Mon, 06 Jul 2015

New package iBATCGH with initial version 1.3
Package: iBATCGH
Version: 1.3
Date: 2015-07-06
Title: Integrative Bayesian Analysis of Transcriptomic and CGH Data
Author: Alberto Cassese
Maintainer: Alberto Cassese <alberto.cassese@maastrichtuniversity.nl>
Depends: R (>= 2.10)
Imports: Rcpp (>= 0.11.2), msm
LinkingTo: Rcpp, RcppArmadillo
Description: Bayesian integrative models of gene expression and comparative genomic hybridization data. The package provides inference on copy number variations and their association with gene expression.
License: GPL-2
URL: http://www.r-project.org
Packaged: 2015-07-06 11:35:00 UTC; Alberto.Cassese
NeedsCompilation: yes
Repository: CRAN
Date/Publication: 2015-07-06 19:31:05

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New package WiSEBoot with initial version 1.0.0
Package: WiSEBoot
Type: Package
Title: Wild Scale-Enhanced Bootstrap
Version: 1.0.0
Date: 2015-06-18
Author: Megan Heyman, Snigdhansu Chatterjee
Maintainer: Megan Heyman <heyma029@umn.edu>
Description: Perform the Wild Scale-Enhanced (WiSE) bootstrap. Specifically, the user may supply a single or multiple equally-spaced time series and use the WiSE bootstrap to select a wavelet-smoothed model. Conversely, a pre-selected smooth level may also be specified for the time series. Quantities such as the bootstrap sample of wavelet coefficients, smoothed bootstrap samples, and specific hypothesis testing and confidence region results of the wavelet coefficients may be obtained. Additional functions are available to the user which help format the time series before analysis. This methodology is recommended to aid in model selection and signal extraction. Note: This package specifically uses wavelet bases in the WiSE bootstrap methodology, but the theoretical construct is much more versatile.
License: GPL-2
Depends: wavethresh
VignetteBuilder: knitr
Suggests: knitr
Packaged: 2015-07-06 01:34:14 UTC; heyman
NeedsCompilation: no
Repository: CRAN
Date/Publication: 2015-07-06 06:31:25

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New package pid with initial version 0.13
Package: pid
Title: Process Improvement using Data
Version: 0.13
Date: 2015-07-03
Authors@R: c(person("Kevin", "Dunn", role = c("aut", "cre"), email = "kevin.dunn@mcmaster.ca"))
Author: Kevin Dunn [aut, cre]
Maintainer: Kevin Dunn <kevin.dunn@mcmaster.ca>
Depends: R (>= 2.15.0), ggplot2, stats
Suggests: MASS
Description: A collection of scripts and data files for the statistics text: "Process Improvement using Data". The package contains code for designed experiments, data sets and other convenience functions used in the book.
License: BSD_2_clause + file LICENSE
URL: http://learnche.org/pid
NeedsCompilation: no
BugReports: https://bitbucket.org/kevindunn/r-pid
Packaged: 2015-07-06 02:22:40 UTC; kevindunn
Repository: CRAN
Date/Publication: 2015-07-06 06:31:27

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Sun, 05 Jul 2015

New package googlesheets with initial version 0.1.0
Package: googlesheets
Title: Manage Google Spreadsheets from R
Version: 0.1.0
Description: Interact with Google Sheets from R.
Authors@R: c( person("Jennifer", "Bryan", , "jenny@stat.ubc.ca", c("aut", "cre")), person("Joanna", "Zhao", , "joanna.zhao@alumni.ubc.ca", role = "aut") )
URL: https://github.com/jennybc/googlesheets
BugReports: https://github.com/jennybc/googlesheets/issues
Depends: R (>= 3.1.1)
License: MIT + file LICENSE
LazyData: true
Imports: cellranger (>= 1.0.0), dplyr (>= 0.4.0), ggplot2, httr (>= 0.6.1), plyr, stats, stringr, tidyr, utils, XML, xml2
Suggests: covr, knitr, testthat
VignetteBuilder: knitr
NeedsCompilation: no
Packaged: 2015-07-04 22:39:00 UTC; jenny
Author: Jennifer Bryan [aut, cre], Joanna Zhao [aut]
Maintainer: Jennifer Bryan <jenny@stat.ubc.ca>
Repository: CRAN
Date/Publication: 2015-07-05 09:24:38

