Mon, 01 Apr 2019

Package PlackettLuce updated to version 0.2-6 with previous version 0.2-5 dated 2019-03-20

Title: Plackett-Luce Models for Rankings
Description: Functions to prepare rankings data and fit the Plackett-Luce model jointly attributed to Plackett (1975) <doi:10.2307/2346567> and Luce (1959, ISBN:0486441369). The standard Plackett-Luce model is generalized to accommodate ties of any order in the ranking. Partial rankings, in which only a subset of items are ranked in each ranking, are also accommodated in the implementation. Disconnected/weakly connected networks implied by the rankings may be handled by adding pseudo-rankings with a hypothetical item. Optionally, a multivariate normal prior may be set on the log-worth parameters and ranker reliabilities may be incorporated as proposed by Raman and Joachims (2014) <doi:10.1145/2623330.2623654>. Maximum a posteriori estimation is used when priors are set. Methods are provided to estimate standard errors or quasi-standard errors for inference as well as to fit Plackett-Luce trees. See the package website or vignette for further details.
Author: Heather Turner [aut, cre] (<https://orcid.org/0000-0002-1256-3375>), Ioannis Kosmidis [aut] (<https://orcid.org/0000-0003-1556-0302>), David Firth [aut] (<https://orcid.org/0000-0003-0302-2312>), Jacob van Etten [ctb] (<https://orcid.org/0000-0001-7554-2558>)
Maintainer: Heather Turner <ht@heatherturner.net>

Diff between PlackettLuce versions 0.2-5 dated 2019-03-20 and 0.2-6 dated 2019-04-01

 DESCRIPTION                     |   36 
 MD5                             |   15 
 NEWS.md                         |    5 
 R/PlackettLuce.R                | 1637 ++++++++++++++++++++--------------------
 TODO                            |    1 
 inst/doc/Overview.html          |   41 -
 tests/testthat/Rplots.pdf       |only
 tests/testthat/test-adherence.R |  387 ++++-----
 tests/testthat/test-psycho.R    |    3 
 9 files changed, 1074 insertions(+), 1051 deletions(-)

More information about PlackettLuce at CRAN
Permanent link

Package intoo updated to version 0.3.0 with previous version 0.2.0 dated 2019-02-24

Title: Object Oriented Extensions
Description: Contains attribute operators (%$% and %$%<-), convenience functions and functions for printing objects compactly but informatively. Partly supports function objects and nested matrices.
Author: Abby Spurdle [cre, aut], Emil Bode [ctb]
Maintainer: Abby Spurdle <spurdle.a@gmail.com>

Diff between intoo versions 0.2.0 dated 2019-02-24 and 0.3.0 dated 2019-04-01

 intoo-0.2.0/intoo/man/rd_2_print_object_information.Rd |only
 intoo-0.2.0/intoo/man/rd_3_deprecated.Rd               |only
 intoo-0.3.0/intoo/DESCRIPTION                          |   14 -
 intoo-0.3.0/intoo/MD5                                  |   17 +-
 intoo-0.3.0/intoo/NAMESPACE                            |    8 -
 intoo-0.3.0/intoo/R/intoo.r                            |  134 +++--------------
 intoo-0.3.0/intoo/R/nmatrix.r                          |only
 intoo-0.3.0/intoo/R/object_info.r                      |only
 intoo-0.3.0/intoo/man/rd_1_attribute_operators.Rd      |    8 -
 intoo-0.3.0/intoo/man/rd_2_convenience_functions_1.Rd  |only
 intoo-0.3.0/intoo/man/rd_3_convenience_functions_2.Rd  |only
 intoo-0.3.0/intoo/man/rd_4_print_object_information.Rd |only
 intoo-0.3.0/intoo/man/rd_5_nested_matrices.Rd          |only
 intoo-0.3.0/intoo/man/rd_6_nested_matrix_methods.Rd    |only
 14 files changed, 56 insertions(+), 125 deletions(-)

More information about intoo at CRAN
Permanent link

New package hurricaneexposure with initial version 0.1.0
Package: hurricaneexposure
Type: Package
Title: Explore and Map County-Level Hurricane Exposure in the United States
Version: 0.1.0
Date: 2019-03-29
Authors@R: c(person("Brooke", "Anderson", email = "brooke.anderson@colostate.edu", role = c("aut", "cre")), person("Meilin", "Yan", email = "meilin.yan@colostate.edu", role = "aut"), person("Joshua", "Ferreri", email = "joshua.m.ferreri@gmail.com", role = "aut"), person("William", "Crosson", email = "bill.crosson@nasa.gov", role = "ctb"), person("Mohammad", "Al-Hamdan", email = "mohammad.alhamdan@nasa.gov", role = "ctb"), person("Andrea", "Schumacher", email = "andrea.schumacher@colostate.edu", role = "ctb"), person("Dirk", "Eddelbuettel", email = "edd@debian.org", role = "ctb") )
Description: Allows users to create time series of tropical storm exposure histories for chosen counties for a number of hazard metrics (wind, rain, distance from the storm, etc.). This package interacts with data available through the 'hurricaneexposuredata' package, which is available in a 'drat' repository. To access this data package, see the instructions at <https://github.com/geanders/hurricaneexposure>. The size of the 'hurricaneexposuredata' package is approximately 25 MB. This work was supported in part by grants from the National Institute of Environmental Health Sciences (R00ES022631), the National Science Foundation (1331399), and a NASA Applied Sciences Program/Public Health Program Grant (NNX09AV81G).
URL: https://github.com/geanders/hurricaneexposure
BugReports: https://github.com/geanders/hurricaneexposure/issues
License: GPL (>= 2)
LazyData: TRUE
Imports: data.table (>= 1.12.0), dplyr (>= 0.8.0.1), ggmap (>= 3.0.0), ggplot2 (>= 3.1.0), lazyeval (>= 0.2.2), lubridate (>= 1.7.4), mapproj (>= 1.2.6), maps (>= 3.3.0), purrr (>= 0.3.2), RColorBrewer (>= 1.1.2), rlang (>= 0.3.3), stringr (>= 1.4.0), tidyr (>= 0.8.3)
RoxygenNote: 6.1.1
Encoding: UTF-8
Depends: R (>= 3.5)
Suggests: hurricaneexposuredata (>= 0.0.2), knitr, pander, rmarkdown, weathermetrics
VignetteBuilder: knitr
Additional_repositories: https://geanders.github.io/drat
Language: en-US
NeedsCompilation: no
Packaged: 2019-04-01 20:30:38 UTC; georgianaanderson
Author: Brooke Anderson [aut, cre], Meilin Yan [aut], Joshua Ferreri [aut], William Crosson [ctb], Mohammad Al-Hamdan [ctb], Andrea Schumacher [ctb], Dirk Eddelbuettel [ctb]
Maintainer: Brooke Anderson <brooke.anderson@colostate.edu>
Repository: CRAN
Date/Publication: 2019-04-01 21:40:03 UTC

More information about hurricaneexposure at CRAN
Permanent link

Package extRemes updated to version 2.0-10 with previous version 2.0-9 dated 2018-06-11

Title: Extreme Value Analysis
Description: Functions for performing extreme value analysis.
Author: Eric Gilleland
Maintainer: Eric Gilleland <ericg@ucar.edu>

Diff between extRemes versions 2.0-9 dated 2018-06-11 and 2.0-10 dated 2019-04-01

 DESCRIPTION        |   10 +++++-----
 MD5                |   16 ++++++++--------
 NAMESPACE          |    4 ++--
 R/fitdiagnostics.R |   10 ++++++----
 R/fitfuns.R        |    6 ++++++
 man/Flood.Rd       |    2 +-
 man/Ozone4H.Rd     |    2 +-
 man/damage.Rd      |    2 +-
 man/fevd.Rd        |    2 +-
 9 files changed, 31 insertions(+), 23 deletions(-)

More information about extRemes at CRAN
Permanent link

Package tint updated to version 0.1.1 with previous version 0.1.0 dated 2018-04-08

Title: 'tint' is not 'Tufte'
Description: A 'tufte'-alike style for 'rmarkdown'.
Author: Dirk Eddelbuettel and Jonathan Gilligan
Maintainer: Dirk Eddelbuettel <edd@debian.org>

Diff between tint versions 0.1.0 dated 2018-04-08 and 0.1.1 dated 2019-04-01

 ChangeLog                                                         |   45 +
 DESCRIPTION                                                       |   13 
 MD5                                                               |   48 -
 R/html.R                                                          |   22 
 R/pdf.R                                                           |  158 +++++
 README.md                                                         |   39 +
 build/vignette.rds                                                |binary
 inst/NEWS.Rd                                                      |   20 
 inst/doc/tintHTML.Rmd                                             |    4 
 inst/doc/tintHTML.html                                            |  291 +++++++++-
 inst/doc/tintPDF.Rmd                                              |    4 
 inst/doc/tintPDF.pdf                                              |binary
 inst/examples/simpleHtml.Rmd                                      |    2 
 inst/examples/simplePdf.Rmd                                       |    2 
 inst/examples/tintPDFGaramond.Rmd                                 |only
 inst/examples/tintPDFGaramond.pdf                                 |only
 inst/examples/tintPDFLato.Rmd                                     |only
 inst/examples/tintPDFLato.pdf                                     |only
 inst/rmarkdown/templates/tintBook/resources/tintBook-template.tex |   18 
 inst/rmarkdown/templates/tintBook/skeleton/skeleton.Rmd           |    4 
 inst/rmarkdown/templates/tintHtml/skeleton/skeleton.Rmd           |    4 
 inst/rmarkdown/templates/tintPdf/resources/tintPdf-template.tex   |   18 
 inst/rmarkdown/templates/tintPdf/skeleton/skeleton.Rmd            |    4 
 man/Custom-templates.Rd                                           |only
 man/YAML-metadata.Rd                                              |only
 man/tintHtml.Rd                                                   |   32 -
 vignettes/tintHTML.Rmd                                            |    4 
 vignettes/tintPDF.Rmd                                             |    4 
 28 files changed, 637 insertions(+), 99 deletions(-)

More information about tint at CRAN
Permanent link

Package quanteda updated to version 1.4.3 with previous version 1.4.1 dated 2019-02-26

