Sat, 03 Aug 2019

Package PLMIX updated to version 2.1.0 with previous version 2.0.1 dated 2018-05-02

Title: Bayesian Analysis of Finite Mixtures of Plackett-Luce Models for Partial Rankings/Orderings
Description: Fit finite mixtures of Plackett-Luce models for partial top rankings/orderings within the Bayesian framework. It provides MAP point estimates via EM algorithm and posterior MCMC simulations via Gibbs Sampling. It also fits MLE as a special case of the noninformative Bayesian analysis with vague priors. In addition to inferential techniques, the package assists other fundamental phases of a model-based analysis for partial rankings/orderings, by including functions for data manipulation, simulation, descriptive summary, model selection and goodness-of-fit evaluation. Main references on the methods are Mollica and Tardella (2017) <doi.org/10.1007/s11336-016-9530-0> and Mollica and Tardella (2014) <doi/10.1002/sim.6224>.
Author: Cristina Mollica [aut, cre], Luca Tardella [aut]
Maintainer: Cristina Mollica <cristina.mollica@uniroma1.it>

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New package foreSIGHT with initial version 0.9.8
Package: foreSIGHT
Version: 0.9.8
Depends: R (>= 3.3.0),GA (>= 3.0.2), zoo
Imports: doParallel, ggplot2 (>= 3.0.0), directlabels, cowplot, stats, graphics, grDevices, utils, moments
Suggests: knitr (>= 1.8)
Title: Systems Insights from Generation of Hydroclimatic Timeseries
Authors@R: c(person("Bree", "Bennett", role=c("aut","cre"),email="bree.bennett@adelaide.edu.au", comment = c(ORCID = "0000-0002-2131-088X")), person("Sam", "Culley", role=c("aut"),email="sam.culley@adelaide.edu.au", comment = c(ORCID = "0000-0003-4798-8522")), person("Seth", "Westra", role=("aut"), email="seth.westra@adelaide.edu.au", comment = c(ORCID = "0000-0003-4023-6061")), person("Danlu", "Guo", role=("ctb"), email="danlu.guo@adelaide.edu.au", comment = c(ORCID = "0000-0003-1083-1214")), person("Holger", "Maier", role=("ths"), email="holger.maier@adelaide.edu.au", comment = c(ORCID = "0000-0002-0277-6887")))
Author: Bree Bennett [aut, cre] (<https://orcid.org/0000-0002-2131-088X>), Sam Culley [aut] (<https://orcid.org/0000-0003-4798-8522>), Seth Westra [aut] (<https://orcid.org/0000-0003-4023-6061>), Danlu Guo [ctb] (<https://orcid.org/0000-0003-1083-1214>), Holger Maier [ths] (<https://orcid.org/0000-0002-0277-6887>)
Maintainer: Bree Bennett <bree.bennett@adelaide.edu.au>
Description: A tool to create hydroclimate scenarios, stress test systems and visualize system performance in scenario-neutral climate change impact assessments. Scenario-neutral approaches 'stress-test' the performance of a modelled system by applying a wide range of plausible hydroclimate conditions (see Brown & Wilby (2012) <doi:10.1029/2012EO410001> and Prudhomme et al. (2010) <doi:10.1016/j.jhydrol.2010.06.043>). These approaches allow the identification of hydroclimatic variables that affect the vulnerability of a system to hydroclimate variation and change. This tool enables the generation of perturbed time series using a range of approaches including simple scaling of observed time series (e.g. Culley et al. (2016) <doi:10.1002/2015WR018253>) and stochastic simulation of perturbed time series via an inverse approach (see Guo et al. (2018) <doi:10.1016/j.jhydrol.2016.03.025>). It incorporates a number of stochastic weather models to generate hydroclimate variables on a daily basis (e.g. precipitation, temperature, potential evapotranspiration) and allows a variety of different hydroclimate variable properties, herein called attributes, to be perturbed. Options are included for the easy integration of existing system models both internally in R and externally for seamless 'stress-testing'. A suite of visualization options for the results of a scenario-neutral analysis (e.g. plotting performance spaces and overlaying climate projection information) are also included. As further developments in scenario-neutral approaches occur the tool will be updated to incorporate these advances.
License: GPL-3
NeedsCompilation: no
VignetteBuilder: knitr
Packaged: 2019-08-03 07:57:00 UTC; a1160755
Repository: CRAN
Date/Publication: 2019-08-03 23:10:02 UTC

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Package RcppCCTZ updated to version 0.2.6 with previous version 0.2.5 dated 2018-10-14

Title: 'Rcpp' Bindings for the 'CCTZ' Library
Description: 'Rcpp' Access to the 'CCTZ' timezone library is provided. 'CCTZ' is a C++ library for translating between absolute and civil times using the rules of a time zone. The 'CCTZ' source code, released under the Apache 2.0 License, is included in this package. See <https://github.com/google/cctz> for more details.
Author: Dirk Eddelbuettel
Maintainer: Dirk Eddelbuettel <edd@debian.org>