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New package dequer with initial version 1.0
Package: dequer
Type: Package
Title: An R 'Deque' Container
Version: 1.0
Description: Offers a special data structure called a 'deque' (pronounced like 'deck'), which is a list-like structure. However, unlike R's list structure, data put into a 'deque' is not necessarily stored contiguously, making insertions and deletions at the front/end of the structure much faster. The implementation here is new and uses a doubly linked list, and whence does not rely on R's environments. To avoid unnecessary data copying, most 'deque' operations are performed via side-effects.
License: BSD 2-clause License + file LICENSE
Depends: R (>= 3.1.0)
Imports: utils
NeedsCompilation: yes
ByteCompile: yes
Author: Drew Schmidt [aut, cre]
URL: https://github.com/wrathematics/dequer
BugReports: https://github.com/wrathematics/dequer/issues
Maintainer: Drew Schmidt <wrathematics@gmail.com>
Packaged: 2015-07-04 21:50:07 UTC; mschmid3
Repository: CRAN
Date/Publication: 2015-07-05 09:24:37

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Sat, 04 Jul 2015

New package tseriesEntropy with initial version 0.5-12
Package: tseriesEntropy
Title: Entropy Based Analysis and Tests for Time Series
Date: 2015-07-02
Version: 0.5-12
Author: Simone Giannerini
Depends: R (>= 2.14.0)
Imports: cubature, methods, parallel, stats, graphics
Suggests:
Description: Implements an Entropy measure of dependence based on the Bhattacharya-Hellinger-Matusita distance. Can be used as a (nonlinear) autocorrelation/crosscorrelation function for continuous and categorical time series. The package includes tests for serial dependence and nonlinearity based on it. Some routines have a parallel version that can be used in a multicore/cluster environment. The package makes use of S4 classes.
Maintainer: Simone Giannerini <simone.giannerini@unibo.it>
License: GPL (>= 2)
NeedsCompilation: yes
Packaged: 2015-07-03 15:19:31 UTC; Simone
Repository: CRAN
Date/Publication: 2015-07-04 09:52:03

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New package taber with initial version 0.0.1
Package: taber
Type: Package
Title: Split and Recombine Your Data
Version: 0.0.1
Date: 2015-07-02
Authors@R: person("Seth", "Wenchel", email = "seth@wenchel.com", role = c("aut", "cre", "cph"))
Description: Sometimes you need to split your data and work on the two chunks independently before bringing them back together. 'Taber' allows you to do that with its two functions.
License: BSD_3_clause + file LICENSE
LazyData: TRUE
Imports: magrittr, dplyr
URL: http://github.com/restonslacker/taber
BugReports: http://github.com/restonslacker/taber/issues
Twitter: @wenchel
Packaged: 2015-07-03 23:38:30 UTC; SWENCHEL
Author: Seth Wenchel [aut, cre, cph]
Maintainer: Seth Wenchel <seth@wenchel.com>
NeedsCompilation: no
Repository: CRAN
Date/Publication: 2015-07-04 09:52:02

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New package RBitly with initial version 0.6.1
Package: RBitly
Type: Package
Title: R Wrapper for the Bit.ly API
Description: Allows users accessing 'Bit.ly API' http://dev.bitly.com/ and retrieve many useful statistics.
Version: 0.6.1
Date: 2015-07-02
Authors@R: c( person("John", "Malc", email = "cincenko@outlook.com", role = c("aut", "cre"), comment = "@dmpe") )
Maintainer: John Malc <cincenko@outlook.com>
Depends: R (>= 3.2.0)
Imports: httr (>= 1.0.0), jsonlite (>= 0.9.16), stringr (>= 1.0.0)
Suggests: roxygen2 (>= 4.1.0), knitr (>= 1.10.5), testthat (>= 0.10.0)
VignetteBuilder: knitr
License: Apache License 2.0
URL: https://github.com/dmpe/rbitly
BugReports: https://github.com/dmpe/rbitly/issues
NeedsCompilation: no
Packaged: 2015-07-03 14:28:31 UTC; jm
Author: John Malc [aut, cre] (@dmpe)
Repository: CRAN
Date/Publication: 2015-07-04 09:51:54