Title: Quantitative Analysis of Textual Data
Description: A fast, flexible, and comprehensive framework for quantitative text analysis in R. Provides functionality for corpus management, creating and manipulating tokens and ngrams, exploring keywords in context, forming and manipulating sparse matrices of documents by features and feature co-occurrences, analyzing keywords, computing feature similarities and distances, applying content dictionaries, applying supervised and unsupervised machine learning, visually representing text and text analyses, and more.
Author: Kenneth Benoit [cre, aut, cph] (<https://orcid.org/0000-0002-0797-564X>), Kohei Watanabe [aut] (<https://orcid.org/0000-0001-6519-5265>), Haiyan Wang [aut] (<https://orcid.org/0000-0003-4992-4311>), Paul Nulty [aut] (<https://orcid.org/0000-0002-7214-4666>), Adam Obeng [aut] (<https://orcid.org/0000-0002-2906-4775>), Stefan Müller [aut] (<https://orcid.org/0000-0002-6315-4125>), Akitaka Matsuo [aut] (<https://orcid.org/0000-0002-3323-6330>), Jiong Wei Lua [aut], Patrick O. Perry [aut] (<https://orcid.org/0000-0001-7460-127X>), Jouni Kuha [aut] (<https://orcid.org/0000-0002-1156-8465>), Benjamin Lauderdale [aut] (<https://orcid.org/0000-0003-3090-0969>), William Lowe [aut] (<https://orcid.org/0000-0002-1549-6163>), Christian Müller [ctb], Lori Young [dtc] (Lexicoder Sentiment Dictionary 2015), Stuart Soroka [dtc] (Lexicoder Sentiment Dictionary 2015), Ian Fellows [cph] (authored wordcloud C source code (modified)), European Research Council [fnd] (ERC-2011-StG 283794-QUANTESS)
Maintainer: Kenneth Benoit <kbenoit@lse.ac.uk>

Diff between quanteda versions 1.4.1 dated 2019-02-26 and 1.4.3 dated 2019-04-01

 DESCRIPTION                              |    6 -
 MD5                                      |   63 ++++++-------
 NAMESPACE                                |    1 
 NEWS.md                                  |   13 ++
 R/corpus.R                               |    1 
 R/dfm_group.R                            |   21 +++-
 R/dfm_sample.R                           |   23 ++--
 R/dfm_weight.R                           |  146 +++++++++++++++----------------
 R/fcm.R                                  |    2 
 R/textstat_dist_old.R                    |    6 -
 R/textstat_frequency.R                   |   67 +++++++++-----
 R/textstat_keyness.R                     |    4 
 R/textstat_readability.R                 |    6 -
 R/tokens_ngrams.R                        |    2 
 build/vignette.rds                       |binary
 inst/WORDLIST                            |    2 
 inst/doc/quickstart.html                 |   65 +++++++------
 man/dfm_group.Rd                         |    8 +
 man/dfm_sample.Rd                        |   11 +-
 man/dfm_tfidf.Rd                         |    7 +
 man/dfm_weight.Rd                        |   16 +--
 man/fcm.Rd                               |    2 
 man/textstat_frequency.Rd                |   19 +++-
 man/textstat_readability.Rd              |    6 -
 man/textstat_simil_old.Rd                |    6 -
 man/tokens_ngrams.Rd                     |    2 
 src/tokens_chunk_mt.cpp                  |    2 
 tests/testthat/test-as.dfm.R             |    2 
 tests/testthat/test-dfm.R                |   13 --
 tests/testthat/test-dfm_group.R          |   38 ++++++--
 tests/testthat/test-dfm_sample.R         |only
 tests/testthat/test-dfm_weight.R         |   17 +++
 tests/testthat/test-textstat_frequency.R |   56 +++++++++--
 33 files changed, 386 insertions(+), 247 deletions(-)

More information about quanteda at CRAN
Permanent link

New package opencv with initial version 0.1
Package: opencv
Type: Package
Title: Bindings to 'OpenCV' Computer Vision Library
Version: 0.1
Authors@R: c(person("Jeroen", "Ooms", role = c("aut", "cre"), email = "jeroen@berkeley.edu", comment = c(ORCID = "0000-0002-4035-0289")))
Description: Experimenting with computer vision and machine learning in R. This package exposes some of the available 'OpenCV' vision algorithms, such as edge, body or face detection. These can either be applied to analyze static images, or to filter live video footage from a camera device.
License: MIT + file LICENSE
SystemRequirements: OpenCV: libopencv-dev (Debian, Ubuntu) or opencv-devel (Fedora)
URL: https://github.com/ropensci/opencv
BugReports: https://github.com/ropensci/opencv/issues
LinkingTo: Rcpp
Imports: Rcpp, magrittr
LazyData: true
Encoding: UTF-8
RoxygenNote: 6.1.1
NeedsCompilation: yes
Packaged: 2019-04-01 14:08:54 UTC; jeroen
Author: Jeroen Ooms [aut, cre] (<https://orcid.org/0000-0002-4035-0289>)
Maintainer: Jeroen Ooms <jeroen@berkeley.edu>
Repository: CRAN
Date/Publication: 2019-04-01 18:20:03 UTC

More information about opencv at CRAN
Permanent link

New package grplassocat with initial version 1.0
Package: grplassocat
Type: Package
Title: Standardization for Group Lasso Models with Categorical Predictors
Version: 1.0
Date: 2019-02-28
Author: Felicitas Detmer and Martin Slawski
Maintainer: Felicitas Detmer <fdetmer@gmu.edu>
Description: Implements the simple and computationally efficient standardization scheme for group lasso models with categorical predictors described in Detmer, Cebral, Slawski (2019) <arXiv:1805.06915>.
Depends: grplasso
License: GPL-3
NeedsCompilation: no
Packaged: 2019-03-30 18:50:27 UTC; fdetmer
Repository: CRAN
Date/Publication: 2019-04-01 18:20:06 UTC

More information about grplassocat at CRAN
Permanent link

Package bedr updated to version 1.0.7 with previous version 1.0.6 dated 2019-01-12

Title: Genomic Region Processing using Tools Such as 'BEDTools', 'BEDOPS' and 'Tabix'
Description: Genomic regions processing using open-source command line tools such as 'BEDTools', 'BEDOPS' and 'Tabix'. These tools offer scalable and efficient utilities to perform genome arithmetic e.g indexing, formatting and merging. bedr API enhances access to these tools as well as offers additional utilities for genomic regions processing.
Author: Syed Haider [aut], Daryl Waggott [aut], Emilie Lalonde [ctb], Clement Fung [ctb], Paul C. Boutros [aut, cre, cph]
Maintainer: Paul C. Boutros <pboutros@mednet.ucla.edu>

Diff between bedr versions 1.0.6 dated 2019-01-12 and 1.0.7 dated 2019-04-01

 DESCRIPTION                |   14 +++----
 MD5                        |   20 +++++-----
 NEWS                       |    6 +++
 R/vcf2bed.R                |    6 +++
 inst/doc/Using-bedr.Rmd    |    2 -
 inst/doc/Using-bedr.html   |   90 ++++++++++++++++++++++-----------------------
 man/bed2vcf.Rd             |    1 
 man/get.example.regions.Rd |    1 
 man/is.merged.region.Rd    |    2 -
 man/is.sorted.region.Rd    |    1 
 vignettes/Using-bedr.Rmd   |    2 -
 11 files changed, 77 insertions(+), 68 deletions(-)

More information about bedr at CRAN
Permanent link

New package spatialreg with initial version 1.1-3
Package: spatialreg
Version: 1.1-3
Date: 2019-04-01
Title: Spatial Regression Analysis
Encoding: UTF-8
Authors@R: c(person("Roger", "Bivand", role = c("cre", "aut"), email = "Roger.Bivand@nhh.no", comment=c(ORCID="0000-0003-2392-6140")), person(given = "Gianfranco", family = "Piras", role = c("aut"), email = "gpiras@mac.com"), person("Luc", "Anselin", role = "ctb"), person("Andrew", "Bernat", role = "ctb"), person("Eric", "Blankmeyer", role = "ctb"), person("Yongwan", "Chun", role = "ctb"), person("Virgilio", "Gómez-Rubio", role = "ctb"), person("Daniel", "Griffith", role = "ctb"), person("Martin", "Gubri", role = "ctb"), person("Rein", "Halbersma", role = "ctb"), person("James", "LeSage", role = "ctb"), person("Angela", "Li", role = "ctb"), person("Jielai", "Ma", role = "ctb"), person("Abhirup", "Mallik", role = c("ctb", "trl")), person("Giovanni", "Millo", role = "ctb"), person("Kelley", "Pace", role = "ctb"), person("Pedro", "Peres-Neto", role = "ctb"), person("Michael", "Tiefelsdorf", role = "ctb"), person(given = "Mauricio", family = "Sarrias", role = c("ctb"), email = "mauricio.sarrias@ucn.cl"), person(given = "JuanTomas", family = "Sayago", role = c("ctb"), email = "juantomas.sayago@gmail.com"), person("Michael", "Tiefelsdorf", role = "ctb"))
Depends: R (>= 3.3.0), spData, Matrix
Imports: spdep, expm, coda, methods, MASS, boot, splines, LearnBayes, nlme, gmodels
Suggests: parallel, RSpectra, sf, tmap, foreign, spam, knitr, lmtest, sandwich
Description: A collection of all the estimation functions for spatial cross-sectional models (on lattice/areal data using spatial weights matrices) contained up to now in 'spdep', 'sphet' and 'spse'. These model fitting functions include maximum likelihood methods for cross-sectional models proposed by 'Cliff' and 'Ord' (1973, ISBN:0850860369) and (1981, ISBN:0850860814), fitting methods initially described by 'Ord' (1975) <doi:10.1080/01621459.1975.10480272>. The models are further described by 'Anselin' (1988) <doi:10.1007/978-94-015-7799-1>. Spatial two stage least squares and spatial general method of moment models initially proposed by 'Kelejian' and 'Prucha' (1998) <doi:10.1023/A:1007707430416> and (1999) <doi:10.1111/1468-2354.00027> are provided. Impact methods and MCMC fitting methods proposed by 'LeSage' and 'Pace' (2009) <doi:10.1201/9781420064254> are implemented for the family of cross-sectional spatial regression models. Methods for fitting the log determinant term in maximum likelihood and MCMC fitting are compared by 'Bivand et al.' (2013) <doi:10.1111/gean.12008>, and model fitting methods by 'Bivand' and 'Piras' (2015) <doi:10.18637/jss.v063.i18>; both of these articles include extensive lists of references. 'spatialreg' >= 1.1-* correspond to 'spdep' >= 1.1-1, in which the model fitting functions are deprecated and pass through to 'spatialreg', but will mask those in 'spatialreg'. From versions 1.2-*, the functions will be made defunct in 'spdep'.
License: GPL-2
URL: https://github.com/r-spatial/spatialreg/, https://r-spatial.github.io/spatialreg/
BugReports: https://github.com/r-spatial/spatialreg/issues/
VignetteBuilder: knitr
NeedsCompilation: yes
RoxygenNote: 6.1.1
Packaged: 2019-04-01 13:56:03 UTC; rsb
Author: Roger Bivand [cre, aut] (<https://orcid.org/0000-0003-2392-6140>), Gianfranco Piras [aut], Luc Anselin [ctb], Andrew Bernat [ctb], Eric Blankmeyer [ctb], Yongwan Chun [ctb], Virgilio Gómez-Rubio [ctb], Daniel Griffith [ctb], Martin Gubri [ctb], Rein Halbersma [ctb], James LeSage [ctb], Angela Li [ctb], Jielai Ma [ctb], Abhirup Mallik [ctb, trl], Giovanni Millo [ctb], Kelley Pace [ctb], Pedro Peres-Neto [ctb], Michael Tiefelsdorf [ctb], Mauricio Sarrias [ctb], JuanTomas Sayago [ctb], Michael Tiefelsdorf [ctb]
Maintainer: Roger Bivand <Roger.Bivand@nhh.no>
Repository: CRAN
Date/Publication: 2019-04-01 18:00:03 UTC

