Title: Text Mining using 'dplyr', 'ggplot2', and Other Tidy Tools
Description: Text mining for word processing and sentiment analysis using
'dplyr', 'ggplot2', and other tidy tools.
Author: Gabriela De Queiroz [ctb],
Os Keyes [ctb] (<https://orcid.org/0000-0001-5196-609X>),
Kanishka Misra [ctb],
David Robinson [aut],
Julia Silge [aut, cre] (<https://orcid.org/0000-0002-3671-836X>)
Maintainer: Julia Silge <julia.silge@gmail.com>
Diff between tidytext versions 0.1.7 dated 2018-02-19 and 0.1.8 dated 2018-03-21
DESCRIPTION | 27 +++-- MD5 | 36 +++--- NEWS.md | 6 + R/sentiments.R | 2 R/unnest_tokens.R | 9 - README.md | 52 ++++----- build/vignette.rds |binary inst/doc/tf_idf.html | 26 ++-- inst/doc/tidying_casting.html | 194 ++++++++++++++++++------------------ inst/doc/tidytext.R | 13 +- inst/doc/tidytext.Rmd | 17 +-- inst/doc/tidytext.html | 107 +++++++++---------- inst/doc/topic_modeling.html | 98 +++++++++--------- man/deprecated-se.Rd | 2 man/sentiments.Rd | 2 man/unnest_tokens.Rd | 6 - tests/testthat/test-unnest-tokens.R | 22 +++- tools/README-unnamed-chunk-9-1.png |binary vignettes/tidytext.Rmd | 17 +-- 19 files changed, 332 insertions(+), 304 deletions(-)
Title: Create Dashboards with 'Shiny'
Description: Create dashboards with 'Shiny'. This package provides
a theme on top of 'Shiny', making it easy to create attractive dashboards.
Author: Winston Chang [aut, cre],
Barbara Borges Ribeiro [aut],
RStudio [cph],
Almasaeed Studio [ctb, cph] (AdminLTE theme for Bootstrap),
Adobe Systems Incorporated [ctb, cph] (Source Sans Pro font)
Maintainer: Winston Chang <winston@rstudio.com>
Diff between shinydashboard versions 0.6.1 dated 2017-06-14 and 0.7.0 dated 2018-03-21
DESCRIPTION | 10 ++++---- LICENSE | 10 ++++---- MD5 | 46 ++++++++++++++++++++--------------------- NEWS.md | 14 ++++++++---- R/dashboardSidebar.R | 4 ++- inst/shinydashboard.js | 16 ++++++++------ inst/shinydashboard.js.map | 2 - inst/shinydashboard.min.js | 4 +-- inst/shinydashboard.min.js.map | 2 - man/box.Rd | 1 man/dropdownMenuOutput.Rd | 1 man/infoBox.Rd | 1 man/menuItemOutput.Rd | 1 man/menuOutput.Rd | 1 man/messageItem.Rd | 1 man/notificationItem.Rd | 1 man/renderMenu.Rd | 1 man/sidebarMenu.Rd | 1 man/sidebarMenuOutput.Rd | 1 man/sidebarSearchForm.Rd | 1 man/sidebarUserPanel.Rd | 1 man/tabBox.Rd | 1 man/taskItem.Rd | 1 man/valueBox.Rd | 1 24 files changed, 74 insertions(+), 49 deletions(-)
More information about shinydashboard at CRAN
Permanent link
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 0.2.3 dated 2018-03-17 and 0.2.4 dated 2018-03-21
DESCRIPTION | 6 +++--- MD5 | 12 ++++++------ R/db-lib.R | 4 +++- R/ledger-lib.R | 1 + build/vignette.rds |binary inst/extdata/polyhedra.RDS |binary man/maxWithoutNA.Rd | 2 +- 7 files changed, 14 insertions(+), 11 deletions(-)
Title: BATWING for Calculating Forensic Trace-Suspect Match
Probabilities
Description: A modified version (with great help from Ian J. Wilson) of Ian J. Wilson's program BATWING for calculating forensic trace-suspect match probabilities.
Author: Mikkel Meyer Andersen and Ian J. Wilson
Maintainer: Mikkel Meyer Andersen <mikl@math.aau.dk>
Diff between rforensicbatwing versions 1.3 dated 2014-06-27 and 1.3.1 dated 2018-03-21
DESCRIPTION | 14 ++++++------- MD5 | 15 ++++++++------ NAMESPACE | 13 +++++++++--- NEWS |only R/RcppExports.R |only R/internalbatwing.R | 11 +++++++++- man/coalmatchprob.Rd | 4 +-- src/RcppExports.cpp |only src/batwing.cpp | 54 +++++++++++++++++++++++++-------------------------- src/batwing.h | 2 - 10 files changed, 66 insertions(+), 47 deletions(-)
More information about rforensicbatwing at CRAN
Permanent link
Title: Interface to 'Python'
Description: Interface to 'Python' modules, classes, and functions. When calling
into 'Python', R data types are automatically converted to their equivalent 'Python'
types. When values are returned from 'Python' to R they are converted back to R
types. Compatible with all versions of 'Python' >= 2.7.
Author: JJ Allaire [aut, cre],
Kevin Ushey [aut],
RStudio [cph, fnd],
Yuan Tang [aut, cph] (<https://orcid.org/0000-0001-5243-233X>),
Dirk Eddelbuettel [ctb, cph],
Bryan Lewis [ctb, cph],
Marcus Geelnard [ctb, cph] (TinyThread library,
http://tinythreadpp.bitsnbites.eu/)
Maintainer: JJ Allaire <jj@rstudio.com>
Diff between reticulate versions 1.5 dated 2018-02-14 and 1.6 dated 2018-03-21
reticulate-1.5/reticulate/inst/doc/introduction.R |only reticulate-1.5/reticulate/inst/doc/introduction.Rmd |only reticulate-1.5/reticulate/inst/doc/introduction.html |only reticulate-1.5/reticulate/tests/testthat/utils.R |only reticulate-1.5/reticulate/vignettes/introduction.Rmd |only reticulate-1.6/reticulate/DESCRIPTION | 19 reticulate-1.6/reticulate/MD5 | 149 - reticulate-1.6/reticulate/NAMESPACE | 26 reticulate-1.6/reticulate/NEWS.md | 29 reticulate-1.6/reticulate/R/RcppExports.R | 8 reticulate-1.6/reticulate/R/conda.R |only reticulate-1.6/reticulate/R/config.R | 18 reticulate-1.6/reticulate/R/conversion.R |only reticulate-1.6/reticulate/R/generator.R | 11 reticulate-1.6/reticulate/R/help.R | 133 + reticulate-1.6/reticulate/R/knitr-engine.R | 16 reticulate-1.6/reticulate/R/package.R | 2 reticulate-1.6/reticulate/R/python.R | 84 reticulate-1.6/reticulate/R/repl.R |only reticulate-1.6/reticulate/R/source.R | 10 reticulate-1.6/reticulate/R/use_python.R | 245 -- reticulate-1.6/reticulate/R/utils.R | 39 reticulate-1.6/reticulate/R/virtualenv.R |only reticulate-1.6/reticulate/R/wrapper.R | 16 reticulate-1.6/reticulate/R/zzz.R | 9 reticulate-1.6/reticulate/build/vignette.rds |binary reticulate-1.6/reticulate/inst/doc/arrays.Rmd | 3 reticulate-1.6/reticulate/inst/doc/arrays.html | 1030 ++++++---- reticulate-1.6/reticulate/inst/doc/calling_python.R |only reticulate-1.6/reticulate/inst/doc/calling_python.Rmd |only reticulate-1.6/reticulate/inst/doc/calling_python.html |only reticulate-1.6/reticulate/inst/doc/package.R | 16 reticulate-1.6/reticulate/inst/doc/package.Rmd | 47 reticulate-1.6/reticulate/inst/doc/package.html | 430 +++- reticulate-1.6/reticulate/inst/doc/python_packages.R |only reticulate-1.6/reticulate/inst/doc/python_packages.Rmd |only reticulate-1.6/reticulate/inst/doc/python_packages.html |only reticulate-1.6/reticulate/inst/doc/r_markdown.R |only reticulate-1.6/reticulate/inst/doc/r_markdown.Rmd |only reticulate-1.6/reticulate/inst/doc/r_markdown.html |only reticulate-1.6/reticulate/inst/doc/versions.Rmd | 15 reticulate-1.6/reticulate/inst/doc/versions.html | 375 +++ reticulate-1.6/reticulate/man/conda-tools.Rd | 20 reticulate-1.6/reticulate/man/dict.Rd | 7 reticulate-1.6/reticulate/man/eng_python.Rd | 2 reticulate-1.6/reticulate/man/py.Rd | 5 reticulate-1.6/reticulate/man/py_function_wrapper.Rd | 1 reticulate-1.6/reticulate/man/py_iterator.Rd | 5 reticulate-1.6/reticulate/man/py_to_r_wrapper.Rd | 3 reticulate-1.6/reticulate/man/r-py-conversion.Rd | 16 reticulate-1.6/reticulate/man/repl_python.Rd |only reticulate-1.6/reticulate/man/source_python.Rd | 2 reticulate-1.6/reticulate/man/use_python.Rd | 6 reticulate-1.6/reticulate/man/virtualenv-tools.Rd |only reticulate-1.6/reticulate/src/RcppExports.cpp | 22 reticulate-1.6/reticulate/src/python.cpp | 5 reticulate-1.6/reticulate/src/readline.cpp |only reticulate-1.6/reticulate/tests/testthat/helper-utils.R |only reticulate-1.6/reticulate/tests/testthat/resources/eng-reticulate-example.html | 212 +- reticulate-1.6/reticulate/tests/testthat/script.py | 10 reticulate-1.6/reticulate/tests/testthat/test-delay-load.R | 2 reticulate-1.6/reticulate/tests/testthat/test-examples.R | 2 reticulate-1.6/reticulate/tests/testthat/test-help-handlers.R |only reticulate-1.6/reticulate/tests/testthat/test-python-classes.R | 2 reticulate-1.6/reticulate/tests/testthat/test-python-closures.R | 2 reticulate-1.6/reticulate/tests/testthat/test-python-comparisons.R | 2 reticulate-1.6/reticulate/tests/testthat/test-python-complex.R | 2 reticulate-1.6/reticulate/tests/testthat/test-python-datetime.R |only reticulate-1.6/reticulate/tests/testthat/test-python-dict.R | 9 reticulate-1.6/reticulate/tests/testthat/test-python-envs.R |only reticulate-1.6/reticulate/tests/testthat/test-python-factors.R |only reticulate-1.6/reticulate/tests/testthat/test-python-function.R | 2 reticulate-1.6/reticulate/tests/testthat/test-python-iterators.R | 2 reticulate-1.6/reticulate/tests/testthat/test-python-lists.R | 2 reticulate-1.6/reticulate/tests/testthat/test-python-numpy.R | 2 reticulate-1.6/reticulate/tests/testthat/test-python-output.R | 2 reticulate-1.6/reticulate/tests/testthat/test-python-pandas.R |only reticulate-1.6/reticulate/tests/testthat/test-python-pickle.R | 2 reticulate-1.6/reticulate/tests/testthat/test-python-source.R | 17 reticulate-1.6/reticulate/tests/testthat/test-python-strings.R | 4 reticulate-1.6/reticulate/tests/testthat/test-python-vectors.R | 2 reticulate-1.6/reticulate/vignettes/arrays.Rmd | 3 reticulate-1.6/reticulate/vignettes/calling_python.Rmd |only reticulate-1.6/reticulate/vignettes/extra.css |only reticulate-1.6/reticulate/vignettes/images |only reticulate-1.6/reticulate/vignettes/package.Rmd | 47 reticulate-1.6/reticulate/vignettes/python_packages.Rmd |only reticulate-1.6/reticulate/vignettes/r_markdown.Rmd |only reticulate-1.6/reticulate/vignettes/versions.Rmd | 15 89 files changed, 2138 insertions(+), 1029 deletions(-)
Title: Robust Data-Driven Statistical Inference in
Regression-Discontinuity Designs
Description: Regression-discontinuity (RD) designs are quasi-experimental research designs popular in social, behavioral and natural sciences. The RD design is usually employed to study the (local) causal effect of a treatment, intervention or policy. This package provides tools for data-driven graphical and analytical statistical inference in RD designs: rdrobust() to construct local-polynomial point estimators and robust confidence intervals for average treatment effects at the cutoff in Sharp, Fuzzy and Kink RD settings, rdbwselect() to perform bandwidth selection for the different procedures implemented, and rdplot() to conduct exploratory data analysis (RD plots).