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New package hoa with initial version 2.1.1
Package: hoa
Version: 2.1.1
Date: 2015-07-03
Title: Higher Order Likelihood Inference
Author: R port by Alessandra R. Brazzale <alessandra.brazzale@unipd.it>, following earlier work by Douglas Bates. The function tem is based on work by Anthony Davison <Anthony.Davison@epfl.ch>
Maintainer: Alex-Antoine Fortin <alex@fortin.bio>
Depends: R (>= 3.0.0)
Imports: graphics, statmod, stats, survival, utils
Suggests: boot, csampling
Description: Performs likelihood-based inference for a wide range of regression models. Provides higher-order approximations for inference based on extensions of saddlepoint type arguments as discussed in the book Applied Asymptotics: Case Studies in Small-Sample Statistics by Brazzale, Davison, and Reid (2007).
License: GPL (>= 2) | file LICENCE
URL: http://www.r-project.org, http://statwww.epfl.ch/AA/
LazyLoad: yes
LazyData: yes
Packaged: 2015-07-03 14:47:45 UTC; Alex
NeedsCompilation: no
Repository: CRAN
Date/Publication: 2015-07-04 08:40:19

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Fri, 03 Jul 2015

New package unfoldr with initial version 0.2
Package: unfoldr
Title: Stereological Unfolding for Spheroidal Particles
Version: 0.2
Date: 2015-06-30
Authors@R: c(person("Markus Baaske", role = c("aut", "cre"), email = "markus.baaske@math.tu-freiberg.de"), person("Felix", "Ballani", role = "ctb", email = "ballani@math.tu-freiberg.de") )
Author: Markus Baaske [aut, cre], Felix Ballani [ctb]
Maintainer: Markus Baaske <markus.baaske@math.tu-freiberg.de>
Description: Stereological unfolding as implemented in this package consists in the estimation of the joint size-shape-orientation distribution of spheroidal shaped particles based on the same measured quantities of corresponding planar section profiles. A single trivariate discretized version of the (stereological) integral equation in the case of prolate and oblate spheroids is solved numerically by the EM algorithm. The estimation of diameter distribution of spheres from planar sections (Wicksell's corpuscle problem) is also implemented. Further, the package provides routines for the simulation of a Poisson germ-grain process with either spheroids or spheres as grains together with functions for planar sections.
Depends: R (>= 3.1.0)
Suggests: rgl
License: GPL-2
Repository: CRAN
LazyData: no
Packaged: 2015-07-03 12:20:03 UTC; franke
NeedsCompilation: yes
Date/Publication: 2015-07-03 15:16:24

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New package geo with initial version 1.4-3
Package: geo
Version: 1.4-3
Date: 2015-07-03
Title: Draw and Annotate Maps, Especially Charts of the North Atlantic
Author: Hoskuldur Bjornsson, Sigurdur Thor Jonsson, Arni Magnusson, and Bjarki Thor Elvarsson
Maintainer: Sigurdur Thor Jonsson <sigurdur@hafro.is>
Depends: maps, mapdata, R (>= 2.10.0)
Imports: splines, methods, utils, grDevices, graphics, stats
LazyData: yes
Description: Used by Hafro staff to draw maps showing the distribution of fishing intensity and catches, and of survey data for Icelandic fish stocks. Potentially useful for others.
License: GPL (>= 2)
Encoding: UTF-8
NeedsCompilation: yes
Packaged: 2015-07-03 13:14:02 UTC; sigurdur
Repository: CRAN
Date/Publication: 2015-07-03 15:35:03

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New package signalHsmm with initial version 1.3
Package: signalHsmm
Type: Package
Title: Predict Presence of Signal Peptides
Version: 1.3
LazyData: true
Date: 2015-07-03
Authors@R: c( person("Michal", "Burdukiewicz", email = "michalburdukiewicz@gmail.com", role = c("cre", "aut")), person("Piotr", "Sobczyk", role = "aut"))
Description: Predicts presence of signal peptides in eukaryotic protein using hidden semi-Markov models. The implemented algorithm can be accessed both from command line and GUI.
License: GPL-3
URL: https://github.com/michbur/signalhsmm
Depends: R (>= 3.0.0)
Imports: biogram, graphics, seqinr, shiny, stats, utils
LinkingTo: Rcpp
Suggests: knitr, markdown, shinyAce
NeedsCompilation: yes
Repository: CRAN
Packaged: 2015-07-03 09:43:19 UTC; michal
Author: Michal Burdukiewicz [cre, aut], Piotr Sobczyk [aut]
Maintainer: Michal Burdukiewicz <michalburdukiewicz@gmail.com>
Date/Publication: 2015-07-03 13:00:22