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Package AzureStor updated to version 2.1.0 with previous version 2.0.2 dated 2019-05-24

Title: Storage Management in 'Azure'
Description: Manage storage in Microsoft's 'Azure' cloud: <https://azure.microsoft.com/services/storage>. On the admin side, 'AzureStor' includes features to create, modify and delete storage accounts. On the client side, it includes an interface to blob storage, file storage, and 'Azure Data Lake Storage Gen2': upload and download files and blobs; list containers and files/blobs; create containers; and so on. Authenticated access to storage is supported, via either a shared access key or a shared access signature (SAS).
Author: Hong Ooi [aut, cre], Microsoft [cph]
Maintainer: Hong Ooi <hongooi@microsoft.com>

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Package EcoIndR updated to version 1.6 with previous version 1.5 dated 2019-03-10

Title: Ecological Indicators
Description: Calculates several indices, such as of diversity, fluctuation, etc., and they are used to estimate ecological indicators.
Author: Cástor Guisande González
Maintainer: Cástor Guisande González <castor@uvigo.es>

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Package bnspatial updated to version 1.1 with previous version 1.0.5 dated 2019-03-21

Title: Spatial Implementation of Bayesian Networks and Mapping
Description: Allows spatial implementation of Bayesian networks and mapping in geographical space. It makes maps of expected value (or most likely state) given known and unknown conditions, maps of uncertainty measured as coefficient of variation or Shannon index (entropy), maps of probability associated to any states of any node of the network. Some additional features are provided as well: parallel processing options, data discretization routines and function wrappers designed for users with minimal knowledge of the R language. Outputs can be exported to any common GIS format. Development was funded by the European Union FP7 (2007-2013), under project ROBIN (<http://robinproject.info>).
Author: Dario Masante [aut, cre]
Maintainer: Dario Masante <dario.masante@gmail.com>

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Package survminer updated to version 0.4.5 with previous version 0.4.4 dated 2019-05-21

Title: Drawing Survival Curves using 'ggplot2'
Description: Contains the function 'ggsurvplot()' for drawing easily beautiful and 'ready-to-publish' survival curves with the 'number at risk' table and 'censoring count plot'. Other functions are also available to plot adjusted curves for `Cox` model and to visually examine 'Cox' model assumptions.
Author: Alboukadel Kassambara [aut, cre], Marcin Kosinski [aut], Przemyslaw Biecek [aut], Scheipl Fabian [ctb]
Maintainer: Alboukadel Kassambara <alboukadel.kassambara@gmail.com>

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New package RMixtCompIO with initial version 4.0.0
Package: RMixtCompIO
Type: Package
Title: Mixture Models with Heterogeneous and (Partially) Missing Data
Version: 4.0.0
Date: 2019-08-02
Authors@R: c(person("Vincent", "Kubicki", role = "aut"), person("Christophe", "Biernacki", role = "aut"), person("Quentin", "Grimonprez", role = c("aut", "cre"), email = "quentin.grimonprez@inria.fr"), person("Serge", "Iovleff", role = "ctb"), person("Matthieu", "Marbac-Lourdelle", role = "ctb"), person("Étienne", "Goffinet", role = "ctb"), person("Patrick", "Patrick Wieschollek", role = "ctb", comment = "for CppOptimizationLibrary"), person("Tobias", "Wood", role = "ctb", comment = "for CppOptimizationLibrary"))
Copyright: Inria - Université de Lille - CNRS; Patrick Wieschollek, Tobias Wood & the respective contributors for CppOptimizationLibrary
License: AGPL-3
Description: Mixture Composer <https://github.com/modal-inria/MixtComp> is a project to build mixture models with heterogeneous data sets and partially missing data management. It includes models for real, categorical, counting, functional and ranking data. This package contains the minimal R interface of the C++ 'MixtComp' library.
URL: https://github.com/modal-inria/MixtComp, https://massiccc.lille.inria.fr/
BugReports: https://github.com/modal-inria/MixtComp/issues
Imports: Rcpp, doParallel, foreach
Suggests: Rmixmod, blockcluster, testthat, RInside, xml2
LinkingTo: Rcpp, RcppEigen, BH
RoxygenNote: 6.1.1
Encoding: UTF-8
NeedsCompilation: yes
Packaged: 2019-08-02 16:05:47 UTC; grimonprez
Author: Vincent Kubicki [aut], Christophe Biernacki [aut], Quentin Grimonprez [aut, cre], Serge Iovleff [ctb], Matthieu Marbac-Lourdelle [ctb], Étienne Goffinet [ctb], Patrick Patrick Wieschollek [ctb] (for CppOptimizationLibrary), Tobias Wood [ctb] (for CppOptimizationLibrary)
Maintainer: Quentin Grimonprez <quentin.grimonprez@inria.fr>
Repository: CRAN
Date/Publication: 2019-08-03 08:10:02 UTC