Author: Sebastian Calonico <scalonico@bus.miami.edu>, Matias D. Cattaneo <cattaneo@umich.edu>, Max H. Farrell <max.farrell@chicagobooth.edu>, Rocio Titiunik <titiunik@umich.edu>
Maintainer: Sebastian Calonico <scalonico@bus.miami.edu>
Diff between rdrobust versions 0.99 dated 2018-01-03 and 0.99.1 dated 2018-03-21
DESCRIPTION | 8 ++++---- MD5 | 24 ++++++++++++------------ R/functions.R | 8 +------- R/rdbwselect.R | 9 +++------ R/rdbwselect_2014.R | 9 --------- R/rdplot.R | 2 -- R/rdrobust.R | 11 +++++------ man/rdbwselect.Rd | 22 +++++++++++----------- man/rdbwselect_2014.Rd | 2 +- man/rdplot.Rd | 10 +++++----- man/rdrobust-package.Rd | 4 ++-- man/rdrobust.Rd | 22 +++++++++++----------- man/rdrobust_RDsenate.Rd | 6 +++--- 13 files changed, 58 insertions(+), 79 deletions(-)
Title: Calculating Proportionality Between Vectors of Compositional
Data
Description: The bioinformatic evaluation of gene co-expression often begins with
correlation-based analyses. However, this approach lacks statistical validity
when applied to relative data. This includes, for example, biological count data
generated by high-throughput RNA-sequencing, chromatin immunoprecipitation (ChIP),
ChIP-sequencing, Methyl-Capture sequencing, and other techniques. This package
implements several metrics for proportionality, including
phi [Lovell et al (2015) <DOI:10.1371/journal.pcbi.1004075>] and
rho [Erb and Notredame (2016) <DOI:10.1007/s12064-015-0220-8>]. This package also
implements several metrics for differential proportionality. Unlike correlation,
these measures give the same result for both relative and absolute data.
Author: Thomas Quinn [aut, cre],
David Lovell [aut],
Ionas Erb [aut],
Anders Bilgrau [ctb],
Greg Gloor [ctb]
Maintainer: Thomas Quinn <contacttomquinn@gmail.com>
Diff between propr versions 3.1.4 dated 2018-01-18 and 3.1.8 dated 2018-03-21
propr-3.1.4/propr/src/init.c |only propr-3.1.8/propr/DESCRIPTION | 6 propr-3.1.8/propr/MD5 | 37 ++--- propr-3.1.8/propr/NAMESPACE | 1 propr-3.1.8/propr/NEWS.md | 34 ++++ propr-3.1.8/propr/R/RcppExports.R | 60 ++++---- propr-3.1.8/propr/R/propd.R | 21 ++ propr-3.1.8/propr/R/propr.R | 3 propr-3.1.8/propr/R/theta.R | 94 ++++++------- propr-3.1.8/propr/build/vignette.rds |binary propr-3.1.8/propr/inst/doc/a_introduction.html | 4 propr-3.1.8/propr/inst/doc/b_visualization.html | 4 propr-3.1.8/propr/inst/doc/c_indexing.html | 4 propr-3.1.8/propr/inst/doc/d_advanced.html | 4 propr-3.1.8/propr/inst/doc/e_differential.html | 4 propr-3.1.8/propr/inst/doc/f_moderation.html | 4 propr-3.1.8/propr/inst/doc/g_questions.html | 4 propr-3.1.8/propr/man/propd.Rd | 4 propr-3.1.8/propr/src/RcppExports.cpp | 99 +++++++++---- propr-3.1.8/propr/tests/testthat/test-Fstat.R | 170 +++--------------------- 20 files changed, 262 insertions(+), 295 deletions(-)
Title: Random Perturbation of Count Matrices
Description: The perturbR() function incrementally perturbs network edges (using the rewireR function)and compares the resulting community detection solutions
from the rewired networks with the solution found for the original network.
These comparisons aid in understanding the stability of the
original solution. The package requires symmetric, weighted (specifically, count) matrices/networks.
Author: KM Gates [aut, cre],
Zachary Fisher [aut],
Cara Arizmendi [aut]
Maintainer: KM Gates <gateskm@email.unc.edu>
Diff between perturbR versions 0.1.0 dated 2017-12-01 and 0.1.1 dated 2018-03-21
DESCRIPTION | 13 ++--- MD5 | 15 +++--- NAMESPACE | 3 + R/perturbR-pkg.R | 4 + R/perturbR.R | 118 +++++++++++++++++++++++++++++++----------------- R/rewireR.R | 47 ++++++++++++++----- man/perturbR-package.Rd | 2 man/perturbR.Rd | 16 +++++- man/rewireR.Rd |only 9 files changed, 148 insertions(+), 70 deletions(-)
Title: Tools for the Analysis of Air Pollution Data
Description: Tools to analyse, interpret and understand air
pollution data. Data are typically hourly time series
and both monitoring data and dispersion model output
can be analysed. Many functions can also be applied to
other data, including meteorological and traffic data.
Author: David Carslaw [aut, cre],
Karl Ropkins [aut]
Maintainer: David Carslaw <david.carslaw@york.ac.uk>
Diff between openair versions 2.2-3 dated 2018-02-26 and 2.3-0 dated 2018-03-21
DESCRIPTION | 8 - MD5 | 34 ++-- NAMESPACE | 3 R/TheilSen.R | 29 ++- R/calendarPlot.R | 352 ++++++++++++++++++++------------------------ R/senTheil.R | 2 R/summaryPlot.R | 12 + R/timePlot.R | 11 + R/timeVariation.R | 6 R/utilities.R | 95 +++++++---- R/windRose.R | 52 +++--- R/zzz.R | 2 man/TheilSen.Rd | 9 + man/calendarPlot.Rd | 288 +++++++++++++++++------------------- man/selectByDate.Rd | 49 ++---- man/windRose.Rd | 4 tools/unnamed-chunk-6-1.png |binary tools/unnamed-chunk-7-1.png |binary 18 files changed, 497 insertions(+), 459 deletions(-)
Title: Tools for Units of Measurement
Description: Collection of tools to make working with physical measurements
easier. Convert between metric and imperial units, or calculate a dimension's
unknown value from other dimensions' measurements.
Author: Matthew A. Birk
Maintainer: Matthew A. Birk <matthewabirk@gmail.com>
Diff between measurements versions 1.1.0 dated 2016-10-28 and 1.2.0 dated 2018-03-21
DESCRIPTION | 10 +++++----- MD5 | 18 +++++++++--------- NEWS | 5 +++++ R/conv_unit.R | 32 +++++++++++++++++++------------- R/measurements.R | 2 ++ man/conv_dim.Rd | 7 +++---- man/conv_multiunit.Rd | 7 +++---- man/conv_unit.Rd | 11 ++++++----- man/conv_unit_options.Rd | 9 +++++---- man/measurements.Rd | 1 - 10 files changed, 57 insertions(+), 45 deletions(-)
Title: Generate 'CodeMeta' Metadata for R Packages
Description: The 'Codemeta' Project defines a 'JSON-LD' format for describing
software metadata, as detailed at <https://codemeta.github.io>. This package
provides utilities to generate, parse, and modify 'codemeta.json' files
automatically for R packages, as well as tools and examples for working with
'codemeta.json' 'JSON-LD' more generally.