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New package AHR with initial version 1.1
Package: AHR
Type: Package
Title: Estimation and Testing of Average Hazard Ratios
Version: 1.1
Date: 2015-07-03
Author: Matthias Brueckner <mwb@math.uni-bremen.de>
Maintainer: Matthias Brueckner <mwb@math.uni-bremen.de>
Description: Methods for estimation of multivariate average hazard ratios as defined by Kalbfleisch and Prentice. The underlying survival functions of the event of interest in each group can be estimated using either the (weighted) Kaplan-Meier estimator or the Aalen-Johansen estimator for the transition probabilities in Markov multi-state models. Right-censored and left-truncated data is supported. Moreover, the difference in restricted mean survival can be estimated.
License: GPL (>= 3)
Depends: survival
Imports: stats, MASS, etm, Rcpp
LinkingTo: Rcpp, RcppArmadillo
Suggests: testthat
NeedsCompilation: yes
Packaged: 2015-07-03 09:31:28 UTC; mwb
Repository: CRAN
Date/Publication: 2015-07-03 12:50:50

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Thu, 02 Jul 2015

New package HydeNet with initial version 0.9.0
Package: HydeNet
Type: Package
Title: Hybrid Bayesian Networks Using R and JAGS
Version: 0.9.0
Date: 2015-07-2
Author: Jarrod E. Dalton <daltonj@ccf.org> and Benjamin Nutter <benjamin.nutter@gmail.com>
Maintainer: Benjamin Nutter <benjamin.nutter@gmail.com>
Description: Facilities for easy implementation of hybrid Bayesian networks using R. Bayesian networks are directed acyclic graphs representing joint probability distributions, where each node represents a random variable and each edge represents conditionality. The full joint distribution is therefore factorized as a product of conditional densities, where each node is assumed to be independent of its non-descendents given information on its parent nodes. Since exact, closed-form algorithms are computationally burdensome for inference within hybrid networks that contain a combination of continuous and discrete nodes, particle-based approximation techniques like Markov Chain Monte Carlo are popular. We provide a user-friendly interface to constructing these networks and running inference using the 'rjags' package. Econometric analyses (maximum expected utility under competing policies, value of information) involving decision and utility nodes are also supported.
License: MIT + file LICENSE
Depends: R (>= 3.0.0), nnet, rjags
Imports: broom (>= 0.3.7), DiagrammeR (>= 0.7), plyr, dplyr, graph, gRbase, magrittr, stats, stringr, utils
Suggests: knitr
SystemRequirements: JAGS (http://mcmc-jags.sourceforge.net)
VignetteBuilder: knitr
LazyLoad: yes
LazyData: true
URL: https://github.com/nutterb/HydeNet,
BugReports: https://github.com/nutterb/HydeNet/issues
NeedsCompilation: no
Packaged: 2015-07-02 18:11:38 UTC; Nutter
Repository: CRAN
Date/Publication: 2015-07-03 00:31:59

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New package VTrack with initial version 1.10
Package: VTrack
Type: Package
Title: Software for Analysing and Visualising Animal Movement from Acoustic Telemetry Detections
Version: 1.10
Date: 2015-07-02
Author: Ross G. Dwyer, Mathew E. Watts, Hamish A. Campbell & Craig E. Franklin
Maintainer: Ross Dwyer <ross.dwyer@uq.edu.au>
Description: Designed to facilitate the assimilation, analysis and synthesis of animal location and movement data collected by the VEMCO suite of acoustic transmitters and receivers. As well as database and geographic information capabilities the principal feature of VTrack is the qualification and identification of ecologically relevant events from the acoustic detection and sensor data. This procedure condenses the acoustic detection database by orders of magnitude, greatly enhancing the synthesis of acoustic detection data.
Depends: R (>= 3.1.0), foreach(>= 1.2.0), parallel, doParallel
Imports: plotKML, sp, spacetime
License: GPL (>= 2)
URL: http://www.uq.edu.au/eco-lab/v-track
Encoding: latin1
Suggests: testthat
NeedsCompilation: no
Packaged: 2015-07-02 07:24:56 UTC; rossd
Repository: CRAN
Date/Publication: 2015-07-02 13:42:37