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New package RMaCzek with initial version 1.0.0
Package: RMaCzek
Type: Package
Title: Czekanowski's Diagrams
Version: 1.0.0
Date: 2019-08-02
Author: Albin Vasterlund <abbe--93@hotmail.com>
Maintainer: Krzysztof Bartoszek <krzbar@protonmail.ch>
Description: Allows for production of Czekanowski's Diagrams. See A. Vasterlund (2019) Master thesis, Linkoping University.
Depends: R(>= 3.4)
Imports: GA(>= 3.2), graphics, methods, seriation, stats
License: GPL-3
Collate: czek_matrix.R dot_functions.R plot.czek_matrix.R register_seriate_ga.R RMaCzek.R seriate_ga.R Um_factor.R
LazyLoad: yes
LazyData: true
NeedsCompilation: no
Repository: CRAN
Packaged: 2019-08-02 18:03:26 UTC; bart
Date/Publication: 2019-08-03 08:30:02 UTC

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New package ktaucenters with initial version 0.1.0
Package: ktaucenters
Type: Package
Title: Robust Clustering Procedures
Version: 0.1.0
Author: Juan Domingo Gonzalez [cre, aut], Victor J. Yohai [aut], Ruben H. Zamar [aut]
Authors@R: c(person("Juan Domingo", "Gonzalez", email = "juanrst@hotmail.com", role = c("cre","aut")), person("Victor J.", "Yohai", email = "victoryohai@gmail.com", role = "aut"), person("Ruben H.", "Zamar", email = "ruben@stat.ubc.ca", role = "aut") )
Maintainer: Juan Domingo Gonzalez <juanrst@hotmail.com>
Description: A clustering algorithm similar to K-Means is implemented, it has two main advantages, namely (a) The estimator is resistant to outliers, that means that results of estimator are still correct when there are atypical values in the sample and (b) The estimator is efficient, roughly speaking, if there are no outliers in the sample, results will be similar than those obtained by a classic algorithm (K-Means). Clustering procedure is carried out by minimizing the overall robust scale so-called tau scale. (see Gonzalez, Yohai and Zamar (2019) <arxiv:1906.08198>).
License: GPL (>= 2)
Encoding: UTF-8
Depends: R (>= 2.10), MASS, methods, dplyr, dbscan, stats, GSE
LazyData: true
RoxygenNote: 6.1.1
Suggests: jpeg, tclust, knitr
NeedsCompilation: no
Packaged: 2019-08-02 16:37:50 UTC; juan
Repository: CRAN
Date/Publication: 2019-08-03 08:20:02 UTC

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New package rmdplugr with initial version 0.4.0
Package: rmdplugr
Title: Plugins for R Markdown Formats
Version: 0.4.0
Authors@R: person(given = "Johan", family = "Larsson", role = c("aut", "cre"), email = "johanlarsson@outlook.com", comment = c(ORCID = "0000-0002-4029-5945"))
Description: Formats for R Markdown that undo modifications by 'pandoc' and 'rmarkdown' to original 'latex' templates, such as smaller margins, paragraph spacing, and compact titles. In addition, enhancements such as author blocks with affiliations and headers and footers are introduced. All of this functionality is built around plugins that modify the default 'pandoc' template without relying on custom templates.
License: GPL-3
Encoding: UTF-8
LazyData: true
RoxygenNote: 6.1.1
Imports: rmarkdown, bookdown
Suggests: testthat (>= 2.1.0), covr, spelling, knitr
Language: en-US
VignetteBuilder: knitr
NeedsCompilation: no
Packaged: 2019-08-02 15:33:32 UTC; johan
Author: Johan Larsson [aut, cre] (<https://orcid.org/0000-0002-4029-5945>)
Maintainer: Johan Larsson <johanlarsson@outlook.com>
Repository: CRAN
Date/Publication: 2019-08-03 07:50:02 UTC

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Package pCODE updated to version 0.9.2 with previous version 0.9.1 dated 2019-07-23

Title: Estimation of an Ordinary Differential Equation Model by Parameter Cascade Method
Description: An implementation of the parameter cascade method Ramsay, J. O., Hooker,G., Campbell, D., and Cao, J. (2007) <doi:10.1111/j.1467-9868.2007.00610.x> for estimating ordinary differential equation models with missing or complete observations. It combines smoothing method and profile estimation to estimate any non-linear dynamic system. The package also offers variance estimates for parameters of interest based on either bootstrap or Delta method.
Author: Haixu Wang [aut, cre], Jiguo Cao [aut]
Maintainer: Haixu Wang <haixuw@sfu.ca>

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 pCODE-0.9.2/pCODE/man/nls_optimize.inner.Rd      |   46 -
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 32 files changed, 1361 insertions(+), 1357 deletions(-)

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Package jstable updated to version 0.8.5 with previous version 0.8.4 dated 2019-07-03

