read.rda |binary sirt-2.5-45/sirt/data/data.reck21.rda |binary sirt-2.5-45/sirt/data/data.reck61DAT1.rda |binary sirt-2.5-45/sirt/data/data.reck61DAT2.rda |binary sirt-2.5-45/sirt/data/data.reck73C1a.rda |binary sirt-2.5-45/sirt/data/data.reck73C1b.rda |binary sirt-2.5-45/sirt/data/data.reck75C2.rda |binary sirt-2.5-45/sirt/data/data.reck78ExA.rda |binary sirt-2.5-45/sirt/data/data.reck79ExB.rda |binary sirt-2.5-45/sirt/data/data.si01.rda |binary sirt-2.5-45/sirt/data/data.si02.rda |binary sirt-2.5-45/sirt/data/data.si03.rda |binary sirt-2.5-45/sirt/data/data.si04.rda |binary sirt-2.5-45/sirt/data/data.si05.rda |binary sirt-2.5-45/sirt/data/data.si06.rda |binary sirt-2.5-45/sirt/data/data.timss.rda |binary sirt-2.5-45/sirt/data/data.timss07.G8.RUS.rda |binary sirt-2.5-45/sirt/inst/NEWS | 66 +++- sirt-2.5-45/sirt/man/noharm.sirt.Rd | 9 sirt-2.5-45/sirt/man/rasch.copula.Rd | 9 sirt-2.5-45/sirt/man/sirt-package.Rd | 37 ++ sirt-2.5-45/sirt/src/RcppExports.cpp | 141 +++++++++- sirt-2.5-45/sirt/src/eigenvaluessirt_rcpp.cpp |only sirt-2.5-45/sirt/src/evm_comp_matrix_poly_rcpp.cpp |only sirt-2.5-45/sirt/src/gooijer_isop_rcpp.cpp |only sirt-2.5-45/sirt/src/invariance_alignment_rcpp.cpp |only sirt-2.5-45/sirt/src/matrixfunctions_sirt_rcpp.cpp |only sirt-2.5-45/sirt/src/mle_pcm_group_rcpp.cpp |only sirt-2.5-45/sirt/src/noharm_sirt_rcpp.cpp |only sirt-2.5-45/sirt/src/polychoric2_tetrachoric2_rcpp.cpp |only sirt-2.5-45/sirt/src/probs_multcat_items_counts_rcpp.cpp |only sirt-2.5-45/sirt/src/rm_proc_data_rcpp.cpp | 4 sirt-2.5-45/sirt/src/rm_smirt_mml2_rcpp.cpp |only sirt-2.5-45/sirt/src/xxirt_functions_rcpp.cpp |only 107 files changed, 540 insertions(+), 286 deletions(-)
Title: Succinct and Correct Statistical Summaries for Reports
Description: Succinctly and correctly format statistical summaries of
various models and tests (F-test, Chi-Sq-test, Fisher-test, T-test, and rank-significance). The main purpose is unified reporting and planning
of experimental results, working around issue such as the difficulty of
extracting model summary facts (such as with 'lm'/'glm'). This package also
includes empirical tests, such as bootstrap estimates.
Author: John Mount [aut, cre],
Nina Zumel [aut],
Win-Vector LLC [cph]
Maintainer: John Mount <jmount@win-vector.com>
Diff between sigr versions 0.2.3 dated 2018-01-28 and 0.2.4 dated 2018-03-13
DESCRIPTION | 8 ++++---- MD5 | 15 ++++++++------- NAMESPACE | 1 + NEWS.md | 7 ++++++- R/toPresentation.R | 16 +++++++++++++++- README.md | 4 ++-- inst/doc/lmExample.html | 4 ++-- inst/doc/sigrFormatting.html | 4 ++-- man/format.sigr_statistic.Rd |only 9 files changed, 40 insertions(+), 19 deletions(-)
Title: Non Linear Time Series Analysis
Description: Models for time series forecasting and causality detection. The main functionalities of this package consist of a neural network Vector Auto-Regressive model, the classical Granger causality test C.W.J.Granger (1980) <doi:10.1016/0165-1889(80)90069-X>, and a non-linear version of it based on feedforward neural networks.
Author: Youssef Hmamouche [aut, cre],
Sylvain Barthelemy [cph]
Maintainer: Youssef Hmamouche <hmamoucheyussef@gmail.com>
Diff between NlinTS versions 1.2 dated 2018-03-12 and 1.3.0 dated 2018-03-13
DESCRIPTION | 10 +++++----- MD5 | 12 ++++++------ build/partial.rdb |binary src/CDynamicCausality.cpp | 2 +- src/Cmatrixoperations.cpp | 2 +- src/Tests.cpp | 14 +++++++------- src/module.cpp | 10 +++++++--- 7 files changed, 27 insertions(+), 23 deletions(-)
Title: Meta-Analysis of Studies with Non Statistically-Significant
Unreported Effects
Description: Novel method to unbiasedly include studies with Non Statistically-Significant Unreported Effects (NSUEs) in a meta-analysis <doi:10.1001/jamapsychiatry.2015.2196>. Briefly, the method first calculates the interval where the unreported effects (e.g. t-values) should be according to the threshold of statistical significance used in each study. Afterwards, maximum likelihood techniques are used to impute the expected effect size of each study with NSUEs, accounting for between-study heterogeneity and potential covariates. Multiple imputations of the NSUEs are then randomly created based on the expected value, variance and statistical significance bounds. Finally, a restricted-maximum likelihood random-effects meta-analysis is separately conducted for each set of imputations, and estimations from these meta-analyses are pooled. Please read the reference in 'metansue' for details of the procedure.
Author: Joaquim Radua
Maintainer: Joaquim Radua <jradua@fidmag.com>
Diff between metansue versions 2.0 dated 2017-07-21 and 2.1 dated 2018-03-13
metansue-2.0/metansue/build |only metansue-2.0/metansue/inst/doc |only metansue-2.0/metansue/vignettes |only metansue-2.1/metansue/DESCRIPTION | 10 ++--- metansue-2.1/metansue/MD5 | 28 ++------------ metansue-2.1/metansue/NEWS | 8 ++++ metansue-2.1/metansue/R/source.R | 71 ++++++++++++++++---------------------- metansue-2.1/metansue/man/meta.Rd | 2 - 8 files changed, 48 insertions(+), 71 deletions(-)
Title: Object-Oriented Implementation of CRM Designs
Description: Implements a wide range of model-based dose
escalation designs, ranging from classical and modern continual
reassessment methods (CRMs) based on dose-limiting toxicity endpoints to
dual-endpoint designs taking into account a biomarker/efficacy outcome. The
focus is on Bayesian inference, making it very easy to setup a new design
with its own JAGS code. However, it is also possible to implement 3+3
designs for comparison or models with non-Bayesian estimation. The whole
package is written in a modular form in the S4 class system, making it very
flexible for adaptation to new models, escalation or stopping rules.