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New package NCA with initial version 1.0
Package: NCA
Type: Package
Title: Necessary Condition Analysis
Version: 1.0
Date: 2015-07-01
Author: Jan Dul <jdul@rsm.nl>
Maintainer: Govert Buijs <buijs@rsm.nl>
Description: Performs a Necessary Condition Analysis (NCA). (Dul, J. 2015. Necessary Condition Analysis (NCA). ''Logic and Methodology of 'Necessary but not Sufficient' causality." Organizational Research Methods) NCA identifies necessary (but not sufficient) conditions in datasets. Instead of drawing a regression line ''through the middle of the data'' in an xy-plot, NCA draws the ceiling line. The ceiling line y = f(x) separates the area with observations from the area without observations. (Nearly) all observations are below the ceiling line: y <= f(x). The empty zone is in the upper left hand corner of the xy-plot (with the convention that the x-axis is ''horizontal'' and the y-axis is ''vertical'' and that values increase ''upwards'' and ''to the right''). The ceiling line is a (piecewise) linear non-decreasing line: a linear step function or a straight line. It indicates which level of x (e.g. an effort or input) is necessary but not sufficient for a (desired) level of y (e.g. good performance or output).
License: GPL (>= 3)
Imports: yaml, gplots, quantreg, Benchmarking, sfa
NeedsCompilation: no
Repository: CRAN
Packaged: 2015-07-02 10:43:20 UTC; govert
Date/Publication: 2015-07-02 13:42:32

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New package ComplexAnalysis with initial version 1.0
Package: ComplexAnalysis
Type: Package
Title: Numerically Evaluate Integrals and Derivatives (also Higher Order) of Vector- And Complex-Valued Functions
Version: 1.0
Date: 2015-06-25
Author: Char Leung
Maintainer: Char Leung <charleung@hotmail.fr>
Description: Evaluate complex integrals along a disc or a straight line. Evaluate higher-order derivatives by employing the Cauchy integral formula. Evaluate residues. Search for simple poles given a function. Evaluate limits.
License: GPL (>= 2)
NeedsCompilation: no
Packaged: 2015-07-02 09:19:17 UTC; Char
Repository: CRAN
Date/Publication: 2015-07-02 13:42:31

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New package VIFCP with initial version 1.1
Package: VIFCP
Version: 1.1
Title: Detecting Change-Points via VIFCP Method
Author: Xiaoping Shi, Xiangsheng Wang, Dongwei Wei, Yuehua Wu
Maintainer: Dongwei Wei <weidw@mathstat.yorku.ca>
Depends: R (>= 3.1.3)
License: LGPL-3
Description: Contains a function to support the paper 'A sequential multiple change-point detection procedure via VIF regression' (Accepted by Computational Statistics).
NeedsCompilation: yes
Repository: CRAN
Packaged: 2015-07-01 21:12:30 UTC; weidw
Date/Publication: 2015-07-02 06:51:10

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New package latex2exp with initial version 0.3.0
Package: latex2exp
Type: Package
Title: Use LaTeX Expressions in Plots
Version: 0.3.0
Date: 2015-06-30
Authors@R: person("Stefano", "Meschiari", email="stefano.meschiari@gmail.com", role=c("aut", "cre"))
Description: Parses and converts LaTeX math formulas to R's plotmath expressions, used to enter mathematical formulas and symbols to be rendered as text, axis labels, etc. throughout R's plotting system.
License: MIT + file LICENSE
URL: http://github.com/stefano-meschiari/latex2exp
BugReports: https://github.com/stefano-meschiari/latex2exp/issues
Imports: stringr, magrittr
LazyData: TRUE
Suggests: testthat, knitr, ggplot2, plyr
VignetteBuilder: knitr
NeedsCompilation: no
Packaged: 2015-07-01 21:42:19 UTC; sm52286
Author: Stefano Meschiari [aut, cre]
Maintainer: Stefano Meschiari <stefano.meschiari@gmail.com>
Repository: CRAN
Date/Publication: 2015-07-02 06:47:22

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Wed, 01 Jul 2015

New package iptools with initial version 0.2.0
Package: iptools
Type: Package
Title: Manipulate, Validate and Resolve IP Addresses
Version: 0.2.0
Date: 2015-07-01
Author: Bob Rudis <bob@rudis.net> [aut, cre], Oliver Keyes <ironholds@gmail.com> [aut]
Maintainer: Bob Rudis <bob@rudis.net>
Description: A toolkit for manipulating, validating and testing IP addresses and ranges, along with datasets relating to IP addresses. While it primarily has support for the IPv4 address space, more extensive IPv6 support is intended.
License: MIT + file LICENSE
SystemRequirements: Boost.Asio and Boost.Regex from http://www.boost.org/. See README.
NeedsCompilation: yes
Depends: R (>= 2.10)
Suggests: testthat, knitr
Imports: Rcpp (>= 0.11.2), utils, stats
LinkingTo: BH, Rcpp
VignetteBuilder: knitr
OS_type: unix
Packaged: 2015-07-01 20:04:38 UTC; bob
Repository: CRAN
Date/Publication: 2015-07-01 22:59:07

