CRANberries

Mon, 28 Jul 2014

New package rYoutheria with initial version 1.0.0
Package: rYoutheria
Type: Package
Title: Access to the YouTheria mammal trait database
Description: A programmatic interface to web-services of Youtheria. Youtheria is an online database of mammalian trait data.
Version: 1.0.0
Date: 2014-07-24
Author: Tom August
Maintainer: Tom August
VignetteBuilder: knitr
URL: https://github.com/biologicalrecordscentre/rYoutheria
BugReports: https://github.com/biologicalrecordscentre/rYoutheria/issues
Depends: R (>= 3.0.0)
Imports: plyr, RJSONIO, reshape2, RCurl
Suggests: knitr, testthat, roxygen2
License: MIT + file LICENSE
Packaged: 2014-07-28 14:04:59 UTC; tomaug
NeedsCompilation: no
Repository: CRAN
Date/Publication: 2014-07-28 17:46:15

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Sat, 26 Jul 2014

New package ibeemd with initial version 1.0
Package: ibeemd
Type: Package
Title: Irregular-lattice based ensemble empirical mode decomposition
Version: 1.0
Date: 2014-07-25
Author: Maogui Hu
Maintainer: Maogui Hu
Depends: R (>= 2.11.0), fields, deldir, rgeos, sp, spdep
Suggests: rgdal
Description: A data-driven and adaptive hierarchical-scale decomposition method for irregular-lattice field (represented by polygons).
License: GPL (>= 2.0)
Packaged: 2014-07-26 14:01:29 UTC; HUMG
NeedsCompilation: no
Repository: CRAN
Date/Publication: 2014-07-26 19:48:10

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New package gmailr with initial version 0.0.1
Package: gmailr
Version: 0.0.1
Date: 2014-7-25
Maintainer: Jim Hester
Author: Jim Hester
Title: Access the Gmail RESTful API from R.
Description: An R interface to the Gmail RESTful API. Allows access to your Gmail messages, threads, drafts and labels from R.
Depends: R (>= 3.0.0)
Imports: httr, base64enc, jsonlite
License: MIT + file LICENSE
URL: https://github.com/jimhester/gmailr
BugReports: https://github.com/jimhester/gmailr/issues
Packaged: 2014-07-25 19:38:23 UTC; james.hester
NeedsCompilation: no
Repository: CRAN
Date/Publication: 2014-07-26 08:27:50

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New package dcmr with initial version 1.0
Package: dcmr
Type: Package
Title: Attribute profile estimation using Diagnostic Classification Models and MCMC
Version: 1.0
Date: 2014-07-08
Author: c( person("Diane", family="Losardo", email='dlosardo@amplify.com", role = c("aut", "cre", "cph")), person("Margi", family="Dubal", email='margidubal@gmail.com", role = c("aut", "cre", "cph")))
Maintainer: Diane Losardo
Description: Analysis of dichotomous response data to obtain attribute profile estimates for respondents using Diagnostic Classification Model (DCM) and Markov Chain Monte Carlo (MCMC) method. The estimation procedure uses a loglinear cognitive diagnostic modeling (LDCM) framework that allows for the estimation of a host of DCMs such as NIDO, NIDA, NC-RUM etc.
License: GPL (>= 3)
Depends: R (>= 3.0.2)
Imports: ggplot2, KFAS, plyr, reshape2, tableplot, methods
Suggests: testthat
LazyLoad: yes
LazyData: yes
Repository: CRAN
Packaged: 2014-07-25 19:30:04 UTC; mdubal
NeedsCompilation: no
Date/Publication: 2014-07-26 08:27:47

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Fri, 25 Jul 2014

New package nicheROVER with initial version 1.0
Package: nicheROVER
Title: (Niche) (R)egion and Niche (Over)lap Metrics for Multidimensional Ecological Niches
Version: 1.0
Date: 2014-07-21
Authors@R: c(person("Martin", "Lysy", role = c("aut", "cre"), email = "mlysy@uwaterloo.ca"), person("Ashley D.", "Stasko", role = c("aut", "ctb")), person("Heidi K.", "Swanson", role = c("aut", "ctb")))
Description: This package uses a probabilistic method to calculate niche regions and pairwise niche overlap using multidimensional niche indicator data (e.g., stable isotopes, environmental variables, etc.). The niche region is defined as the joint probability density function of the multidimensional niche indicators at a user-defined probability alpha (e.g., 95%). Uncertainty is accounted for in a Bayesian framework, and the method can be extended to three or more indicator dimensions. It provides directional estimates of niche overlap, accounts for species-specific distributions in multivariate niche space, and produces unique and consistent bivariate projections of the multivariate niche region. A forthcoming article by Swanson et al. (Ecology, 2014) provides a detailed description of the methodology. See the package vignette for a worked example using fish stable isotope data.
Depends: R (>= 1.9.0), mvtnorm
Suggests: knitr
VignetteBuilder: knitr
License: GPL-2
LazyData: true
Packaged: 2014-07-25 17:41:04 UTC; Jerome
Author: Martin Lysy [aut, cre], Ashley D. Stasko [aut, ctb], Heidi K. Swanson [aut, ctb]
Maintainer: Martin Lysy
NeedsCompilation: no
Repository: CRAN
Date/Publication: 2014-07-25 21:15:59

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New package pryr with initial version 0.1
Type: Package
Package: pryr
Title: Tools for computing on the language
Description: Useful tools to pry back the covers of R and understand the language at a deeper level.
Authors@R: c( person("Hadley", "Wickham", email = "h.wickham@gmail.com", role = c("aut", "cre")), person("R Core team", role = "ctb", comment = "Some code extracted from base R"))
License: GPL-2
URL: https://github.com/hadley/pryr
BugReports: https://github.com/hadley/pryr/issues
Version: 0.1
LinkingTo: Rcpp
Imports: stringr, codetools, methods, Rcpp (>= 0.11.0)
Suggests: testthat (>= 0.8.0)
Packaged: 2014-07-22 19:47:04 UTC; hadley
Author: Hadley Wickham [aut, cre], R Core team [ctb] (Some code extracted from base R)
Maintainer: Hadley Wickham
NeedsCompilation: yes
Repository: CRAN
Date/Publication: 2014-07-25 20:28:24

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New package phylin with initial version 1.0
Package: phylin
Type: Package
Title: Spatial interpolation of genetic data
Version: 1.0
Date: 2014-06-06
Author: Pedro Tarroso, Guillermo Velo-Anton, Silvia Carvalho
Maintainer: Pedro Tarroso
Suggests: geometry
Description: This package provides functions for the spatial interpolation of genetic distances between samples. The interpolation is based on a modified kriging method that accepts a genetic distance matrix and generates a map of probability of lineage presence. This package also offers tools to generate a map of potential contact zones between groups with user-defined thresholds in the tree to account for old and recent divergence. Additionally, it has functions for IDW interpolation using genetic data and midpoints.
License: GPL (>= 2)
URL: http://www.r-project.org, http://webpages.icav.up.pt/pessoas/ptarroso/phylin/phylin.html
Packaged: 2014-07-25 14:47:33 UTC; pedro
NeedsCompilation: no
Repository: CRAN
Date/Publication: 2014-07-25 18:42:31

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New package cosinor with initial version 1.0
Package: cosinor
Type: Package
Title: Tools for estimating and predicting the cosinor model
Version: 1.0
Author: Michael Sachs
Maintainer: Michael Sachs
Description: cosinor is a set of simple functions that transforms longitudinal data to estimate the cosinor linear model. Methods are given to summarize the mean, amplitude and acrophase, to predict the mean annual outcome value, and to test the coefficients.
URL: http://github.com/sachsmc/cosinor
Depends: R (>= 2.11.0)
Imports: ggplot2
License: MIT + file LICENSE
LazyData: true
Packaged: 2014-07-25 15:18:01 UTC; sachsmc
NeedsCompilation: no
Repository: CRAN
Date/Publication: 2014-07-25 18:37:49

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Thu, 24 Jul 2014

New package ssh.utils with initial version 1.0
Package: ssh.utils
Title: Local and remote system commands with output and error capture.
Version: 1.0
Author: Sergei Izrailev
Maintainer: Sergei Izrailev
Description: This package provides utility functions for system command execution, both locally and remotely using ssh/scp. The command output is captured and provided to the caller. This functionality is intended to streamline calling shell commands from R, retrieving and using their output, while instrumenting the calls with appropriate error handling. NOTE: this first version is limited to unix with local and remote systems running bash as the default shell.
URL: http://github.com/collectivemedia/ssh.utils
Depends: R (>= 3.0.3), stringr
License: Apache License (== 2.0)
Copyright: Copyright (C) Collective, Inc. | file inst/COPYRIGHTS
LazyData: true
OS_type: unix
Packaged: 2014-07-24 02:53:39 UTC; user
NeedsCompilation: no
Repository: CRAN
Date/Publication: 2014-07-24 21:13:49

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New package rpg with initial version 1.0
Package: rpg
Type: Package
Title: Easy interface to advanced PostgreSQL features
Version: 1.0
Date: 2014-05-30
Author: Timothy H. Keitt
Maintainer: Timothy H. Keitt
Description: Allows ad hoc queries and reading and writing data frames to and from a database.
License: GPL (>= 2)
URL: http://www.postgresql.org/, http://github.com/thk686/rpg, http://r-forge.r-project.org/projects/rpg/, http://www.keittlab.org/
Imports: Rcpp (>= 0.11.1), uuid (>= 0.1-1), RApiSerialize (>= 0.1.0)
Suggests: foreach (>= 1.4.2), doParallel (>= 1.0.0), hflights (>= 0.1)
LinkingTo: Rcpp, RApiSerialize
SystemRequirements: libpq
Depends: R (>= 3.0.0)
NeedsCompilation: yes
Note: The files configure.in, cleanup, Makevars.in and Makevars.win are based on the same files found in RPostgreSQL. I thank Dirk Eddelbuettel for giving the go ahead to resue thier build setup. Copyright of the unmodified protions remains with the original authors. The files in src/libpq/ are part of PostgreSQL.
Repository: CRAN
Repository/R-Forge/Project: rpg
Repository/R-Forge/Revision: 18
Repository/R-Forge/DateTimeStamp: 2014-07-15 20:57:00
Date/Publication: 2014-07-24 18:53:44
Packaged: 2014-07-15 22:15:29 UTC; rforge