Title: Create Tables from Different Types of Regression
Description: Create regression tables from generalized linear model(GLM), generalized estimating equation(GEE), generalized linear mixed-effects model(GLMM), Cox proportional hazards model, survey-weighted generalized linear model(svyglm) and survey-weighted Cox model results for publication.
Author: Jinseob Kim [aut, cre] (<https://orcid.org/0000-0002-9403-605X>), Zarathu [cph, fnd]
Maintainer: Jinseob Kim <jinseob2kim@gmail.com>

Diff between jstable versions 0.8.4 dated 2019-07-03 and 0.8.5 dated 2019-08-03

 DESCRIPTION           |   10 +++++-----
 MD5                   |   12 ++++++------
 NAMESPACE             |    2 +-
 NEWS.md               |    4 ++++
 R/forestcox.R         |   36 +++++++++++++++++++++++-------------
 build/vignette.rds    |binary
 inst/doc/jstable.html |   48 ++++++++++++++++++++++++++----------------------
 7 files changed, 65 insertions(+), 47 deletions(-)

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New package intsurv with initial version 0.2.0
Package: intsurv
Title: Integrative Survival Modeling
Version: 0.2.0
Date: 2019-08-02
Authors@R: c( person(given = "Wenjie", family = "Wang", email = "wenjie.2.wang@uconn.edu", role = c("aut", "cre"), comment = c(ORCID = "0000-0003-0363-3180")), person(given = "Kun", family = "Chen", role = "ctb", comment = c(ORCID = "0000-0003-3579-5467")), person(given = "Jun", family = "Yan", role = "ctb", comment = c(ORCID = "0000-0003-4401-7296")) )
Description: Contains implementations of integrative survival analysis routines, including regular Cox cure rate model proposed by Kuk and Chen (1992) <doi:10.1093/biomet/79.3.531> via an EM algorithm proposed by Sy and Taylor (2000) <doi:10.1111/j.0006-341X.2000.00227.x>, regularized Cox cure rate model with elastic net penalty following Masud et al. (2018) <doi:10.1177/0962280216677748>, and Zou and Hastie (2005) <doi:10.1111/j.1467-9868.2005.00503.x>, and weighted concordance index for cure models proposed by Asano and Hirakawa (2017) <doi:10.1080/10543406.2017.1293082>.
Depends: R (>= 3.2.3)
Imports: Rcpp (>= 0.12.0), methods, stats,
LinkingTo: Rcpp, RcppArmadillo
License: GPL (>= 3)
LazyData: true
Collate: 'RcppExports.R' 'class.R' 'Survi.R' 'assessment.R' 'bootSe.R' 'coef.R' 'cox_cure.R' 'cox_cure_net.R' 'iCoxph.R' 'intsurv.R' 'misc.R' 'prep_model.R' 'print.R' 'show.R' 'simData4cure.R' 'simData4iCoxph.R' 'summary.R'
URL: https://github.com/wenjie2wang/intsurv
BugReports: https://github.com/wenjie2wang/intsurv/issues
Encoding: UTF-8
NeedsCompilation: yes
Packaged: 2019-08-02 15:32:07 UTC; wenjie
Author: Wenjie Wang [aut, cre] (<https://orcid.org/0000-0003-0363-3180>), Kun Chen [ctb] (<https://orcid.org/0000-0003-3579-5467>), Jun Yan [ctb] (<https://orcid.org/0000-0003-4401-7296>)
Maintainer: Wenjie Wang <wenjie.2.wang@uconn.edu>
Repository: CRAN
Date/Publication: 2019-08-03 07:50:05 UTC

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New package hdfqlr with initial version 0.6-0
Package: hdfqlr
Title: Interface to 'HDFql' API
Version: 0.6-0
Authors@R: person("Michael", "Koohafkan", email = "michael.koohafkan@gmail.com", role = c("aut", "cre"))
Description: Provides an interface to 'HDFql' <http://www.hdfql.com/> and helper functions for reading data from and writing data to 'HDF5' files. 'HDFql' provides a high-level language for managing 'HDF5' data that is platform independent. For more information, see the reference manual <http://www.hdfql.com/resources/HDFqlReferenceManual.pdf>.
Depends: R (>= 3.4)
Imports: utils, methods
Suggests: bit64 (>= 0.9), knitr (>= 1.22), ggplot2 (>= 3.2), testthat (>= 2.1.0)
SystemRequirements: HDFql (>= 2.1.0)
License: GPL (>= 3)
Encoding: UTF-8
LazyData: true
RoxygenNote: 6.1.1
VignetteBuilder: knitr
NeedsCompilation: no
Packaged: 2019-08-02 15:06:30 UTC; mkoohafk
Author: Michael Koohafkan [aut, cre]
Maintainer: Michael Koohafkan <michael.koohafkan@gmail.com>
Repository: CRAN
Date/Publication: 2019-08-03 07:40:02 UTC