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New package FractalParameterEstimation with initial version 1.0
Package: FractalParameterEstimation
Type: Package
Title: Estimation of Parameters p and q for Randomized Sierpinski Carpet for [p-p-p-q]-Model
Version: 1.0
Date: 2015-06-30
Author: Philipp Hermann
Maintainer: Philipp Hermann <philipp.hermann@jku.at>
Description: The parameters p and q are estimated with the aid of randomized Sierpinski Carpet which is built on [p-p-p-q]-model. Thereby, for three times simulation with p-value and once with q-value is assumed. Hence these parameters are estimated and displayed.
License: GPL (>= 2)
LazyData: true
Packaged: 2015-07-01 14:16:58 UTC; Philipp
NeedsCompilation: no
Repository: CRAN
Date/Publication: 2015-07-01 22:50:01

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New package GenCAT with initial version 1.0.1
Package: GenCAT
Type: Package
Title: Genetic Class Association Testing (GenCAT)
Version: 1.0.1
Date: 2015-06-12
Author: Eric Reed, Sara Nu<c3><b1>ez, Jing Qian, Andrea Foulkes
Maintainer: Eric Reed <reeder@bu.edu>
Description: Implementation of the genetic class level association testing (GenCAT) method from SNP level association data. Refer to: "Qian, J., Reed, E., Nunez, S., Qu, L., Reilly, M., Foulkes, A. (2015) Testing class-level genetic associations using single-element summary statistics. (Under review).".
License: GPL-2
Suggests: snpStats, knitr
Depends: R (>= 2.10), stats, dplyr, doParallel, ggplot2, foreach, parallel, methods
VignetteBuilder: knitr
NeedsCompilation: no
Packaged: 2015-07-01 13:34:25 UTC; ericreed
Repository: CRAN
Date/Publication: 2015-07-01 16:06:25

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New package epiDisplay with initial version 3.2.0.6
Package: epiDisplay
Version: 3.2.0.6
Date: 2015-07-01
Title: Epidemiological Data Display Package
Author: Virasakdi Chongsuvivatwong <cvirasak@medicine.psu.ac.th>
Maintainer: Virasakdi Chongsuvivatwong <cvirasak@medicine.psu.ac.th>
Depends: R (>= 2.6.2), foreign, survival, MASS, nnet
Suggests:
Description: Package for data exploration and result presentation. Full 'epicalc' package with data management functions is available at the author's repository.
License: GPL (>= 2)
URL: http://CRAN.R-project.org/
Packaged: 2015-07-01 13:18:17 UTC; Virasakdi
Repository: CRAN
Date/Publication: 2015-07-01 16:06:29
NeedsCompilation: no

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New package CompR with initial version 1.0
Package: CompR
Version: 1.0
Date: 2015-07-01
Title: Paired Comparison Data Analysis
Author: Michel Semenou
Maintainer: Michel Semenou <michel.semenou@oniris-nantes.fr>
Depends: R (>= 3.1), methods, utils, MASS, graphics, stats
Description: Different tools for describing and analysing paired comparison data are presented. Main methods are estimation of products scores according Bradley Terry Luce model. A segmentation of the individual could be conducted on the basis of a mixture distribution approach. The number of classes can be tested by the use of Monte Carlo simulations. This package deals also with multi-criteria paired comparison data.
License: GPL-2
NeedsCompilation: no
Packaged: 2015-07-01 12:02:24 UTC; Utilisateur
Repository: CRAN
Date/Publication: 2015-07-01 16:06:23

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New package OneArmPhaseTwoStudy with initial version 0.1.3
Package: OneArmPhaseTwoStudy
Type: Package
Title: Planing, Monitoring and Evaluating Oncological Phase 2 Studies
Version: 0.1.3
Date: 2015-07-01
Author: Marius Wirths
Maintainer: Marius Wirths <wirths@imbi.uni-heidelberg.de>
Description: Purpose of this package is it to plan, monitor and evaluate oncological phase II studies. In general this kind of studies are single-arm trials with planned interim analysis and binary endpoint. To meet the resulting requirements, the package provides functions to calculate and evaluate 'Simon's two-stage designs' and 'so-called' 'subset designs'. If you are unfamiliar with this package a good starting point is to take a closer look at the functions getSolutions() and getSolutionsSub1().
License: GPL (>= 2)
Depends: methods, Rcpp (>= 0.9.11), R (>= 3.1.0)
LinkingTo: Rcpp
RcppModules: simon, sub1
Packaged: 2015-07-01 12:14:36 UTC; wirthsmarius
NeedsCompilation: yes
Repository: CRAN
Date/Publication: 2015-07-01 14:59:15