Author: Daniel Sabanes Bove <sabanesd@roche.com>,
Wai Yin Yeung <winnie.yeung@roche.com>,
Giuseppe Palermo <giuseppe.palermo@roche.com>,
Thomas Jaki <jaki.thomas@gmail.com>
Maintainer: Daniel Sabanes Bove <sabanesd@roche.com>
Diff between crmPack versions 0.2.6 dated 2018-02-15 and 0.2.7 dated 2018-03-13
DESCRIPTION | 8 ++++---- MD5 | 10 +++++----- R/Model-class.R | 3 ++- inst/NEWS | 8 ++++++++ inst/doc/example.pdf |binary man/LogisticNormal-class.Rd | 7 +++++++ 6 files changed, 26 insertions(+), 10 deletions(-)
Title: Working with Dynamic Models for Agriculture and Environment
Description: R package accompanying the book Working with dynamic models for agriculture and environment, by Daniel Wallach (INRA), David Makowski (INRA), James W. Jones (U.of Florida), Francois Brun (ACTA). New version in preparation for April 2018.
Author: Francois Brun (ACTA), David Makowski (INRA), Daniel Wallach (INRA), James W. Jones (U.of Florida).
Maintainer: Francois Brun <francois.brun@acta.asso.fr>
Diff between ZeBook versions 0.5 dated 2013-06-17 and 1.0 dated 2018-03-13
ZeBook-0.5/ZeBook/demo/ch03R_maize_parallel.r |only ZeBook-0.5/ZeBook/demo/ch04Simulation.epirice.r |only ZeBook-0.5/ZeBook/demo/ch04Simulation.exponential.r |only ZeBook-0.5/ZeBook/demo/ch04Simulation.maize.r |only ZeBook-0.5/ZeBook/demo/ch04Simulation.population.age.r |only ZeBook-0.5/ZeBook/demo/ch04Simulation.prey.predator.r |only ZeBook-0.5/ZeBook/demo/ch04Simulation.watbal.r |only ZeBook-0.5/ZeBook/demo/ch05USA_Carcass.r |only ZeBook-0.5/ZeBook/demo/ch05USA_Lactation.r |only ZeBook-0.5/ZeBook/demo/ch05USA_Magarey.r |only ZeBook-0.5/ZeBook/demo/ch05USA_Weed.r |only ZeBook-0.5/ZeBook/demo/ch07Bayes_Carbon.r |only ZeBook-0.5/ZeBook/demo/ch08DLM_CarbonSoil.r |only ZeBook-0.5/ZeBook/demo/ch08DLM_WheatYieldGreece.r |only ZeBook-0.5/ZeBook/demo/ch08DLM_watbal.r |only ZeBook-0.5/ZeBook/demo/ch10maizeS8DataAssimilation.r |only ZeBook-0.5/ZeBook/man/lactation.model.machine.Rd |only ZeBook-0.5/ZeBook/man/lactation.model.machine2.Rd |only ZeBook-1.0/ZeBook/DESCRIPTION | 36 -- ZeBook-1.0/ZeBook/MD5 | 244 +++++++++-------- ZeBook-1.0/ZeBook/NAMESPACE | 27 + ZeBook-1.0/ZeBook/R/Bean_data.r |only ZeBook-1.0/ZeBook/R/ZeBook.r | 23 + ZeBook-1.0/ZeBook/R/carcass.EMI.model.r | 10 ZeBook-1.0/ZeBook/R/carrot.weevil.model.r |only ZeBook-1.0/ZeBook/R/epirice.model.r | 8 ZeBook-1.0/ZeBook/R/evaluation.criteria.r | 2 ZeBook-1.0/ZeBook/R/exponential.model.r | 3 ZeBook-1.0/ZeBook/R/globals.r |only ZeBook-1.0/ZeBook/R/goodness.of.fit.r | 24 - ZeBook-1.0/ZeBook/R/lactation.calf.model.r | 3 ZeBook-1.0/ZeBook/R/lactation.machine.model.r | 8 ZeBook-1.0/ZeBook/R/magarey.model.r | 8 ZeBook-1.0/ZeBook/R/maize.model.r | 17 + ZeBook-1.0/ZeBook/R/maize.muchow.model.r |only ZeBook-1.0/ZeBook/R/population.age.model.r | 14 ZeBook-1.0/ZeBook/R/verhulst.model.r | 2 ZeBook-1.0/ZeBook/R/watbal.model.r | 9 ZeBook-1.0/ZeBook/R/weather_EuropeEU_data.r | 2 ZeBook-1.0/ZeBook/R/weather_FranceWest_data.r | 2 ZeBook-1.0/ZeBook/R/weather_GNS_data.r |only ZeBook-1.0/ZeBook/R/weather_SouthAsia_data.r | 2 ZeBook-1.0/ZeBook/R/weed.model.r | 8 ZeBook-1.0/ZeBook/R/zadoks.original.model.r |only ZeBook-1.0/ZeBook/data/Bean.rda |only ZeBook-1.0/ZeBook/data/datalist | 2 ZeBook-1.0/ZeBook/data/weather_GNS.rda |only ZeBook-1.0/ZeBook/demo/00Index | 34 +- ZeBook-1.0/ZeBook/demo/ch02R_maize_parallel.r |only ZeBook-1.0/ZeBook/demo/ch03Simulation.epirice.r |only ZeBook-1.0/ZeBook/demo/ch03Simulation.exponential.r |only ZeBook-1.0/ZeBook/demo/ch03Simulation.maize.muchow.r |only ZeBook-1.0/ZeBook/demo/ch03Simulation.maize.r |only ZeBook-1.0/ZeBook/demo/ch03Simulation.population.age.r |only ZeBook-1.0/ZeBook/demo/ch03Simulation.prey.predator.r |only ZeBook-1.0/ZeBook/demo/ch03Simulation.watbal.r |only ZeBook-1.0/ZeBook/demo/ch03Simulation.zadoks.r |only ZeBook-1.0/ZeBook/demo/ch06USA_Carcass.r |only ZeBook-1.0/ZeBook/demo/ch06USA_Lactation.r |only ZeBook-1.0/ZeBook/demo/ch06USA_Magarey.r |only ZeBook-1.0/ZeBook/demo/ch06USA_Weed.r |only ZeBook-1.0/ZeBook/demo/ch08Bayes_Carbon.r |only ZeBook-1.0/ZeBook/demo/ch14DLM_CarbonSoil.r |only ZeBook-1.0/ZeBook/demo/ch14DLM_WheatYieldGreece.r |only ZeBook-1.0/ZeBook/demo/ch14DLM_watbal.r |only ZeBook-1.0/ZeBook/demo/ch14maizeS8DataAssimilation.r |only ZeBook-1.0/ZeBook/man/AICf.Rd | 34 -- ZeBook-1.0/ZeBook/man/Bean.Rd |only ZeBook-1.0/ZeBook/man/Sunflower_Phomopsis.Rd | 39 -- ZeBook-1.0/ZeBook/man/WheatYieldGreece.Rd | 13 ZeBook-1.0/ZeBook/man/Wheat_GPC.Rd | 20 - ZeBook-1.0/ZeBook/man/ZeBook-package.Rd | 81 ++--- ZeBook-1.0/ZeBook/man/carbonsoil.model.Rd | 32 -- ZeBook-1.0/ZeBook/man/carbonsoil.update.Rd | 30 -- ZeBook-1.0/ZeBook/man/carcass.EMI.model.Rd | 87 ++---- ZeBook-1.0/ZeBook/man/carcass.EMI.model2.Rd | 17 - ZeBook-1.0/ZeBook/man/carcass.EMI.multi.Rd | 22 - ZeBook-1.0/ZeBook/man/carcass.EMI.simule.Rd | 18 - ZeBook-1.0/ZeBook/man/carcass.define.param.Rd | 13 ZeBook-1.0/ZeBook/man/carcass.model.Rd | 76 ++--- ZeBook-1.0/ZeBook/man/carcass_data.Rd | 23 - ZeBook-1.0/ZeBook/man/carrot.weevil.model.Rd |only ZeBook-1.0/ZeBook/man/chicks_data.Rd | 65 +--- ZeBook-1.0/ZeBook/man/cotton.model.Rd | 45 +-- ZeBook-1.0/ZeBook/man/epirice.define.param.Rd | 9 ZeBook-1.0/ZeBook/man/epirice.model.Rd | 26 - ZeBook-1.0/ZeBook/man/epirice.multi.simule.Rd | 20 - ZeBook-1.0/ZeBook/man/epirice.weather.Rd | 19 - ZeBook-1.0/ZeBook/man/evaluation.criteria.Rd | 16 - ZeBook-1.0/ZeBook/man/exponential.model.Rd | 20 - ZeBook-1.0/ZeBook/man/exponential.model.bis.Rd | 21 - ZeBook-1.0/ZeBook/man/exponential.model.ie.Rd | 21 - ZeBook-1.0/ZeBook/man/goodness.of.fit.Rd | 15 - ZeBook-1.0/ZeBook/man/graph_epid.Rd |only ZeBook-1.0/ZeBook/man/graph_epid_s.Rd |only ZeBook-1.0/ZeBook/man/lactation.calf.model.Rd | 63 +--- ZeBook-1.0/ZeBook/man/lactation.calf.model2.Rd | 15 - ZeBook-1.0/ZeBook/man/lactation.calf.simule.Rd | 17 - ZeBook-1.0/ZeBook/man/lactation.define.param.Rd | 12 ZeBook-1.0/ZeBook/man/lactation.machine.model.Rd |only ZeBook-1.0/ZeBook/man/lactation.machine.model2.Rd |only ZeBook-1.0/ZeBook/man/magarey.define.param.Rd | 13 ZeBook-1.0/ZeBook/man/magarey.model.Rd | 29 -- ZeBook-1.0/ZeBook/man/magarey.model2.Rd | 16 - ZeBook-1.0/ZeBook/man/magarey.simule.Rd | 18 - ZeBook-1.0/ZeBook/man/maize.RUEtemp.Rd | 21 - ZeBook-1.0/ZeBook/man/maize.data_EuropeEU.Rd | 14 ZeBook-1.0/ZeBook/man/maize.define.param.Rd | 9 ZeBook-1.0/ZeBook/man/maize.model.Rd | 84 ++--- ZeBook-1.0/ZeBook/man/maize.model2.Rd | 17 - ZeBook-1.0/ZeBook/man/maize.muchow.graph.Rd |only ZeBook-1.0/ZeBook/man/maize.muchow.model.Rd |only ZeBook-1.0/ZeBook/man/maize.multisy.Rd | 24 - ZeBook-1.0/ZeBook/man/maize.multisy240.Rd | 21 - ZeBook-1.0/ZeBook/man/maize.simule.Rd | 21 - ZeBook-1.0/ZeBook/man/maize.simule240.Rd | 23 - ZeBook-1.0/ZeBook/man/maize.simule_multisy240.Rd | 24 - ZeBook-1.0/ZeBook/man/maize.weather.Rd | 21 - ZeBook-1.0/ZeBook/man/maize_cir.model.Rd | 35 +- ZeBook-1.0/ZeBook/man/maize_cir_rue.model.Rd | 37 +- ZeBook-1.0/ZeBook/man/maize_cir_rue_ear.model.Rd | 38 +- ZeBook-1.0/ZeBook/man/mm.A.fct.Rd |only ZeBook-1.0/ZeBook/man/mm.FAS.fct.Rd |only ZeBook-1.0/ZeBook/man/mm.HI.fct.Rd |only ZeBook-1.0/ZeBook/man/mm.LN.fct.Rd |only ZeBook-1.0/ZeBook/man/param.rtriangle.Rd | 15 - ZeBook-1.0/ZeBook/man/param.runif.Rd | 15 - ZeBook-1.0/ZeBook/man/population.age.matrix.model.Rd | 72 ++--- ZeBook-1.0/ZeBook/man/population.age.model.Rd | 51 +-- ZeBook-1.0/ZeBook/man/population.age.model.ode.Rd | 74 ++--- ZeBook-1.0/ZeBook/man/predator.prey.model.Rd | 35 +- ZeBook-1.0/ZeBook/man/q.arg.fast.runif.Rd | 13 ZeBook-1.0/ZeBook/man/seedweight.data.Rd | 20 - ZeBook-1.0/ZeBook/man/seedweight.model.Rd | 25 - ZeBook-1.0/ZeBook/man/threshold.measures.Rd | 21 - ZeBook-1.0/ZeBook/man/verhulst.model.Rd | 21 - ZeBook-1.0/ZeBook/man/verhulst.update.Rd | 19 - ZeBook-1.0/ZeBook/man/watbal.define.param.Rd | 10 ZeBook-1.0/ZeBook/man/watbal.model.Rd | 23 - ZeBook-1.0/ZeBook/man/watbal.model.arid.Rd | 33 -- ZeBook-1.0/ZeBook/man/watbal.simobsdata.Rd | 18 - ZeBook-1.0/ZeBook/man/watbal.update.Rd | 22 - ZeBook-1.0/ZeBook/man/watbal.weather.Rd | 17 - ZeBook-1.0/ZeBook/man/weather_EuropeEU.Rd | 76 ++--- ZeBook-1.0/ZeBook/man/weather_FranceWest.Rd | 51 +-- ZeBook-1.0/ZeBook/man/weather_GNS.Rd |only ZeBook-1.0/ZeBook/man/weather_SouthAsia.Rd | 64 ++-- ZeBook-1.0/ZeBook/man/weed.define.param.Rd | 9 ZeBook-1.0/ZeBook/man/weed.model.Rd | 14 ZeBook-1.0/ZeBook/man/weed.simule.Rd | 15 - ZeBook-1.0/ZeBook/man/weed.update.Rd | 29 -- ZeBook-1.0/ZeBook/man/zakoks.original.model.Rd |only 152 files changed, 1227 insertions(+), 1377 deletions(-)
Title: Quality Control Metrics for Gene Signatures
Description: Provides gene signature quality control metrics in publication ready plots. Namely, enables the visualization of properties such as expression, variability, correlation, and comparison of methods of standardisation and scoring metrics.