Author: Carl Boettiger [aut, cre, cph]
(<https://orcid.org/0000-0002-1642-628X>),
Anna Krystalli [rev] (<https://orcid.org/0000-0002-2378-4915>),
Toph Allen [rev] (<https://orcid.org/0000-0003-4580-091X>)
Maintainer: Carl Boettiger <cboettig@gmail.com>
Diff between codemetar versions 0.1.4 dated 2018-02-12 and 0.1.5 dated 2018-03-21
DESCRIPTION | 20 - MD5 | 40 +- NEWS.md | 8 R/codemeta_description.R | 4 R/codemetar.R | 2 R/crosswalk.R | 6 README.md | 12 build/vignette.rds |binary inst/doc/A-codemeta-intro.html | 302 ++++++++++++++++--- inst/doc/B-translating.html | 360 ++++++++++++++++++----- inst/doc/C-validation-in-json-ld.R | 10 inst/doc/C-validation-in-json-ld.Rmd | 10 inst/doc/C-validation-in-json-ld.html | 440 ++++++++++++++++++++-------- inst/doc/D-codemeta-parsing.html | 500 ++++++++++++++++++++++---------- inst/examples/codemeta-v1.json | 2 man/codemetar-package.Rd | 8 man/crosswalk.Rd | 2 man/crosswalk_transform.Rd | 2 tests/testthat/test-cloned-repo.R | 4 tests/testthat/test-codemeta_validate.R | 1 vignettes/C-validation-in-json-ld.Rmd | 10 21 files changed, 1304 insertions(+), 439 deletions(-)
Title: Business Process Analysis in R
Description: Comprehensive Business Process Analysis toolkit. Creates S3-class for event log objects, and related handler functions. Imports related packages for filtering event data, computation of descriptive statistics, handling of 'Petri Net' objects and visualization of process maps. See also packages 'edeaR','processmapR', 'eventdataR' and 'processmonitR'.
Author: Gert Janssenswillen [aut, cre]
Maintainer: Gert Janssenswillen <gert.janssenswillen@uhasselt.be>
Diff between bupaR versions 0.3.2 dated 2017-12-04 and 0.4.0 dated 2018-03-21
DESCRIPTION | 11 +++--- MD5 | 39 ++++++++++++----------- NAMESPACE | 4 ++ R/act_collapse.R | 30 +++++++++++------- R/activities_to_eventlog.R | 2 - R/bupar.R | 1 R/case_list.R | 5 +-- R/eventlog.R | 39 +++++++++++++++++++++-- R/filter.R | 5 +-- R/group_by.eventlog.R | 18 ++++++++++ R/re_map.R | 3 + R/sample_n.eventlog.R | 2 - R/simple_eventlog.R | 16 +++++++-- R/slice.eventlog.R | 1 R/trace_list.R | 11 +++++- R/traces.R | 74 +++++++++++++++++++++++---------------------- R/zzz.R | 34 ++++++++++---------- man/eventlog.Rd | 8 ++++ man/simple_eventlog.Rd | 10 ++++-- man/ungroup_eventlog.Rd |only tests |only 21 files changed, 207 insertions(+), 106 deletions(-)
Title: Incremental Cost-Effectiveness Inference on Two Unbiased Samples
Description: Given two unbiased samples of patient level data on cost and effectiveness
for a pair of treatments, make head-to-head treatment comparisons by (i) generating the
bivariate bootstrap resampling distribution of ICE uncertainty for a specified value of
the shadow price of health, lambda, (ii) form the wedge-shaped ICE confidence region with
specified confidence fraction within [0.50, 0.99] that is equivariant with respect to
changes in lambda, (iii) color the bootstrap outcomes within the above confidence wedge
with economic preferences from an ICE map with specified values of lambda, beta and gamma
parameters, (iv) display VAGR and ALICE acceptability curves, and (v) illustrate variation
in ICE preferences by displaying potentially non-linear indifference(iso-preference) curves
from an ICE map with specified values of lambda, beta and either gamma or eta parameters.
Author: Bob Obenchain <wizbob@att.net>
Maintainer: Bob Obenchain <wizbob@att.net>
Diff between ICEinfer versions 1.0-1 dated 2014-01-14 and 1.0-4 dated 2018-03-21
ICEinfer-1.0-1/ICEinfer/demo/fluoxtca.R |only ICEinfer-1.0-1/ICEinfer/inst |only ICEinfer-1.0-4/ICEinfer/COPYING | 3 ICEinfer-1.0-4/ICEinfer/DESCRIPTION | 15 ++-- ICEinfer-1.0-4/ICEinfer/MD5 | 48 ++++++-------- ICEinfer-1.0-4/ICEinfer/NAMESPACE | 37 ++++++++-- ICEinfer-1.0-4/ICEinfer/R/ICEinfer.R | 82 ++++++++++++------------ ICEinfer-1.0-4/ICEinfer/data/dpunc.rda |binary ICEinfer-1.0-4/ICEinfer/data/dpwdg.rda |binary ICEinfer-1.0-4/ICEinfer/demo/00Index | 1 ICEinfer-1.0-4/ICEinfer/demo/dulxparx.R | 8 +- ICEinfer-1.0-4/ICEinfer/demo/fluoxpin.R | 8 +- ICEinfer-1.0-4/ICEinfer/man/ICEalice.Rd | 12 +-- ICEinfer-1.0-4/ICEinfer/man/ICEcolor.Rd | 3 ICEinfer-1.0-4/ICEinfer/man/ICEepmap.Rd | 3 ICEinfer-1.0-4/ICEinfer/man/ICEinfer-package.Rd | 14 +--- ICEinfer-1.0-4/ICEinfer/man/ICEscale.Rd | 15 +--- ICEinfer-1.0-4/ICEinfer/man/ICEuncrt.Rd | 15 +--- ICEinfer-1.0-4/ICEinfer/man/ICEwedge.Rd | 3 ICEinfer-1.0-4/ICEinfer/man/dpunc.Rd | 6 - ICEinfer-1.0-4/ICEinfer/man/dpwdg.Rd | 6 - ICEinfer-1.0-4/ICEinfer/man/dulxparx.Rd | 7 -- ICEinfer-1.0-4/ICEinfer/man/fluoxpin.Rd | 11 +-- ICEinfer-1.0-4/ICEinfer/man/fluoxtca.Rd | 15 +--- ICEinfer-1.0-4/ICEinfer/man/plot.ICEuncrt.Rd | 6 - ICEinfer-1.0-4/ICEinfer/man/print.ICEuncrt.Rd | 4 - 26 files changed, 141 insertions(+), 181 deletions(-)
Title: Network Enrichment Analysis
Description: Performs network enrichment analysis against functional gene sets.
Benchmarks networks. Renders raw gene profile matrices of dimensionality "N genes
x N samples" into the space of gene set (typically pathway) enrichment scores of
dimensionality "N pathways x N samples".
Author: Andrey Alexeyenko [aut, cph, ths],
Ashwini Jeggari [aut, cre]
Maintainer: Ashwini Jeggari <ashwinipriya.jeggari@ki.se>
Diff between NEArender versions 1.4 dated 2016-08-25 and 1.5 dated 2018-03-21
NEArender-1.4/NEArender/man/char2int.Rd |only NEArender-1.5/NEArender/DESCRIPTION | 27 - NEArender-1.5/NEArender/MD5 | 88 ++-- NEArender-1.5/NEArender/NAMESPACE | 2 NEArender-1.5/NEArender/R/as-genes-fgs.r | 3 NEArender-1.5/NEArender/R/benchmark.r | 122 +++--- NEArender-1.5/NEArender/R/char2int.r | 55 +- NEArender-1.5/NEArender/R/connectivity.r | 101 ++--- NEArender-1.5/NEArender/R/gsea-render.r | 30 - NEArender-1.5/NEArender/R/heatplot.r | 2 NEArender-1.5/NEArender/R/import-gs.r | 28 - NEArender-1.5/NEArender/R/import-net.r | 47 +- NEArender-1.5/NEArender/R/mutations2ags.r | 39 +- NEArender-1.5/NEArender/R/nea-data.r | 2 NEArender-1.5/NEArender/R/nea-render.r | 99 +++-- NEArender-1.5/NEArender/R/roc.r | 166 +++++--- NEArender-1.5/NEArender/R/sample2ags.r | 51 +- NEArender-1.5/NEArender/R/save_gs_list.r | 2 NEArender-1.5/NEArender/R/topology2nd.r | 62 +-- NEArender-1.5/NEArender/build/vignette.rds |binary NEArender-1.5/NEArender/inst/doc/NEArender_vignette.R | 135 +------ NEArender-1.5/NEArender/inst/doc/NEArender_vignette.Rmd | 267 ++++---------- NEArender-1.5/NEArender/inst/doc/NEArender_vignette.pdf |binary NEArender-1.5/NEArender/inst/extdata |only NEArender-1.5/NEArender/man/as_genes_fgs.Rd | 4 NEArender-1.5/NEArender/man/benchmark.Rd | 25 - NEArender-1.5/NEArender/man/can.sig.go.Rd | 1 NEArender-1.5/NEArender/man/char2int.fast.Rd |only NEArender-1.5/NEArender/man/connectivity.Rd | 39 +- NEArender-1.5/NEArender/man/fantom5.43samples.Rd | 1 NEArender-1.5/NEArender/man/gsea.render.Rd | 7 NEArender-1.5/NEArender/man/import.gs.Rd | 12 NEArender-1.5/NEArender/man/import.net.Rd | 15 NEArender-1.5/NEArender/man/mutations2ags.Rd | 9 NEArender-1.5/NEArender/man/nea.render.Rd | 30 - NEArender-1.5/NEArender/man/net.kegg.Rd | 1 NEArender-1.5/NEArender/man/roc.Rd | 51 +- NEArender-1.5/NEArender/man/samples2ags.Rd | 19 NEArender-1.5/NEArender/man/save_gs_list.Rd | 3 NEArender-1.5/NEArender/man/set.heat.Rd | 3 NEArender-1.5/NEArender/man/tcga.gbm.Rd | 1 NEArender-1.5/NEArender/man/topology2nd.Rd | 8 NEArender-1.5/NEArender/vignettes/NEArender_vignette.Rmd | 244 +++--------- NEArender-1.5/NEArender/vignettes/NEArender_vignette.html |only NEArender-1.5/NEArender/vignettes/images |only 45 files changed, 851 insertions(+), 950 deletions(-)
Title: Imagine Your Data Before You Collect It
Description: Helps you imagine your data before you collect it. Hierarchical data structures
and correlated data can be easily simulated, either from random number generators or
by resampling from existing data sources. This package is faster with 'data.table' and
'mvnfast' installed.