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New package autovarCore with initial version 1.0-0
Package: autovarCore
Type: Package
Title: Automated Vector Autoregression Models and Networks
Version: 1.0-0
Date: 2015-06-29
Authors@R: c(person("Ando","Emerencia",role = c("aut","cre"), email = "ando.emerencia@gmail.com"))
BugReports: https://github.com/roqua/autovarcore/issues
Maintainer: Ando Emerencia <ando.emerencia@gmail.com>
Description: Automatically find the best vector autoregression models and networks for a given time series data set. 'AutovarCore' evaluates eight kinds of models: models with and without log transforming the data, lag 1 and lag 2 models, and models with and without day dummy variables. For each of these 8 model configurations, 'AutovarCore' evaluates all possible combinations for including outlier dummies (at 2.5x the standard deviation of the residuals) and retains the best model. Model evaluation includes the Eigenvalue stability test and a configurable set of residual tests. These eight models are further reduced to four models because 'AutovarCore' determines whether adding day dummies improves the model fit.
License: MIT + file LICENSE
Suggests: testthat, roxygen2
Imports: Rcpp (>= 0.11.4), Amelia, jsonlite, parallel, stats, urca, vars
LinkingTo: Rcpp
NeedsCompilation: yes
Packaged: 2015-07-01 11:54:26 UTC; ando
Author: Ando Emerencia [aut, cre]
Repository: CRAN
Date/Publication: 2015-07-01 14:41:42

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New package gquad with initial version 1.0-0
Package: gquad
Type: Package
Title: G Quadruplex Motif Prediction Tool
Version: 1.0-0
Date: 2015-06-26
Author: Hannah O. Ajoge
Maintainer: Hannah O. Ajoge <ohuajo@gmail.com>
Description: Nucleic acid sequences that are rich in guanine are capable of forming highly stable four-stranded structures known as G quadruplex motifs. This package provide functions for predicting G quadruplex motif(s) in nucleotide sequences.
License: Artistic-2.0
Imports: ape, seqinr
LazyData: TRUE
NeedsCompilation: no
Packaged: 2015-07-01 04:37:01 UTC; Hannah.Polytomella
Repository: CRAN
Date/Publication: 2015-07-01 11:30:11

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New package samplesize with initial version 0.2-2
Package: samplesize
Type: Package
Title: Sample Size Calculation for Various t-Tests and Wilcoxon-Test
Version: 0.2-2
Date: 2015-06-30
Author: Ralph Scherer
Maintainer: Ralph Scherer <shearer.ra76@gmail.com>
Description: Computes sample size for Student's t-test and for the Wilcoxon-Mann-Whitney test for categorical data. The t-test function allows paired and unpaired (balanced / unbalanced) designs as well as homogeneous and heterogeneous variances. The Wilcoxon function allows for ties.
License: GPL (>= 2)
URL: https://github.com/shearer/samplesize
BugReports: https://github.com/shearer/samplesize/issues
NeedsCompilation: no
Packaged: 2015-06-30 18:05:13 UTC; ralph
Repository: CRAN
Date/Publication: 2015-07-01 06:11:47

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Tue, 30 Jun 2015

New package scatterD3 with initial version 0.1.1
Package: scatterD3
Type: Package
Title: D3 Javascript Scatterplot from R
Version: 0.1.1
Date: 2015-06-30
Authors@R: c(person("Julien", "Barnier", email = "julien.barnier@ens-lyon.fr", role = c("aut", "cre")))
Maintainer: Julien Barnier <julien.barnier@ens-lyon.fr>
Description: Creates 'D3' 'JavaScript' scatterplots from 'R' with interactive features : panning, zooming, tooltips, etc.
License: GPL (>= 3)
VignetteBuilder: knitr
URL: https://github.com/juba/scatterD3
BugReports: https://github.com/juba/scatterD3/issues
LazyData: TRUE
Enhances: shiny
Imports: htmlwidgets
Suggests: knitr
NeedsCompilation: no
Packaged: 2015-06-30 08:09:40 UTC; julien
Author: Julien Barnier [aut, cre]
Repository: CRAN
Date/Publication: 2015-07-01 01:07:34