Author: Andrew Dhawan [aut],
Alessandro Barberis [aut],
Wei-Chen Cheng [aut],
Francesca Buffa [aut, cre]
Maintainer: Francesca Buffa <francesca.buffa@oncology.ox.ac.uk>
Diff between sigQC versions 0.1.12 dated 2018-02-22 and 0.1.13 dated 2018-03-13
DESCRIPTION | 8 +-- MD5 | 22 ++++----- NAMESPACE | 1 R/make_all_plots.R | 26 ++++++----- R/make_radar_chart_loc.R | 17 ++++++- R/sigsQcNegativeControl.R | 105 ++++++++++++++++++++++++++++++++++++++++++++-- README.md | 4 + inst/doc/vignette.R | 2 inst/doc/vignette.Rmd | 10 ++-- inst/doc/vignette.html | 13 +++-- man/make_all_plots.Rd | 20 ++++---- vignettes/vignette.Rmd | 10 ++-- 12 files changed, 180 insertions(+), 58 deletions(-)
More information about BusinessDuration at CRAN
Permanent link
More information about winRatioAnalysis at CRAN
Permanent link
Title: Data Exchange Between R and 'LabKey' Server
Description: The 'LabKey' client library for R makes it easy for R users to
load live data from a 'LabKey' Server, <http://www.labkey.com/>,
into the R environment for analysis, provided users have permissions
to read the data. It also enables R users to insert, update, and
delete records stored on a 'LabKey' Server, provided they have appropriate
permissions to do so.
Author: Peter Hussey
Maintainer: Cory Nathe <cnathe@labkey.com>
Diff between Rlabkey versions 2.2.0 dated 2018-02-08 and 2.2.1 dated 2018-03-13
Rlabkey-2.2.0/Rlabkey/src/JSON_parser.c |only Rlabkey-2.2.0/Rlabkey/src/JSON_parser.h |only Rlabkey-2.2.0/Rlabkey/src/Makevars |only Rlabkey-2.2.0/Rlabkey/src/RJSON_parser.c |only Rlabkey-2.2.0/Rlabkey/src/RJSON_parser.h |only Rlabkey-2.2.1/Rlabkey/DESCRIPTION | 16 +-- Rlabkey-2.2.1/Rlabkey/MD5 | 61 +++++------ Rlabkey-2.2.1/Rlabkey/NEWS | 3 Rlabkey-2.2.1/Rlabkey/R/RcppExports.R | 2 Rlabkey-2.2.1/Rlabkey/R/fromJSON2.R | 2 Rlabkey-2.2.1/Rlabkey/R/ifcookie.R | 2 Rlabkey-2.2.1/Rlabkey/R/labkey.curlOptions.R | 2 Rlabkey-2.2.1/Rlabkey/R/labkey.defaults.R | 116 ++++++++++++---------- Rlabkey-2.2.1/Rlabkey/R/labkey.deleteRows.R | 2 Rlabkey-2.2.1/Rlabkey/R/labkey.executeSql.R | 2 Rlabkey-2.2.1/Rlabkey/R/labkey.getFolders.R | 2 Rlabkey-2.2.1/Rlabkey/R/labkey.getQueryInfo.R | 2 Rlabkey-2.2.1/Rlabkey/R/labkey.getQueryLists.R | 2 Rlabkey-2.2.1/Rlabkey/R/labkey.getSchemas.R | 2 Rlabkey-2.2.1/Rlabkey/R/labkey.importRows.R | 2 Rlabkey-2.2.1/Rlabkey/R/labkey.insertRows.R | 2 Rlabkey-2.2.1/Rlabkey/R/labkey.makeRemotePath.R | 2 Rlabkey-2.2.1/Rlabkey/R/labkey.saveBatch.R | 2 Rlabkey-2.2.1/Rlabkey/R/labkey.selectRows.R | 2 Rlabkey-2.2.1/Rlabkey/R/labkey.setCurlOptions.R | 2 Rlabkey-2.2.1/Rlabkey/R/labkey.updateRows.R | 2 Rlabkey-2.2.1/Rlabkey/R/makeDF.R | 2 Rlabkey-2.2.1/Rlabkey/R/makeFilter.R | 2 Rlabkey-2.2.1/Rlabkey/R/parseHeader.R | 86 ++++++++-------- Rlabkey-2.2.1/Rlabkey/R/schemaObjects.R | 2 Rlabkey-2.2.1/Rlabkey/build/vignette.rds |binary Rlabkey-2.2.1/Rlabkey/inst/doc/RlabkeyExample.pdf |binary Rlabkey-2.2.1/Rlabkey/man/Rlabkey-package.Rd | 4 Rlabkey-2.2.1/Rlabkey/src/R_init.c | 6 - 34 files changed, 170 insertions(+), 162 deletions(-)
Title: Network-Based Genome Wide Association Studies
Description: A multi-core R package that contains a set of tools based on undirected graphical models for accomplishing three important and interrelated goals in genetics: (1) linkage map construction, (2) reconstructing intra- and inter-chromosomal conditional interactions (linkage disequilibrium) networks, and (3) exploring high-dimensional genotype-phenotype network and genotype-phenotype-environment interactions network. For this purpose, we use conditional (in)dependence relationships between variables. The netgwas package can deal with biparental inbreeding and outbreeding species with any ploidy level, namely diploid (2 sets of chromosomes), triploid (3 sets of chromosomes), tetraploid (4 sets of chromosomes) and so on. We target on high-dimensional data where number of variables p is larger than number of sample sizes (p >> n). The computations is memory-optimized using the sparse matrix output. The package is implemented the recent developments in Behrouzi and Wit (2017) <arXiv:1710.00894> and Behrouzi and Wit (2017) <arXiv:1710.01063> .