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New package cder with initial version 0.1-0
Package: cder
Title: Interface to the California Data Exchange Center
Version: 0.1-0
Authors@R: person(given = "Michael", family = "Koohafkan", role = c("aut", "cre"), email = "michael.koohafkan@gmail.com")
Description: Connect to the California Data Exchange Center (CDEC) Web Service <http://cdec.water.ca.gov/>. 'CDEC' provides a centralized database to store, process, and exchange real-time hydrologic information gathered by various cooperators throughout California. The 'CDEC' Web Service <http://cdec.water.ca.gov/dynamicapp/wsSensorData> provides a data download service for accessing historical records.
License: GPL (>= 3)
URL: https://github.com/mkoohafkan/cder
BugReports: https://github.com/mkoohafkan/cder/issues
Depends: R (>= 3.4)
Imports: curl (>= 3.3), glue (>= 1.3), stringr (>= 1.3), tibble (>= 2.0), dplyr (>= 0.7), readr (>= 1.3), rlang (>= 0.3), lubridate (>= 1.7)
Encoding: UTF-8
LazyData: true
Suggests: knitr (>= 1.21), rmarkdown (>= 1.11)
VignetteBuilder: knitr
RoxygenNote: 6.1.1
NeedsCompilation: no
Packaged: 2019-08-02 15:23:48 UTC; mkoohafk
Author: Michael Koohafkan [aut, cre]
Maintainer: Michael Koohafkan <michael.koohafkan@gmail.com>
Repository: CRAN
Date/Publication: 2019-08-03 07:50:09 UTC

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New package CAWaR with initial version 0.0.1
Package: CAWaR
Type: Package
Title: CAWa Project Tools
Version: 0.0.1
Date: 2019-07-30
Authors@R: person("Ruben", "Remelgado", role = c("aut", "cre"), email="remelgado.ruben@gmail.com")
URL: https://github.com/RRemelgado/fieldRS/
BugReports: https://github.com/RRemelgado/fieldRS/issues/
Maintainer: Ruben Remelgado <remelgado.ruben@gmail.com>
Description: Tools to process ground-truth data on crop types and perform a phenology based crop type classification. These tools were developed in the scope of the CAWa project and extend on the work of Conrad et al. (2011) <doi:10.1080/01431161.2010.550647>. Moreover, they introduce an innovative classification and validation scheme that utilizes spatially independent samples as proposed by Remelgado et al. (2017) <doi:10.1002/rse2.70>.
LazyData: TRUE
Encoding: UTF-8
Imports: raster, sp, rgdal, ggplot2, grDevices, spatialEco, rgeos, lubridate, RStoolbox, fieldRS, rsMove
RoxygenNote: 6.1.1
License: GPL (>= 3)
Suggests: knitr, rmarkdown, kableExtra, imager, lattice
VignetteBuilder: knitr
NeedsCompilation: no
Packaged: 2019-08-02 15:01:36 UTC; rr70wedu
Author: Ruben Remelgado [aut, cre]
Repository: CRAN
Date/Publication: 2019-08-03 07:40:04 UTC

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Package blavaan updated to version 0.3-5 with previous version 0.3-4 dated 2019-01-11

Title: Bayesian Latent Variable Analysis
Description: Fit a variety of Bayesian latent variable models, including confirmatory factor analysis, structural equation models, and latent growth curve models.
Author: Edgar Merkle [aut, cre] (<https://orcid.org/0000-0001-7158-0653>), Yves Rosseel [aut], Ben Goodrich [aut], Mauricio Garnier-Villarreal [ctb] (<https://orcid.org/0000-0002-2951-6647>, R/ctr_bayes_fit.R), Terrence D. Jorgensen [ctb] (<https://orcid.org/0000-0001-5111-6773>, R/ctr_bayes_fit.R, R/ctr_ppmc.R), Huub Hoofs [ctb] (R/ctr_bayes_fit.R), Rens van de Schoot [ctb] (R/ctr_bayes_fit.R)
Maintainer: Edgar Merkle <merklee@missouri.edu>

Diff between blavaan versions 0.3-4 dated 2019-01-11 and 0.3-5 dated 2019-08-03

 DESCRIPTION                                  |   47 +++--
 MD5                                          |   62 +++---
 NAMESPACE                                    |   40 +++-
 NEWS                                         |   13 +
 R/blav_object_inspect.R                      |   11 +
 R/blav_object_methods.R                      |   16 +
 R/blav_utils.R                               |  100 +++++-----
 R/blavaan.R                                  |  144 ++++++++++-----
 R/ctr_bayes_fit.R                            |   99 ++++++----
 R/ctr_ppmc.R                                 |only
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 R/lav_export_mcmc.R                          |   12 -
 R/lav_export_stan.R                          |   19 +-
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 R/margloglik.R                               |    7 
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 R/set_priors.R                               |    6 
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 R/stanmarg_data.R                            |only
 R/stanmodels.R                               |only
 R/zzz.R                                      |    5 
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 inst/testdata/sysdata.rda                    |binary
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 man/bgrowth.Rd                               |    9 
 man/blavFitIndices.Rd                        |   43 ++--
 man/blavaan.Rd                               |   22 +-
 man/bsem.Rd                                  |   28 +--
 man/dpriors.Rd                               |    6 
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 src                                          |only
 tests/testthat/tests.blavaan.R               |    6 
 tests/testthat/tests.blavaanobject-methods.R |   33 +++
 tools                                        |only
 34 files changed, 691 insertions(+), 358 deletions(-)