Author: Graeme Blair [aut, cre],
Jasper Cooper [aut],
Alexander Coppock [aut],
Macartan Humphreys [aut],
Aaron Rudkin [aut],
Neal Fultz [ctb]
Maintainer: Graeme Blair <graeme.blair@ucla.edu>
Diff between fabricatr versions 0.2.0 dated 2018-01-25 and 0.4.0 dated 2018-03-21
fabricatr-0.2.0/fabricatr/R/fabricate.R |only fabricatr-0.2.0/fabricatr/build |only fabricatr-0.2.0/fabricatr/inst |only fabricatr-0.2.0/fabricatr/man/draw_binomial.Rd |only fabricatr-0.2.0/fabricatr/vignettes |only fabricatr-0.4.0/fabricatr/DESCRIPTION | 17 fabricatr-0.4.0/fabricatr/MD5 | 88 -- fabricatr-0.4.0/fabricatr/NAMESPACE | 42 + fabricatr-0.4.0/fabricatr/R/aaa_fabricate.R |only fabricatr-0.4.0/fabricatr/R/add_level.R | 13 fabricatr-0.4.0/fabricatr/R/correlate.R |only fabricatr-0.4.0/fabricatr/R/cross_classify_helpers.R | 59 + fabricatr-0.4.0/fabricatr/R/cross_levels.R | 5 fabricatr-0.4.0/fabricatr/R/draw_binary_icc.R | 11 fabricatr-0.4.0/fabricatr/R/draw_normal_icc.R | 53 - fabricatr-0.4.0/fabricatr/R/helper_functions.R | 291 +++++---- fabricatr-0.4.0/fabricatr/R/modify_level.R | 40 - fabricatr-0.4.0/fabricatr/R/nest_level.R | 28 fabricatr-0.4.0/fabricatr/R/resample_data.R | 171 ++++- fabricatr-0.4.0/fabricatr/R/variable_creation_functions.R | 274 ++++++-- fabricatr-0.4.0/fabricatr/man/correlate.Rd |only fabricatr-0.4.0/fabricatr/man/draw_discrete.Rd |only fabricatr-0.4.0/fabricatr/man/fabricate.Rd | 38 - fabricatr-0.4.0/fabricatr/man/get_unique_variables_by_level.Rd |only fabricatr-0.4.0/fabricatr/man/level.Rd | 2 fabricatr-0.4.0/fabricatr/man/recycle.Rd |only fabricatr-0.4.0/fabricatr/man/resample_data.Rd | 11 fabricatr-0.4.0/fabricatr/man/split_quantile.Rd |only fabricatr-0.4.0/fabricatr/tests/testthat/test-crossclassified.R | 96 ++- fabricatr-0.4.0/fabricatr/tests/testthat/test-fabrication.R | 207 ++++-- fabricatr-0.4.0/fabricatr/tests/testthat/test-helper-functions.R | 12 fabricatr-0.4.0/fabricatr/tests/testthat/test-hierarchical.R | 70 ++ fabricatr-0.4.0/fabricatr/tests/testthat/test-misc.R | 55 + fabricatr-0.4.0/fabricatr/tests/testthat/test-resampling.R | 100 ++- fabricatr-0.4.0/fabricatr/tests/testthat/test-start-with-existing-data.R | 26 fabricatr-0.4.0/fabricatr/tests/testthat/test-variables.R | 317 +++++++--- 36 files changed, 1496 insertions(+), 530 deletions(-)
Title: Intrinsic Dimension for Data Mining
Description: Contains techniques for mining large and high-dimensional data
sets by using the concept of Intrinsic Dimension (ID). Here the ID is
not necessarily integer. It is extended to fractal dimensions. And
the Morisita estimator is used for the ID estimation, but other
tools are included as well.
Author: Jean Golay [aut, cre],
Mohamed Laib [aut]
Maintainer: Jean Golay <Jean.Golay@unil.ch>
Diff between IDmining versions 1.0.3 dated 2017-10-25 and 1.0.4 dated 2018-03-21
DESCRIPTION | 16 ++++++++++------ MD5 | 12 ++++++------ R/MBFR.r | 12 ++++++------ R/MBFR_parallel.R | 16 ++++++++-------- R/MINDID_FMC.R | 6 +++--- man/IDmining-package.Rd | 4 ++-- man/MINDID_FMC.Rd | 4 ++-- 7 files changed, 37 insertions(+), 33 deletions(-)
Title: Dose Response Data Analysis using the 4 Parameter Logistic (4pl)
Model
Description: Models the relationship between dose levels and responses in a pharmacological experiment using the 4 Parameter Logistic model. Traditional packages on dose-response modelling such as 'drc' and 'nplr' often draw errors due to convergence failure especially when data have outliers or non-logistic shapes. This package provides robust estimation methods that are less affected by outliers and other initialization methods that work well for data lacking logistic shapes. We provide the bounds on the parameters of the 4PL model that prevent parameter estimates from diverging or converging to zero and base their justification in a statistical principle. These methods are used as remedies to convergence failure problems. Gadagkar, S. R. and Call, G. B. (2015) <doi:10.1016/j.vascn.2014.08.006> Ritz, C. and Baty, F. and Streibig, J. C. and Gerhard, D. (2015) <doi:10.1371/journal.pone.0146021>.
Author: Justin T. Landis [aut, cre],
Hyowon An [aut],
Aubrey G. Bailey [aut]
Maintainer: Justin T. Landis <jtlandis314@gmail.com>
Diff between dr4pl versions 1.0.0 dated 2017-10-22 and 1.1.1 dated 2018-03-21
DESCRIPTION | 16 +-- MD5 | 57 ++++++----- NAMESPACE | 8 + NEWS.md |only R/auxiliary.R | 207 +++++++++++++++++++++------------------- R/base.R | 133 +++++++++++-------------- R/initialization.R | 164 ++++++++++++++++--------------- R/main.R | 39 +++++-- R/outlier_detection.R | 36 +++--- README.md | 10 - build/partial.rdb |binary build/vignette.rds |binary data/drc_error_1.rda |binary data/drc_error_2.rda |binary data/drc_error_3.rda |binary data/drc_error_4.rda |binary inst/doc/usageExamples.R | 3 inst/doc/usageExamples.Rmd | 10 + inst/doc/usageExamples.html | 151 ++++++++++++++--------------- inst/doc/usage_examples_HA.R |only inst/doc/usage_examples_HA.Rmd |only inst/doc/usage_examples_HA.html |only man/FindHillBounds.Rd |only man/FindInitialParms.Rd |only man/FindLogisticGrids.Rd |only man/MeanResponse.Rd |only man/OutlierDetection.Rd |only man/confint.dr4pl.Rd | 21 ++-- man/dr4pl.Rd | 18 +-- man/gof.dr4pl.Rd | 26 +++-- man/plot.dr4pl.Rd | 57 +++++------ man/print.summary.dr4pl.Rd | 10 - man/vcov.dr4pl.Rd |only vignettes/usageExamples.Rmd | 10 + vignettes/usage_examples_HA.Rmd |only 35 files changed, 518 insertions(+), 458 deletions(-)
Title: Download NRCS Data
Description: Downloads Natural Resources Conservation Service (NRCS) data for sites in the Soil Climate Analysis Network (SCAN) <https://www.wcc.nrcs.usda.gov/scan/>, and Snow Telemetry (SNOTEL and SNOLITE) <https://www.wcc.nrcs.usda.gov/snow/> networks. Metadata can be returned for all sites in the NRCS' Air and Water Data Base (AWDB) <https://www.wcc.nrcs.usda.gov/report_generator/AWDB_Network_Codes.pdf>.
Author: Robert Lee <rhlee@colorado.edu>, Josh Roberti <jaroberti87@gmail.com>,
Maintainer: Robert Lee <rhlee@colorado.edu>
Diff between RNRCS versions 0.2.0 dated 2017-07-13 and 0.2.5 dated 2018-03-21
RNRCS-0.2.0/RNRCS/README.md |only RNRCS-0.2.5/RNRCS/DESCRIPTION | 8 +++--- RNRCS-0.2.5/RNRCS/MD5 | 10 +++---- RNRCS-0.2.5/RNRCS/NEWS.md |only RNRCS-0.2.5/RNRCS/R/grabNRCSdata.R | 26 ++++++++++++------- RNRCS-0.2.5/RNRCS/R/plotWindRose.R | 43 ++++++++++++++++++++++----------- RNRCS-0.2.5/RNRCS/man/grabNRCS.data.Rd | 2 + 7 files changed, 56 insertions(+), 33 deletions(-)
Title: Visualize Species Occurrence Data
Description: Utilities for visualizing species occurrence data. Includes
functions to visualize occurrence data from 'spocc', 'rgbif',
and other packages. Mapping options included for base R plots, 'ggplot2',
'ggmap', 'leaflet' and 'GitHub' 'gists'.