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New package mtk with initial version 1.0
Package: mtk
Type: Package
Title: Mexico ToolKit library (MTK)
Encoding: UTF-8
Version: 1.0
Date: 2014-07-15
Authors@R: c(person("Juhui", "WANG", role = c("aut", "cre"), email = "Juhui.Wang@jouy.inra.fr", comment = "Software and Engineering"), person("Hervé", "MONOD", role = "aut", email = "Herve.Monod@jouy.inra.fr", comment = "Applications and Statistical Methods"), person("Robert", "FAIVRE", role = "ctb", email = "faive@toulouse.inra.fr", comment = "Applications and Statistical Methods"), person("Hervé", "RICHARD", role = "ctb", email = "Herve.Richard@avignon.inra.fr", comment = "Software and Engineering") )
Author: Juhui WANG [aut, cre] (Software and Engineering), Hervé MONOD [aut] (Applications and Statistical Methods), Robert FAIVRE [ctb] (Applications and Statistical Methods), Hervé RICHARD [ctb] (Software and Engineering)
Maintainer: Juhui WANG
Description: MTK (Mexico ToolKit) is a generic platform for the sensitivity and uncertainty analysis of complex models. It provides functions and facilities for experimental design, model simulation, sensitivity and uncertainty analysis, methods integration and data reporting, etc.
License: GPL-3
LazyLoad: yes
Depends: R (>= 2.15.0), base, stringr, graphics, methods, XML, sensitivity, lhs, rgl
Suggests: MASS
Collate: 'mtkAllGenerics.R' 'globalsMtkFuncts.R' 'mtkValue.R' 'mtkFeature.R' 'mtkLevels.R' 'mtkParameter.R' 'mtkDomain.R' 'mtkFactor.R' 'mtkExpFactors.R' 'mtkProcess.R' 'mtkExpWorkflow.R' 'mtkExperiment.R' 'mtkParsor.R' 'mtkResult.R' 'mtkDesignerResult.R' 'mtkDesigner.R' 'mtkMorrisDesigner.R' 'mtkBasicMonteCarloDesigner.R' 'mtkRandLHSDesigner.R' 'mtkNativeDesigner.R' 'mtkSobolDesigner.R' 'mtkFastDesigner.R' 'mtkEvaluatorResult.R' 'mtkEvaluator.R' 'mtkNativeEvaluator.R' 'mtkIshigamiEvaluator.R' 'mtkWWDMEvaluator.R' 'mtkSystemEvaluatorResult.R' 'mtkSystemEvaluator.R' 'mtkAnalyserResult.R' 'mtkAnalyser.R' 'mtkNativeAnalyser.R' 'mtkDefaultAnalyser.R' 'mtkRegressionAnalyser.R' 'mtkMorrisAnalyser.R' 'mtkSobolAnalyser.R' 'mtkPLMMAnalyser.R' 'mtkFastAnalyser.R' 'mtk.addons.R' 'mtkPackage.R'
Packaged: 2014-07-24 08:40:45 UTC; jwang
NeedsCompilation: no
Repository: CRAN
Date/Publication: 2014-07-24 13:12:50

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New package rvalues with initial version 0.2
Package: rvalues
Type: Package
Title: Computation of r-values for ranking in high-dimensional settings.
Version: 0.2
Date: 2014-07-23
Author: Nicholas Henderson and Michael Newton
Maintainer: Nicholas Henderson
Description: This package provides several procedures for computing "r-values". Given a large collection of measurement units, the r-value, r, of a particular unit is a reported percentile that may be interpreted as the smallest percentile at which the unit should be placed in the top r-fraction of units.
License: GPL-2
Packaged: 2014-07-23 22:26:43 UTC; nhenders
NeedsCompilation: yes
Repository: CRAN
Date/Publication: 2014-07-24 08:22:43

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Wed, 23 Jul 2014

New package rowr with initial version 1.0
Package: rowr
Title: Row-based functions for R objects.
Version: 1.0
Author: Craig Varrichio
Maintainer: Craig Varrichio
Description: Rowr allows the manipulation of R objects as if they were organized rows in a way that is familiar to people used to working with databases. It allows more consistent and predictable output to common functions, and generalizes a number of utility functions to to be failsafe with any number and type of input objects.
Depends: R (>= 3.1.0)
License: GPL-3
LazyData: true
Packaged: 2014-07-23 21:03:33 UTC; CVarrichio
NeedsCompilation: no
Repository: CRAN
Date/Publication: 2014-07-23 23:44:16

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New package ecospat with initial version 1.0
Package: ecospat
Version: 1.0
Date: 2014-07-23
Title: Spatial ecology miscellaneous methods
Author: Olivier Broenniman and Blaise Petitpierre and Christophe Randin and Robin Engler and Frank Breiner and Manuela D`Amen and Loic Pellissier and Julien Pottier and Dorothea Pio and Ruben Garcia Mateo and Valeria Di Cola and Wim Hordijk and Anne Dubuis and Daniel Scherrer and Nicolas Salamin and Antoine Guisan
Maintainer: Valeria Di Cola
Depends: ade4, ape, gam, gbm, sp
Imports: adehabitatHR, adehabitatMA, biomod2, dismo, ecodist, maptools, randomForest, spatstat, raster, rms
Suggests: MigClim, rgdal, rJava, XML
LazyData: true
URL: http://www.unil.ch/ecospat/home/menuinst/tools--data/tools.html
Description: Miscellaneous methods and utilities for spatial ecology analysis, written by current and former members and collaborators of the ecospat group of Prof. Antoine Guisan, Department of Ecology and Evolution (DEE) & Institute of Earth Surface Dynamics (IDYST), University of Lausanne, Switzerland.
License: GPL
Packaged: 2014-07-23 10:30:53 UTC; valeriadicola
NeedsCompilation: no
Repository: CRAN
Date/Publication: 2014-07-23 21:13:51

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New package ReorderCluster with initial version 1.0
Package: ReorderCluster
Type: Package
Title: Reordering the dendrogram according to the class labels
Version: 1.0
Date: 2014-07-21
Author: Natalia Novoselova,Frank Klawonn, Junxi Wang
Maintainer: Natalia Novoselova
Description: Tools for performing the leaf reordering for the dendrogram that preserves the hierarchical clustering result and at the same time tries to group instances from the same class together.
License: GPL (>= 3)
Depends: R (>= 2.10),gplots,graphics
Imports: Rcpp (>= 0.11.0)
LinkingTo: Rcpp
Packaged: 2014-07-23 12:39:49 UTC; novosel
NeedsCompilation: yes
Repository: CRAN
Date/Publication: 2014-07-23 15:24:32

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New package MPAgenomics with initial version 1.1.0
Package: MPAgenomics
Type: Package
Title: Multi-Patient Analysis of Genomic Markers
Version: 1.1.0
Date: 2014-07-23
Author: Quentin Grimonprez with contributions from Guillemette Marot and Samuel Blanck. Some functions use code created by Sjoerd Vosse, Mark van de Wiel, Pierre Neuvial, Henrik Bengtsson.
Maintainer: Samuel Blanck
Description: MPAgenomics provides functions to preprocess and analyze genomic data. It provides wrappers from commonly used packages to streamline their repeated manipulation, offering an easy-to-use pipeline. The segmentation of successive multiple profiles is performed with an automatic choice of parameters involved in the wrapped packages. Considering multiple profiles in the same time, MPAgenomics wraps efficient penalized regression methods to select relevant markers associated with a given outcome.
License: GPL (>= 2)
Copyright: Inria 2012-2014.
Imports: R.utils,changepoint(>= 1.1),glmnet,cghseg
Suggests: HDPenReg,CGHcall,aroma.affymetrix,aroma.cn,snowfall
Packaged: 2014-07-23 12:43:12 UTC; sblanck
NeedsCompilation: no
Repository: CRAN
Date/Publication: 2014-07-23 15:24:28

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New package hglm.data with initial version 1.0-0
Package: hglm.data
Type: Package
Title: Data for The hglm Package
Version: 1.0-0
Date: 2014-07-23
Author: Xia Shen, Moudud Alam, Lars Ronnegard
Maintainer: Xia Shen
Description: This data-only package was created for distributing data used in the examples of the hglm package.
BugReports: https://r-forge.r-project.org/tracker/?group_id=558
License: GPL (>= 2)
LazyLoad: yes
Depends: R (>= 2.10), utils, Matrix, MASS
Packaged: 2014-07-23 11:25:13 UTC; xia
NeedsCompilation: no
Repository: CRAN
Date/Publication: 2014-07-23 15:24:34

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New package acp with initial version 1.0
Package: acp
Title: Autoregressive Conditional Poisson
Version: 1.0
Date: 2014-07-18
Author: Siakoulis Vasileios
Depends: tseries
Maintainer: Siakoulis Vasilios
Description: Package for time series analysis of count data
License: GPL-2
Packaged: 2014-07-22 21:56:52 UTC; siakbill
NeedsCompilation: no
Repository: CRAN
Date/Publication: 2014-07-23 15:30:55

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Tue, 22 Jul 2014

New package jSonarR with initial version 1.0
Package: jSonarR
Type: Package
Title: jSonar Analytics Platform API for R
Version: 1.0
Date: 2014-07-02
Author: jSonar Inc.
Maintainer: Dylan McCall
Description: This package enables users to access MongoDB by running queries and returning their results in R data frames. Usually, data in MongoDB is only available in the form of a JSON document. jSonarR uses data processing and conversion capabilities in the jSonar Analytics Platform and the JSON Studio Gateway (http://www.jsonstudio.com), to convert it to a tabular format which is easy to use with existing R packages.
Depends: R (>= 2.12.1), RCurl, methods
SystemRequirements: MongoDB, JSON Studio
Copyright: jSonar Inc.
License: AGPL-3
URL: http://www.jsonstudio.com/
Packaged: 2014-07-22 21:26:38 UTC; dylan
NeedsCompilation: no
Repository: CRAN
Date/Publication: 2014-07-23 00:40:43

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New package RMRAINGEN with initial version 1.0
Package: RMRAINGEN
Maintainer: Emanuele Cordano
License: GPL (>= 2)
Title: RMRAINGEN (R Multi-site RAINfall GENeretor): a package to generate daily time series of rainfall from monthly mean values
Type: Package
Author: Emanuele Cordano
Description: This package contains functions and S3 methods for spatial multi-site stochastic generation of daily precipitation. It generates precipitation occurrence in several sites using Wilks' Approach (1998). Bugs/comments/questions/collaboration of any kind are warmly welcomed.
Version: 1.0
Repository: CRAN
Date: 2014-07-22
Depends: R (>= 3.0), copula, RGENERATE,RMAWGEN,blockmatrix,Matrix
URL: https://github.com/ecor/RMRAINGEN
Packaged: 2014-07-22 14:35:22 UTC; ecor
NeedsCompilation: no
Date/Publication: 2014-07-22 21:18:30

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New package nontargetData with initial version 1.1
Package: nontargetData
Type: Package
Title: Quantized simulation data of isotope pattern centroids
Version: 1.1
Date: 2014-07-22
Author: Martin Loos, Francesco Corona
Maintainer: Martin Loos
Description: Data sets for isotope pattern grouping of LC-HRMS peaks with package nontarget. Based on a vast set of unique PubChem molecular formulas, quantized (a) m/z, (b) m/z differences, (c) intensity ratios and (d) marker centroids of simulated centroid pairs are listed for different instrument resolutions.
License: GPL-3
Packaged: 2014-07-22 13:59:18 UTC; uchemadmin
Depends: R (>= 2.10)
NeedsCompilation: no
Repository: CRAN
Date/Publication: 2014-07-22 21:18:38

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New package MixGHD with initial version 1.0
Package: MixGHD
Type: Package
Title: Model based clustering and classification using the mixture of generalized hyperbolic distributions.
Version: 1.0
Date: 2014-07-15
Author: Cristina Tortora, Ryan P. Browne, Brian C. Franczak and Paul D. McNicholas.
Maintainer: Cristina Tortora
Description: Carries out model-based clustering using three different models. The models are all based on the generalized hyperbolic distribution.The first model MGHD is the classical mixture of generalized hyperbolic distributions. The MGHFA is the mixture of generalized hyperbolic factor analyzers for high dimensional data sets. The MCGHD, mixture of coalesced generalized hyperbolic distributions is a new more flexible model.
Depends: Bessel, stats, MASS, mvtnorm, ghyp, numDeriv, R (>= 3.1.1)
NeedsCompilation: no
License: GPL (>= 2)
Packaged: 2014-07-22 13:24:40 UTC; cristina
Repository: CRAN
Date/Publication: 2014-07-22 21:18:29