More information about spatialreg at CRAN
Permanent link

Package simrel updated to version 2.0 with previous version 1.0-1 dated 2014-11-29

Title: Simulation of Multivariate Linear Model Data
Description: Simulate multivariate linear model data is useful in research and education weather for comparison or create data with specific properties. This package lets user to simulate linear model data of wide range of properties with few tuning parameters. The package also consist of function to create plots for the simulation objects and A shiny app as RStudio gadget. It can be a handy tool for model comparison, testing and many other purposes.
Author: Raju Rimal [aut, cre], Solve Sæbø [aut, ths] (Original Creator of the package)
Maintainer: Raju Rimal <raju.rimal@nmbu.no>

Diff between simrel versions 1.0-1 dated 2014-11-29 and 2.0 dated 2019-04-01

 simrel-1.0-1/simrel/R/QR.R                |only
 simrel-1.0-1/simrel/R/bits2int.R          |only
 simrel-1.0-1/simrel/R/householder.R       |only
 simrel-1.0-1/simrel/man/simrel-package.Rd |only
 simrel-2.0/simrel/DESCRIPTION             |   41 +++--
 simrel-2.0/simrel/LICENSE                 |only
 simrel-2.0/simrel/MD5                     |   74 +++++++--
 simrel-2.0/simrel/NAMESPACE               |   63 +++++++
 simrel-2.0/simrel/R/bisimrel.R            |only
 simrel-2.0/simrel/R/extra-test.R          |only
 simrel-2.0/simrel/R/gadget.R              |only
 simrel-2.0/simrel/R/ggsimrelplot.R        |only
 simrel-2.0/simrel/R/global.R              |only
 simrel-2.0/simrel/R/mbrd.R                |   96 +++++++++---
 simrel-2.0/simrel/R/mbrdsim.R             |   86 ++++++++--
 simrel-2.0/simrel/R/multisimrel.R         |only
 simrel-2.0/simrel/R/plot-covmat.R         |only
 simrel-2.0/simrel/R/plotextra.R           |only
 simrel-2.0/simrel/R/plotting-functions.R  |only
 simrel-2.0/simrel/R/simrel.R              |  238 ++++++++++++++----------------
 simrel-2.0/simrel/R/simrelplot.R          |  185 ++++++++++++++++-------
 simrel-2.0/simrel/R/unisimrel.R           |only
 simrel-2.0/simrel/R/utils.R               |only
 simrel-2.0/simrel/build                   |only
 simrel-2.0/simrel/inst                    |only
 simrel-2.0/simrel/man/AppSimrel.Rd        |only
 simrel-2.0/simrel/man/bisimrel.Rd         |only
 simrel-2.0/simrel/man/cov_mat.Rd          |only
 simrel-2.0/simrel/man/cov_plot_data.Rd    |only
 simrel-2.0/simrel/man/cov_xy.Rd           |only
 simrel-2.0/simrel/man/cov_zw.Rd           |only
 simrel-2.0/simrel/man/cov_zy.Rd           |only
 simrel-2.0/simrel/man/expect_subset.Rd    |only
 simrel-2.0/simrel/man/ggsimrelplot.Rd     |only
 simrel-2.0/simrel/man/mbrd.Rd             |  125 +++++++--------
 simrel-2.0/simrel/man/mbrdsim.Rd          |  118 ++++++++------
 simrel-2.0/simrel/man/multisimrel.Rd      |only
 simrel-2.0/simrel/man/parse_parm.Rd       |only
 simrel-2.0/simrel/man/pipe.Rd             |only
 simrel-2.0/simrel/man/plot_beta.Rd        |only
 simrel-2.0/simrel/man/plot_cov.Rd         |only
 simrel-2.0/simrel/man/plot_covariance.Rd  |only
 simrel-2.0/simrel/man/plot_simrel.Rd      |only
 simrel-2.0/simrel/man/prepare_design.Rd   |only
 simrel-2.0/simrel/man/simrel.Rd           |  196 +++++++-----------------
 simrel-2.0/simrel/man/simrelplot.Rd       |   88 +++--------
 simrel-2.0/simrel/man/tidy_beta.Rd        |only
 simrel-2.0/simrel/man/tidy_lambda.Rd      |only
 simrel-2.0/simrel/man/tidy_sigma.Rd       |only
 simrel-2.0/simrel/man/unisimrel.Rd        |only
 simrel-2.0/simrel/tests                   |only
 simrel-2.0/simrel/vignettes               |only
 52 files changed, 746 insertions(+), 564 deletions(-)

More information about simrel at CRAN
Permanent link

New package RNewsflow with initial version 1.1.0
Package: RNewsflow
Type: Package
Title: Tools for Comparing Text Messages Across Time and Media
Version: 1.1.0
Date: 2019-03-25
Author: Kasper Welbers & Wouter van Atteveldt
Maintainer: Kasper Welbers <kasperwelbers@gmail.com>
Description: A collection of tools for measuring the similarity of text messages and tracing the flow of messages over time and across media.
License: MIT + file LICENSE
Depends: R (>= 3.2.0), igraph, tm, Matrix (>= 1.2)
Imports: slam, stringi, scales, wordcloud, data.table, methods, quanteda, Rcpp (>= 0.12.12)
LinkingTo: Rcpp, RcppEigen, RcppProgress
LazyData: true
SystemRequirements: C++11
RoxygenNote: 6.1.0
Suggests: knitr, rmarkdown
VignetteBuilder: knitr
NeedsCompilation: yes
Packaged: 2019-04-01 07:25:31 UTC; kasper
Repository: CRAN
Date/Publication: 2019-04-01 17:40:06 UTC

More information about RNewsflow at CRAN
Permanent link

Package pbmcapply updated to version 1.4.1 with previous version 1.3.1 dated 2019-01-14

Title: Tracking the Progress of Mc*pply with Progress Bar
Description: A light-weight package helps you track and visualize the progress of parallel version of vectorized R functions (mc*apply). Parallelization (mc.core > 1) works only on *nix (Linux, Unix such as macOS) system due to the lack of fork() functionality, which is essential for mc*apply, on Windows.
Author: Kevin Kuang (aut), Quyu Kong (ctb), Francesco Napolitano (ctb)
Maintainer: Kevin kuang <kvn.kuang@mail.utoronto.ca>

Diff between pbmcapply versions 1.3.1 dated 2019-01-14 and 1.4.1 dated 2019-04-01

 DESCRIPTION           |   14 +
 MD5                   |   23 +--
 NAMESPACE             |   18 +-
 R/debugger.R          |   17 +-
 R/pbmclapply.R        |   32 ++--
 R/pbmcmapply.R        |   32 ++--
 R/progressBar.R       |   58 ++++----
 R/txtProgressBarETA.R |  361 +++++++++++++++++++++++++-------------------------
 R/utils.R             |  102 +++++++++++++-
 man/pbmclapply.Rd     |  136 +++++++++---------
 man/pbmcmapply.Rd     |  135 +++++++++---------
 man/progressBar.Rd    |  118 ++++++++--------
 src                   |only
 13 files changed, 574 insertions(+), 472 deletions(-)

More information about pbmcapply at CRAN
Permanent link

Package OptimalCutpoints updated to version 1.1-4 with previous version 1.1-3 dated 2014-11-02

Title: Computing Optimal Cutpoints in Diagnostic Tests
Description: Computes optimal cutpoints for diagnostic tests or continuous markers. Various approaches for selecting optimal cutoffs have been implemented, including methods based on cost-benefit analysis and diagnostic test accuracy measures (Sensitivity/Specificity, Predictive Values and Diagnostic Likelihood Ratios). Numerical and graphical output for all methods is easily obtained.
Author: Monica Lopez-Raton, Maria Xose Rodriguez-Alvarez
Maintainer: Monica Lopez Raton <monica.lopez.raton@gmail.com>

Diff between OptimalCutpoints versions 1.1-3 dated 2014-11-02 and 1.1-4 dated 2019-04-01

 DESCRIPTION                     |   13 +++++++------
 MD5                             |    8 ++++----
 NAMESPACE                       |    2 ++
 NEWS                            |    4 ++++
 man/OptimalCutpoints-package.Rd |    6 +++---
 5 files changed, 20 insertions(+), 13 deletions(-)

More information about OptimalCutpoints at CRAN
Permanent link

Package desctable updated to version 0.1.6 with previous version 0.1.5 dated 2019-03-10

Title: Produce Descriptive and Comparative Tables Easily
Description: Easily create descriptive and comparative tables. It makes use and integrates directly with the tidyverse family of packages, and pipes. Tables are produced as data frames/lists of data frames for easy manipulation after creation, and ready to be saved as csv, or piped to DT::datatable() or pander::pander() to integrate into reports.
Author: Maxime Wack [aut, cre]
Maintainer: Maxime Wack <maximewack@free.fr>