Author: Scott Chamberlain [aut, cre] (<https://orcid.org/0000-0003-1444-9135>)
Maintainer: Scott Chamberlain <myrmecocystus@gmail.com>
Diff between mapr versions 0.3.4 dated 2017-04-11 and 0.4.0 dated 2018-03-21
DESCRIPTION | 16 ++++++++++------ LICENSE | 2 +- MD5 | 36 ++++++++++++++++++------------------ NAMESPACE | 5 +++++ NEWS.md | 15 ++++++++++++--- R/map_ggmap.R | 24 +++++++++++++++++++++++- R/map_ggplot.R | 27 +++++++++++++++++++++++++-- R/map_gist.R | 23 ++++++++++++++++++++++- R/map_leaflet.R | 26 +++++++++++++++++++++++++- R/map_plot.R | 25 ++++++++++++++++++++++++- R/zzz.r | 6 ++++++ README.md | 8 +++++--- build/vignette.rds |binary man/map_ggmap.Rd | 21 +++++++++++++++++---- man/map_ggplot.Rd | 24 +++++++++++++++++++----- man/map_gist.Rd | 22 ++++++++++++++++++---- man/map_leaflet.Rd | 22 ++++++++++++++++++---- man/map_plot.Rd | 21 +++++++++++++++++---- tests/testthat/test-map_ggplot.R | 2 +- 19 files changed, 266 insertions(+), 59 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 1.2.1 dated 2018-03-20 and 1.2.2 dated 2018-03-21
DESCRIPTION | 8 ++++---- MD5 | 26 +++++++++++++------------- NAMESPACE | 1 + NEWS.md | 15 +++++++++++++++ R/fs_bytes.R | 5 +++-- R/fs_path.R | 1 + R/fs_perms.R | 11 ++++++----- R/package.R | 1 + src/Makevars | 3 --- src/error.h | 18 +++++++++++------- src/file.cc | 8 ++++---- src/link.cc | 4 ++-- src/path.cc | 5 ++++- src/utils.cc | 4 ++-- 14 files changed, 67 insertions(+), 43 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 2.4.0 dated 2018-03-13 and 2.5.0 dated 2018-03-21
DESCRIPTION | 10 +-- MD5 | 30 ++++----- NAMESPACE | 1 inst/AnthropMMDShinyApp/calcIMD.R | 17 +++-- inst/AnthropMMDShinyApp/calcMMD.R | 23 +++---- inst/AnthropMMDShinyApp/extractGroups.R | 12 ++- inst/AnthropMMDShinyApp/fisherTestTab.R | 6 - inst/AnthropMMDShinyApp/gphMDS.R | 98 +++++++++++++++++++++++--------- inst/AnthropMMDShinyApp/max3.R | 9 +- inst/AnthropMMDShinyApp/rawToTable.R | 15 ++-- inst/AnthropMMDShinyApp/selectVars.R | 13 ++-- inst/AnthropMMDShinyApp/server.R | 51 ++++++++++++---- inst/AnthropMMDShinyApp/ui.R | 41 +++++++++++-- inst/AnthropMMDShinyApp/validDataMMD.R | 26 ++++++-- man/AnthropMMD-package.Rd | 4 - man/StartMMD.Rd | 2 16 files changed, 244 insertions(+), 114 deletions(-)
Title: Analysis of Incubation Data
Description: Suite of functions to study animal incubation.
At the core of incR
lies an algorithm that allows for the scoring of
incubation behaviour. Additionally, several functions
extract biologically relevant metrics of incubation such as off-bout number
and off-bout duration - for a review of avian incubation studies,
see Nests, Eggs, and Incubation: New ideas about avian reproduction (2015)
edited by D. Charles Deeming and S. James Reynolds <doi:10.1093/acprof:oso/9780198718666.001.0001>.
Author: Pablo Capilla-Lasheras [aut, cre]
Maintainer: Pablo Capilla-Lasheras <pacapilla@gmail.com>
Diff between incR versions 1.0.2 dated 2017-12-11 and 1.1.0 dated 2018-03-21
DESCRIPTION | 12 +++---- MD5 | 22 +++++++------- NAMESPACE | 1 NEWS.md | 9 ++++- R/incRplot.R |only R/incRscan.R | 15 +++++++-- build/vignette.rds |binary inst/doc/incR_pipeline.R | 28 +++++++++++++----- inst/doc/incR_pipeline.Rmd | 67 ++++++++++++++++++++++++++++---------------- inst/doc/incR_pipeline.html | 62 +++++++++++++++++++++++----------------- man/incRplot.Rd |only man/incRscan.Rd | 8 +++-- vignettes/incR_pipeline.Rmd | 67 ++++++++++++++++++++++++++++---------------- 13 files changed, 185 insertions(+), 106 deletions(-)
Title: Data-Limited Methods Toolkit
Description: Development, simulation testing, and implementation of management
procedures for data-limited fisheries
(see Carruthers et al (2014) <doi:10.1016/j.fishres.2013.12.014>).
Author: Tom Carruthers [aut, cre],
Adrian Hordyk [aut],
M. Bryan [ctb],
HF. Geremont [ctb],
C. Grandin [ctb],
W. Harford [ctb],
Q. Huynh [ctb],
C. Walters [ctb]
Maintainer: Tom Carruthers <t.carruthers@fisheries.ubc.ca>
Diff between DLMtool versions 5.1 dated 2018-03-18 and 5.1.2 dated 2018-03-21
DESCRIPTION | 23 + MD5 | 64 ++--- NEWS.md | 9 R/DLMtool-package.R | 2 R/Data_Functions.R | 37 ++- R/MPs_Output.R | 135 +++++------ R/MPs_SupportingFunctions.R | 246 ++++++++++---------- R/MSE_functions.R | 18 + R/Misc_Exported.R | 19 + R/OM_functions.R | 8 R/RcppExports.R | 330 ++++++++++++++-------------- R/popdyn.R | 6 R/runMSE.r | 16 + man/Can.Rd | 3 man/Cant.Rd | 2 man/DLMtool-package.Rd | 2 man/DataInit.Rd | 5 man/Input.Rd | 3 man/Needed.Rd | 3 man/Rcontrol2.Rd | 3 man/Replace.Rd | 6 man/Sense.Rd | 8 man/Sub.Rd | 9 man/SubOM.Rd | 4 man/TAC.Rd | 6 man/XL2Data.Rd | 5 man/avail.Rd | 3 man/joinMSE.Rd | 11 man/makePerf.Rd | 3 man/optCPU.Rd | 5 man/runMP.Rd | 3 man/setup.Rd | 6 tests/manual/test-code/test-Data_Plotting.R | 2 33 files changed, 590 insertions(+), 415 deletions(-)
Title: Fast, Consistent Tokenization of Natural Language Text
Description: Convert natural language text into tokens. Includes tokenizers for
shingled n-grams, skip n-grams, words, word stems, sentences, paragraphs,
characters, shingled characters, lines, tweets, Penn Treebank, regular
expressions, as well as functions for counting characters, words, and sentences,
and a function for splitting longer texts into separate documents, each with
the same number of words. The tokenizers have a consistent interface, and
the package is built on the 'stringi' and 'Rcpp' packages for fast
yet correct tokenization in 'UTF-8'.
Author: Lincoln Mullen [aut, cre] (<https://orcid.org/0000-0001-5103-6917>),
Os Keyes [ctb] (<https://orcid.org/0000-0001-5196-609X>),
Dmitriy Selivanov [ctb],
Jeffrey Arnold [ctb],
Kenneth Benoit [ctb] (<https://orcid.org/0000-0002-0797-564X>)
Maintainer: Lincoln Mullen <lincoln@lincolnmullen.com>
Diff between tokenizers versions 0.1.4 dated 2016-08-29 and 0.2.0 dated 2018-03-21
tokenizers-0.1.4/tokenizers/R/stopwords.R |only tokenizers-0.1.4/tokenizers/R/sysdata.rda |only tokenizers-0.1.4/tokenizers/man/stopwords.Rd |only tokenizers-0.1.4/tokenizers/src/Makevars |only tokenizers-0.1.4/tokenizers/src/Makevars.win |only tokenizers-0.2.0/tokenizers/DESCRIPTION | 48 tokenizers-0.2.0/tokenizers/MD5 | 82 - tokenizers-0.2.0/tokenizers/NAMESPACE | 40 tokenizers-0.2.0/tokenizers/NEWS.md | 26 tokenizers-0.2.0/tokenizers/R/RcppExports.R | 8 tokenizers-0.2.0/tokenizers/R/basic-tokenizers.R | 202 ++- tokenizers-0.2.0/tokenizers/R/character-shingles-tokenizers.R | 56 tokenizers-0.2.0/tokenizers/R/chunk-text.R |only tokenizers-0.2.0/tokenizers/R/coercion.R |only tokenizers-0.2.0/tokenizers/R/data-docs.R |only tokenizers-0.2.0/tokenizers/R/ngram-tokenizers.R | 142 +- tokenizers-0.2.0/tokenizers/R/ptb-tokenizer.R |only tokenizers-0.2.0/tokenizers/R/stem-tokenizers.R | 44 tokenizers-0.2.0/tokenizers/R/tokenize_tweets.R |only tokenizers-0.2.0/tokenizers/R/tokenizers-package.r | 2 tokenizers-0.2.0/tokenizers/R/utils.R | 6 tokenizers-0.2.0/tokenizers/R/wordcount.R |only tokenizers-0.2.0/tokenizers/README.md | 146 +- tokenizers-0.2.0/tokenizers/build/vignette.rds |binary tokenizers-0.2.0/tokenizers/data |only tokenizers-0.2.0/tokenizers/inst/doc/introduction-to-tokenizers.R | 37 tokenizers-0.2.0/tokenizers/inst/doc/introduction-to-tokenizers.Rmd | 80 + tokenizers-0.2.0/tokenizers/inst/doc/introduction-to-tokenizers.html | 636 ++++++---- tokenizers-0.2.0/tokenizers/inst/doc/tif-and-tokenizers.R |only tokenizers-0.2.0/tokenizers/inst/doc/tif-and-tokenizers.Rmd |only tokenizers-0.2.0/tokenizers/inst/doc/tif-and-tokenizers.html |only tokenizers-0.2.0/tokenizers/man/basic-tokenizers.Rd | 29 tokenizers-0.2.0/tokenizers/man/chunk_text.Rd |only tokenizers-0.2.0/tokenizers/man/mobydick.Rd |only tokenizers-0.2.0/tokenizers/man/ngram-tokenizers.Rd | 5 tokenizers-0.2.0/tokenizers/man/ptb-tokenizer.Rd |only tokenizers-0.2.0/tokenizers/man/shingle-tokenizers.Rd | 1 tokenizers-0.2.0/tokenizers/man/stem-tokenizers.Rd | 1 tokenizers-0.2.0/tokenizers/man/tokenizers.Rd | 1 tokenizers-0.2.0/tokenizers/man/word-counting.Rd |only tokenizers-0.2.0/tokenizers/src/RcppExports.cpp | 51 tokenizers-0.2.0/tokenizers/src/shingle_ngrams.cpp | 45 tokenizers-0.2.0/tokenizers/src/skip_ngrams.cpp | 106 + tokenizers-0.2.0/tokenizers/tests/testthat/helper-data.R | 23 tokenizers-0.2.0/tokenizers/tests/testthat/test-basic.R | 19 tokenizers-0.2.0/tokenizers/tests/testthat/test-chunking.R |only tokenizers-0.2.0/tokenizers/tests/testthat/test-encoding.R |only tokenizers-0.2.0/tokenizers/tests/testthat/test-ngrams.R | 70 + tokenizers-0.2.0/tokenizers/tests/testthat/test-ptb.R |only tokenizers-0.2.0/tokenizers/tests/testthat/test-shingles.R | 7 tokenizers-0.2.0/tokenizers/tests/testthat/test-tif.R |only tokenizers-0.2.0/tokenizers/tests/testthat/test-tokenize_tweets.R |only tokenizers-0.2.0/tokenizers/tests/testthat/test-wordcount.R |only tokenizers-0.2.0/tokenizers/vignettes/introduction-to-tokenizers.Rmd | 80 + tokenizers-0.2.0/tokenizers/vignettes/tif-and-tokenizers.Rmd |only 55 files changed, 1504 insertions(+), 489 deletions(-)
Title: Functions for the STARTS Model
Description: Contains functions for estimating the STARTS model of
Kenny and Zautra (1995, 2001) <DOI:10.1037/0022-006X.63.1.52>,
<DOI:10.1037/10409-008>. Penalized maximum likelihood
estimation and Markov Chain Monte Carlo estimation are
also provided, see Luedtke, Robitzsch and Wagner (2017)
<DOI:10.1037/met0000155>.