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New package FreeSortR with initial version 1.0
Package: FreeSortR
Type: Package
Title: Free Sorting data analysis.
Version: 1.0
Date: 2014-04-29
Author: Philippe Courcoux
Maintainer: Philippe Courcoux
Description: The package FreeSortR provides tools for describing and analysing free sorting data. Main methods are computation of consensus partition and factorial analysis of the dissimilarity matrix between stimuli (using multidimensional scaling approach).
License: GPL-2
Depends: methods, smacof, vegan, ellipse
Packaged: 2014-07-22 14:33:58 UTC; courcoux
NeedsCompilation: no
Repository: CRAN
Date/Publication: 2014-07-22 21:18:25

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New package rnbn with initial version 1.0.0
Package: rnbn
Type: Package
Title: Access NBN data
Version: 1.0.0
Date: 2014-07-22
Author: Stuart Ball & Tom August
Maintainer: Tom August
Description: Access to data held by the National Biodiversity Network (NBN, www.nbn.org.uk). The NBN acts as a data warehouse for biological records data in the UK and is the UK node of GBIF (Global Biodiversity Information Facility). In this package NBN data is accessed via its web-services.
License: MIT + file LICENSE
Depends: RCurl, RJSONIO, tcltk
BuildVignettes: FALSE
LazyData: TRUE
Packaged: 2014-07-22 12:02:46 UTC; tomaug
NeedsCompilation: no
Repository: CRAN
Date/Publication: 2014-07-22 14:29:38

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New package nycflights13 with initial version 0.1
Package: nycflights13
Title: Data about flights departing NYC in 2013.
Version: 0.1
Authors@R: 'Hadley Wickham [aut,cre]'
Description: Airline on-time data for all flights departing NYC in 2013. Also includes useful metadata on airlines, airports, weather, and planes.
Depends: R (>= 3.1.0)
License: CC0
LazyData: true
Suggests: dplyr
URL: http://github.com/hadley/nycflights13
Packaged: 2014-07-21 19:26:17 UTC; hadley
Author: 'Hadley Wickham' [aut, cre]
Maintainer: 'Hadley Wickham'
NeedsCompilation: no
Repository: CRAN
Date/Publication: 2014-07-22 11:08:54

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New package nasaweather with initial version 0.1
Package: nasaweather
Title: Collection of datasets from the ASA 2006 data expo
Version: 0.1
Authors@R: 'Hadley Wickham [aut,cre]'
Description: This package contains tidied data from the ASA 2006 data expo, as well as a number of useful other related data sets.
Depends: R (>= 3.1.0)
License: GPL-3
LazyData: true
URL: http://github.com/hadley/nasaweather, http://stat-computing.org/dataexpo/2006/
Packaged: 2014-07-21 19:30:24 UTC; hadley
Author: 'Hadley Wickham' [aut, cre]
Maintainer: 'Hadley Wickham'
NeedsCompilation: no
Repository: CRAN
Date/Publication: 2014-07-22 11:08:36

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New package fueleconomy with initial version 0.1
Package: fueleconomy
Title: EPA fuel economy data
Version: 0.1
Authors@R: 'Hadley Wickham [aut,cre]'
Description: Fuel economy data from the EPA, 1985-2015, conveniently packaged for consumption by R users.
Depends: R (>= 3.1.0)
License: CC0
LazyData: true
Suggests: dplyr
URL: http://github.com/hadley/fueleconomy
Packaged: 2014-07-21 19:31:13 UTC; hadley
Author: 'Hadley Wickham' [aut, cre]
Maintainer: 'Hadley Wickham'
NeedsCompilation: no
Repository: CRAN
Date/Publication: 2014-07-22 11:08:43

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New package babynames with initial version 0.1
Package: babynames
Title: US baby names 1880-2013
Version: 0.1
Authors@R: 'Hadley Wickham [aut,cre]'
Description: US baby names provided by the SSA. This package contains all names used for at least 5 children of either sex.
Depends: R (>= 3.1.0)
License: CC0
LazyData: true
URL: http://github.com/hadley/babynames
Packaged: 2014-07-21 19:46:18 UTC; hadley
Author: 'Hadley Wickham' [aut, cre]
Maintainer: 'Hadley Wickham'
NeedsCompilation: no
Repository: CRAN
Date/Publication: 2014-07-22 11:08:48

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Mon, 21 Jul 2014

New package tidyr with initial version 0.1
Package: tidyr
Title: Easily tidy data with spread and gather functions.
Version: 0.1
Authors@R: 'Hadley Wickham [aut,cre]'
Description: tidyr is an evolution of reshape2. It's design specifically for data tidying (not general reshaping or aggregating) and works well with dplyr data pipelines.
Depends: R (>= 3.1.0)
License: MIT + file LICENSE
LazyData: true
Imports: reshape2, dplyr (>= 0.2)
URL: https://github.com/hadley/tidyr
Suggests: knitr, testthat
VignetteBuilder: knitr
Packaged: 2014-07-21 19:17:00 UTC; hadley
Author: 'Hadley Wickham' [aut, cre]
Maintainer: 'Hadley Wickham'
NeedsCompilation: no
Repository: CRAN
Date/Publication: 2014-07-21 23:16:05

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New package bootSVD with initial version 0.1
Package: bootSVD
Title: Fast, Exact Bootstrap Principal Component Analysis for High Dimensional Data
Description: Implements fast, exact bootstrap Principal Component Analysis and Singular Value Decompositions for high dimensional data, as described in (arxiv.org/abs/1405.0922).
Version: 0.1
Author: Aaron Fisher
Maintainer: Aaron Fisher
Depends: R (>= 3.0.2)
Imports: parallel
License: GPL-2
LazyData: true
Packaged: 2014-07-21 20:05:34 UTC; aaronfisher
NeedsCompilation: no
Repository: CRAN
Date/Publication: 2014-07-21 23:18:12

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New package TableMonster with initial version 1.1
Package: TableMonster
Version: 1.1
Depends: xtable
Date: 2014-07-18
Title: Table Monster
Author: Grant Izmirlian Jr
Maintainer: Grant Izmirlian Jr
Description: Provides a user friendly interface to generation of booktab style tables using xtable.
License: GPL (>= 2)
LazyLoad: yes
Packaged: 2014-07-21 17:14:28 UTC; izmirlig
NeedsCompilation: no
Repository: CRAN
Date/Publication: 2014-07-21 20:07:51

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New package HSSVD with initial version 1.1
Package: HSSVD
Type: Package
Title: Biclustering with heterogeneous variance
Version: 1.1
Date: 2014-07-21
Authors@R: c(person("Guanhua", "Chen", role = c("aut","cre"), email = "guanhuac@live.unc.edu"), person("Michael", "Kosorok", role = c("aut"), email = "kosorok@unc.edu"), person("Shannon","Holloway", role="ctb", email="sthollow@ncsu.edu"))
Description: HSSVD is a recently developed data mining tool for discovering subgroups of patients and genes which simultaneously display unusual levels of variability compared to other genes and patients. Previous biclustering methods were restricted to mean level detection, while the new method can detect both mean and variance biclusters.
Depends: R (>= 2.10), bcv
License: GPL-2
Packaged: 2014-07-21 17:38:29 UTC; sthollow
Author: Guanhua Chen [aut, cre], Michael Kosorok [aut], Shannon Holloway [ctb]
Maintainer: Guanhua Chen
NeedsCompilation: no
Repository: CRAN
Date/Publication: 2014-07-21 20:17:46

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New package densityClust with initial version 0.1-1
Package: densityClust
Type: Package
Title: Clustering by fast search and find of density peaks
Version: 0.1-1
Date: 2014-06-30
Author: Thomas Lin Pedersen
Maintainer: Thomas Lin Pedersen
Description: An implementation of the clustering algorithm described by Alex Rodriguez and Alessandro Laio (Science, 2014 vol. 344), along with tools to inspect and visualize the results.
License: GPL (>= 2)
Packaged: 2014-07-21 08:01:51 UTC; Thomas
NeedsCompilation: no
Repository: CRAN
Date/Publication: 2014-07-21 13:29:49

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New package logitchoice with initial version 0.9.0
Package: logitchoice
Type: Package
Title: Fitting l2-regularized logit choice models via generalized gradient descent
Version: 0.9.0
Date: 2014-7-20
Author: Michael Lim
Maintainer: Michael Lim
Depends:
Suggests:
Description: Fits linear discrete logic choice models with l2 regularization. To handle reasonably sized datasets, we employ an accelerated version of generalized gradient descent.
License: GPL-2
URL:
Packaged: 2014-07-21 05:13:14 UTC; mlim
NeedsCompilation: yes
Repository: CRAN
Date/Publication: 2014-07-21 07:40:03

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Sun, 20 Jul 2014

New package SBRect with initial version 0.26
Package: SBRect
Version: 0.26
Date: 2014-02-07
Title: Detecting structural breaks using rectangle covering (non-parametric method).
Authors@R: c(person("Paul", "Fischer", role = c("aut", "cre","cph"), email = "pafi@dtu.dk"),person("Astrid", "Hilbert", role = c("ctb","cph"), email = "astrid.hilbert@lnu.se"))
Author: Paul Fischer [aut, cre, cph], Astrid Hilbert [ctb, cph]
Maintainer: Paul Fischer
Depends: rJava
SystemRequirements: java
Suggests: MASS
Description: The package uses fitting axes-aligned rectangles to a time series in order to find structural breaks. The algorithm enclose the time series in a number of axes-aligned rectangles and tries to minimize their area and number. As these are conflicting aims, the user has to specify a parameter alpha in [0.0,1.0]. Values close to 0 result in more breakpoints, values close to 1 in fewer. The left edges of the rectangles are the breakpoints. The package supplies two methods, computeBreakPoints(series,alpha) which returns the indices of the break points and computeRectangles(series,alpha) which returns the rectangles. The algorithm is randomised; it uses a genetic algorithm. Therefore, the break point sequence found can be different in different executions of the method on the same data, especially when used on longer series of some thousand observations. The algorithm uses a range-tree as background data structure which makes i very fast and suited to analyse series with millions of observations. A detailed description can be found in Paul Fischer, Astrid Hilbert, Fast detection of structural breaks, Proceedings of Compstat 2014.
License: GPL-2
URL: http://www2.imm.dtu.dk/~pafi/StructBreak/index.html
BugReports: pafi@dtu.dk
Packaged: 2014-07-20 18:56:52 UTC; Paul
NeedsCompilation: no
Repository: CRAN
Date/Publication: 2014-07-20 21:17:32

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New package coxinterval with initial version 1.0
Package: coxinterval
Title: Cox-type models for interval-censored data
Version: 1.0
Date: 2014-07-19
Depends: Matrix, parallel, survival, timereg, R (>= 2.13.0)
LazyData: Yes
LazyLoad: Yes
Author: Audrey Boruvka and Richard J. Cook
Maintainer: Audrey Boruvka
Description: Fits Cox-type models based on interval-censored data from a survival or illness-death process
SystemRequirements: GNU make
NeedsCompilation: Yes
License: GPL (>= 2)
URL: https://github.com/aboruvka/coxinterval
BugReports: https://github.com/aboruvka/coxinterval/issues
Packaged: 2014-07-20 17:02:19 UTC; aboruvka
Repository: CRAN
Date/Publication: 2014-07-20 20:52:59