Diff between desctable versions 0.1.5 dated 2019-03-10 and 0.1.6 dated 2019-04-01

 desctable-0.1.5/desctable/man/group_by.Rd         |only
 desctable-0.1.5/desctable/man/pipe.Rd             |only
 desctable-0.1.6/desctable/DESCRIPTION             |    6 +-
 desctable-0.1.6/desctable/MD5                     |   13 ++---
 desctable-0.1.6/desctable/NEWS                    |    6 ++
 desctable-0.1.6/desctable/R/imports.R             |   19 +------
 desctable-0.1.6/desctable/build/vignette.rds      |binary
 desctable-0.1.6/desctable/inst/doc/desctable.html |   54 +++++++++++-----------
 desctable-0.1.6/desctable/man/reexports.Rd        |only
 9 files changed, 45 insertions(+), 53 deletions(-)

More information about desctable at CRAN
Permanent link

New package Umoments with initial version 0.1.0
Package: Umoments
Type: Package
Title: Unbiased Central Moment Estimates
Version: 0.1.0
Author: Inna Gerlovina [aut, cre], Alan E. Hubbard [aut]
Maintainer: Inna Gerlovina <innager@berkeley.edu>
Description: Calculates one-sample unbiased central moment estimates and two-sample pooled estimates up to 6th order, including unbiased estimates of powers and products of central moments. Provides the machinery for obtaining unbiased central moment estimators beyond 6th order.
Depends: R (>= 3.4.0)
Imports: stats, utils
License: GPL (>= 2)
Encoding: UTF-8
LazyData: true
RoxygenNote: 6.1.0
Suggests: knitr, rmarkdown, testthat
VignetteBuilder: knitr
NeedsCompilation: no
Packaged: 2019-03-29 23:23:31 UTC; innars
Repository: CRAN
Date/Publication: 2019-04-01 16:10:03 UTC

More information about Umoments at CRAN
Permanent link

New package STAT with initial version 0.1.0
Package: STAT
Type: Package
Title: Interactive Document for Working with Basic Statistical Analysis
Version: 0.1.0
Author: Kartikeya Bolar
Maintainer: Kartikeya Bolar <kartikeya.bolar@tapmi.edu.in>
Description: An interactive document on the topic of basic statistical analysis using 'rmarkdown' and 'shiny' packages. Runtime examples are provided in the package function as well as at <https://jarvisatharva.shinyapps.io/StatisticsPrimer/>.
License: GPL-2
Encoding: UTF-8
LazyData: TRUE
Depends: R (>= 3.0.3)
Imports: shiny,rmarkdown,psycho,dplyr,corrgram,Hmisc,rpivotTable,psych,datasets
RoxygenNote: 6.1.0
NeedsCompilation: no
Packaged: 2019-04-01 15:30:54 UTC; KARTIKEYA
Repository: CRAN
Date/Publication: 2019-04-01 16:40:10 UTC

More information about STAT at CRAN
Permanent link

New package otsad with initial version 0.1.0
Package: otsad
Type: Package
Title: Online Time Series Anomaly Detectors
Version: 0.1.0
Authors@R: c( person("Alaiñe", "Iturria", email = "aiturria@ikerlan.es", role = c("aut","cre")), person("Jacinto", "Carrasco", email = "jacintocc@decsai.ugr.es", role = c("aut")), person("Francisco", "Herrera", email = "herrera@decsai.ugr.es", role = c("aut")), person("Santiago", "Charramendieta", email = "scharramendieta@ikerlan.es", role = c("aut")), person("Karmele", "Intxausti", email = "kintxausti@ikerlan.es", role = c("aut")))
Description: Implements a set of online fault detectors for time-series, called: PEWMA see M. Carter et al. (2012) <doi:10.1109/SSP.2012.6319708>, SD-EWMA and TSSD-EWMA see H. Raza et al. (2015) <doi:10.1016/j.patcog.2014.07.028>, KNN-CAD see E. Burnaev et al. (2016) <arXiv:1608.04585>, KNN-LDCD see V. Ishimtsev et al. (2017) <arXiv:1706.03412> and CAD-OSE see M. Smirnov (2018) <https://github.com/smirmik/CAD>. The first three algorithms belong to prediction-based techniques and the last three belong to window-based techniques. In addition, the SD-EWMA and PEWMA algorithms are algorithms designed to work in stationary environments, while the other four are algorithms designed to work in non-stationary environments.
Depends: R (>= 3.4.0)
SystemRequirements: Python (>= 3.0.1); bencode-python3 (1.0.2)
License: AGPL (>= 3)
URL: https://github.com/alaineiturria/otsad
BugReports: https://github.com/alaineiturria/otsad/issues
Encoding: UTF-8
LazyData: true
RoxygenNote: 6.1.1
Suggests: testthat, stream, knitr, rmarkdown
Imports: stats, ggplot2, plotly, sigmoid, reticulate
VignetteBuilder: knitr
NeedsCompilation: no
Packaged: 2019-04-01 04:52:53 UTC; aiturria
Author: Alaiñe Iturria [aut, cre], Jacinto Carrasco [aut], Francisco Herrera [aut], Santiago Charramendieta [aut], Karmele Intxausti [aut]
Maintainer: Alaiñe Iturria <aiturria@ikerlan.es>
Repository: CRAN
Date/Publication: 2019-04-01 16:40:03 UTC

More information about otsad at CRAN
Permanent link

New package lisa with initial version 0.1.0
Package: lisa
Title: Color Palettes from Color Lisa
Version: 0.1.0
Authors@R: person(given = "Tyler", family = "Littlefield", role = c("aut", "cre"), email = "tylurp1@gmail.com")
Description: Contains 128 palettes from Color Lisa. All palettes are based on masterpieces from the worlds greatest artists. For more information, see <http://colorlisa.com/>.
Depends: R (>= 2.10)
License: MIT + file LICENSE
Encoding: UTF-8
LazyData: true
RoxygenNote: 6.1.1
URL: https://github.com/tyluRp/lisa
BugReports: https://github.com/tyluRp/lisa/issues
NeedsCompilation: no
Packaged: 2019-03-31 17:01:52 UTC; tylerlittlefield
Author: Tyler Littlefield [aut, cre]
Maintainer: Tyler Littlefield <tylurp1@gmail.com>
Repository: CRAN
Date/Publication: 2019-04-01 15:40:03 UTC

More information about lisa at CRAN
Permanent link

New package adoption with initial version 0.6.2
Package: adoption
Version: 0.6.2
Title: Modelling Adoption Process in Marketing
Author: Martin Schlather [aut, cre]
Maintainer: Martin Schlather <schlather@math.uni-mannheim.de>
LinkingTo: RandomFieldsUtils
Depends: R (>= 3.0), RandomFieldsUtils (>= 0.5.3)
Imports: stats, graphics, methods, grDevices, utils, quadprog, tcltk, tkrplot
Description: The classical Bass (1969) <doi:10.1287/mnsc.15.5.215> model and the agent based models, such as that by Goldenberg, Libai and Muller (2010) <doi:10.1016/j.ijresmar.2009.06.006> have been two different approaches to model adoption processes in marketing. These two approaches can be unified by explicitly modelling the utility functions. This package provides a GUI that allows, in a unified way, the modelling of these two processes and other processes.
License: GPL (>= 3) | CC BY 4.0
URL: http://ms.math.uni-mannheim.de/de/publications/software/adoption
NeedsCompilation: yes
Packaged: 2019-03-29 17:06:57 UTC; schlather
Repository: CRAN
Date/Publication: 2019-04-01 15:30:03 UTC

More information about adoption at CRAN
Permanent link

Package NMOF updated to version 1.6-0 with previous version 1.4-3 dated 2018-06-26

Title: Numerical Methods and Optimization in Finance
Description: Functions, examples and data from the book "Numerical Methods and Optimization in Finance" by M. Gilli, D. Maringer and E. Schumann (2011), ISBN 978-0123756626. The package provides implementations of several optimisation heuristics, such as Differential Evolution, Genetic Algorithms and Threshold Accepting. There are also functions for the valuation of financial instruments, such as bonds and options, and functions that help with stochastic simulations.
Author: Enrico Schumann [aut, cre] (<https://orcid.org/0000-0001-7601-6576>)
Maintainer: Enrico Schumann <es@enricoschumann.net>

Diff between NMOF versions 1.4-3 dated 2018-06-26 and 1.6-0 dated 2019-04-01

 DESCRIPTION                     |   13 +++---
 MD5                             |   62 ++++++++++++++++---------------
 NAMESPACE                       |    9 ++++
 NEWS                            |   23 +++++++++++
 R/DEopt.R                       |   20 ++++++++--
 R/LSopt.R                       |   25 +++++++++---
 R/NSf.R                         |   14 +++----
 R/SAopt.R                       |    4 ++
 R/TAopt.R                       |   29 ++++++++++++--
 R/drawdown.R                    |   12 +++---
 R/market_data.R                 |only
 R/portfolio.R                   |   79 ++++++++++++++++++++++++++++++++--------
 build/vignette.rds              |binary
 inst/doc/An_overview.pdf        |binary
 inst/doc/DEnss.pdf              |binary
 inst/doc/LSqueens.Rnw           |    6 +--
 inst/doc/LSqueens.pdf           |binary
 inst/doc/LSselect.pdf           |binary
 inst/doc/PSlms.pdf              |binary
 inst/doc/TAportfolio.pdf        |binary
 inst/doc/qTableEx.pdf           |binary
 inst/doc/repair.pdf             |binary
 inst/doc/vectorise.pdf          |binary
 inst/unitTests/runTests.R       |    2 -
 inst/unitTests/test_results.txt |   56 ++++++++++++++--------------
 man/French.Rd                   |only
 man/LSopt.Rd                    |   11 +++++
 man/NMOF-package.Rd             |   41 +++++++++++---------
 man/SAopt.Rd                    |   11 +++++
 man/Shiller.Rd                  |only
 man/TAopt.Rd                    |   16 ++++++++
 man/minvar.Rd                   |    6 ++-
 man/mvFrontier.Rd               |only
 vignettes/LSqueens.Rnw          |    6 +--
 34 files changed, 312 insertions(+), 133 deletions(-)

More information about NMOF at CRAN
Permanent link

Package EValue updated to version 2.0.0 with previous version 1.1.5 dated 2018-09-18