Author: Alexander Robitzsch [aut,cre], Oliver Luedtke [aut]
Maintainer: Alexander Robitzsch <robitzsch@ipn.uni-kiel.de>
Diff between STARTS versions 0.2-10 dated 2017-11-24 and 0.3-24 dated 2018-03-21
DESCRIPTION | 16 ++-- MD5 | 36 +++++---- NAMESPACE | 6 + R/starts_estimate_model_fit.R | 12 ++- R/starts_estimate_model_fit_rmsea.R | 2 R/starts_ic_add.R |only R/starts_uni_cov.R | 8 +- R/starts_uni_cov_pars.R | 8 +- R/starts_uni_estimate.R | 87 ++++++++++++++++------ R/starts_uni_estimate_prepare_fitting.R | 18 ++-- R/starts_uni_estimate_proc.R | 51 ++++++++---- R/starts_uni_estimate_proc_modify_suff_stat.R |only R/starts_uni_estimate_variance_proportions_mcmc.R |only R/starts_uni_estimate_variance_proportions_pml.R |only R/summary.starts_uni.R | 41 ++++++---- README.md | 1 data/data.starts01a.rda |binary data/data.starts01b.rda |binary inst/NEWS | 29 +++++-- man/STARTS-package.Rd | 11 +- man/starts_uni.Rd | 21 +++-- 21 files changed, 238 insertions(+), 109 deletions(-)
Title: Sparse Partial Least Squares (SPLS) Regression and
Classification
Description: Provides functions for fitting a sparse
partial least squares (SPLS) regression and classification
(Chun and Keles (2010) <doi:10.1111/j.1467-9868.2009.00723.x>).
Author: Dongjun Chung <chungdon@stat.wisc.edu>, Hyonho Chun
<chun@stat.wisc.edu>, Sunduz Keles <keles@stat.wisc.edu>
Maintainer: Valentin Todorov <valentin.todorov@chello.at>
Diff between spls versions 2.2-1 dated 2013-08-21 and 2.2-2 dated 2018-03-21
ChangeLog | 8 ++++++ DESCRIPTION | 13 +++++----- MD5 | 25 ++++++++++---------- NAMESPACE | 37 ++++++++++++++++++++++------- R/cv.spls.R | 57 +++++++++++++++++++++++----------------------- R/spls.R | 20 ++++++++-------- build |only inst/doc/spls-example.pdf |binary man/cv.sgpls.Rd | 30 +++++++++++++++--------- man/cv.spls.Rd | 32 ++++++++++++++----------- man/sgpls.Rd | 30 ++++++++++++------------ man/spls.Rd | 37 ++++++++++++++++------------- tests/tspls.R | 4 +++ tests/tspls.Rout.save | 13 +++++----- 14 files changed, 180 insertions(+), 126 deletions(-)
Title: Plot a Model's Response and Residuals
Description: Plot model surfaces for a wide variety of models
using partial dependence plots and other techniques.
Also plot model residuals and other information on the model.
Author: Stephen Milborrow
Maintainer: Stephen Milborrow <milbo@sonic.net>
Diff between plotmo versions 3.3.5 dated 2018-02-26 and 3.3.6 dated 2018-03-21
DESCRIPTION | 6 +++--- MD5 | 10 +++++----- NEWS | 4 ++++ inst/doc/modguide.pdf |binary inst/doc/plotmo-notes.pdf |binary inst/doc/plotres-notes.pdf |binary 6 files changed, 12 insertions(+), 8 deletions(-)
Title: Methods and Measures for Brain, Cognitive, and Psychometric
Network Analysis
Description: Implements network analysis and graph theory measures used in neuroscience, cognitive science, and psychology. Methods include various filtering methods and approaches such as threshold, dependency (Kenett, Tumminello, Madi, Gur-Gershogoren, Mantegna, & Ben-Jacob, 2010 <doi:10.1371/journal.pone.0015032>), Information Filtering Networks (Barfuss, Massara, Di Matteo, & Aste, 2016 <doi:10.1103/PhysRevE.94.062306>), and Efficiency-Cost Optimization (Fallani, Latora, & Chavez, 2017 <doi:10.1371/journal.pcbi.1005305>). Brain methods include the recently developed Connectome Predictive Modeling (see references in package). Also implements several network measures including local network characteristics (e.g., centrality), global network characteristics (e.g., clustering coefficient), and various other measures associated with the reliability and reproducibility of network analysis.
Author: Alexander Christensen
Maintainer: Alexander Christensen <alexpaulchristensen@gmail.com>
Diff between NetworkToolbox versions 1.0.0 dated 2018-02-13 and 1.1.0 dated 2018-03-21
NetworkToolbox-1.0.0/NetworkToolbox/data/hex.RData |only NetworkToolbox-1.0.0/NetworkToolbox/data/hexb.RData |only NetworkToolbox-1.0.0/NetworkToolbox/man/hex.Rd |only NetworkToolbox-1.0.0/NetworkToolbox/man/hexb.Rd |only NetworkToolbox-1.0.0/NetworkToolbox/man/kld.Rd |only NetworkToolbox-1.1.0/NetworkToolbox/DESCRIPTION | 12 NetworkToolbox-1.1.0/NetworkToolbox/MD5 | 94 NetworkToolbox-1.1.0/NetworkToolbox/NAMESPACE | 15 NetworkToolbox-1.1.0/NetworkToolbox/NEWS |only NetworkToolbox-1.1.0/NetworkToolbox/R/NetworkToolbox--master.R | 1955 +++++++--- NetworkToolbox-1.1.0/NetworkToolbox/data/animals.RData |only NetworkToolbox-1.1.0/NetworkToolbox/data/behavOpen.RData |only NetworkToolbox-1.1.0/NetworkToolbox/data/neoOpen.rda |only NetworkToolbox-1.1.0/NetworkToolbox/man/ECO.Rd | 8 NetworkToolbox-1.1.0/NetworkToolbox/man/ECOplusMaST.Rd | 2 NetworkToolbox-1.1.0/NetworkToolbox/man/LoGo.Rd | 21 NetworkToolbox-1.1.0/NetworkToolbox/man/MaST.Rd | 6 NetworkToolbox-1.1.0/NetworkToolbox/man/PMFG.Rd | 13 NetworkToolbox-1.1.0/NetworkToolbox/man/TMFG.Rd | 17 NetworkToolbox-1.1.0/NetworkToolbox/man/animals.Rd |only NetworkToolbox-1.1.0/NetworkToolbox/man/behavOpen.Rd |only NetworkToolbox-1.1.0/NetworkToolbox/man/betweenness.Rd | 2 NetworkToolbox-1.1.0/NetworkToolbox/man/binarize.Rd | 4 NetworkToolbox-1.1.0/NetworkToolbox/man/bootgen.Rd | 56 NetworkToolbox-1.1.0/NetworkToolbox/man/bootgenPlot.Rd |only NetworkToolbox-1.1.0/NetworkToolbox/man/centlist.Rd | 2 NetworkToolbox-1.1.0/NetworkToolbox/man/closeness.Rd | 2 NetworkToolbox-1.1.0/NetworkToolbox/man/clustcoeff.Rd | 2 NetworkToolbox-1.1.0/NetworkToolbox/man/commboot.Rd | 38 NetworkToolbox-1.1.0/NetworkToolbox/man/conn.Rd | 2 NetworkToolbox-1.1.0/NetworkToolbox/man/convert2igraph.Rd |only NetworkToolbox-1.1.0/NetworkToolbox/man/cor2cov.Rd |only NetworkToolbox-1.1.0/NetworkToolbox/man/cpmIV.Rd | 19 NetworkToolbox-1.1.0/NetworkToolbox/man/degree.Rd | 2 NetworkToolbox-1.1.0/NetworkToolbox/man/depend.Rd | 29 NetworkToolbox-1.1.0/NetworkToolbox/man/distance.Rd | 2 NetworkToolbox-1.1.0/NetworkToolbox/man/edgerep.Rd | 18 NetworkToolbox-1.1.0/NetworkToolbox/man/eigenvector.Rd | 2 NetworkToolbox-1.1.0/NetworkToolbox/man/hybrid.Rd | 11 NetworkToolbox-1.1.0/NetworkToolbox/man/impact.Rd | 2 NetworkToolbox-1.1.0/NetworkToolbox/man/is.graphical.Rd |only NetworkToolbox-1.1.0/NetworkToolbox/man/leverage.Rd | 2 NetworkToolbox-1.1.0/NetworkToolbox/man/louvain.Rd | 7 NetworkToolbox-1.1.0/NetworkToolbox/man/nams.Rd |only NetworkToolbox-1.1.0/NetworkToolbox/man/neoOpen.Rd |only NetworkToolbox-1.1.0/NetworkToolbox/man/neuralnetfilter.Rd | 4 NetworkToolbox-1.1.0/NetworkToolbox/man/pathlengths.Rd | 2 NetworkToolbox-1.1.0/NetworkToolbox/man/reg.Rd |only NetworkToolbox-1.1.0/NetworkToolbox/man/rspbc.Rd | 2 NetworkToolbox-1.1.0/NetworkToolbox/man/semnetboot.Rd | 24 NetworkToolbox-1.1.0/NetworkToolbox/man/semnetmeas.Rd | 12 NetworkToolbox-1.1.0/NetworkToolbox/man/smallworldness.Rd | 10 NetworkToolbox-1.1.0/NetworkToolbox/man/splitsamp.Rd | 2 NetworkToolbox-1.1.0/NetworkToolbox/man/splitsampNet.Rd |only NetworkToolbox-1.1.0/NetworkToolbox/man/splitsampStats.Rd |only NetworkToolbox-1.1.0/NetworkToolbox/man/strength.Rd | 2 NetworkToolbox-1.1.0/NetworkToolbox/man/threshold.Rd | 12 NetworkToolbox-1.1.0/NetworkToolbox/man/transitivity.Rd | 2 58 files changed, 1654 insertions(+), 763 deletions(-)
More information about NetworkToolbox at CRAN
Permanent link
Title: Create Tidy Data Frames of Marginal Effects for 'ggplot' from
Model Outputs
Description: Compute marginal effects at the mean or average marginal effects from
statistical models and returns the result as tidy data frames. These
data frames are ready to use with the 'ggplot2'-package.