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New package ecp with initial version 1.6.0
Package: ecp
Type: Package
Title: Nonparametric Multiple Change Point Analysis of Multivariate Data
Version: 1.6.0
Date: 2014-07-19
Author: Nicholas A. James and David S. Matteson
Maintainer: Nicholas A. James
Description: This package performs hierarchical change point analysis through the use of U-statistics. Both agglomerative and divisive procedures return the set of change points estimates, and other summary information.
License: GPL (>= 2)
Depends: R (>= 2.10), Rcpp
Suggests: mvtnorm,MASS,combinat
LinkingTo: Rcpp
Packaged: 2014-07-19 20:24:32 UTC; nick
NeedsCompilation: yes
Repository: CRAN
X-CRAN-Comment: Archived on 2014-04-04 as long-term memory access errors which caused crashes remained unresolved.
Date/Publication: 2014-07-20 10:23:54

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New package lm.beta with initial version 1.0
Package: lm.beta
Type: Package
Title: Add standardized regression coefficients to lm objects
Version: 1.0
Date: 2014-07-20
Author: Stefan Behrendt
Maintainer: Stefan Behrendt
Description: This package adds standardized regression coefficients to objects created by lm. It also overwrites the S3 methods print, summary and coef with additional argument standardized.
License: GPL (>= 2)
Packaged: 2014-07-20 00:35:30 UTC; Stefan
NeedsCompilation: no
Repository: CRAN
Date/Publication: 2014-07-20 07:44:12

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New package astrochron with initial version 0.3.1
Package: astrochron
Type: Package
Title: An R Package for Astrochronology
Version: 0.3.1
Date: 2014-07-19
Author: Stephen Meyers
Maintainer: Stephen Meyers
Description: Astrochonologic testing, astronomical time scale development, time series analysis
Imports: baseline, multitaper, fields
License: GPL-3
Packaged: 2014-07-19 20:14:42 UTC; smeyers
NeedsCompilation: yes
Repository: CRAN
Date/Publication: 2014-07-20 07:32:44

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Sat, 19 Jul 2014

New package slp with initial version 1.0-3
Package: slp
Version: 1.0-3
Author: Wesley Burr, with contributions from Karim Rahim
Copyright: file COPYRIGHTS
Maintainer: Wesley Burr
Title: Discrete Prolate Spheroidal (Slepian) Sequence Regression Smoothers
Description: Interface for creation of 'slp' class smoother objects for use in Generalized Additive Models (as implemented by packages 'gam' and 'mgcv').
Depends: R (>= 2.15.1)
License: GPL (>= 2)
Imports: mgcv (>= 1.7.18)
Suggests: gam (>= 1.09)
Packaged: 2014-07-18 19:16:59 UTC; wburr
NeedsCompilation: yes
Repository: CRAN
Date/Publication: 2014-07-19 08:42:29

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Fri, 18 Jul 2014

New package fuzzyMM with initial version 1.0.1
Package: fuzzyMM
Type: Package
Title: Map Matching Using Fuzzy Logic
Version: 1.0.1
Date: 2014-07-15
Author: Nikolai Gorte
Description: Implements a fuzzy-logic-based map-matching algorithm used to match GPS trajectories to the OpenStreetMap digital road network.
Maintainer: Nikolai Gorte
Depends: R (>= 2.15.0), osmar, frbs,
Imports: methods, igraph, rgeos, rgdal,
Suggests: rjson, maptools, stringr, RCurl,
License: GPL (>= 2)
Collate: var_bounds.R fuzzy_model.R FIS1.R FIS2.R FIS3.R IMP.R SMP1.R SMP2.R DRN.R fuzzyMM.R Data-track.R fuzzyMM-package.R
Packaged: 2014-07-18 15:01:00 UTC; Niko
NeedsCompilation: no
Repository: CRAN
Date/Publication: 2014-07-18 20:20:05

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New package colorscience with initial version 1.0.0
Package: colorscience
Type: Package
Title: Color Science methods and data
Version: 1.0.0
Encoding: UTF-8
Maintainer: Jose Gama
Authors@R: c(person(given = "Jose", family = "Gama", role = c("aut","cre"),email = "jgama@abo.fi"))
Description: Methods and data for color science - color conversions by observer, illuminant and gamma. Color matching functions and chromaticity diagrams. Color indices, color differences and spectral data conversion/analysis.
License: GPL (>= 3)
Depends: R (>= 2.10), Hmisc, munsellinterpol, pracma
Enhances: png
LazyData: yes
Packaged: 2014-07-17 05:01:34.477 UTC; poky
Author: Jose Gama [aut, cre]
NeedsCompilation: no
Repository: CRAN
Date/Publication: 2014-07-18 09:25:05

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New package bayou with initial version 1.0
Package: bayou
Type: Package
Title: Bayesian fitting of Ornstein-Uhlenbeck models to phylogenies
Version: 1.0
Date: 2013-09-12
Author: Josef C. Uyeda, Jon Eastman and Luke Harmon
Maintainer: Josef C. Uyeda
Description: Tools for fitting and simulating multi-optima Ornstein-Uhlenbeck models to phylogenetic comparative data using Bayesian reversible-jump methods.
License: GPL (>= 2)
Depends: ape (>= 3.0-6), geiger(>= 2.0), R (>= 2.15.0), phytools, coda
Imports: Rcpp (>= 0.10.3), MASS, mnormt, fitdistrplus, denstrip
Suggests: doMC, foreach
LinkingTo: Rcpp, RcppArmadillo
Collate: 'RcppExports.R' 'bayou-utilities.R' 'probability.R' 'bayou-weight_matrix.R' 'bayou-moves.R' 'bayou-likelihood.R' 'bayou-prior.R' 'conversion-utilities.R' 'bayou-mcmc-utilities.R' 'bayou-mcmc.R' 'bayou-plotting.R' 'bayou-simulation.r' 'bayou-steppingstone.R' 'bayou-package.R'
Packaged: 2014-07-18 02:36:06 UTC; josef
NeedsCompilation: yes
Repository: CRAN
Date/Publication: 2014-07-18 07:09:20

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Thu, 17 Jul 2014

New package RNeXML with initial version 1.1-0
Package: RNeXML
Type: Package
Title: Implement semantically rich I/O for NeXML format
Version: 1.1-0
Date: 2013-06-30
Authors@R: c(person("Carl", "Boettiger", role = c("cre", "aut"), email="cboettig@gmail.com"), person("Scott", "Chamberlain", role = "aut"), person("Hilmar", "Lapp", role = "aut"), person("Kseniia", "Shumelchyk", role = "aut"), person("Rutger", "Vos", role = "aut"))
Description: R package that allows access to phyloinformatic data in NeXML format. The package should add new functionality to R such as the possibility to manipulate NeXML objects in more various and refined way and compatibility with 'ape' objects. Note that the Sxslt package suggested can be installed from the Omegahat repository, though it can also be obtained from https://github.com/cboettig/Sxslt
License: BSD_3_clause + file LICENSE
Additional_repositories: http://www.omegahat.org/R
VignetteBuilder: knitr
Suggests: rrdf (>= 2.0.2), geiger (>= 2.0), phytools (>= 0.3.93), knitr (>= 1.5), testthat (>= 0.8.1), rfigshare (>= 0.3.0), knitcitations (>= 1.0.1), Sxslt
Depends: R (>= 3.0.0), ape (>= 3.1), methods (>= 3.0.0)
Imports: XML (>= 3.95), plyr (>= 1.8), taxize (>= 0.2.2), reshape2 (>= 1.2.2), httr (>= 0.3), uuid (>= 0.1-1)
Collate: 'classes.R' 'add_basic_meta.R' 'add_characters.R' 'add_meta.R' 'add_namespaces.R' 'add_trees.R' 'character_classes.R' 'concatenate_nexml.R' 'get_basic_metadata.R' 'get_characters.R' 'get_metadata.R' 'get_namespaces.R' 'get_rdf.R' 'get_taxa.R' 'get_taxa_meta.R' 'get_trees.R' 'internal_get_node_maps.R' 'internal_isEmpty.R' 'internal_name_by_id.R' 'internal_nexml_id.R' 'meta.R' 'nexmlTree.R' 'nexml_add.R' 'nexml_get.R' 'nexml_methods.R' 'nexml_publish.R' 'nexml_read.R' 'nexml_validate.R' 'nexml_write.R' 'simmap.R' 'taxize_nexml.R'
Packaged: 2014-07-17 16:28:19 UTC; cboettig
Author: Carl Boettiger [cre, aut], Scott Chamberlain [aut], Hilmar Lapp [aut], Kseniia Shumelchyk [aut], Rutger Vos [aut]
Maintainer: Carl Boettiger
NeedsCompilation: no
Repository: CRAN
Date/Publication: 2014-07-18 00:22:54

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New package rnaseqWrapper with initial version 1.0
Package: rnaseqWrapper
Type: Package
Title: Wrapper for several R packages and scripts to automate RNA-seq analysis
Version: 1.0
Date: 2013-12-06
Author: Mark Peterson
Maintainer: Mark Peterson
Description: This package is designed to streamline several of the common steps for RNA-seq analysis, including differential expression and variant discovery. For the development build, or to contribute changes to this package, please see our repository at https://bitbucket.org/petersmp/rnaseqwrapper/
License: GPL
Depends: ecodist, gplots, gtools
Suggests: topGO,seqinr,DESeq
Packaged: 2014-07-17 13:55:00 UTC; markp
NeedsCompilation: no
Repository: CRAN
Date/Publication: 2014-07-18 00:18:31

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New package nscancor with initial version 0.6
Package: nscancor
Authors@R: c( person("Christian", "Sigg", email = "christian@sigg-iten.ch", role = c("aut", "cre")), person("R Core team", role = "aut"))
Version: 0.6
Date: 2014-02-03
Title: Non-Negative and Sparse CCA
Description: This package implements two algorithms for canonical correlation analysis (CCA) that are based on iterated regression steps. By choosing the appropriate regression algorithm for each data modality, it is possible to enforce sparsity, non-negativity or other kinds of constraints on the projection vectors. Multiple canonical variables are computed sequentially using a generalized deflation scheme, where the additional correlation not explained by previous variables is maximized. 'nscancor' is used to analyze paired data from two domains, and has the same interface as the 'cancor' function from the 'stats' package (plus some extra parameters). 'mcancor' is appropriate for analyzing data from three or more domains.
URL: http://sigg-iten.ch/research/
License: GPL (>= 2)
Suggests: CCA, glmnet, MASS, PMA, testthat (>= 0.8), roxygen2
Packaged: 2014-07-17 18:44:15 UTC; chrsigg
Author: Christian Sigg [aut, cre], R Core team [aut]
Maintainer: Christian Sigg
NeedsCompilation: no
Repository: CRAN
Date/Publication: 2014-07-17 23:46:07