Title: Sensitivity Analyses for Unmeasured Confounding or Selection Bias in Observational Studies and Meta-Analyses
Description: Conducts sensitivity analyses for unmeasured confounding for either an observational study or a meta-analysis of observational studies. For a single observational study, the package reports E-values, defined as the minimum strength of association on the risk ratio scale that an unmeasured confounder would need to have with both the treatment and the outcome to fully explain away a specific treatment-outcome association, conditional on the measured covariates. You can use one of the evalues.XX() functions to compute E-values for the relevant outcome types. Outcome types include risk ratios, odds ratio with common or rare outcomes, hazard ratios with common or rare outcomes, and standardized differences in outcomes. Optionally, you can use the bias_plot() function to plot the bias factor as a function of two sensitivity parameters. (See VanderWeele & Ding, 2017 [<http://annals.org/aim/article/2643434>] for details.) For a meta-analysis, use the function confounded_meta to compute point estimates and inference for: (1) the proportion of studies with true causal effect sizes more extreme than a specified threshold of scientific importance; and (2) the minimum bias factor and confounding strength required to reduce to less than a specified threshold the proportion of studies with true effect sizes of scientifically significant size. The functions sens_plot() and sens_table() create plots and tables for visualizing these meta-analysis metrics across a range of bias values. (See Mathur & VanderWeele, 2019 [<https://amstat.tandfonline.com/doi/full/10.1080/01621459.2018.1529598#.XKIJtOtKjdc>] for details.) Most of the analyses available in this package can also be conducted using web-based graphical interfaces (for a single observational study: [<https://evalue.hmdc.harvard.edu>]; for a meta-analysis: [<https://mmathur.shinyapps.io/meta_gui_2/>]).
Author: Maya B. Mathur, Peng Ding, Louisa H. Smith, Tyler J. VanderWeele
Maintainer: Maya B. Mathur <mmathur@stanford.edu>

Diff between EValue versions 1.1.5 dated 2018-09-18 and 2.0.0 dated 2019-04-01

 DESCRIPTION                |   17 ++---
 MD5                        |   22 ++++--
 NAMESPACE                  |    5 +
 R/EValue.R                 |  153 ++++++++++++++++++++++-----------------------
 R/EValue_selection.R       |only
 inst/CITATION              |   22 +++++-
 man/evalues.OLS.Rd         |only
 man/scrape_meta.Rd         |    8 --
 man/sens_plot.Rd           |    6 -
 man/sens_table.Rd          |    3 
 man/svalues.HR.Rd          |only
 man/svalues.OR.Rd          |only
 man/svalues.RR.Rd          |only
 man/threshold_selection.Rd |only
 tests/testthat/testthat.R  |  123 ++++++++++++++++++++++++++++--------
 15 files changed, 225 insertions(+), 134 deletions(-)

More information about EValue at CRAN
Permanent link

Package WRSS updated to version 2.3 with previous version 2.2 dated 2019-02-16

Title: Water Resources System Simulator
Description: Water resources system simulator is a tool for simulation and analysis of large-scale water resources systems. 'WRSS' proposes functions and methods for construction, simulation and analysis of primary storage and hydropower water resources features (e.g. reservoirs, aquifers, and etc.) based on Standard Operating Policy (SOP).
Author: Rezgar Arabzadeh; Parisa Aberi; Kaveh Panaghi; Shahab Araghinejad; Majid Montaseri
Maintainer: Rezgar Arabzadeh <rezgararabzadeh@ut.ac.ir>

Diff between WRSS versions 2.2 dated 2019-02-16 and 2.3 dated 2019-04-01

 DESCRIPTION                     |    8 +--
 MD5                             |   58 +++++++++++-----------
 R/createAquifer.default.R       |    2 
 R/createDemandSite.default.R    |   18 +++----
 R/createDiversion.default.R     |   25 ++++-----
 R/createJunction.default.R      |    4 -
 R/createReservoir.default.R     |   12 +---
 R/createRiver.default.R         |   10 +--
 R/set.as.R                      |only
 R/sim.base.R                    |   11 ++--
 man/WRSS-package.Rd             |    7 +-
 man/addObjectToArea.Rd          |  101 +++++++++++++++++++++++++---------------
 man/createAquifer.Rd            |    2 
 man/createAquifer.base.Rd       |    2 
 man/createAquifer.default.Rd    |   14 +++--
 man/createDemandSite.Rd         |    4 -
 man/createDemandSite.base.Rd    |    4 -
 man/createDemandSite.default.Rd |   10 +--
 man/createDiversion.Rd          |    4 -
 man/createDiversion.base.Rd     |    4 -
 man/createDiversion.default.Rd  |   11 ++--
 man/createJunction.Rd           |    2 
 man/createJunction.base.Rd      |    2 
 man/createJunction.default.Rd   |    2 
 man/createReservoir.Rd          |    4 -
 man/createReservoir.base.Rd     |    6 +-
 man/createReservoir.default.Rd  |    4 -
 man/createRiver.Rd              |    4 -
 man/createRiver.base.Rd         |    4 -
 man/createRiver.default.Rd      |   12 ++--
 man/set.as.Rd                   |only
 31 files changed, 194 insertions(+), 157 deletions(-)

More information about WRSS at CRAN
Permanent link

Package pre updated to version 0.7.0 with previous version 0.6.0 dated 2018-08-03

Title: Prediction Rule Ensembles
Description: Derives prediction rule ensembles (PREs). Largely follows the procedure for deriving PREs as described in Friedman & Popescu (2008; <DOI:10.1214/07-AOAS148>), with adjustments and improvements. The main function pre() derives prediction rule ensembles consisting of rules and/or linear terms for continuous, binary, count, multinomial, and multivariate continuous responses. Function gpe() derives generalized prediction ensembles, consisting of rules, hinge and linear functions of the predictor variables.
Author: Marjolein Fokkema [aut, cre], Benjamin Christoffersen [aut]
Maintainer: Marjolein Fokkema <m.fokkema@fsw.leidenuniv.nl>

Diff between pre versions 0.6.0 dated 2018-08-03 and 0.7.0 dated 2019-04-01

 pre-0.6.0/pre/inst/README-figures/README-unnamed-chunk-12-1.png                               |only
 pre-0.6.0/pre/inst/README-figures/README-unnamed-chunk-4-1.png                                |only
 pre-0.6.0/pre/inst/README-figures/README-unnamed-chunk-6-1.png                                |only
 pre-0.6.0/pre/inst/README-figures/README-unnamed-chunk-8-1.png                                |only
 pre-0.6.0/pre/inst/README-figures/README-unnamed-chunk-9-1.png                                |only
 pre-0.7.0/pre/DESCRIPTION                                                                     |   12 
 pre-0.7.0/pre/MD5                                                                             |   79 
 pre-0.7.0/pre/NAMESPACE                                                                       |   11 
 pre-0.7.0/pre/NEWS                                                                            |   16 
 pre-0.7.0/pre/R/caret_pre_model.R                                                             |   37 
 pre-0.7.0/pre/R/gpe.R                                                                         |   12 
 pre-0.7.0/pre/R/pre.R                                                                         | 1011 +++++++---
 pre-0.7.0/pre/R/utils.R                                                                       |  215 +-
 pre-0.7.0/pre/README.md                                                                       |  137 -
 pre-0.7.0/pre/inst/README-figures/README-corplot-1.png                                        |only
 pre-0.7.0/pre/inst/README-figures/README-importance-1.png                                     |only
 pre-0.7.0/pre/inst/README-figures/README-interact-1.png                                       |only
 pre-0.7.0/pre/inst/README-figures/README-pairplot-1.png                                       |only
 pre-0.7.0/pre/inst/README-figures/README-singleplot-1.png                                     |only
 pre-0.7.0/pre/inst/README-figures/README-treeplot-1.png                                       |only
 pre-0.7.0/pre/inst/README-figures/README-unnamed-chunk-10-1.png                               |only
 pre-0.7.0/pre/inst/README-figures/README-unnamed-chunk-11-1.png                               |binary
 pre-0.7.0/pre/man/bsnullinteract.Rd                                                           |   14 
 pre-0.7.0/pre/man/cvpre.Rd                                                                    |    6 
 pre-0.7.0/pre/man/explain.Rd                                                                  |only
 pre-0.7.0/pre/man/gpe_rules_pre.Rd                                                            |   21 
 pre-0.7.0/pre/man/importance.Rd                                                               |   31 
 pre-0.7.0/pre/man/interact.Rd                                                                 |   20 
 pre-0.7.0/pre/man/maxdepth_sampler.Rd                                                         |    2 
 pre-0.7.0/pre/man/pairplot.Rd                                                                 |   21 
 pre-0.7.0/pre/man/pre.Rd                                                                      |  113 -
 pre-0.7.0/pre/man/predict.pre.Rd                                                              |    2 
 pre-0.7.0/pre/man/rTerm.Rd                                                                    |    2 
 pre-0.7.0/pre/man/singleplot.Rd                                                               |   30 
 pre-0.7.0/pre/tests/testthat/helper.R                                                         |    4 
 pre-0.7.0/pre/tests/testthat/previous_results/PimaIndiansDiabetes_w_pre_LR.RDS                |binary
 pre-0.7.0/pre/tests/testthat/previous_results/airquality_w_bsnullinteract.RDS                 |binary
 pre-0.7.0/pre/tests/testthat/previous_results/airquality_w_pre.RDS                            |binary
 pre-0.7.0/pre/tests/testthat/previous_results/airquality_w_pre_with_multivariate_response.RDS |binary
 pre-0.7.0/pre/tests/testthat/previous_results/airquality_w_pre_without_LR.RDS                 |binary
 pre-0.7.0/pre/tests/testthat/previous_results/airquality_w_pre_without_linear_terms.RDS       |binary
 pre-0.7.0/pre/tests/testthat/previous_results/gpe_tree_1.RDS                                  |binary
 pre-0.7.0/pre/tests/testthat/previous_results/gpe_tree_3.RDS                                  |binary
 pre-0.7.0/pre/tests/testthat/test_gpe.R                                                       |   37 
 pre-0.7.0/pre/tests/testthat/test_gpe_misc.R                                                  |    5 
 pre-0.7.0/pre/tests/testthat/test_pre_misc.R                                                  |   73 
 pre-0.7.0/pre/tests/testthat/tests_pre.R                                                      |   50 
 47 files changed, 1423 insertions(+), 538 deletions(-)

More information about pre at CRAN
Permanent link

Package rPraat updated to version 1.2.0-2 with previous version 1.2.0-1 dated 2019-03-30

Title: Interface to Praat
Description: Read, write and manipulate 'Praat' TextGrid, PitchTier, Pitch, IntensityTier, Formant, and Collection files <http://www.fon.hum.uva.nl/praat/>.
Author: Tomas Boril [aut, cre]
Maintainer: Tomas Boril <borilt@gmail.com>

Diff between rPraat versions 1.2.0-1 dated 2019-03-30 and 1.2.0-2 dated 2019-04-01