Marginal effects can be calculated for many different models. Interaction
terms, splines and polynomial terms are also supported. The two main
functions are ggpredict() and ggaverage(), however, there are
some convenient wrapper-functions especially for polynomials or
interactions. There is a generic plot()-method to plot the results
using 'ggplot2'.
Author: Daniel Lüdecke <d.luedecke@uke.de>
Maintainer: Daniel Lüdecke <d.luedecke@uke.de>
Diff between ggeffects versions 0.3.1 dated 2018-01-15 and 0.3.2 dated 2018-03-21
DESCRIPTION | 10 MD5 | 38 +- NEWS.md | 12 R/emm.R | 2 R/ggeffect.R | 460 ++++++++++++------------ R/gginteraction.R | 602 ++++++++++++++++---------------- R/ggpredict.R | 268 +++++++------- R/plot.R | 761 ++++++++++++++++++++--------------------- R/utils_expand_data_to_grid.R | 415 ++++++++++++---------- R/utils_handle_labels.R | 4 R/utils_parse_vars_arguments.R | 281 +++++++-------- build/vignette.rds |binary inst/doc/marginaleffects.R | 12 inst/doc/marginaleffects.Rmd | 18 inst/doc/marginaleffects.html | 140 ++++--- man/emm.Rd | 7 man/ggeffect.Rd | 56 +-- man/gginteraction.Rd | 6 man/ggpredict.Rd | 176 +++++---- vignettes/marginaleffects.Rmd | 18 20 files changed, 1746 insertions(+), 1540 deletions(-)
Title: Optimal Thresholding Fisher's P-Value Combination Method
Description: We provide the cumulative distribution function (CDF),
quantile, and statistical power calculator for a collection of
thresholding Fisher's p-value combination methods, including Fisher's
p-value combination method, truncated product method and, in particular, soft-thresholding
Fisher's p-value combination method which is proven to be optimal in some
context of signal detection. The p-value calculator for the omnibus version
of these tests are also included. For reference, please see Hong Zhang and Zheyang Wu. "TFisher Tests: Optimal and Adaptive Thresholding for Combining p-Values", submitted.
Author: Hong Zhang and Zheyang Wu
Maintainer: Hong Zhang <hzhang@wpi.edu>
Diff between TFisher versions 0.1.0 dated 2017-11-07 and 0.2.0 dated 2018-03-21
DESCRIPTION | 10 +- MD5 | 78 ++++++++-------- NAMESPACE | 3 R/functions.R | 228 ++++++++++++++++++++++++++++++++++++++++++++++- R/p.soft.R | 12 +- R/p.soft.omni.R | 24 +--- R/p.tfisher.R | 48 ++++++++- R/p.tfisher.omni.R | 77 +++++++++++---- R/p.tpm.R | 12 +- R/p.tpm.omni.R | 15 +-- R/power.soft.R | 3 R/power.tfisher.R | 3 R/power.tpm.R | 3 R/q.soft.R | 14 +- R/q.tfisher.R | 148 ++++++++++++++++++++++-------- R/q.tpm.R | 14 +- R/stat.soft.R | 3 R/stat.soft.omni.R | 20 ++-- R/stat.tfisher.R | 3 R/stat.tfisher.omni.R | 30 ++++-- R/stat.tpm.R | 3 R/stat.tpm.omni.R | 21 ++-- man/p.soft.Rd | 9 + man/p.soft.omni.Rd | 10 +- man/p.tfisher.Rd | 22 +++- man/p.tfisher.omni.Rd | 12 +- man/p.tpm.Rd | 9 + man/p.tpm.omni.Rd | 10 +- man/power.soft.Rd | 3 man/power.tfisher.Rd | 3 man/power.tpm.Rd | 3 man/q.soft.Rd | 11 +- man/q.tfisher.Rd | 12 +- man/q.tpm.Rd | 11 +- man/stat.soft.Rd | 3 man/stat.soft.omni.Rd | 16 ++- man/stat.tfisher.Rd | 3 man/stat.tfisher.omni.Rd | 29 ++++- man/stat.tpm.Rd | 3 man/stat.tpm.omni.Rd | 16 ++- 40 files changed, 694 insertions(+), 263 deletions(-)
Title: Fuzzy Clustering
Description: Algorithms for fuzzy clustering, cluster validity indices and plots for cluster validity and visualizing fuzzy clustering results.
Author: Paolo Giordani, Maria Brigida Ferraro
Maintainer: Paolo Giordani <paolo.giordani@uniroma1.it>
Diff between fclust versions 1.1.2 dated 2015-09-06 and 1.1.3 dated 2018-03-21
DESCRIPTION | 8 MD5 | 64 ++-- NAMESPACE | 2 R/FKM.R | 26 + R/FKM.ent.R | 37 ++ R/FKM.ent.noise.R | 39 ++ R/FKM.gk.R | 23 + R/FKM.gk.ent.R | 35 +- R/FKM.gk.ent.noise.R | 721 ++++++++++++++++++++++++---------------------- R/FKM.gk.noise.R | 725 ++++++++++++++++++++++++----------------------- R/FKM.gkb.R |only R/FKM.gkb.ent.R |only R/FKM.gkb.ent.noise.R |only R/FKM.gkb.noise.R |only R/FKM.med.R | 26 + R/FKM.med.noise.R | 666 ++++++++++++++++++++++--------------------- R/FKM.noise.R | 26 + R/FKM.pf.R | 26 + R/FKM.pf.noise.R | 26 + R/Fclust.R | 127 ++++++-- man/FKM.Rd | 5 man/FKM.ent.Rd | 5 man/FKM.ent.noise.Rd | 5 man/FKM.gk.Rd | 8 man/FKM.gk.ent.Rd | 8 man/FKM.gk.ent.noise.Rd | 8 man/FKM.gk.noise.Rd | 10 man/FKM.gkb.Rd |only man/FKM.gkb.ent.Rd |only man/FKM.gkb.ent.noise.Rd |only man/FKM.gkb.noise.Rd |only man/FKM.med.Rd | 5 man/FKM.med.noise.Rd | 5 man/FKM.noise.Rd | 5 man/FKM.pf.Rd | 5 man/FKM.pf.noise.Rd | 5 man/Fclust.Rd | 2 37 files changed, 1522 insertions(+), 1131 deletions(-)
Title: Teaching Hydrological Modelling with the GR Rainfall-Runoff
Models ('Shiny' Interface Included)
Description: Add-on package to the 'airGR' package that simplifies its use and is aimed at being used for teaching hydrology. The package provides 1) three functions that allow to complete very simply a hydrological modelling exercise 2) plotting functions to help students to explore observed data and to interpret the results of calibration and simulation of the GR ('Génie rural') models 3) a 'Shiny' graphical interface that allows for displaying the impact of model parameters on hydrographs and models internal variables.
Author: Olivier Delaigue [aut, cre],
Laurent Coron [aut],
Pierre Brigode [aut],
Guillaume Thirel [ctb]
Maintainer: Olivier Delaigue <airGR@irstea.fr>
Diff between airGRteaching versions 0.2.0.9 dated 2018-03-16 and 0.2.2.2 dated 2018-03-21
DESCRIPTION | 12 +++++++----- MD5 | 11 ++++++++--- NEWS | 10 +++++++++- build |only inst/ShinyGR/server.R | 3 ++- inst/doc |only vignettes |only 7 files changed, 26 insertions(+), 10 deletions(-)
More information about koRpus.lang.en at CRAN
Permanent link
Title: Conditional Akaike Information Criterion for 'lme4'
Description: Provides functions for the estimation of the conditional Akaike
information in generalized mixed-effect models fitted with (g)lmer()
from 'lme4'.