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New package itertools2 with initial version 0.1
Package: itertools2
Title: itertools2: Functions creating iterators for efficient looping
Version: 0.1
Date: 2014-07-17
Author: John A. Ramey , Kayla Schaefer
Maintainer: John A. Ramey
Description: A port of Python's excellent itertools module to R for efficient looping.
Depends: R (>= 3.0.2)
Imports: iterators (>= 1.0.7)
Suggests: testthat (>= 0.8.1)
License: MIT + file LICENSE
URL: https://github.com/ramhiser/itertools2, http://ramhiser.com
Packaged: 2014-07-17 21:55:01 UTC; ramhiser
NeedsCompilation: no
Repository: CRAN
Date/Publication: 2014-07-18 00:15:26

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New package RTDE with initial version 0.1-0
Package: RTDE
Type: Package
Title: Robust Tail Dependence Estimation
Version: 0.1-0
Date: 2014-07-31
Author: Christophe Dutang [aut, cre], Armelle Guillou [ctb], Yuri Goegebeur [ctb]
Maintainer: Christophe Dutang
Description: Robust tail dependence estimation for bivariate models. This package is based on two papers by the authors:'Robust and bias-corrected estimation of the coefficient of tail dependence' and 'Robust and bias-corrected estimation of extreme failure sets'. This work was supported by a research grant (VKR023480) from VILLUM FONDEN and an international project for scientific cooperation (PICS-6416).
Depends: R (>= 3.0.0), parallel
Suggests: tseries
License: GPL (>= 2)
URL: https://www.rmetrics.org/files/Paris2014/
Packaged: 2014-07-17 14:07:04 UTC; dutangc
NeedsCompilation: no
Repository: CRAN
Date/Publication: 2014-07-17 18:41:53

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New package R6 with initial version 1.0.1
Package: R6
Title: Classes with reference semantics
Version: 1.0.1
Authors@R: "Winston Chang [aut, cre]"
Description: The R6 package allows the creation of classes with reference semantics, similar to R's built-in reference classes. Compared to reference classes, R6 classes are simpler and lighter-weight, and they are not built on S4 classes so they do not require the methods package. These classes allow public and private members, and they support inheritance.
Depends: R (>= 3.0)
Suggests: knitr, microbenchmark, testthat
License: MIT + file LICENSE
LazyData: true
VignetteBuilder: knitr
Packaged: 2014-07-17 05:32:08 UTC; winston
Author: "Winston Chang" [aut, cre]
Maintainer: "Winston Chang"
NeedsCompilation: no
Repository: CRAN
Date/Publication: 2014-07-17 07:40:51

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New package HDPenReg with initial version 0.89.7
Package: HDPenReg
Version: 0.89.7
Date: 2014-07-11
Title: High-Dimensional Penalized Regression.
Authors@R: c(person("Quentin", "Grimonprez", role = c("aut","cre"), email = "quentin.grimonprez@inria.fr"), person("Serge", "Iovleff", role = "ctb"))
Copyright: inria 2013-2014 for HDPenReg. Serge Iovleff is the copyright holder of the c++ library STKpp.
Depends: methods
Imports: Rcpp
Description: This package contains algorithms for lasso and fused-lasso problems. It contains an implementation of the lars algorithm [1], for the lasso and fusion penalization and EM-based algorithms for (logistic) lasso and fused-lasso.
License: GPL (>= 2)
LinkingTo: Rcpp
SystemRequirements: GNU make
Packaged: 2014-07-16 12:04:43 UTC; grimonprez
Author: Quentin Grimonprez [aut, cre], Serge Iovleff [ctb]
Maintainer: Quentin Grimonprez
NeedsCompilation: yes
Repository: CRAN
Date/Publication: 2014-07-17 08:21:35

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Wed, 16 Jul 2014

New package hpcwld with initial version 0.4
Package: hpcwld
Version: 0.4
Date: 2014-07-01
Title: High Performance Cluster Models Based on Kiefer-Wolfowitz Recursion
Authors@R: c(person("Alexander", "Rumyantsev", role = c("aut", "cre"), email = "ar0@sampo.ru"))
Depends: R (>= 1.8.0)
Description: This package contains several models describing the behavior of workload and queue on a High Performance Cluster and computing GRID under FIFO service discipline basing on modified Kiefer-Wolfowitz recursion. Also sample data for inter-arrival times, service times, number of cores per task and waiting times of HPC of Karelian Research Centre are included, measurements took place from 06/03/2009 to 02/30/2011.
License: GPL (>= 2)
URL: http://www.r-project.org, http://cluster.krc.karelia.ru
Packaged: 2014-07-16 06:14:31 UTC; ar0
Author: Alexander Rumyantsev [aut, cre]
Maintainer: Alexander Rumyantsev
NeedsCompilation: no
Repository: CRAN
Date/Publication: 2014-07-16 09:52:58

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New package trimTrees with initial version 1.0
Package: trimTrees
Type: Package
Title: Trimmed opinion pools of trees in a random forest
Version: 1.0
Date: 2014-07-15
Depends: R (>= 2.5.0),stats,randomForest,mlbench
Author: Yael Grushka-Cockayne, Victor Richmond R. Jose, Kenneth C. Lichtendahl Jr. and Huanghui Zeng, based on the source code from the randomForest package by Andy Liaw and Matthew Wiener and on the original Fortran code by Leo Breiman and Adele Cutler.
Maintainer: Yael Grushka-Cockayne
Description: Creates point and probability forecasts from the trees in a random forest using a trimmed opinion pool.
Suggests: MASS
License: GPL (>= 2)
Packaged: 2014-07-16 01:26:19 UTC; Huanghui
NeedsCompilation: yes
Repository: CRAN
Date/Publication: 2014-07-16 07:46:05

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Tue, 15 Jul 2014

New package hillmakeR with initial version 0.2
Package: hillmakeR
Type: Package
Title: Perform occupancy analysis
Version: 0.2
Depends: R (>= 2.10)
URL: https://github.com/gilinson/hillmakeR
Date: 2014-07-14
Author: David Gilinson
Maintainer: David Gilinson
Description: Generate occupancy patterns based on arrival and departure timestamps
License: MIT + file LICENSE
LazyLoad: true
LazyData: true
Suggests: plyr
Packaged: 2014-07-15 17:17:39 UTC; dgilinson
NeedsCompilation: yes
Repository: CRAN
Date/Publication: 2014-07-16 01:13:38

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New package GCAI.bias with initial version 1.0
Package: GCAI.bias
Type: Package
Title: Guided Correction Approach for Inherited bias (GCAI.bias)
Version: 1.0
Date: 2014-07-14
Author: Guoshuai Cai
Maintainer: Guoshuai Cai
Description: Many inherited biases and effects exists in RNA-seq due to both biological and technical effects. We observed the biological variance of testing target transcripts can influence the yield of sequencing reads, which might indicate a resource competition existing in RNA-seq. We developed this package to capture the bias depending on local sequence and perform the correction of this type of bias by borrowing information from spike-in measurement.
License: GPL (>= 2)
LazyLoad: yes
Packaged: 2014-07-15 16:50:22 UTC; gcai
Depends: R (>= 2.10)
NeedsCompilation: no
Repository: CRAN
Date/Publication: 2014-07-16 01:07:26

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New package quad with initial version 1.0
Package: quad
Type: Package
Title: Exact permutation moments of quadratic form statistics
Version: 1.0
Date: 2014-07-05
Imports: PearsonDS
Author: Yi-Hui Zhou
Maintainer: Yi-Hui Zhou
Description: This package gives you the exact first four permutation moments for the most commonly used quadratic form statistics, which need not be positive definite. The extension of this work to quadratic forms greatly expands the utility of density approximations for these problems, including for high-dimensional applications, where the statistics must be extreme in order to exceed stringent testing thresholds. Approximate p-values are obtained by matching the exact moments to the Pearson family of distributions using the PearsonDS package.
License: GPL (>= 2)
LazyLoad: yes
Packaged: 2014-07-15 14:54:18 UTC; yzhou19
NeedsCompilation: no
Repository: CRAN
Date/Publication: 2014-07-15 17:09:05

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New package btf with initial version 1.0
Package: btf
Type: Package
Title: Estimates univariate function via Bayesian trend filtering
Version: 1.0
Date: 2014-07-14
Author: Edward A. Roualdes
Maintainer: Edward A. Roualdes
Description: Trend filtering uses the generalized lasso framework to fit an adaptive polynomial of degree k to estimate the function f_0 at each input x_i in the model: y_i = f_0(x_i) + epsilon_i, for i = 1, ..., n, and epsilon_i is sub-Gaussian with E(epsilon_i) = 0. Bayesian trend filtering adapts the genlasso framework to a fully Bayesian hierarchical model, estimating the penalty parameter lambda within a tractable Gibbs sampler.
License: GPL (>= 2.0)
Depends: R (>= 3.0.2)
Imports: Matrix, coda,
LinkingTo: Rcpp (>= 0.11.0), RcppEigen (>= 0.3.2.1.1)
NeedsCompilation: yes
Packaged: 2014-07-15 14:01:16 UTC; easy-e
Repository: CRAN
Date/Publication: 2014-07-15 16:42:44

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New package archdata with initial version 0.1
Package: archdata
Type: Package
Title: Example Datasets from Archaeological Research
Version: 0.1
Date: 2014-06-24
Author: David L. Carlson
Maintainer: David L. Carlson
Description: The archdata package provides several types of data that are typically used in archaeological research.
Suggests: circular, plotrix
License: GPL
Packaged: 2014-06-25 14:40:20 UTC; dcarlson
NeedsCompilation: no
Repository: CRAN
Date/Publication: 2014-07-15 16:42:42

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Mon, 14 Jul 2014

New package tuple with initial version 0.3-06
Package: tuple
Type: Package
Title: Find every match, or orphan, duplicate or triplicate values
Author: Emmanuel Lazaridis [aut, cre]
Maintainer: Emmanuel Lazaridis
Depends: R (>= 2.10.0)
Description: Functions to find all matches, or the orphan, duplicate or triplicate values in a vector.
License: LGPL-3
Encoding: UTF-8
LazyLoad: no
URL: http://statistics.lazaridis.eu
Authors@R: c(person(given = "Emmanuel", family = "Lazaridis", email="emmanuel@lazaridis.eu", role = c("aut", "cre")))
Version: 0.3-06
Date: 2014-07-14
Packaged: 2014-07-14 14:41:27 UTC; james
NeedsCompilation: no
Repository: CRAN
Date/Publication: 2014-07-14 23:32:30

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New package inTrees with initial version 1.0
Package: inTrees
Title: Interpret Tree Ensembles
Version: 1.0
Date: 2014-07-04
Imports: RRF, arules, gbm
Suggests: xtable
Author: Houtao Deng
Maintainer: Houtao Deng
Description: From a tree ensemble, extract, measure and prune rules; select a compact rule set; summarize rules into a learner; calculate frequent variable interactions.
URL: https://sites.google.com/site/houtaodeng/intrees
License: GPL (>= 3)
Packaged: 2014-07-14 17:51:04 UTC; hdeng1
NeedsCompilation: no
Repository: CRAN
Date/Publication: 2014-07-14 23:25:56