Author: Pariya Behrouzi and Ernst C. Wit
Maintainer: Pariya Behrouzi <pariya.behrouzi@gmail.com>
Diff between netgwas versions 0.1.3.0 dated 2018-02-07 and 0.1.3.2 dated 2018-03-13
DESCRIPTION | 8 ++++---- MD5 | 26 +++++++++++++------------- R/netmap.R | 1 + R/netphenogeno.R | 2 +- R/netsnp.R | 2 +- man/bp.Rd | 2 +- man/buildMap.Rd | 4 ++-- man/hdl.Rd | 4 ++-- man/netmap.Rd | 10 +++++----- man/netphenogeno.Rd | 4 ++-- man/netsnp.Rd | 4 ++-- man/selectnet.Rd | 5 +---- man/simGeno.Rd | 2 +- man/tetraPotato.Rd | 2 +- 14 files changed, 37 insertions(+), 39 deletions(-)
Title: Bayesian Kernel Projection Classifier
Description: Bayesian kernel projection classifier is a nonlinear multicategory classifier which performs the classification of the projections of the data to the principal axes of the feature space. A Gibbs sampler is implemented to find the posterior distributions of the parameters.
Author: K. Domijan
Maintainer: K. Domijan <domijank@tcd.ie>
Diff between BKPC versions 1.0 dated 2016-02-27 and 1.0.1 dated 2018-03-13
DESCRIPTION | 8 +++--- MD5 | 10 +++++--- NAMESPACE | 4 +-- R/marginalRelevance.R | 60 +++++++++++++++++++++++++------------------------- README.md |only data/microarray.rda |binary src/BKPC_init.c |only 7 files changed, 42 insertions(+), 40 deletions(-)
Title: Compares the Distribution of Sister Clades Through a Phylogeny
Description: An implementation of the nodiv algorithm, see Borregaard, M.K., Rahbek, C., Fjeldsaa, J., Parra, J.L., Whittaker, R.J. & Graham, C.H. 2014. Node-based analysis of species distributions. Methods in Ecology and Evolution 5(11): 1225-1235. <DOI:10.1111/2041-210X.12283>. Package for phylogenetic analysis of species distributions. The main function goes through each node in the phylogeny, compares the distributions of the two descendant nodes, and compares the result to a null model. This highlights nodes where major distributional divergence have occurred. The distributional divergence for these nodes is mapped using the SOS statistic.
Author: Michael Krabbe Borregaard
Maintainer: Michael Krabbe Borregaard <mkborregaard@snm.ku.dk>
Diff between nodiv versions 1.1.8 dated 2017-10-31 and 1.1.9 dated 2018-03-13
DESCRIPTION | 8 ++++---- MD5 | 6 +++--- R/Add_to_data_object.R | 8 ++++---- man/nodiv-package.Rd | 4 ++-- 4 files changed, 13 insertions(+), 13 deletions(-)
Title: Find Code Snippets, R Scripts, R Markdown, PDF and Text Files
with Pattern Matching
Description: Scans all directories and subdirectories of a path for code snippets, R scripts,
R Markdown, PDF or text files containing a specific pattern. Files found can be copied to a new folder.
Author: David Zumbach [aut, cre]
Maintainer: David Zumbach <david.zumbach@gfzb.ch>
Diff between findR versions 0.2.0 dated 2018-02-16 and 0.2.1 dated 2018-03-13
DESCRIPTION | 8 - MD5 | 8 - NEWS | 6 + R/reminder.R | 298 +++++++++++++++++++++++++++++++++++++++----------------- man/reminder.Rd | 12 -- 5 files changed, 228 insertions(+), 104 deletions(-)
Title: Evaluation and Experimental Design for Binomial Group Testing
Description: Methods for estimation and hypothesis testing of proportions
in group testing designs: methods for estimating a proportion in a single
population (assuming sensitivity and specificity equal to 1 in designs
with equal group sizes), as well as hypothesis tests and
functions for experimental design for this situation. For
estimating one proportion or the difference of proportions, a
number of confidence interval methods are included, which can
deal with various different pool sizes. Further, regression
methods are implemented for simple pooling and matrix pooling
designs.
Methods for identification of positive specimens in group
testing designs: methods for identification of positive
specimens in a number of group testing algorithms. Hierarchical and
array-based algorithms are implemented and used to find the
optimal testing configuration and calculate operating characteristics
for testing configurations across a wide variety of situations.
Author: Boan Zhang [aut],
Christopher Bilder [aut],
Brad Biggerstaff [aut],
Frank Schaarschmidt [aut, cre],
Brianna Hitt [aut]
Maintainer: Frank Schaarschmidt <schaarschmidt@biostat.uni-hannover.de>
Diff between binGroup versions 1.1-0 dated 2012-08-14 and 2.1-0 dated 2018-03-13
binGroup-1.1-0/binGroup/R/pooledBin.R |only binGroup-1.1-0/binGroup/R/pooledBinDiff.R |only binGroup-1.1-0/binGroup/R/pooledBinMisc.R |only binGroup-1.1-0/binGroup/R/print.poolbin.R |only binGroup-1.1-0/binGroup/R/print.poolbindiff.R |only binGroup-1.1-0/binGroup/R/summary.poolbin.R |only binGroup-1.1-0/binGroup/R/summary.poolbindiff.R |only binGroup-2.1-0/binGroup/DESCRIPTION | 44 ++++++++++++------ binGroup-2.1-0/binGroup/MD5 | 39 +++++++++++---- binGroup-2.1-0/binGroup/NAMESPACE | 11 +++- binGroup-2.1-0/binGroup/R/Array.Functions.R |only binGroup-2.1-0/binGroup/R/Dorfman.Functions.R |only binGroup-2.1-0/binGroup/R/Hierarchical.Functions.R |only binGroup-2.1-0/binGroup/R/Inf.Array.R |only binGroup-2.1-0/binGroup/R/Inf.D3.R |only binGroup-2.1-0/binGroup/R/Inf.Dorf.R |only binGroup-2.1-0/binGroup/R/Masterpool.Array.Measures.R |only binGroup-2.1-0/binGroup/R/NI.A2M.R |only binGroup-2.1-0/binGroup/R/NI.Array.R |only binGroup-2.1-0/binGroup/R/NI.D3.R |only binGroup-2.1-0/binGroup/R/NI.Dorf.R |only binGroup-2.1-0/binGroup/R/OTC.R |only binGroup-2.1-0/binGroup/R/PooledBinomialFunctions.r |only binGroup-2.1-0/binGroup/man/Inf.Array.Rd |only binGroup-2.1-0/binGroup/man/Inf.D3.Rd |only binGroup-2.1-0/binGroup/man/Inf.Dorf.Rd |only binGroup-2.1-0/binGroup/man/NI.A2M.Rd |only binGroup-2.1-0/binGroup/man/NI.Array.Rd |only binGroup-2.1-0/binGroup/man/NI.D3.Rd |only binGroup-2.1-0/binGroup/man/NI.Dorf.Rd |only binGroup-2.1-0/binGroup/man/OTC.Rd |only binGroup-2.1-0/binGroup/man/binGroup-package.Rd | 8 ++- binGroup-2.1-0/binGroup/man/plot.poolbin.Rd |only binGroup-2.1-0/binGroup/man/pooledBin.Rd | 30 ++++++++++-- binGroup-2.1-0/binGroup/man/pooledBinDiff.Rd | 22 +++++++-- 35 files changed, 116 insertions(+), 38 deletions(-)
Title: Weighted Rank Aggregation
Description: Performs aggregation of ordered lists based
on the ranks using several different algorithms:
Cross-Entropy Monte Carlo algorithm, Genetic algorithm, and a
brute force algorithm (for small problems).