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Package genderizeR (with last version 2.1.0) was removed from CRAN

Previous versions (as known to CRANberries) which should be available via the Archive link are:

2019-03-11 2.1.0
2016-05-11 2.0.0
2015-07-05 1.2.0
2015-04-22 1.1.0
2015-02-08 1.0.0

Permanent link
Package ContaminatedMixt (with last version 1.3.3) was removed from CRAN

Previous versions (as known to CRANberries) which should be available via the Archive link are:

2018-08-01 1.3.3
2018-01-29 1.3.2
2018-01-27 1.3.1
2017-12-10 1.3
2017-11-05 1.2
2017-02-14 1.1
2015-12-20 1.0

Permanent link
Package foreSIGHT (with last version 0.9.6) was removed from CRAN

Previous versions (as known to CRANberries) which should be available via the Archive link are:

2018-07-10 0.9.6
2018-03-09 0.9.2

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Package flexCWM (with last version 1.9) was removed from CRAN

Previous versions (as known to CRANberries) which should be available via the Archive link are:

2018-08-30 1.9
2018-05-20 1.8
2017-02-16 1.7
2015-03-25 1.5
2015-01-31 1.4
2014-12-16 1.3
2013-11-09 1.1
2013-07-11 1.0

Permanent link
New package trackdf with initial version 0.2.0
Package: trackdf
Type: Package
Title: Data Frame Class for Tracking Data
Version: 0.2.0
Authors@R: c( person("Simon", "Garnier", email = "garnier@njit.edu", role = c("aut", "cre"), comment = c(ORCID = "0000-0002-3886-3974")) )
Maintainer: Simon Garnier <garnier@njit.edu>
Description: Data frame class for storing collective movement data (e.g. fish schools, ungulate herds, baboon troops) collected from GPS trackers or computer vision tracking software.
License: GPL-3
Encoding: UTF-8
LazyData: true
RoxygenNote: 6.1.1
Depends: R (>= 3.5.0)
Imports: tibble, data.table, rgdal, sp, lubridate, methods
Suggests: readr, dplyr, ggplot2, knitr, rmarkdown, adehabitatLT, move, moveVis, ctmm, moveHMM, mapproj
VignetteBuilder: knitr
URL: https://swarm-lab.github.io/trackdf/, https://github.com/swarm-lab/trackdf
BugReports: https://github.com/swarm-lab/trackdf/issues
NeedsCompilation: no
Packaged: 2019-08-02 13:37:23 UTC; simon
Author: Simon Garnier [aut, cre] (<https://orcid.org/0000-0002-3886-3974>)
Repository: CRAN
Date/Publication: 2019-08-03 07:00:02 UTC

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New package SHAPforxgboost with initial version 0.0.1
Package: SHAPforxgboost
Title: SHAP Plots for 'XGBoost'
Version: 0.0.1
Authors@R: c( person(given = "Yang", family = "Liu", role = c("aut", "cre"), email = "lyhello@gmail.com", comment = c(ORCID = "0000-0001-6557-6439")), person(given = "Allan", family = "Just", role = c("ctb"), email = "allan.just@mssm.edu", comment = c(ORCID = "0000-0003-4312-5957")) )
Description: The aim of 'SHAPforxgboost' is to aid in visual data investigations using SHAP (SHapley Additive exPlanation) visualization plots for 'XGBoost'. It provides summary plot, dependence plot, interaction plot, and force plot. It relies on the 'dmlc/xgboost' package to produce SHAP values. Please refer to 'slundberg/shap' for the original implementation of SHAP in 'Python'.
License: MIT + file LICENSE
URL: https://github.com/liuyanguu/SHAPforxgboost
BugReports: https://github.com/liuyanguu/SHAPforxgboost/issues
Encoding: UTF-8
LazyData: true
Depends: R (>= 3.3.0)
Imports: ggplot2 (>= 3.0.0), xgboost (>= 0.81.0.0), data.table (>= 1.12.0), ggforce (>= 0.2.1.9000), ggExtra (>= 0.8), RColorBrewer (>= 1.1.2), parallel
Suggests: gridExtra (>= 2.3), here
RoxygenNote: 6.1.1.9000
NeedsCompilation: no
Packaged: 2019-08-02 13:22:33 UTC; lyhel
Author: Yang Liu [aut, cre] (<https://orcid.org/0000-0001-6557-6439>), Allan Just [ctb] (<https://orcid.org/0000-0003-4312-5957>)
Maintainer: Yang Liu <lyhello@gmail.com>
Repository: CRAN
Date/Publication: 2019-08-03 07:00:06 UTC