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New package FatTailsR with initial version 1.0-3
Package: FatTailsR
Title: Power Hyperbolic Functions and Kiener Distributions
Description: A set of functions to manipulate power hyperbolas, power hyperbolic functions and Kiener distributions of type I, II, III and IV which exhibit left and right fat tails like those that occur in financial markets. These distributions can be used to estimate with a high accuracy market risks and value-at-risk.
URL: http://www.inmodelia.com/fattailsr-en.html
Version: 1.0-3
Date: 2014-07-14
Author: Patrice Kiener
Maintainer: Patrice Kiener
Depends: R (>= 3.1.0)
Imports: minpack.lm
Suggests: timeSeries, timeDate
License: GPL-2
LazyData: true
NeedsCompilation: no
Collate: 'FatTailsR-package.r' 'trigohp.R' 'logishp.R' 'conversion.R' 'kiener1.R' 'kiener2.R' 'kiener3.R' 'kiener4.R' 'regression.R'
Packaged: 2014-07-14 19:50:23 UTC; Patrice
Repository: CRAN
Date/Publication: 2014-07-14 23:24:37

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New package IDPSurvival with initial version 1.0
Package: IDPSurvival
Version: 1.0
Date: 2014-07-14
Title: Imprecise Dirichlet Process for Survival Analysis
Author: Francesca Mangili , Alessio Benavoli , Cassio P. de Campos , Marco Zaffalon
Maintainer: Francesca Mangili
Depends: R (>= 3.0.2), Rsolnp, gtools, survival
Description: This package contains functions to perform robust nonparametric survival analysis with right censored data using a prior near-ignorant Dirichlet Process.
License: GPL (>= 3) | file LICENSE
URL: http://ipg.idsia.ch/software/
Packaged: 2014-07-14 12:07:03 UTC; graycassio
NeedsCompilation: no
Repository: CRAN
Date/Publication: 2014-07-14 14:50:08

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New package enviPick with initial version 1.0
Package: enviPick
Type: Package
Title: Peak picking for high resolution mass spectrometry data
Version: 1.0
Date: 2014-07-14
Author: Martin Loos
Maintainer: Martin Loos
Description: Sequential partitioning, clustering and peak detection of centroided LC-MS mass spectrometry data (.mzXML). Interactive result and raw data plot.
License: GPL (>= 2)
Depends: R (>= 3.0.1), shiny(>= 0.7.0), readMzXmlData(>= 2.7)
Packaged: 2014-07-14 11:49:42 UTC; uchemadmin
NeedsCompilation: yes
Repository: CRAN
Date/Publication: 2014-07-14 14:50:11

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Sun, 13 Jul 2014

New package QoLR with initial version 1.0
Package: QoLR
Version: 1.0
Date: 2014-07-13
Title: Analysis of Health-Related Quality of Life in oncology
Author: Amelie Anota
Maintainer: Amelie Anota
Depends: R (>= 2.10.0), survival, zoo
Description: To generate the scores of the EORTC QLQ-C30 questionnaire and supplementary modules and to determine the time to quality of life score deterioration in longitudinal analysis.
License: GPL (>= 2.0)
Packaged: 2014-07-13 07:55:28 UTC; Amlie
NeedsCompilation: no
Repository: CRAN
Date/Publication: 2014-07-13 13:02:36

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New package pgmm with initial version 1.1
Package: pgmm
Type: Package
Title: Parsimonious Gaussian mixture models
Version: 1.1
Date: 2014-07-12
Author: Paul McNicholas, Raju Jampani, Aaron McDaid, Brendan Murphy, Larry Banks
Maintainer: Paul McNicholas
Description: Carries out model-based clustering or classification using parsimonious Gaussian mixture models.
License: GPL (>= 2)
LazyLoad: yes
Packaged: 2014-07-12 17:28:12 UTC; paul
NeedsCompilation: yes
Repository: CRAN
Date/Publication: 2014-07-13 08:19:14

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New package dbarts with initial version 0.8-2
Package: dbarts
Version: 0.8-2
Date: 2014-07-12
Title: Discrete Bayesian Additive Regression Trees Sampler
Author: Hugh Chipman , Robert McCulloch , Vincent Dorie
Maintainer: Vincent Dorie
Depends: R (>= 3.0-0)
Imports: methods, stats
Suggests: testthat
Description: Fits Bayesian additive regression trees (BART) while allowing the updating of predictors or response so that BART can be incorporated as a conditional model in a Gibbs/MH sampler. Also serves as a drop-in replacement for package BayesTree.
NeedsCompilation: yes
License: GPL (>= 2)
URL: https://github.com/vdorie/dbarts
BugReports: https://github.com/vdorie/dbarts/issues
Packaged: 2014-07-13 00:38:09 UTC; vdorie
Repository: CRAN
Date/Publication: 2014-07-13 08:15:40

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Sat, 12 Jul 2014

New package imputeLCMD with initial version 1.0
Package: imputeLCMD
Type: Package
Title: A collection of methods for left-censored missing data imputation
Version: 1.0
Date: 2014-07-04
Author: Cosmin Lazar
Maintainer: Cosmin Lazar
Description: The package contains a collection of functions for left-censored missing data imputation. Left-censoring is a special case of missing not at random (MNAR) mechanism that generates non-responses in proteomics experiments. The package also contains functions to artificially generate peptide/protein expression data (log-transformed) as random draws from a multivariate Gaussian distribution as well as a function to generate missing data (both randomly and non-randomly). For comparison reasons, the package also contains several wrapper functions for the imputation of non-responses that are missing at random.
License: GPL (>= 2)
Depends: R (>= 2.10), tmvtnorm, norm, pcaMethods, impute
Packaged: 2014-07-12 18:51:48 UTC; cosminlazar
NeedsCompilation: no
Repository: CRAN
Date/Publication: 2014-07-13 00:40:33

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New package BayesNetDiscovery with initial version 0.1
Package: BayesNetDiscovery
Type: Package
Title: Bayesian Network Discovery
Version: 0.1
Description: This package provides efficient Bayesian nonparametric models for network discovery
Depends: R (>= 3.0.3)
License: GPL-2
Imports: DPpackage,igraph,mclust,pscl,tmvtnorm
Packaged: 2014-07-12 17:34:24 UTC; Zhou Lan
Author: Zhou Lan, Jian Kang, Tianwei Yu, Yize Zhao
Maintainer: Zhou Lan
NeedsCompilation: no
Repository: CRAN
Date/Publication: 2014-07-13 00:40:10

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Fri, 11 Jul 2014

New package refund.wave with initial version 0.1
Package: refund.wave
Type: Package
Title: Wavelet-Domain Regression with Functional Data
Version: 0.1
Date: 2014-07-03
Author: Lan Huo, Philip Reiss and Yihong Zhao
Maintainer: Adam Ciarleglio
Depends: R (>= 2.14.0), glmnet, wavethresh
Description: Methods for regressing scalar responses on functional or image predictors, via transformation to the wavelet domain and back.
License: GPL (>= 2)
LazyLoad: yes
Repository: CRAN
Collate: 'decomp.R' 'decomp2d.R' 'decomp3d.R' 'reconstr.R' 'reconstr2d.R' 'reconstr3d.R' 'wcr.R' 'wcr.perm.R' 'wnet.R' 'wnet.perm.R' 'wUtil.R' 'plot.wnet-and-plot.wcr.R' 'Data2wd.R' 'wd2fhat.R'
Packaged: 2014-07-11 18:19:29 UTC; adamciarleglio
NeedsCompilation: no
Date/Publication: 2014-07-11 23:41:47

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New package popKorn with initial version 0.3-0
Package: popKorn
Type: Package
Title: For interval estimation of mean of selected populations
Version: 0.3-0
Date: 2014-07-04
Author: Vik Gopal, Claudio Fuentes
Maintainer: Vik Gopal
Depends: R (>= 3.0.0), boot
Suggests: plotrix
Description: Provides a suite of tools for various methods of estimating confidence intervals for the mean of selected populations.
License: MIT + file LICENSE
LazyLoad: yes
Packaged: 2014-07-11 14:13:12 UTC; viknesh
NeedsCompilation: no
Repository: CRAN
Date/Publication: 2014-07-11 16:45:25

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Thu, 10 Jul 2014

New package seedy with initial version 0.1
Package: seedy
Type: Package
Title: Simulation of Evolutionary and Epidemiological Dynamics
Version: 0.1
Date: 2014-07-08
Author: Colin Worby
Maintainer: Colin Worby
Description: Suite of functions for the simulation and visualisation of bacterial evolution within- and between-host.
License: GPL-3
Packaged: 2014-07-10 22:17:41 UTC; cworby
NeedsCompilation: no
Repository: CRAN
Date/Publication: 2014-07-11 00:33:32

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New package robustvarComp with initial version 0.1-2
Title: Robust Estimation of Variance Component Models.
LazyLoad: yes
LazyData: yes
Package: robustvarComp
Version: 0.1-2
Author: Claudio Agostinelli and Victor J. Yohai
Maintainer: Claudio Agostinelli
Depends: R (>= 2.15.1)
Imports: robustbase, GSE, numDeriv, robust, plyr
Suggests: nlme, Matrix, mvtnorm, WWGbook
Date: July, 10, 2014.
Description: Robust Estimation of Variance Component Models by classic and composite robust procedures. The composite procedures are robust against outliers generated by the Independent Contamination Model.
License: GPL-2
Packaged: 2014-07-10 12:15:30 UTC; claudio
NeedsCompilation: yes
Repository: CRAN
Date/Publication: 2014-07-10 16:42:53

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New package FADA with initial version 1.0
Package: FADA
Type: Package
Title: Variable selection for supervised classification in high dimension
Version: 1.0
Date: 2014-06-11
Author: Emeline Perthame (Agrocampus Ouest, Rennes, France), Chloe Friguet (Universite de Bretagne Sud, Vannes, France) and David Causeur (Agrocampus Ouest, Rennes, France)
Maintainer: David Causeur
Description: The functions provided in the FADA (Factor Adjusted Discriminant Analysis) package aim at performing supervised classification models and variable selection on dependent covariates. The classification procedures are combined with a factor modeling of dependence among covariates. The available procedures are Lasso regularized logistic model (see Friedman et al. (2010)), sparse linear discriminant analysis (see Clemmensen et al. (2011)), shrinkage linear and diagonal discriminant analysis (see M. Ahdesmaki et al. (2010)).
License: GPL (>= 2)
Depends: MASS, elasticnet
Imports: sparseLDA,sda,glmnet,mnormt
Packaged: 2014-07-10 10:20:42 UTC; Emeline
NeedsCompilation: no
Repository: CRAN
Date/Publication: 2014-07-10 16:42:51

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New package StatMethRank with initial version 1.0
Package: StatMethRank
Type: Package
Title: Statistical Methods for Ranking Data
Version: 1.0
Date: 2014-05-27
Author: Li Qinglong
Maintainer: Li Qinglong
Description: Functions and datasets to support Statistical Methods for Ranking Data by Mayer Alvo and Philip L.H. Yu(2014)
Depends: MASS, utils, rjags, pmr
License: GPL-2
Packaged: 2014-07-10 05:38:34 UTC; zfy1989lee
NeedsCompilation: no
Repository: CRAN
Date/Publication: 2014-07-10 08:45:39

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New package pRSR with initial version 3.0.2
Package: pRSR
Type: Package
Title: Test of periodicity using response surface regression
Version: 3.0.2
Date: 2014-07-10
Author: M. S. Islam
Maintainer: M. S. Islam
Depends: R (>= 2.10)
Description: Test of periodicity in short time series using response surface regression
Classification/ACM: G.3, G.4, I.5.1
Classification/MSC: 62M10, 91B84
LazyData: yes
License: GPL (>= 2)
Packaged: 2014-07-09 19:06:20 UTC; HadiaIslam
NeedsCompilation: yes
Repository: CRAN
Date/Publication: 2014-07-10 08:45:44