Author: Vasyl Pihur <vpihur@gmail.com>, Somnath Datta
<somnath.datta@louisville.edu>, Susmita Datta
<susmita.datta@louisville.edu>
Maintainer: Vasyl Pihur <vpihur@gmail.com>
Diff between RankAggreg versions 0.6.2 dated 2017-08-04 and 0.6.3 dated 2018-03-13
DESCRIPTION | 8 ++++---- MD5 | 16 ++++++++-------- R/BruteAggreg.R | 16 +++++++++------- R/RankAggreg.R | 16 +++++++++------- R/kendall.R | 2 +- build/vignette.rds |binary inst/doc/RankAggreg.pdf |binary man/BruteAggreg.Rd | 5 +++-- man/RankAggreg.Rd | 5 +++-- 9 files changed, 37 insertions(+), 31 deletions(-)
Title: Microplots (Sparklines) in 'LaTeX', 'Word', 'HTML', 'Excel'
Description: The microplot function writes a set of R graphics files to be used as
microplots (sparklines) in tables in either 'LaTeX', 'HTML', 'Word',
or 'Excel' files. For 'LaTeX', we provide methods for the
Hmisc::latex() generic function to construct 'latex' tabular
environments which include the graphs. These can be used directly
with the operating system 'pdflatex' or 'latex' command, or by using
one of 'Sweave', 'knitr', 'rmarkdown', or 'Emacs org-mode' as an
intermediary. For 'MS Word', the msWord() function uses the
'ReporteRs' package to construct 'Word' tables which include the
graphs. There are several distinct approaches for constructing HTML
files. The simplest is to use the msWord() function with argument
filetype="html". Alternatively, use either 'Emacs org-mode' or the
htmlTable::htmlTable() function to construct an 'HTML' file
containing tables which include the graphs. See the documentation
for our as.htmlimg() function. For 'Excel' use on 'Windows', the
file examples/irisExcel.xls includes 'VBA' code which brings the
individual panels into individual cells in the spreadsheet.
Examples in the examples and demo subdirectories are shown with
'lattice' graphics, 'ggplot2' graphics, and 'base' graphics.
Examples for 'LaTeX' include 'Sweave' (both 'LaTeX'-style and
'Noweb'-style), 'knitr', 'emacs org-mode', and 'rmarkdown' input
files and their 'pdf' output files. Examples for 'HTML' include
'org-mode' and 'Rmd' input files and their webarchive 'HTML' output
files. In addition, the as.orgtable() function can display a
data.frame in an 'org-mode' document. The examples for 'MS Word'
(with either filetype="docx" or filetype="html") work with all
operating systems. The package does not require the installation of
'LaTeX' or 'MS Word' to be able to write '.tex' or '.docx' files.
Author: Richard M. Heiberger, with contributions from Karen Byron and Nooreen Dabbish.
Maintainer: Richard M. Heiberger <rmh@temple.edu>
Diff between microplot versions 1.0-25 dated 2018-01-10 and 1.0-38 dated 2018-03-13
microplot-1.0-25/microplot/R/MSWord_TablePlusGraphicColumn.R |only microplot-1.0-25/microplot/R/generics.R |only microplot-1.0-25/microplot/R/microplot_yfactor.ggplot.R |only microplot-1.0-25/microplot/demo/AEdotplot-MSWord.r |only microplot-1.0-25/microplot/demo/AEdotplot-latex.r |only microplot-1.0-25/microplot/demo/boxplot-ggplot-MSWord.r |only microplot-1.0-25/microplot/demo/bwplot-lattice-MSWord.r |only microplot-1.0-25/microplot/man/MSWord.Rd |only microplot-1.0-25/microplot/man/MSWord_TablePlusGraphicColumn.Rd |only microplot-1.0-25/microplot/man/latexCheckOptions.Rd |only microplot-1.0-25/microplot/man/microplot.AEdotplot.Rd |only microplot-1.0-25/microplot/man/pdfMicroplot.Rd |only microplot-1.0-38/microplot/DESCRIPTION | 40 microplot-1.0-38/microplot/MD5 | 103 +- microplot-1.0-38/microplot/NAMESPACE | 58 + microplot-1.0-38/microplot/NEWS | 214 ++--- microplot-1.0-38/microplot/R/AEdotplotMethods.R | 323 ++----- microplot-1.0-38/microplot/R/RemoveDot.R |only microplot-1.0-38/microplot/R/as.includegraphics.R | 131 ++- microplot-1.0-38/microplot/R/dvi.latexConsole.R |only microplot-1.0-38/microplot/R/formatDF.R |only microplot-1.0-38/microplot/R/graphicsList.R |only microplot-1.0-38/microplot/R/latex.trellis.R | 301 ++++--- microplot-1.0-38/microplot/R/latexCheckOptions.R | 49 + microplot-1.0-38/microplot/R/microplot.ggplot.R | 148 +++ microplot-1.0-38/microplot/R/microplot.trellis.R | 174 ++-- microplot-1.0-38/microplot/R/microplotAttrDisplay.R |only microplot-1.0-38/microplot/R/msWord.microplotMatrix.R |only microplot-1.0-38/microplot/build/partial.rdb |binary microplot-1.0-38/microplot/data |only microplot-1.0-38/microplot/demo/00Index | 21 microplot-1.0-38/microplot/demo/AEdotplot.r |only microplot-1.0-38/microplot/demo/Examples.r |only microplot-1.0-38/microplot/demo/HowToUseMicroplot.r |only microplot-1.0-38/microplot/demo/LegendrePolynomials.r | 245 +++-- microplot-1.0-38/microplot/demo/NTplot.r | 85 -- microplot-1.0-38/microplot/demo/boxplot-ggplot.r | 99 -- microplot-1.0-38/microplot/demo/bwplot-lattice.r | 137 +-- microplot-1.0-38/microplot/demo/iris.r | 83 -- microplot-1.0-38/microplot/demo/latex-ggplot.r |only microplot-1.0-38/microplot/demo/latex.r | 206 ++--- microplot-1.0-38/microplot/demo/msWord.r |only microplot-1.0-38/microplot/demo/regrcoef.r |only microplot-1.0-38/microplot/demo/tablesPlusGraphicColumn.r | 154 +-- microplot-1.0-38/microplot/demo/timeseries.r | 149 +-- microplot-1.0-38/microplot/demo/xtable.r |only microplot-1.0-38/microplot/inst/doc/rmhPoster.pdf |binary microplot-1.0-38/microplot/inst/examples/irisMarkdown.Rmd | 34 microplot-1.0-38/microplot/inst/examples/irisOrg.org | 11 microplot-1.0-38/microplot/inst/examples/irisOrgHtml.org | 30 microplot-1.0-38/microplot/inst/examples/irisRMarkdownHtml.Rmd | 2 microplot-1.0-38/microplot/inst/examples/irisWord.R | 4 microplot-1.0-38/microplot/man/LegendrePolyMatrices.Rd |only microplot-1.0-38/microplot/man/as.includegraphics.Rd | 232 ++++- microplot-1.0-38/microplot/man/cc176.y.adj.Rd |only microplot-1.0-38/microplot/man/dir.verify.Rd |only microplot-1.0-38/microplot/man/formatDF.Rd |only microplot-1.0-38/microplot/man/graphicsList.Rd |only microplot-1.0-38/microplot/man/latex.AEdotplot.Rd | 97 +- microplot-1.0-38/microplot/man/latex.trellis.Rd | 384 ++++++--- microplot-1.0-38/microplot/man/latexSetOptions.Rd |only microplot-1.0-38/microplot/man/layoutCollapse.Rd | 20 microplot-1.0-38/microplot/man/microplot-internal.Rd |only microplot-1.0-38/microplot/man/microplot-package.Rd | 410 ++++------ microplot-1.0-38/microplot/man/microplot.Rd | 264 +++--- microplot-1.0-38/microplot/man/microplotAttrDisplay.Rd |only microplot-1.0-38/microplot/man/msWord.Rd |only microplot-1.0-38/microplot/man/show.latexConsole.Rd |only microplot-1.0-38/microplot/man/themeCollapse.Rd | 2 microplot-1.0-38/microplot/man/toxicity.Rd |only 70 files changed, 2318 insertions(+), 1892 deletions(-)
Title: Covariate Balance Tables and Plots
Description: Generate balance tables and plots for covariates of groups preprocessed through matching, weighting or subclassification, for example, using propensity scores. Includes integration with 'MatchIt', 'twang', 'Matching', 'optmatch', 'CBPS', 'ebal', and 'WeightIt' for assessing balance on the output of their preprocessing functions. Users can also specify data for balance assessment not generated through the above packages. Also included are methods for assessing balance in clustered or multiply imputed data sets.
Author: Noah Greifer [aut, cre]
Maintainer: Noah Greifer <noah.greifer@gmail.com>
Diff between cobalt versions 3.2.1 dated 2018-02-20 and 3.2.2 dated 2018-03-13
DESCRIPTION | 14 MD5 | 72 - NEWS.md | 16 R/bal.tab.R | 18 R/functions_for_processing.R | 84 +- R/utilities.R | 17 R/x2base.R | 34 README.md | 86 +- inst/doc/cobalt_A0_basic_use.R | 345 ++++----- inst/doc/cobalt_A0_basic_use.Rmd | 5 inst/doc/cobalt_A0_basic_use.html | 1057 +++++++++++++++++++++++------ inst/doc/cobalt_A1_other_packages.R | 118 +-- inst/doc/cobalt_A1_other_packages.Rmd | 2 inst/doc/cobalt_A1_other_packages.html | 763 ++++++++++++++++++-- inst/doc/cobalt_A2_cluster_imp.R | 21 inst/doc/cobalt_A2_cluster_imp.Rmd | 21 inst/doc/cobalt_A2_cluster_imp.html | 685 +++++++++++------- inst/doc/cobalt_A3_longitudinal_treat.R | 40 - inst/doc/cobalt_A3_longitudinal_treat.Rmd | 2 inst/doc/cobalt_A3_longitudinal_treat.html | 602 ++++++++++++++-- inst/figures/README-unnamed-chunk-3-1.png |binary inst/figures/README-unnamed-chunk-3-2.png |binary inst/figures/README-unnamed-chunk-4-1.png |binary man/bal.tab.CBPS.Rd | 6 man/bal.tab.Match.Rd | 2 man/bal.tab.df.formula.Rd | 2 man/bal.tab.ebalance.Rd | 2 man/bal.tab.list.Rd | 2 man/bal.tab.matchit.Rd | 2 man/bal.tab.optmatch.Rd | 2 man/bal.tab.ps.Rd | 2 man/bal.tab.weightit.Rd | 6 man/class-bal.tab.multi.Rd | 2 vignettes/cobalt_A0_basic_use.Rmd | 5 vignettes/cobalt_A1_other_packages.Rmd | 2 vignettes/cobalt_A2_cluster_imp.Rmd | 21 vignettes/cobalt_A3_longitudinal_treat.Rmd | 2 37 files changed, 3000 insertions(+), 1060 deletions(-)
Title: Fluid Data Transformations
Description: Supplies higher-order fluid data transform operators that include pivot and anti-pivot as special cases.
The methodology is describe in 'Zumel', 2018, "Fluid data reshaping with 'cdata'", <http://winvector.github.io/FluidData/FluidDataReshapingWithCdata.html> , doi:10.5281/zenodo.1173299 .
Based on the 'DBI' database interface.
Author: John Mount [aut, cre],
Nina Zumel [aut],
Win-Vector LLC [cph]
Maintainer: John Mount <jmount@win-vector.com>
Diff between cdata versions 0.5.2 dated 2018-01-20 and 0.6.0 dated 2018-03-13
cdata-0.5.2/cdata/R/tempNameGenerator.R |only cdata-0.5.2/cdata/man/makeTempNameGenerator.Rd |only cdata-0.6.0/cdata/DESCRIPTION | 14 +++--- cdata-0.6.0/cdata/MD5 | 38 +++++++++-------- cdata-0.6.0/cdata/NAMESPACE | 4 + cdata-0.6.0/cdata/NEWS.md | 10 ++++ cdata-0.6.0/cdata/R/RowsColsQ.R | 47 ++++++++++++++++------ cdata-0.6.0/cdata/R/map_fields.R | 2 cdata-0.6.0/cdata/R/old_fns.R | 4 - cdata-0.6.0/cdata/R/package.R | 2 cdata-0.6.0/cdata/README.md | 10 +++- cdata-0.6.0/cdata/build/vignette.rds |binary cdata-0.6.0/cdata/inst/doc/FrameTools.R |only cdata-0.6.0/cdata/inst/doc/FrameTools.Rmd |only cdata-0.6.0/cdata/inst/doc/FrameTools.html |only cdata-0.6.0/cdata/inst/doc/cdata.R | 21 ++++++--- cdata-0.6.0/cdata/inst/doc/cdata.Rmd | 21 ++++++--- cdata-0.6.0/cdata/inst/doc/cdata.html | 30 +++++++------- cdata-0.6.0/cdata/man/blocks_to_rowrecs_q.Rd | 12 ++--- cdata-0.6.0/cdata/man/cols.Rd |only cdata-0.6.0/cdata/man/rowrecs_to_blocks_q.Rd | 6 +- cdata-0.6.0/cdata/tests/testthat/testBuildFrame.R |only cdata-0.6.0/cdata/vignettes/FrameTools.Rmd |only cdata-0.6.0/cdata/vignettes/cdata.Rmd | 21 ++++++--- 24 files changed, 153 insertions(+), 89 deletions(-)
Title: Parametrized Active Bindings
Description: Provides a simple interface for creating active bindings where the
bound function accepts additional arguments.