 DESCRIPTION |    6 +++---
 MD5         |   20 ++++++++++----------
 NEWS.md     |    4 ++++
 R/col.R     |    2 ++
 R/formant.R |    2 ++
 R/it.R      |    2 ++
 R/pitch.R   |    2 ++
 R/pt.R      |    2 ++
 R/rpraat.R  |    2 +-
 R/tg.R      |    2 ++
 README.md   |   31 ++++++++++++++++---------------
 11 files changed, 46 insertions(+), 29 deletions(-)

More information about rPraat at CRAN
Permanent link

Package easyalluvial updated to version 0.2.0 with previous version 0.1.8 dated 2019-01-15

Title: Generate Alluvial Plots with a Single Line of Code
Description: Alluvial plots are similar to sankey diagrams and visualise categorical data over multiple dimensions as flows. (Rosvall M, Bergstrom CT (2010) Mapping Change in Large Networks. PLoS ONE 5(1): e8694. <doi:10.1371/journal.pone.0008694> Their graphical grammar however is a bit more complex then that of a regular x/y plots. The 'ggalluvial' package made a great job of translating that grammar into 'ggplot2' syntax and gives you many options to tweak the appearance of an alluvial plot, however there still remains a multi-layered complexity that makes it difficult to use 'ggalluvial' for explorative data analysis. 'easyalluvial' provides a simple interface to this package that allows you to produce a decent alluvial plot from any dataframe in either long or wide format from a single line of code while also handling continuous data. It is meant to allow a quick visualisation of entire dataframes with a focus on different colouring options that can make alluvial plots a great tool for data exploration.
Author: Bjoern Koneswarakantha [aut, cre] (<https://orcid.org/ 0000-0003-4585-7799>)
Maintainer: Bjoern Koneswarakantha <datistics@gmail.com>

Diff between easyalluvial versions 0.1.8 dated 2019-01-15 and 0.2.0 dated 2019-04-01

 DESCRIPTION                                               |   12 
 MD5                                                       |  126 +
 NAMESPACE                                                 |   21 
 NEWS.md                                                   |   17 
 R/alluvial_long.R                                         |  112 +
 R/alluvial_model_response.R                               |only
 R/alluvial_wide.R                                         |  229 +--
 R/data.R                                                  |   39 
 R/manip.R                                                 |   65 
 R/palette.R                                               |    5 
 R/plot_condensation.R                                     |   13 
 R/plot_imp.R                                              |only
 R/plot_marginal_hist.R                                    |only
 README.md                                                 |   80 -
 data/mtcars2.rda                                          |only
 data/quarterly_sunspots.rda                               |only
 man/add_imp_plot.Rd                                       |only
 man/add_marginal_histograms.Rd                            |only
 man/alluvial_long.Rd                                      |    9 
 man/alluvial_model_response.Rd                            |only
 man/alluvial_model_response_caret.Rd                      |only
 man/alluvial_wide.Rd                                      |   83 -
 man/figures/README-plot_long-1.png                        |binary
 man/figures/README-unnamed-chunk-3-1.png                  |only
 man/figures/README-unnamed-chunk-4-1.png                  |only
 man/figures/README-wide_plot-1.png                        |binary
 man/get_data_space.Rd                                     |only
 man/get_pdp_predictions.Rd                                |only
 man/manip_bin_numerics.Rd                                 |   12 
 man/mtcars2.Rd                                            |only
 man/palette_qualitative.Rd                                |    3 
 man/plot_all_hists.Rd                                     |only
 man/plot_condensation.Rd                                  |   13 
 man/plot_hist.Rd                                          |only
 man/plot_imp.Rd                                           |only
 man/quarterly_sunspots.Rd                                 |only
 man/tidy_imp.Rd                                           |only
 man/use_e1071.Rd                                          |only
 tests/figs/alluvial-long/long-all-nums-plus-fill.svg      |only
 tests/figs/alluvial-long/long-all-nums.svg                |only
 tests/figs/alluvial-long/long-fill-carrier.svg            |  974 +++++++-------
 tests/figs/alluvial-long/long-fill-first.svg              |  128 -
 tests/figs/alluvial-long/long-fill-last.svg               |  128 -
 tests/figs/alluvial-long/long-fill-to-right.svg           |  974 +++++++-------
 tests/figs/alluvial-long/long-fill-value.svg              |  128 -
 tests/figs/alluvial-long/long-reorder-carrier-by-size.svg |  974 +++++++-------
 tests/figs/alluvial-long/long-reorder-x-levels.svg        |  128 -
 tests/figs/alluvial-long/long-reorder-y-levels.svg        |  128 -
 tests/figs/alluvial-long/long-sprecify-color.svg          |  144 +-
 tests/figs/alluvial-model-response                        |only
 tests/figs/alluvial-wide/wide-all-flows.svg               |  284 ++--
 tests/figs/alluvial-wide/wide-first.svg                   |  294 ++--
 tests/figs/alluvial-wide/wide-islr-cars-rotate-labels.svg |  734 +++++-----
 tests/figs/alluvial-wide/wide-islr-cars.svg               |  734 +++++-----
 tests/figs/alluvial-wide/wide-last.svg                    |  294 ++--
 tests/figs/alluvial-wide/wide-reorder-y-levels.svg        |  284 ++--
 tests/figs/alluvial-wide/wide-values.svg                  |  284 ++--
 tests/figs/marginal-histograms                            |only
 tests/figs/plot-imp                                       |only
 tests/testthat/Rplots.pdf                                 |only
 tests/testthat/test_alluvial_long.R                       |   11 
 tests/testthat/test_alluvial_model_response.R             |only
 tests/testthat/test_alluvial_wide.R                       |   49 
 tests/testthat/test_manip.R                               |   73 -
 tests/testthat/test_plot_imp.R                            |only
 tests/testthat/test_plot_marginal_histograms.R            |only
 66 files changed, 3972 insertions(+), 3614 deletions(-)

More information about easyalluvial at CRAN
Permanent link

Package smbinning updated to version 0.9 with previous version 0.8 dated 2019-01-07

Title: Scoring Modeling and Optimal Binning
Description: A set of functions to build a scoring model from beginning to end, leading the user to follow an efficient and organized development process, reducing significantly the time spent on data exploration, variable selection, feature engineering, binning and model selection among other recurrent tasks. The package also incorporates monotonic and customized binning, scaling capabilities that transforms logistic coefficients into points for a better business understanding and calculates and visualizes classic performance metrics of a classification model.
Author: Herman Jopia
Maintainer: Herman Jopia <hjopia@gmail.com>

Diff between smbinning versions 0.8 dated 2019-01-07 and 0.9 dated 2019-04-01

 DESCRIPTION                |   10 ++---
 MD5                        |    7 ++-
 R/smbinning.R              |   85 ++++++++++++++++++++++++++++++++++++++++++++-
 data/smbsimdf3.RData       |only
 man/smbinning.logitrank.Rd |only
 man/smbsimdf3.Rd           |only
 6 files changed, 94 insertions(+), 8 deletions(-)

More information about smbinning at CRAN
Permanent link

New package tmt with initial version 0.1.9-3
Package: tmt
Type: Package
Title: Estimation of the Rasch Model for Multistage Tests
Version: 0.1.9-3
Date: 2019-03-31
Authors@R: c( person(given = "Jan", family = "Steinfeld", email = "jan.d.steinfeld@gmail.com", role = c("cre","aut"), comment = c(ORCID = "0000-0001-9853-8260") ), person(given = "Alexander", family = "Robitzsch", email = "robitzsch@ipn.uni-kiel.de", role = c("aut"), comment = c(ORCID = "0000-0002-8226-3132") ) )
Author: Jan Steinfeld [cre, aut] (<https://orcid.org/0000-0001-9853-8260>), Alexander Robitzsch [aut] (<https://orcid.org/0000-0002-8226-3132>)
Maintainer: Jan Steinfeld <jan.d.steinfeld@gmail.com>
URL: https://github.com/jansteinfeld/tmt
BugReports: https://github.com/jansteinfeld/tmt/issues
Description: Provides conditional maximum likelihood (CML) estimation of item parameters in multistage designs (Zwitser & Maris, 2013, <doi:10.1007/s11336-013-9369-6>) and CML estimation for conventional designs. Additional features are the likelihood ratio test (Andersen, 1973, <doi:10.1007/BF02291180>) and simulation of multistage designs.
License: GPL-3
LazyLoad: yes
LazyData: true
VignetteBuilder: knitr
Depends: R (>= 3.0)
Encoding: UTF-8
NeedsCompilation: yes
Suggests: roxygen2, eRm, knitr, prettydoc, psychotools, testthat, rmarkdown, dexterMST
Imports: parallel, ggplot2, Rcpp (>= 0.12.0), stats
LinkingTo: Rcpp
RoxygenNote: 6.1.1
Packaged: 2019-03-31 14:40:57 UTC; jansteinfeld
Repository: CRAN
Date/Publication: 2019-04-01 09:10:03 UTC

More information about tmt at CRAN
Permanent link

Package PMwR updated to version 0.11-0 with previous version 0.10-1 dated 2018-10-28

Title: Portfolio Management with R
Description: Functions and examples for 'Portfolio Management with R': backtesting investment and trading strategies, computing profit/loss and returns, analysing trades, handling lists of transactions, reporting, and more.
Author: Enrico Schumann [aut, cre] (<https://orcid.org/0000-0001-7601-6576>)
Maintainer: Enrico Schumann <es@enricoschumann.net>

Diff between PMwR versions 0.10-1 dated 2018-10-28 and 0.11-0 dated 2019-04-01

 ChangeLog                        |  155 ++++++++++
 DESCRIPTION                      |   18 -
 MD5                              |   70 ++--
 NAMESPACE                        |    4 
 NEWS                             |   67 +++-
 R/NAVseries.R                    |  560 ++++++++++++++++++++++++---------------
 R/btest.R                        |   29 +-
 R/internal.R                     |    8 
 R/journal.R                      |   32 +-
 R/pl.R                           |   19 -
 R/plot_trading_hours.R           |    6 
 R/position.R                     |  111 +++++--
 R/returns.R                      |  246 ++++++++---------
 R/trades.R                       |   23 -
 R/valuation.R                    |   87 +++---
 build/vignette.rds               |binary
 inst/doc/An_overview_of_PMwR.pdf |binary
 inst/doc/Computing_returns.R     |   26 -
 inst/doc/Computing_returns.Rnw   |   54 ++-
 inst/doc/Computing_returns.pdf   |binary
 inst/doc/Drawdowns_streaks.pdf   |binary
 inst/doc/FinTeX.R                |   47 +--
 inst/doc/FinTeX.Rnw              |   38 +-
 inst/doc/FinTeX.pdf              |binary
 inst/doc/pl_open_positions.pdf   |binary
 inst/doc/q32.pdf                 |binary
 inst/unitTests/test_results.txt  |   31 +-
 inst/unitTests/ut_PMwR.R         |  432 ++++++++++++++++++++++++++----
 man/NAVseries.Rd                 |   37 ++
 man/PMwR-internal.Rd             |    5 
 man/btest.Rd                     |  320 +++++++++++++---------
 man/plot_trading_hours.Rd        |   27 +
 man/position.Rd                  |    6 
 man/returns.Rd                   |   94 ++++--
 vignettes/Computing_returns.Rnw  |   54 ++-
 vignettes/FinTeX.Rnw             |   38 +-
 36 files changed, 1763 insertions(+), 881 deletions(-)