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New package mvglmmRank with initial version 1.0-2
Package: mvglmmRank
Type: Package
Title: Multivariate Generalized Linear Mixed Models for Ranking Sports Teams
Version: 1.0-2
Depends: Matrix, numDeriv
Date: 2014-06-22
Author: Andrew T. Karl (Adsurgo LLC), Jennifer Broatch (Arizona State University)
Maintainer: Andrew T. Karl
Description: Maximum likelihood estimates are obtained via an EM algorithm with either a first-order or a fully exponential Laplace approximation.
ByteCompile: yes
LazyLoad: yes
LazyData: yes
License: GPL-2
Packaged: 2014-07-10 04:27:04 UTC; Andrew
NeedsCompilation: no
Repository: CRAN
Date/Publication: 2014-07-10 07:34:05

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New package metafolio with initial version 0.1.0
Package: metafolio
Type: Package
Title: Metapopulation simulations for conserving salmon through portfolio optimization
Version: 0.1.0
Date: 2014-07-09
Authors@R: c(person(c("Sean", "C."), "Anderson", email = "sean@seananderson.ca", role = c("aut", "cre")), person(c("Jonathan", "W."), "Moore", role = "ctb"), person(c("Michelle", "M."), "McClure", role = "ctb"), person(c("Nicholas", "K."), "Dulvy", role = "ctb"), person(c("Andrew", "B."), "Cooper", role = "ctb"))
Description: The metafolio R package is a tool to simulate salmon metapopulations and apply financial portfolio optimization concepts. The package accompanies the paper 'Portfolio conservation of metapopulations under climate change'. See citation("metafolio").
Maintainer: Sean C. Anderson
License: GPL-2
URL: http://github.com/seananderson/metafolio
BugReports: http://github.com/seananderson/metafolio/issues
VignetteBuilder: knitr
Depends: R (>= 3.1.0)
LinkingTo: Rcpp, RcppArmadillo
Imports: Rcpp (>= 0.11.2), plyr, colorspace, MASS
Suggests: knitr, devtools, TeachingDemos, RColorBrewer, reshape2
Packaged: 2014-07-10 05:35:22 UTC; seananderson
Author: Sean C. Anderson [aut, cre], Jonathan W. Moore [ctb], Michelle M. McClure [ctb], Nicholas K. Dulvy [ctb], Andrew B. Cooper [ctb]
NeedsCompilation: yes
Repository: CRAN
Date/Publication: 2014-07-10 08:45:42

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Wed, 09 Jul 2014

New package PepPrep with initial version 1.0.0
Package: PepPrep
Type: Package
Classification/ACM: Computational genomics, Computational transcriptomics
Title: Insilico peptide mutation, digestion and homologous comparison.
Version: 1.0.0
Date: 2014-01-31
Author: Rafael Dellen
Maintainer: Rafael Dellen
Description: Amino acid exchange based on single nucleotide variant (SNV) information and tryptic digestion on peptide sequence. Searching for homologous by comparison of tryptic digested peptide sequences.
License: GPL-3
Depends: biomaRt, stringr
Packaged: 2014-07-09 12:28:36 UTC; dellen
NeedsCompilation: no
Repository: CRAN
Date/Publication: 2014-07-10 00:22:55

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New package CNOGpro with initial version 1.0
Package: CNOGpro
Type: Package
Title: Copy Numbers of Genes in prokaryotes
Version: 1.0
Date: 2014-06-27
Author: Ola Brynildsrud, Lars-Gustav Snipen
Maintainer: Ola Brynildsrud
Description: Methods for assigning copy number states and breakpoints in resequencing experiments of prokaryotic organisms.
License: GPL-2
Depends: seqinr
Packaged: 2014-07-09 09:11:53 UTC; olabrynildsrud
NeedsCompilation: no
Repository: CRAN
Date/Publication: 2014-07-09 12:12:21

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New package translateR with initial version 1.0
Package: translateR
Type: Package
Title: Bindings for the Google and Microsoft Translation APIs
Version: 1.0
Author: Christopher Lucas and Dustin Tingley
Maintainer: Christopher Lucas
Description: translateR provides easy access to the Google and Microsoft APIs. The package is easy to use with the related R package "stm" for the estimation of multilingual topic models.
Imports: RJSONIO,RCurl,textcat,parallel,httr
License: GPL-3
Packaged: 2014-07-09 01:59:50 UTC; christopher
NeedsCompilation: no
Repository: CRAN
Date/Publication: 2014-07-09 08:21:30

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New package crossReg with initial version 1.0
Package: crossReg
Type: Package
Title: Confidence intervals for crossover points of two simple regression lines
Version: 1.0
Date: 2014-07-08
Author: Sunbok Lee
Maintainer: Sunbok Lee
Description: This package provides functions to calculate confidence intervals for crossover points of two simple linear regression lines using the non-linear regression, the delta method, the Fieller method, and the bootstrap methods.
Suggests: boot, MASS
License: GPL-2
Packaged: 2014-07-09 01:34:59 UTC; sunblee
NeedsCompilation: no
Repository: CRAN
Date/Publication: 2014-07-09 08:18:12

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Tue, 08 Jul 2014

New package MGSDA with initial version 1.0
Package: MGSDA
Type: Package
Title: Multi-Group Sparse Discriminant Analysis
Version: 1.0
Date: 2014-07-07
Author: Irina Gaynanova
Maintainer: Irina Gaynanova
Description: Implements Multi-Group Sparse Discriminant Analysis proposal of 'I.Gaynanova, J.Booth and M.Wells (2014), Simultaneous sparse estimation of canonical vectors in the p>>N setting'
Imports: glmnet
License: GPL (>= 2)
Packaged: 2014-07-08 15:21:34 UTC; irinagain
NeedsCompilation: yes
Repository: CRAN
Date/Publication: 2014-07-08 23:39:44

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New package sievetest with initial version 1.2.2
Package: sievetest
Type: Package
Title: Sieve test reporting functions.
Version: 1.2.2
Date: 2014-07-08
Author: Petr Matousu
Maintainer: Petr Matousu
Description: Functions for making sieve test reports. Sieve test is widely used to obtain particle-size distribution of powders or granular materials.
Depends: R (>= 3.1.0)
License: GPL (>= 2)
Packaged: 2014-07-08 16:00:38 UTC; pmatousu
NeedsCompilation: no
Repository: CRAN
Date/Publication: 2014-07-08 19:18:14

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New package RmixmodCombi with initial version 1.0
Package: RmixmodCombi
Type: Package
Title: Combining Mixture Components for Clustering
Version: 1.0
Date: 2013-03-04
Author: J.-P. Baudry and G. Celeux
Maintainer: J.-P. Baudry
Description: The Rmixmod package provides model-based clustering by fitting a mixture model (e.g. Gaussian components for quantitative continuous data) to the data and identifying each cluster with one of its components. The number of components can be determined from the data, typically using the BIC criterion. In practice, however, individual clusters can be poorly fitted by Gaussian distributions, and in that case model-based clustering tends to represent one non-Gaussian cluster by a mixture of two or more Gaussian components. If the number of mixture components is interpreted as the number of clusters, this can lead to overestimation of the number of clusters. This is because BIC selects the number of mixture components needed to provide a good approximation to the density. This package, RmixmodCombi, according to \emph{Combining Mixture Components for Clustering} by J.P. Baudry, A.E. Raftery, G. Celeux, K. Lo, R. Gottardo, combines the components of the EM/BIC solution (provided by Rmixmod) hierarchically according to an entropy criterion. This yields a clustering for each number of clusters less than or equal to K. These clusterings can be compared on substantive grounds, and we also provide a way of selecting the number of clusters via a piecewise linear regression fit to the (possibly rescaled) entropy plot.
License: GPL-3
Depends: R(>= 3.0.2), Rmixmod(>= 2.0.1), Rcpp(>= 0.8.0), methods, graphics
Packaged: 2014-07-08 12:08:36 UTC; JP
NeedsCompilation: no
Repository: CRAN
Date/Publication: 2014-07-08 19:17:05

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New package simTool with initial version 1.0
Package: simTool
Type: Package
Title: An easy to learn framework to conduct simulation studies which disengages the researcher from administrative source code.
Version: 1.0
Date: 2013-02-21
Author: Marsel Scheer
Maintainer: Marsel Scheer
Description: The simTool package is designed for statistical simulations that have two components. One component generates the data and the other one analyzes the data. The main aims of the simTool package are the reduction of the administrative source code (mainly loops) and a simple applicability of the package that allows the user to quickly learn how to work with the simTool package. Parallel computing is also supported. Finally, convenient functions are provided to summarize the simulation results.
Depends: R (>= 2.14.0)
Imports: plyr (>= 1.8.1), reshape (>= 0.8.5)
Suggests: ggplot2, knitr, parallel, boot, RUnit
License: GPL-3
VignetteBuilder: knitr
Packaged: 2014-07-07 18:40:36 UTC; m
NeedsCompilation: no
Repository: CRAN
Date/Publication: 2014-07-08 07:49:32

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New package RcmdrPlugin.ROC with initial version 1.0-16
Package: RcmdrPlugin.ROC
Type: Package
Title: Rcmdr Receiver Operator Characteristic Plug-In package
Version: 1.0-16
Date: 2014-07-07
Author: Daniel-Corneliu Leucuta , Mihaela Hedesiu, Andrei Achimas, Oana Almasan
Maintainer: Daniel-Corneliu Leucuta
Depends: R (>= 2.10), Rcmdr (>= 1.7.0), pROC, ROCR, ResourceSelection, PredictABEL
Description: This package provides a Rcmdr GUI extension plug-in for Receiver Operator Characteristic tools from pROC and ROCR packages. Also it ads a Rcmdr GUI extension for Hosmer and Lemeshow GOF test from the package ResourceSelection, reclassification table, categorical and continuous net reclassification improvement (NRI) and integrated discrimination improvement (IDI) from the PredictABEL package.
License: GPL (>= 2)
Packaged: 2014-07-07 20:31:54 UTC; danny
NeedsCompilation: no
Repository: CRAN
Date/Publication: 2014-07-08 07:49:25

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New package ParallelForest with initial version 1.0.0
Package: ParallelForest
Version: 1.0.0
Date: 2014-07-07
Title: Random Forest Classification with Parallel Computing
Authors@R: c(person("Bertram", "Ieong", role=c("aut","cre","cph"), email="contactme@bertramieong.com"))
Depends: R (>= 2.10), methods
Suggests: knitr
Description: R package implementing random forest classification using parallel computing, built with Fortran and OpenMP in the backend.
License: AGPL-3
URL: https://github.com/bert9bert/ParallelForest
BugReports: https://github.com/bert9bert/ParallelForest/issues
NeedsCompilation: yes
VignetteBuilder: knitr
Packaged: 2014-07-07 23:51:43 UTC; bert
Author: Bertram Ieong [aut, cre, cph]
Maintainer: Bertram Ieong
Repository: CRAN
Date/Publication: 2014-07-08 07:41:42