Author: Kirill Müller [aut, cre] (<https://orcid.org/0000-0002-1416-3412>),
RStudio [cph, fnd]
Maintainer: Kirill Müller <krlmlr+r@mailbox.org>
Diff between bindr versions 0.1 dated 2016-11-12 and 0.1.1 dated 2018-03-13
DESCRIPTION | 18 +++++++++--------- MD5 | 13 +++++++------ NEWS.md | 6 ++++++ R/populate.R | 11 ++++++++--- R/utils.R |only README.md | 8 ++++---- man/bindr-package.Rd | 1 - man/create_env.Rd | 1 - 8 files changed, 34 insertions(+), 24 deletions(-)
Title: An R-Shiny Application for Smith's Mean Measure of Divergence
(MMD)
Description: Offers a graphical user interface for the calculation of the mean measure of divergence, with facilities for trait selection and graphical representations.
Author: Frédéric Santos
Maintainer: Frédéric Santos <frederic.santos@u-bordeaux.fr>
Diff between AnthropMMD versions 2.3.3 dated 2017-12-20 and 2.4.0 dated 2018-03-13
DESCRIPTION | 17 ++++++------- MD5 | 15 ++++++------ NAMESPACE | 2 - inst/AnthropMMDShinyApp/calcMMD.R | 4 +-- inst/AnthropMMDShinyApp/gphMDS.R |only inst/AnthropMMDShinyApp/server.R | 47 +++++++------------------------------- inst/AnthropMMDShinyApp/ui.R | 44 +++++++++++++++++++---------------- man/AnthropMMD-package.Rd | 14 +++++------ man/StartMMD.Rd | 32 ++++++++++++------------- 9 files changed, 75 insertions(+), 100 deletions(-)
Title: Credit Risk Scorecard
Description: Makes the development of credit risk scorecard easily and efficiently by providing functions such as information value, variable filter, optimal woe binning, scorecard scaling and performance evaluation etc. The references including:
1. Refaat, M. (2011, ISBN: 9781447511199). Credit Risk Scorecard: Development and Implementation Using SAS.
2. Siddiqi, N. (2006, ISBN: 9780471754510). Credit risk scorecards. Developing and Implementing Intelligent Credit Scoring.
Author: Shichen Xie
Maintainer: Shichen Xie <xie@shichen.name>
Diff between scorecard versions 0.1.5 dated 2018-01-21 and 0.1.6 dated 2018-03-13
scorecard-0.1.5/scorecard/R/ent_gini.R |only scorecard-0.1.5/scorecard/R/iv.R |only scorecard-0.1.5/scorecard/man/perf_plot.Rd |only scorecard-0.1.6/scorecard/DESCRIPTION | 9 scorecard-0.1.6/scorecard/MD5 | 54 +- scorecard-0.1.6/scorecard/NAMESPACE | 6 scorecard-0.1.6/scorecard/NEWS.md | 7 scorecard-0.1.6/scorecard/R/info_ent_indx_gini.R |only scorecard-0.1.6/scorecard/R/info_value.R |only scorecard-0.1.6/scorecard/R/perf.R | 127 ++--- scorecard-0.1.6/scorecard/R/refs.R |only scorecard-0.1.6/scorecard/R/scorecard.R | 161 ++----- scorecard-0.1.6/scorecard/R/splitdf.R | 14 scorecard-0.1.6/scorecard/R/var_filter.R | 32 - scorecard-0.1.6/scorecard/R/woebin.R | 527 ++++++++++++++--------- scorecard-0.1.6/scorecard/README.md | 103 ++-- scorecard-0.1.6/scorecard/build/vignette.rds |binary scorecard-0.1.6/scorecard/inst/doc/demo.Rmd | 34 - scorecard-0.1.6/scorecard/inst/doc/demo.html | 42 + scorecard-0.1.6/scorecard/man/iv.Rd | 12 scorecard-0.1.6/scorecard/man/perf_eva.Rd | 38 - scorecard-0.1.6/scorecard/man/perf_psi.Rd | 46 -- scorecard-0.1.6/scorecard/man/scorecard.Rd | 26 - scorecard-0.1.6/scorecard/man/scorecard_ply.Rd | 32 - scorecard-0.1.6/scorecard/man/split_df.Rd | 14 scorecard-0.1.6/scorecard/man/var_filter.Rd | 22 scorecard-0.1.6/scorecard/man/woebin.Rd | 22 scorecard-0.1.6/scorecard/man/woebin_adj.Rd | 14 scorecard-0.1.6/scorecard/man/woebin_plot.Rd | 8 scorecard-0.1.6/scorecard/man/woebin_ply.Rd | 14 scorecard-0.1.6/scorecard/vignettes/demo.Rmd | 34 - 31 files changed, 730 insertions(+), 668 deletions(-)
Title: Population Assignment using Genetic, Non-Genetic or Integrated
Data in a Machine Learning Framework
Description: Use Monte-Carlo and K-fold cross-validation coupled with machine-learning classification algorithms to perform population assignment, with functionalities of evaluating discriminatory power of independent training samples, identifying informative loci, reducing data dimensionality for genomic data, integrating genetic and non-genetic data, and visualizing results.
Author: Kuan-Yu (Alex) Chen [aut, cre], Elizabeth A. Marschall [aut], Michael G. Sovic [aut], Anthony C. Fries [aut], H. Lisle Gibbs [aut], Stuart A. Ludsin [aut]
Maintainer: Kuan-Yu (Alex) Chen <alexkychen@gmail.com>
Diff between assignPOP versions 1.1.3 dated 2017-06-15 and 1.1.4 dated 2018-03-13
DESCRIPTION | 6 MD5 | 21 + NAMESPACE | 3 R/accuracy.plot.R | 101 ++++---- R/assign.matrix.R |only R/membership.plot.R | 14 - R/read.Genepop.R | 416 ++++++++++++++++++------------------- R/read.Structure.R | 8 README.md | 101 ++++---- inst/extdata/morphDataX.csv |only inst/extdata/simGenepopX.txt |only man/assign.matrix.Rd |only man/membership.plot.Rd | 2 tests/testthat/test_assignmatrix.R |only 14 files changed, 342 insertions(+), 330 deletions(-)