More information about PMwR at CRAN
Permanent link

New package foretell with initial version 0.1.0
Package: foretell
Type: Package
Title: Projecting Customer Retention Based on Fader and Hardie Probability Models
Version: 0.1.0
Author: Srihari Jaganathan
Maintainer: Srihari Jaganathan <sriharitn@gmail.com>
Description: Project Customer Retention based on Beta Geometric, Beta Discrete Weibull and Latent Class Discrete Weibull Models This package is based on Fader and Hardie (2007) <doi:10.1002/dir.20074> and Fader and Hardie et al. (2018) <doi:10.1016/j.intmar.2018.01.002> .
Depends: R (>= 3.0.1)
License: MIT + file LICENSE
Encoding: UTF-8
LazyData: true
Imports: stats
RoxygenNote: 6.1.1
NeedsCompilation: no
Packaged: 2019-03-31 01:38:57 UTC; haria
Repository: CRAN
Date/Publication: 2019-04-01 09:10:06 UTC

More information about foretell at CRAN
Permanent link

Package alfred updated to version 0.1.7 with previous version 0.1.6 dated 2018-04-06

Title: Downloading Time Series from ALFRED Database for Various Vintages
Description: Provides direct access to the ALFRED (<https://alfred.stlouisfed.org>) and FRED (<https://fred.stlouisfed.org>) databases. Its functions return tidy data frames for different releases of the specified time series. Note that this product uses the FRED© API but is not endorsed or certified by the Federal Reserve Bank of St. Louis.
Author: Onno Kleen [aut, cre] (<https://orcid.org/0000-0003-4731-4640>)
Maintainer: Onno Kleen <r@onnokleen.de>

Diff between alfred versions 0.1.6 dated 2018-04-06 and 0.1.7 dated 2019-04-01

 DESCRIPTION                    |   12 ++--
 MD5                            |   10 ++--
 NEWS.md                        |    1 
 build/vignette.rds             |binary
 inst/doc/alfred.html           |  100 ++++++++++++++++++++++++-----------------
 tests/testthat/test_download.R |   14 -----
 6 files changed, 72 insertions(+), 65 deletions(-)

More information about alfred at CRAN
Permanent link

Package survival updated to version 2.44-1.1 with previous version 2.44-1 dated 2019-03-30

Title: Survival Analysis
Description: Contains the core survival analysis routines, including definition of Surv objects, Kaplan-Meier and Aalen-Johansen (multi-state) curves, Cox models, and parametric accelerated failure time models.
Author: Terry M Therneau [aut, cre], Thomas Lumley [ctb, trl] (original S->R port and R maintainer until 2009)
Maintainer: Terry M Therneau <therneau.terry@mayo.edu>

Diff between survival versions 2.44-1 dated 2019-03-30 and 2.44-1.1 dated 2019-04-01

 DESCRIPTION     |    6 +++---
 MD5             |    4 ++--
 src/survfitkm.c |    2 +-
 3 files changed, 6 insertions(+), 6 deletions(-)

More information about survival at CRAN
Permanent link

New package shipunov with initial version 1.0
Package: shipunov
Type: Package
Title: Miscellaneous Functions from Alexey Shipunov
Version: 1.0
Date: 2019-03-24
Author: Alexey Shipunov [aut, cre], Karl W Broman [ctb], Paul Murrell [ctb], Marcello D'Orazio [ctb], Stephen Turner [ctb], Eugeny Altshuler [ctb], Roland Rau [ctb], Christoph Heibl [ctb], Marcus W Beck [ctb]
Maintainer: Alexey Shipunov <dactylorhiza@gmail.com>
Description: A collection of functions for data manipulation, plotting and statistical computing, to use separately or with the book "Visual Statistics. Use R!": Shipunov (2019) <http://ashipunov.info/shipunov/software/r/r-en.htm>.
Suggests: PBSmapping, ape, class, cluster, effsize, gpclib, grid, ips, randomForest, nnet, scales, smirnov, vegan, MASS, adabag, e1071, neuralnet, rpart, tree
Imports: methods
License: GPL (>= 2)
LazyLoad: yes
NeedsCompilation: no
Packaged: 2019-03-29 19:06:41 UTC; alexey
Repository: CRAN
Date/Publication: 2019-04-01 08:20:03 UTC

More information about shipunov at CRAN
Permanent link

New package PublicationBias with initial version 1.0.0
Package: PublicationBias
Type: Package
Title: Sensitivity Analysis for Publication Bias in Meta-Analyses
Version: 1.0.0
Author: Maya B. Mathur, Tyler J. VanderWeele
Maintainer: Maya B. Mathur <mmathur@stanford.edu>
Description: Performs sensitivity analysis for publication bias in meta-analyses (per Mathur & VanderWeele, 2019 [<https://osf.io/s9dp6>]). These analyses enable statements such as: "For publication bias to shift the observed point estimate to the null, 'significant' results would need to be at least 30-fold more likely to be published than negative or 'nonsignificant' results." Comparable statements can be made regarding shifting to a chosen non-null value or shifting the confidence interval. Provides a worst-case meta-analytic point estimate under maximal publication bias obtained simply by conducting a standard meta-analysis of only the negative and "nonsignificant" studies.
License: GPL-2
Encoding: UTF-8
Imports: metafor, stats, dplyr, robumeta, ggplot2, Rdpack, MetaUtility
RdMacros: Rdpack
LazyData: true
RoxygenNote: 6.1.1
NeedsCompilation: no
Packaged: 2019-03-29 19:30:10 UTC; mmathur
Repository: CRAN
Date/Publication: 2019-04-01 09:00:03 UTC

More information about PublicationBias at CRAN
Permanent link

New package MAP with initial version 0.1.3
Package: MAP
Type: Package
Title: Multimodal Automated Phenotyping
Version: 0.1.3
Author: Jiehuan Sun [aut, cre], Katherine P. Liao[aut], Sheng Yu [aut], Tianxi Cai [aut]
Maintainer: Jiehuan Sun <jiehuan.sun@gmail.com>
Description: Electronic health records (EHR) linked with biorepositories are a powerful platform for translational studies. A major bottleneck exists in the ability to phenotype patients accurately and efficiently. Towards that end, we developed an automated high-throughput phenotyping method integrating International Classification of Diseases (ICD) codes and narrative data extracted using natural language processing (NLP). Specifically, our proposed method, called MAP (Map Automated Phenotyping algorithm), fits an ensemble of latent mixture models on aggregated ICD and NLP counts along with healthcare utilization. The MAP algorithm yields a predicted probability of phenotype for each patient and a threshold for classifying subjects with phenotype yes/no (See Katherine P. Liao, et al. (2019) <doi:10.1101/587436>.).
License: GPL-2
Encoding: UTF-8
LazyData: true
Depends: R (>= 3.4.0), flexmix (>= 2.3-14), Matrix(>= 1.2-10)
Suggests: knitr, rmarkdown
NeedsCompilation: no
RoxygenNote: 6.1.1
Packaged: 2019-03-29 19:47:25 UTC; JiehuanSun
Repository: CRAN
Date/Publication: 2019-04-01 08:20:09 UTC

More information about MAP at CRAN
Permanent link

New package gwer with initial version 1.0
Package: gwer
Type: Package
Title: Geographically Weighted Elliptical Regression
Version: 1.0
Date: 2019-03-29
Author: Yuri A. Araujo, Francisco Jose A. Cysneiros and Audrey H. M. A. Cysneiros
Maintainer: Yuri A. Araujo <yada1@de.ufpe.br>
Description: Computes a elliptical regression model or a geographically weighted regression model with elliptical errors using Fisher's score algorithm. Provides diagnostic measures, residuals and analysis of variance. Cysneiros, F. J. A., Paula, G. A., and Galea, M. (2007) <doi:10.1016/j.spl.2007.01.012>.
Depends: R (>= 2.14), sp (>= 0.8-3), stats
Imports: maptools (>= 0.7-32), Matrix, methods, spData (>= 0.2.6.2), spdep, spgwr, utils, assertthat, glogis, graphics
Suggests: rgdal, parallel
NeedsCompilation: no
License: GPL (>= 2)
RoxygenNote: 6.1.1
Encoding: UTF-8
LazyData: true
Packaged: 2019-03-29 23:31:27 UTC; LoD_B
Repository: CRAN
Date/Publication: 2019-04-01 08:30:02 UTC

More information about gwer at CRAN
Permanent link

New package cheese with initial version 0.0.1
Package: cheese
Version: 0.0.1
Date: 2019-03-12
Title: Tools for Intuitive and Flexible Statistical Analysis Workflows
Authors@R: person(given = "Alex", family = "Zajichek", email = "alexzajichek@gmail.com", role = c("aut", "cre"))
Description: Contains flexible and intuitive functions to assist in carrying out tasks in a statistical analysis and to get from the raw data to presentation-ready results. A user-friendly interface is used in specialized functions that are aimed at common tasks such as building a univariate descriptive table for variables in a dataset. These high-level functions are built on a collection of low(er)-level functions that may be useful for aspects of a custom statistical analysis workflow or for general programming use.
URL: https://github.com/zajichek/cheese
License: MIT + file LICENSE
Depends: R (>= 3.4.0)
Imports: dplyr (>= 0.7.7), forcats (>= 0.3.0), kableExtra (>= 1.0.1), knitr (>= 1.20), magrittr (>= 1.5), methods (>= 3.4.1), purrr (>= 0.2.4), rlang (>= 0.3.0.1), stringr (>= 1.3.1), tibble (>= 1.4.2), tidyr (>= 0.8.1), tidyselect (>= 0.2.4)
Suggests: rmarkdown (>= 1.10), tidyverse (>= 1.2.1)
VignetteBuilder: knitr
Encoding: UTF-8
LazyData: true
NeedsCompilation: no
Packaged: 2019-03-29 17:07:03 UTC; alexzajichek
Author: Alex Zajichek [aut, cre]
Maintainer: Alex Zajichek <alexzajichek@gmail.com>
Repository: CRAN
Date/Publication: 2019-04-01 08:10:03 UTC