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New package NHSRdatasets with initial version 0.1.1
Package: NHSRdatasets
Type: Package
Title: NHS and Healthcare Related Data for Education and Training
Version: 0.1.1
Authors@R: c( person("Chris", "Mainey", ,"chris.mainey@uhb.nhs.uk", c("aut", "cre"), comment = c(ORCID ="0000-0002-3018-6171")), person("NHS-R community", role = "cph") )
Maintainer: Chris Mainey <chris.mainey@uhb.nhs.uk>
Description: Free United Kingdom National Health Service (NHS) and other healthcare, or population health-related data for education and training purposes. This package currently contains a single simulated hospital dataset for teaching regression methods, with the addition of more datasets planned for future releases. This package exists to support skills development in the NHS-R community: <https://nhsrcommunity.com/>.
License: CC0
Encoding: UTF-8
LazyData: true
RoxygenNote: 6.1.1
Depends: R (>= 3.5.0)
BugReports: https://github.com/nhs-r-community/NHSRdatasets/issues
Suggests: dplyr, ggplot2, lme4, MASS, ModelMetrics, lmtest, testthat (>= 2.1.0), covr, knitr, rmarkdown
VignetteBuilder: knitr
NeedsCompilation: no
Packaged: 2019-08-02 12:35:24 UTC; Christopher
Author: Chris Mainey [aut, cre] (<https://orcid.org/0000-0002-3018-6171>), NHS-R community [cph]
Repository: CRAN
Date/Publication: 2019-08-03 06:40:06 UTC

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New package NewmanOmics with initial version 1.0.2
Package: NewmanOmics
Type: Package
LazyData: true
Title: Extending the Newman Studentized Range Statistic to Transcriptomics
Version: 1.0.2
Date: 2019-08-02
Author: Zachary Abrams, Greg Gershkowitz, Anoushka Joglekar, Chao Liu, Kevin R. Coombes
Maintainer: Kevin R. Coombes <krc@silicovore.com>
Description: Extends the classical Newman studentized range statistic in various ways that can be applied to genome-scale transcriptomic or other expression data.
License: Apache License (== 2.0)
Depends: R (>= 3.5.0)
Imports: methods, stats, graphics, grDevices, oompaBase
VignetteBuilder: knitr
Suggests: knitr, rmarkdown
URL: http://oompa.r-forge.r-project.org/
NeedsCompilation: no
Packaged: 2019-08-02 13:02:34 UTC; Kevin
Repository: CRAN
Date/Publication: 2019-08-03 06:50:05 UTC

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Package MPV updated to version 1.55 with previous version 1.53 dated 2018-06-07

Title: Data Sets from Montgomery, Peck and Vining
Description: Most of this package consists of data sets from the textbook Introduction to Linear Regression Analysis (3rd ed), by Montgomery, Peck and Vining. Some additional data sets and functions related to visualization of linear and nonparametric regression results are included.
Author: W.J. Braun
Maintainer: W.J. Braun <john.braun@ubc.ca>

Diff between MPV versions 1.53 dated 2018-06-07 and 1.55 dated 2019-08-03

 DESCRIPTION         |   11 +++---
 MD5                 |   32 +++++++++++--------
 NAMESPACE           |    4 +-
 R/BiasVarPlot.R     |only
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 19 files changed, 82 insertions(+), 55 deletions(-)

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New package joinet with initial version 0.0.1
Package: joinet
Version: 0.0.1
Title: Multivariate Regression
Description: Implements high-dimensional multivariate regression by stacked generalisation (Wolpert 1992 <doi:10.1016/S0893-6080(05)80023-1>). For positively correlated outcomes, a single multivariate regression is typically more predictive than multiple univariate regressions. Includes functions for model fitting, extracting coefficients, outcome prediction, and performance measurement.
Depends: R (>= 3.0.0)
Imports: glmnet, palasso, cornet
Suggests: knitr, testthat, MASS
Enhances: RColorBrewer, spls, SiER, MRCE
Authors@R: person("Armin","Rauschenberger",email="a.rauschenberger@vumc.nl",role=c("aut","cre"))
VignetteBuilder: knitr
License: GPL-3
LazyData: true
Language: en-GB
RoxygenNote: 6.1.1
URL: https://github.com/rauschenberger/mixnet
BugReports: https://github.com/rauschenberger/mixnet/issues
NeedsCompilation: no
Packaged: 2019-08-02 12:55:53 UTC; armin.rauschenberger
Author: Armin Rauschenberger [aut, cre]
Maintainer: Armin Rauschenberger <a.rauschenberger@vumc.nl>
Repository: CRAN
Date/Publication: 2019-08-03 06:50:02 UTC