Author: Benjamin Saefken and David Ruegamer, with contributions from Sonja
Greven and Thomas Kneib
Maintainer: David Ruegamer <david.ruegamer@gmail.com>
Diff between cAIC4 versions 0.2 dated 2014-08-12 and 0.3 dated 2018-03-21
DESCRIPTION | 26 +-- MD5 | 34 ++-- NAMESPACE | 38 ++++- R/biasCorrectionBernoulli.R | 59 +++++-- R/biasCorrectionGaussian.R | 64 ++++---- R/cAIC.R | 320 ++++++++++++++++++++++++++++++++++--------- R/calculateGaussianBc.R | 154 ++++++++++---------- R/cnms2formula.R | 62 ++++---- R/conditionalBootstrap.R | 40 ++--- R/datasets.R |only R/deleteZeroComponents.R | 162 +++++++++++++-------- R/getModelComponents.R | 154 ++++++++++---------- R/getcondLL.R | 71 +++++---- R/helperfuns_stepcAIC.R |only R/stepcAIC.R |only data |only inst |only man/cAIC.Rd | 326 +++++++++++++++++++++++--------------------- man/deleteZeroComponents.Rd | 124 +++++++--------- man/getcondLL.Rd |only man/guWahbaData.Rd |only man/stepcAIC.Rd |only 22 files changed, 979 insertions(+), 655 deletions(-)
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2015-12-28 1.2.4
2015-11-05 1.2.3
2014-11-25 1.2.2
2013-05-10 1.2
2013-02-13 1.0
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2014-02-08 0.7
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2017-08-10 1.1.22
2017-02-02 1.1.21
2017-01-31 1.1.20
2017-01-26 1.1.19
2017-01-18 1.1.18
2017-01-17 1.1.17
2017-01-11 1.1.15
2016-02-02 1.1.6
2016-01-31 1.1.5
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2013-07-28 0.9-1
2013-05-30 0.9-0
2013-01-25 0.7-2
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2016-12-20 1.1.3
2016-08-22 1.1.1
2016-06-04 1.0.2
2016-05-07 0.1.1
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2017-08-01 2.3
2017-04-24 1.1
2016-05-21 1.0
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2017-01-26 1.0.3
2016-01-20 1.0.2
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2016-02-26 1.1.4
2015-11-04 1.1.3
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2014-04-22 0.68-38
2014-03-18 0.68-35
2014-01-22 0.68-34
2013-10-09 0.68-32
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2015-01-14 0.1.1
2014-10-08 0.1
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2017-01-26 1.0.15
2017-01-09 1.0.14
2016-02-02 1.0.11
2016-01-31 1.0.9
2016-01-29 1.0.8
2016-01-26 1.0.6
2016-01-24 1.0.4
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2014-10-23 0.9
Title: Risk Model Decision Analysis
Description: Provides tools to evaluate the value of using a risk prediction instrument to decide treatment or intervention (versus no treatment or intervention). Given one or more risk prediction instruments (risk models) that estimate the probability of a binary outcome, rmda provides functions to estimate and display decision curves and other figures that help assess the population impact of using a risk model for clinical decision making. Here, "population" refers to the relevant patient population. Decision curves display estimates of the (standardized) net benefit over a range of probability thresholds used to categorize observations as 'high risk'. The curves help evaluate a treatment policy that recommends treatment for patients who are estimated to be 'high risk' by comparing the population impact of a risk-based policy to "treat all" and "treat none" intervention policies. Curves can be estimated using data from a prospective cohort. In addition, rmda can estimate decision curves using data from a case-control study if an estimate of the population outcome prevalence is available. Version 1.4 of the package provides an alternative framing of the decision problem for situations where treatment is the standard-of-care and a risk model might be used to recommend that low-risk patients (i.e., patients below some risk threshold) opt out of treatment. Confidence intervals calculated using the bootstrap can be computed and displayed. A wrapper function to calculate cross-validated curves using k-fold cross-validation is also provided.
Author: Marshall Brown
Maintainer: Marshall Brown <mdbrown@fredhutch.org>
Diff between rmda versions 1.4 dated 2017-08-01 and 1.5 dated 2018-03-21
DESCRIPTION | 8 - MD5 | 18 +-- NEWS | 6 - R/Add_CostBenefit_Axis.R | 17 +-- R/plot_functions_main.R | 2 R/subroutines.R | 11 +- R/summary.decision_curve.R | 2 README.md | 4 inst/notes/tutorial.Rmd | 28 ++--- inst/notes/tutorial.html | 242 +++++++++++++++++++++++---------------------- 10 files changed, 177 insertions(+), 161 deletions(-)
Title: Adaptive Sampling Algorithms
Description: For distributions whose probability density functions are log-concave, the adaptive rejection sampling algorithm can be used to build envelope functions for sampling. For others, we can use the modified adaptive rejection sampling algorithm, the concave-convex adaptive rejection sampling algorithm and the adaptive slice sampling algorithm. So we designed an R package mainly including 4 functions: rARS(), rMARS(), rCCARS() and rASS(). These functions can realize sampling based on the algorithms above.
Author: Dong Zhang
Maintainer: Dong Zhang <dzhang0716@126.com>
Diff between AdapSamp versions 1.0 dated 2017-09-08 and 1.1.1 dated 2018-03-21
DESCRIPTION | 10 ++--- MD5 | 20 +++++----- NAMESPACE | 3 + R/rARS.R | 78 +++++++++++++++++++++-------------------- R/rASS.R | 46 +++++++++--------------- R/rCCARS.R | 55 ++++++++++++++++------------- R/rMARS.R | 108 ++++++++++++++++++++++++++++++++-------------------------- man/rARS.Rd | 56 ++++++++++++++---------------- man/rASS.Rd | 35 ++++++------------ man/rCCARS.Rd | 48 ++++++++++++++----------- man/rMARS.Rd | 74 +++++++++++++++++++++------------------ 11 files changed, 273 insertions(+), 260 deletions(-)
Title: Psychometric Meta-Analysis Toolkit
Description: Tools for computing bare-bones and psychometric meta-analyses and for generating psychometric data for use in meta-analysis simulations. Supports bare-bones, individual-correction, and artifact-distribution methods for meta-analyzing correlations and d values. Includes tools for converting effect sizes, computing sporadic artifact corrections, reshaping meta-analytic databases, computing multivariate corrections for range variation, and more.
Author: Jeffrey A. Dahlke [aut, cre],
Brenton M. Wiernik [aut],
Michael T. Brannick [ctb],
Jack Kostal [ctb],
Sean Potter [ctb],
Yuejia (Mandy) Teng [ctb]
Maintainer: Jeffrey A. Dahlke <dahlk068@umn.edu>
Diff between psychmeta versions 0.2.3 dated 2018-02-09 and 0.2.4 dated 2018-03-21
DESCRIPTION | 8 MD5 | 68 ++-- NEWS | 129 ++++--- R/compute_dmod.R | 95 ++++- R/convert_ma.R | 24 - R/correct_r_internal.R | 20 - R/create_ad.R | 723 +++++++++++++++++++++++++++++++++----------- R/create_ad_wrappers.R | 61 +++ R/estimate_var_rho_tsa.R | 124 ++++--- R/heterogeneity.R | 2 R/ma_d.R | 83 +++++ R/ma_generic.R | 2 R/ma_r.R | 221 +++++++++++-- R/ma_r_ad.R | 21 - R/ma_r_ad_bvdrr.R | 6 R/ma_r_ad_bvirr.R | 6 R/ma_r_ad_meas.R | 8 R/ma_r_ad_none.R | 5 R/ma_r_ad_rb_adj.R | 11 R/ma_r_ad_rb_orig.R | 11 R/ma_r_ad_uvdrr.R | 12 R/ma_r_ad_uvirr.R | 9 R/ma_r_ic.R | 3 R/metabulate.R | 2 R/sensitivity.R | 11 R/simulate_d.R | 4 R/simulate_psych.R | 29 + R/simulate_r.R | 33 +- man/compute_dmod_par.Rd | 10 man/create_ad_int.Rd | 8 man/estimate_var_rho_tsa.Rd | 19 - man/heterogeneity.Rd | 2 man/ma_d.Rd | 82 ++++ man/ma_r.Rd | 83 +++++ man/sensitivity.Rd | 8 35 files changed, 1465 insertions(+), 478 deletions(-)
Title: Cholesky Decomposition of the Wishart Distribution
Description: Sampling from the Cholesky factorization of a Wishart random
variable, sampling from the inverse Wishart distribution, sampling from
the Cholesky factorization of an inverse Wishart random variable,
computing densities for the Wishart and inverse Wishart distributions,
and computing the multivariate gamma and digamma functions.
Author: Geoffrey Thompson [aut, cre],
R Core Team [ctb]
Maintainer: Geoffrey Thompson <gzthompson@gmail.com>
Diff between CholWishart versions 0.9.0 dated 2018-02-26 and 0.9.2 dated 2018-03-21
DESCRIPTION | 8 - MD5 | 42 +++++---- NAMESPACE | 3 NEWS.md | 19 ++++ R/wishart.R | 199 +++++++++++++++++++++++++++++++------------- README.md | 31 +++--- build/partial.rdb |only inst/doc/wishart.R | 28 +++--- inst/doc/wishart.Rmd | 54 +++++++++++ inst/doc/wishart.html | 59 +++++++++++-- man/dWishart.Rd | 26 ++++- man/lmvgamma.Rd | 15 +++ man/mvdigamma.Rd | 18 +++ man/rCholWishart.Rd | 25 ++++- man/rInvCholWishart.Rd | 27 +++++ man/rInvWishart.Rd | 31 +++++- src/rCholWishart.c | 2 tests/testthat/testinput.R | 149 ++++++++++++++++++++++++++------ tests/testthat/testoutput.R | 28 +++++- vignettes/wishart.Rmd | 54 +++++++++++ vignettes/wishart.bib |only vignettes/wishart_cache |only 22 files changed, 639 insertions(+), 179 deletions(-)