More information about cheese at CRAN
Permanent link

New package adoptr with initial version 0.1.1
Package: adoptr
Type: Package
Title: Adaptive Optimal Two-Stage Designs in R
Version: 0.1.1
Authors@R: c( person("Kevin", "Kunzmann", role = c("aut", "cre"), email = "kevin.kunzmann@mrc-bsu.cam.ac.uk"), person("Maximilian", "Pilz", role = c("aut"), email = "pilz@imbi.uni-heidelberg.de") )
Description: Optimize one or two-arm, two-stage designs for clinical trials with respect to several pre-implemented objective criteria or implement custom objectives. Optimization under uncertainty and conditional (given stage-one outcome) constraints are supported.
License: MIT + file LICENSE
Encoding: UTF-8
LazyData: true
Suggests: knitr, rmarkdown, testthat, covr, rpact, vdiffr
Imports: nloptr, methods
VignetteBuilder: knitr
Collate: adoptr.R util.R DataDistribution.R Prior.R PointMassPrior.R ContinuousPrior.R TwoStageDesign.R GroupSequentialDesign.R OneStageDesign.R Scores.R AffineScoreFunction.R constraints.R minimize.R ConditionalPower.R ConditionalSampleSize.R regularization.R boundary_designs.R
RoxygenNote: 6.1.1
BugReports: https://github.com/kkmann/adoptr/issues
URL: https://github.com/kkmann/adoptr
NeedsCompilation: no
Packaged: 2019-03-30 00:13:32 UTC; kevin
Author: Kevin Kunzmann [aut, cre], Maximilian Pilz [aut]
Maintainer: Kevin Kunzmann <kevin.kunzmann@mrc-bsu.cam.ac.uk>
Repository: CRAN
Date/Publication: 2019-04-01 08:30:06 UTC

More information about adoptr at CRAN
Permanent link

New package robustSingleCell with initial version 0.1.0
Package: robustSingleCell
Type: Package
Title: Robust Clustering of Single Cell RNA-Seq Data
Version: 0.1.0
Authors@R: c( person("Assaf", "Magen", email = "assaf.magen@nih.gov", role = "aut"), person("Meng", "Wang", email = "szmamie@live.com", role = c("aut", "cre"), comment = c(ORCID = "0000-0002-3453-7805")), person("Hao", "Chen", role = "ctb") )
Description: Robust single cell clustering and comparison of population compositions across tissues and experimental models via similarity analysis from Magen 2019 <doi:10.1101/543199>.
Depends: R (>= 3.2.0)
Imports: utils, grDevices, graphics, Matrix, limma, biomaRt, dplyr, ggplot2, reshape2, GGally, ggrepel, RColorBrewer, gplots, ggpubr, cccd, rslurm, Rtsne, igraph, scales, RANN, Rcpp
LinkingTo: Rcpp
License: Artistic-2.0
URL: https://github.com/asmagen/robustSingleCell
BugReports: https://github.com/asmagen/robustSingleCell/issues
Encoding: UTF-8
LazyData: true
RoxygenNote: 6.1.1
Suggests: GEOquery, knitr, rmarkdown, testthat
VignetteBuilder: knitr
NeedsCompilation: yes
Packaged: 2019-03-28 20:55:08 UTC; szmamie
Author: Assaf Magen [aut], Meng Wang [aut, cre] (<https://orcid.org/0000-0002-3453-7805>), Hao Chen [ctb]
Maintainer: Meng Wang <szmamie@live.com>
Repository: CRAN
Date/Publication: 2019-04-01 07:30:03 UTC

More information about robustSingleCell at CRAN
Permanent link

Package siplab updated to version 1.4 with previous version 1.3 dated 2018-07-29

Title: Spatial Individual-Plant Modelling
Description: A platform for experimenting with spatially explicit individual-based vegetation models.
Author: Oscar Garcia
Maintainer: Oscar Garcia <garcia@dasometrics.net>

Diff between siplab versions 1.3 dated 2018-07-29 and 1.4 dated 2019-04-01

 DESCRIPTION           |    8 ++++----
 MD5                   |   16 ++++++++--------
 R/size.sel.R          |    2 +-
 inst/NEWS             |    6 ++++++
 man/assimilation.Rd   |    4 ++--
 man/boreas.Rd         |    8 ++++----
 man/kernel.Rd         |    4 ++--
 man/pairwise.Rd       |    2 +-
 man/siplab-package.Rd |    6 +++---
 9 files changed, 31 insertions(+), 25 deletions(-)

More information about siplab at CRAN
Permanent link

Package rhoR updated to version 1.2.1.1 with previous version 1.2.1.0 dated 2019-02-07

Title: Rho for Inter Rater Reliability
Description: Rho is used to test the generalization of inter rater reliability (IRR) statistics. Calculating rho starts by generating a large number of simulated, fully-coded data sets: a sizable collection of hypothetical populations, all of which have a kappa value below a given threshold -- which indicates unacceptable agreement. Then kappa is calculated on a sample from each of those sets in the collection to see if it is equal to or higher than the kappa in then real sample. If less than five percent of the distribution of samples from the simulated data sets is greater than actual observed kappa, the null hypothesis is rejected and one can conclude that if the two raters had coded the rest of the data, we would have acceptable agreement (kappa above the threshold).
Author: Brendan Eagan [aut], Brad Rogers [aut], Rebecca Pozen [aut], Cody L Marquart [cre, aut], David Williamson Shaffer [aut]
Maintainer: Cody L Marquart <cody.marquart@wisc.edu>

Diff between rhoR versions 1.2.1.0 dated 2019-02-07 and 1.2.1.1 dated 2019-04-01

 DESCRIPTION                   |    6 +++---
 MD5                           |   10 +++++++---
 R/createSimulatedCodeSet.R    |   40 ++++++++++++++++++++++++++++++++++++++--
 demo                          |only
 man/createSimulatedCodeSet.Rd |    4 +++-
 5 files changed, 51 insertions(+), 9 deletions(-)

More information about rhoR at CRAN
Permanent link

Package lawstat updated to version 3.3 with previous version 3.2 dated 2017-11-23

Title: Tools for Biostatistics, Public Policy, and Law
Description: Statistical tests widely utilized in biostatistics, public policy, and law. Along with the well-known tests for equality of means and variances, randomness, and measures of relative variability, the package contains new robust tests of symmetry, omnibus and directional tests of normality, and their graphical counterparts such as robust QQ plot, robust trend tests for variances, etc. All implemented tests and methods are illustrated by simulations and real-life examples from legal statistics, economics, and biostatistics.
Author: Joseph L. Gastwirth [aut], Yulia R. Gel [aut], W. L. Wallace Hui [aut], Vyacheslav Lyubchich [aut, cre], Weiwen Miao [aut], Kimihiro Noguchi [aut]
Maintainer: Vyacheslav Lyubchich <lyubchic@umces.edu>

Diff between lawstat versions 3.2 dated 2017-11-23 and 3.3 dated 2019-04-01

 DESCRIPTION                   |   21 
 MD5                           |  112 +--
 NAMESPACE                     |   67 +
 R/bartels.test.R              |  138 ++-
 R/bias.R                      |only
 R/blackhire.R                 |only
 R/brunner.munzel.test.R       |   78 +-
 R/cd.R                        |   68 +
 R/cmh.test.R                  |  130 ++-
 R/data1963.R                  |only
 R/gini.index.R                |   95 +-
 R/j.maad.R                    |   50 -
 R/laplace.test.R              |   98 +-
 R/lawstat.R                   |only
 R/levene.test.R               |  873 ++++++++++++------------
 R/lnested.test.R              | 1484 ++++++++++++++++++++++++------------------
 R/lorenz.curve.R              |  339 ++++++---
 R/ltrend.test.R               | 1375 +++++++++++++++++++++-----------------
 R/michigan.R                  |only
 R/mma.test.R                  |  358 ++++++----
 R/neuhauser.hothorn.test.R    | 1064 ++++++++++++++++--------------
 R/nig.parameter.R             |  102 ++
 R/popdata.R                   |only
 R/pot.R                       |only
 R/rjb.test.R                  |  315 +++++---
 R/rlm.test.R                  |  266 ++++---
 R/robust.mmm.test.R           |  432 +++++++-----
 R/rqq.R                       |  145 +++-
 R/runs.test.R                 |  193 +++--
 R/sj.test.R                   |  158 ++--
 R/symmetry.test.R             |  257 +++++--
 R/zuni.R                      |only
 build                         |only
 inst                          |only
 man/bartels.test.Rd           |   57 -
 man/bias.Rd                   |   37 -
 man/blackhire.Rd              |   22 
 man/brunner.munzel.test.Rd    |   80 +-
 man/cd.Rd                     |   53 -
 man/cmh.test.Rd               |  143 +---
 man/data1963.Rd               |   38 -
 man/gini.index.Rd             |   58 -
 man/j.maad.Rd                 |   48 -
 man/laplace.test.Rd           |   71 --
 man/levene.test.Rd            |  202 ++---
 man/lnested.test.Rd           |  211 ++---
 man/lorenz.curve.Rd           |  113 +--
 man/ltrend.test.Rd            |  213 ++----
 man/michigan.Rd               |   21 
 man/mma.test.Rd               |   82 +-
 man/neuhauser.hothorn.test.Rd |  183 ++---
 man/nig.parameter.Rd          |   92 +-
 man/popdata.Rd                |   38 -
 man/pot.Rd                    |   53 -
 man/rjb.test.Rd               |  109 +--
 man/rlm.test.Rd               |   81 +-
 man/robust.mmm.test.Rd        |   84 +-
 man/rqq.Rd                    |  146 ++--
 man/runs.test.Rd              |   72 +-
 man/sj.test.Rd                |   67 -
 man/symmetry.test.Rd          |  111 +--
 man/zuni.Rd                   |   50 -
 62 files changed, 6041 insertions(+), 4712 deletions(-)

More information about lawstat at CRAN
Permanent link


Built and running on Debian GNU/Linux using R, littler and blosxom. Styled with Bootstrap.