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Mon, 07 Jul 2014

New package meteoForecast with initial version 0.31
Package: meteoForecast
Type: Package
Title: Retrieve meteorological forecast from Meteogalicia and OpenMeteo services
Version: 0.31
Date: 2014-07-07
Authors@R: c(person("Oscar", "Perpinan Lamigueiro", email="oscar.perpinan@gmail.com", role=c('cre', 'aut')), person("Marcelo", "Almeida", email= "marcelopa@iee.usp.br", role='ctb'))
Description: Retrieve meteorological forecast from Meteogalicia and OpenMeteo services
URL: http://github.com/oscarperpinan/meteoForecast
License: GPL-3 | file LICENSE
Depends: raster, sp, zoo
Imports: ncdf, rjson
Suggests: ncdf4, rgdal, lattice, rasterVis
Packaged: 2014-07-07 13:17:41 UTC; oscar
Author: Oscar Perpinan Lamigueiro [cre, aut], Marcelo Almeida [ctb]
Maintainer: Oscar Perpinan Lamigueiro
NeedsCompilation: no
Repository: CRAN
Date/Publication: 2014-07-07 15:42:08

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New package MCAvariants with initial version 1.0
Package: MCAvariants
Type: Package
Title: Multiple Correspondence Analysis Variants
Version: 1.0
Date: 2014-06-27
Author: Rosaria Lombardo
Maintainer: Rosaria Lombardo
Description: Classical multiple correspondence analysis and multiple correspondence analysis via orthogonal polynomials
Depends: methods
License: GPL
Packaged: 2014-07-07 08:05:16 UTC; utente
NeedsCompilation: no
Repository: CRAN
Date/Publication: 2014-07-07 11:57:28

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New package ONETr with initial version 0.1-1
Package: ONETr
Type: Package
Title: Efficient authenticated interaction with the O*NET API.
Version: 0.1-1
Date: 2014-06-18
Author: Eric Knudsen
Maintainer: Eric Knudsen
Description: This package provides a series of functions designed to enable users to easily search and interact with occupational data from the O*NET API . The package produces parsed and listed XML data for custom interactions, or pre-packaged functions for easy extraction of specific data (e.g., Knowledge, Skills, Abilities, Work Styles, etc.).
Depends: XML, RCurl
License: GPL-3
Packaged: 2014-07-07 06:10:36 UTC; ripley
NeedsCompilation: no
Repository: CRAN
Date/Publication: 2014-07-07 08:12:39

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Sun, 06 Jul 2014

New package RCryptsy with initial version 0.1
Package: RCryptsy
Type: Package
Title: Access to Cryptsy Crypto-Currency Exchange Public Information API via R
Version: 0.1
Date: 2014-07-05
Author: William Kyle Hamilton
Maintainer: William Kyle Hamilton
Description: Basic Public API for the Crypto-Currency exchange Cryptsy
Depends: R (>= 3.0.3), RJSONIO, RCurl
License: GPL-3
URL: https://github.com/kylehamilton/RCryptsy
BugReports: https://github.com/kylehamilton/RCryptsy/issues
Packaged: 2014-07-06 07:51:08 UTC; Kyle
NeedsCompilation: no
Repository: CRAN
Date/Publication: 2014-07-06 16:53:59

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Sat, 05 Jul 2014

New package rkvo with initial version 0.1
Package: rkvo
Title: Read Key/Value Pair Observations
Version: 0.1
Type: Package
Authors@R: c( person("Vehbi Sinan", "Tunalioglu", email="vst@vsthost.com", role=c("aut", "cre")))
Description: This package provides functionality to read files containing observations which consist of arbitrary key/value pairs.
Depends: R (>= 3.1.0)
Imports: Rcpp (>= 0.11)
License: GPL-3
LazyData: true
LinkingTo: Rcpp
Packaged: 2014-07-05 20:44:05 UTC; vst
Author: Vehbi Sinan Tunalioglu [aut, cre]
Maintainer: Vehbi Sinan Tunalioglu
NeedsCompilation: yes
Repository: CRAN
Date/Publication: 2014-07-06 00:16:50

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New package ForIT with initial version 1.0
Package: ForIT
Type: Package
Title: Functions from the 2nd Italian Forest Inventory (INFC)
Version: 1.0
Date: 2014-07-04
Author: Nicola Puletti, Marco Mura, Cristiano Castaldi, Maurizio Marchi, Ugo Chiavetta, Roberto Scotti
Maintainer: Nicola Puletti
Description: This package provides estimates of tree volume and biomass from Italian NFI models
License: GPL-3
LazyLoad: yes
LazyData: yes
NeedsCompilation: no
Packaged: 2014-07-05 06:45:25 UTC; nicolapuletti
Repository: CRAN
Date/Publication: 2014-07-05 10:01:58

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New package CINOEDV with initial version 1.0
Package: CINOEDV
Type: Package
Title: Co-Information based N-Order Epistasis Detector and Visualizer
Version: 1.0
Date: 2014-05-02
Author: Junliang Shang
Maintainer: Junliang Shang
Description: A package for detecting and visualizing high-order epistatic interactions
License: GPL-2
LazyLoad: yes
Depends: R.matlab, igraph, ggplot2, reshape2
Packaged: 2014-07-05 00:54:41 UTC; junliangshang
NeedsCompilation: no
Repository: CRAN
Date/Publication: 2014-07-05 10:01:53

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Fri, 04 Jul 2014

New package CompGLM with initial version 1.0
Package: CompGLM
Type: Package
Title: Conway-Maxwell-Poisson GLM and distribution functions
Version: 1.0
Date: 2014-07-01
Author: Jeffrey Pollock
Maintainer: Jeffrey Pollock
Description: The package contains a function (which uses a similar interface to the `glm' function) for the fitting of a Conway-Maxwell-Poisson GLM. There are also various methods for analysis of the model fit. The package also contains functions for the Conway-Maxwell-Poisson distribution in a similar interface to functions `dpois', `ppois' and `rpois'. The functions are generally quick, since the workhorse functions are written in C++ (thanks to the Rcpp package).
License: GPL (>= 2)
Imports: Rcpp (>= 0.11.2), stats
LinkingTo: Rcpp
Suggests: RUnit
Packaged: 2014-07-04 16:48:10 UTC; jeff
NeedsCompilation: yes
Repository: CRAN
Date/Publication: 2014-07-04 21:25:03

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New package epi2loc with initial version 1.0-1
Package: epi2loc
Type: Package
Title: Epistatic and penetrance models for two-locus genetic interactions
Version: 1.0-1
Date: 2014-5-12
Author: Raymond Walters, Charles Laurin, Gitta Lubke
Maintainer: Raymond Walters
Imports: pwr
Suggests: asypow
Description: The 'epi2loc' package provides a set of utilities for using common models of epistasis. Interactions between two biallelic loci (e.g. SNPs) can easily be represented using GLM regression parameters, penetrance models, or variance components. Functions are included for conversion among these common interaction models, as well as data generation, power analysis, and effect size measures.
License: GPL (>= 2)
LazyLoad: yes
Packaged: 2014-05-12 16:55:12 UTC; rwalters
NeedsCompilation: no
Repository: CRAN
Date/Publication: 2014-07-04 17:23:01

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New package COPASutils with initial version 0.1
Package: COPASutils
Title: Tools for processing COPAS large-particle flow cytometer data
Version: 0.1
Author: Tyler Shimko , Erik Andersen
Maintainer: Erik Andersen
Description: A logical workflow for the reading, processing, and visualization of data obtained from the Union Biometrica Complex Object Parametric Analyzer and Sorter (COPAS) platform large-particle flow cytometers and a powerful suite of functions for the rapid processing and analysis of large high-throughput screening data sets. It combines the speed of dplyr with the elegance of ggplot2 to make analysis of COPAS data fast and painless.
Depends: R (>= 3.0), ggplot2 (>= 0.9), reshape2 (>= 1.0)
Imports: dplyr (>= 0.2), kernlab (>= 0.9), stringr (>= 0.6), knitr (>= 1.6)
License: GPL (>= 2)
LazyData: TRUE
VignetteBuilder: knitr
Packaged: 2014-07-04 15:01:10 UTC; tylershimko
NeedsCompilation: no
Repository: CRAN
Date/Publication: 2014-07-04 17:22:55

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New package SOD with initial version 1.0
Package: SOD
Type: Package
Title: SOD for multidimensional scaling.
Version: 1.0
Date: 2013-10-10
Author: Martin Jakt
Maintainer: Martin Jakt
Description: SOD (Self-Organising-Deltoids) provides multidimensional scaling by gradually reducing the dimensionality of an initial space and using the resulting stress in the configuration to re-arrange nodes. Stress is calculated from the errors in the inter-node distances, and the sum of the stresses at each node is combined to create N-dimensional force vectors that direct the movement of nodes as the dimensionality is iteratively reduced.
License: GPL-2
Depends: methods, Rcpp (>= 0.10.5)
LinkingTo: Rcpp
RcppModules: mod_R_DimSqueezer
NeedsCompilation: yes
Packaged: 2014-07-04 07:46:47 UTC; martin
Repository: CRAN
Date/Publication: 2014-07-04 13:39:20

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New package lvm4net with initial version 0.1
Package: lvm4net
Title: Latent Variable Models for Networks
Description: Latent variable models for network data using fast inferential procedures.
Version: 0.1
Author: Isabella Gollini
Maintainer: Isabella Gollini
Depends: R (>= 3.0.2), ergm, ellipse
Imports: igraph
License: GPL (>= 2)
LazyData: true
Packaged: 2014-07-04 09:25:38 UTC; isagol
NeedsCompilation: no
Repository: CRAN
Date/Publication: 2014-07-04 13:39:23

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Thu, 03 Jul 2014

New package qualCI with initial version 0.1
Package: qualCI
Version: 0.1
Date: 2014-07-01
Title: Causal Inference with Qualitative and Ordinal Information on Outcomes
Author: Konstantin Kashin , Adam Glynn , Nahomi Ichino
Maintainer: Konstantin Kashin
Depends: R (>= 2.15.0)
Imports: combinat
Description: Exact one-sided p-values and confidence intervals for an outcome variable defined on an interval measurement scale with only qualitative and ordinal information available.
License: GPL (>= 2)
BugReports: https://github.com/kkashin/qualCI/issues
Packaged: 2014-07-03 15:37:03 UTC; Kostya
NeedsCompilation: no
Repository: CRAN
Date/Publication: 2014-07-03 20:59:31

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New package mcc with initial version 1.0
Package: mcc
Type: Package
Title: Moment Corrected Correlation
Version: 1.0
Date: 2014-07-03
Author: Yi-Hui Zhou
Description: A number of biomedical problems involve performing many hypothesis tests, with an attendant need to apply stringent thresholds. Often the data take the form of a series of predictor vectors, each of which must be compared with a single response vector, perhaps with nuisance covariates. Parametric tests of association are often used, but can result in inaccurate type I error at the extreme thresholds, even for large sample sizes. Furthermore, standard two-sided testing can reduce power compared to the doubled p-value, due to asymmetry in the null distribution. Exact (permutation) testing approaches are attractive, but can be computationally intensive and cumbersome. MCC is an approximation to exact association testing of two vectors that is accurate and fast enough for standard use in high-throughput settings, and can easily provide standard two-sided or doubled p-values.
Maintainer: Yi-Hui Zhou
License: GPL (>= 2)
LazyLoad: yes
Packaged: 2014-07-03 15:54:51 UTC; yzhou19
NeedsCompilation: no
Repository: CRAN
Date/Publication: 2014-07-03 20:59:30

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