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New package hmlasso with initial version 0.0.1
Package: hmlasso
Type: Package
Title: Lasso with High Missing Rate
Version: 0.0.1
Description: A simple implementation of HMLasso (Lasso with High Missing rate). Takada, M., Fujisawa, H., & Nishikawa, T. (2019) <arXiv:1811.00255>.
License: GPL-2 | GPL-3
Encoding: UTF-8
LazyData: true
LinkingTo: Rcpp, BH
Imports: Rcpp, MASS, Matrix, RSpectra
Suggests: knitr, rmarkdown, testthat
VignetteBuilder: knitr
RoxygenNote: 6.1.1
Authors@R: c( person("Masaaki", "Takada", role = c("aut", "cre"), email = "masaaki1.takada@toshiba.co.jp"), person("Toshiba", role = c("aut", "cph")) )
NeedsCompilation: yes
Packaged: 2019-08-02 11:20:55 UTC; takada
Author: Masaaki Takada [aut, cre], Toshiba [aut, cph]
Maintainer: Masaaki Takada <masaaki1.takada@toshiba.co.jp>
Repository: CRAN
Date/Publication: 2019-08-03 06:30:02 UTC

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New package exdex with initial version 1.0.0
Package: exdex
Type: Package
Title: Estimation of the Extremal Index
Version: 1.0.0
Date: 2019-08-02
Authors@R: c( person(c("Paul", "J."), "Northrop", email = "p.northrop@ucl.ac.uk", role = c("aut", "cre", "cph")), person("Constantinos", "Christodoulides", role = c("aut", "cph")) )
Description: Performs frequentist inference for the extremal index of a stationary time series. Two types of methodology are used. One type is based on a model that relates the distribution of block maxima to the marginal distribution of series and leads to the semiparametric maxima estimators described in Northrop (2015) <doi:10.1007/s10687-015-0221-5> and Berghaus and Bucher (2018) <doi:10.1214/17-AOS1621>. Sliding block maxima are used to increase precision of estimation. The other type of methodology uses a model for the distribution of threshold inter-exceedance times (Ferro and Segers (2003) <doi:10.1111/1467-9868.00401>). Two versions of this type of approach are provided, following Suveges (2007) <doi:10.1007/s10687-007-0034-2> and Suveges and Davison (2010) <doi:10.1214/09-AOAS292>.
Imports: chandwich, graphics, methods, Rcpp, RcppRoll, stats
License: GPL (>= 2)
Depends: R (>= 3.3.0)
Suggests: knitr, revdbayes, rmarkdown, testthat, zoo (>= 1.6.4)
LazyData: true
Encoding: UTF-8
RoxygenNote: 6.1.1
VignetteBuilder: knitr
URL: http://github.com/paulnorthrop/exdex
BugReports: http://github.com/paulnorthrop/exdex/issues
LinkingTo: Rcpp, RcppArmadillo
NeedsCompilation: yes
Packaged: 2019-08-02 12:46:15 UTC; paul
Author: Paul J. Northrop [aut, cre, cph], Constantinos Christodoulides [aut, cph]
Maintainer: Paul J. Northrop <p.northrop@ucl.ac.uk>
Repository: CRAN
Date/Publication: 2019-08-03 06:40:03 UTC

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Package rstatix updated to version 0.1.2 with previous version 0.1.1 dated 2019-06-20

Title: Pipe-Friendly Framework for Basic Statistical Tests
Description: Provides a simple and intuitive pipe-friendly framework, coherent with the 'tidyverse' design philosophy, for performing basic statistical tests, including t-test, Wilcoxon test, ANOVA, Kruskal-Wallis and correlation analyses. The output of each test is automatically transformed into a tidy data frame to facilitate visualization. Additional functions are available for reshaping, reordering, manipulating and visualizing correlation matrix. Functions are also included to facilitate the analysis of factorial experiments, including purely 'within-Ss' designs (repeated measures), purely 'between-Ss' designs, and mixed 'within-and-between-Ss' designs. It's also possible to compute several effect size metrics, including "eta squared" for ANOVA, "Cohen's d" for t-test and "Cramer's V" for the association between categorical variables. The package contains helper functions for identifying univariate and multivariate outliers, assessing normality and homogeneity of variances.
Author: Alboukadel Kassambara [aut, cre]
Maintainer: Alboukadel Kassambara <alboukadel.kassambara@gmail.com>

Diff between rstatix versions 0.1.1 dated 2019-06-20 and 0.1.2 dated 2019-08-03

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 rstatix-0.1.2/rstatix/DESCRIPTION                                           |   32 -
 rstatix-0.1.2/rstatix/MD5                                                   |   86 ++--
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 rstatix-0.1.2/rstatix/NEWS.md                                               |   31 +
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 rstatix-0.1.2/rstatix/R/anova_summary.R                                     |    8 
 rstatix-0.1.2/rstatix/R/anova_test.R                                        |   71 +++
 rstatix-0.1.2/rstatix/R/cohens_d.R                                          |  145 ++++++-
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 rstatix-0.1.2/rstatix/R/t_test.R                                            |  133 ++----
 rstatix-0.1.2/rstatix/R/tukey_hsd.R                                         |   20 
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 55 files changed, 1050 insertions(+), 550 deletions(-)

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