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New package iNEXT with initial version 2.0.3
Package: iNEXT
Type: Package
Title: Interpolation and Extrapolation for Species Diversity
Version: 2.0.3
Date: 2015-06-30
Authors@R: c(person("T. C.", "Hsieh", role = c("aut", "cre", "cph"), email = "euler96@gmail.com"), person("K. H.", "Ma", role = "ctb", email = "smallmar123@gmail.com"), person("Anne", "Chao", role = "ths", email = "chao@stat.nthu.edu.tws"))
Description: Interpolation and extrapolation for species diversity: a unified approach for both individual-based (abundance) data and sample-based (incidence) data.
License: GPL (>= 3)
URL: http://chao.stat.nthu.edu.tw/blog/software-download/
Maintainer: T. C. Hsieh <euler96@gmail.com>
Depends: R (>= 2.14)
Imports: stats, graphics, ggplot2
BugReports: https://github.com/JohnsonHsieh/iNEXT/issues
Packaged: 2015-06-30 07:37:43 UTC; Johnson
Author: T. C. Hsieh [aut, cre, cph], K. H. Ma [ctb], Anne Chao [ths]
NeedsCompilation: no
Repository: CRAN
Date/Publication: 2015-06-30 18:06:41

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New package gkmSVM with initial version 0.55
Package: gkmSVM
Type: Package
Title: Gapped-Kmer Support Vector Machine
Version: 0.55
Date: 2015-06-29
Author: Mahmoud Ghandi
Maintainer: Mahmoud Ghandi <mghandi@gmail.com>
Description: Imports the 'gkmSVM' v2.0 functionalities into R (www.beerlab.org/gkmsvm). It also uses the 'kernlab' library (separate R package by different authors) for various SVM algorithms.
License: GPL (>= 2)
Imports: Rcpp, kernlab, seqinr, utils
LinkingTo: Rcpp
SystemRequirements: C++11
Packaged: 2015-06-30 07:01:01 UTC; mghandi
NeedsCompilation: yes
Repository: CRAN
Date/Publication: 2015-06-30 09:22:07

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Mon, 29 Jun 2015

New package pequod with initial version 0.0-4
Package: pequod
Type: Package
Title: Moderated Regression Package
Version: 0.0-4
Date: 2015-6-29
Author: Alberto Mirisola & Luciano Seta
Depends: ggplot2, car
Imports: methods
Maintainer: Alberto Mirisola <alberto.mirisola@gmail.com>
Description: Moderated regression with mean and residual centering and simple slopes analysis.
License: GPL-2
LazyLoad: yes
Packaged: 2015-06-29 17:55:39 UTC; alberto
NeedsCompilation: no
Repository: CRAN
Date/Publication: 2015-06-30 01:50:23

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Sun, 28 Jun 2015

New package cvxbiclustr with initial version 0.0.1
Package: cvxbiclustr
Title: Convex Biclustering Algorithm
Version: 0.0.1
Author: Eric C. Chi, Genevera I. Allen, Richard G. Baraniuk
Maintainer: Eric C. Chi <ecchi1105@gmail.com>
Description: An iterative algorithm for solving a convex formulation of the biclustering problem.
Depends: R (>= 3.1.3), Matrix, igraph,
License: MIT + file LICENSE
LazyData: true
Packaged: 2015-06-27 20:17:28 UTC; ericchi
NeedsCompilation: yes
Repository: CRAN
Date/Publication: 2015-06-28 12:56:52

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Sat, 27 Jun 2015

New package LncMod with initial version 1.1
Package: LncMod
Type: Package
Title: Predicting Modulator and Functional/Survival Analysis
Version: 1.1
Author: Yongsheng Li,Zishan Wang,Juan Xu*,Xia Li*
Maintainer: Zishan Wang <azureskyeric@gmail.com>
Description: Predict modulators regulating the ability of effectors to regulate their targets and produce modulator-effector-target triplets followed by goterm functional enrichment and survival analysis.This is mainly applied to long non-coding RNAs (lncRNAs) as candidate modulators regulating the ability of transcription factors (TFs) to regulate their corresponding targets.
License: GPL-2
LazyData: TRUE
biocViews: long non-coding RNA,lncRNA,modulator,triplet,function,survival
Depends: R (>= 2.15.2),survival,pheatmap,parallel
Packaged: 2015-06-27 00:29:50 UTC; Administrator
NeedsCompilation: no
Repository: CRAN
Date/Publication: 2015-06-27 13:24:19

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New package knitLatex with initial version 0.9.0
Package: knitLatex
Title: 'Knitr' Helpers - Mostly Tables
Version: 0.9.0
Authors@R: person("John", "Shea", email = "coachshea@fastmail.com", role = c("aut", "cre"))
Description: Provides several helper functions for working with 'knitr' and 'LaTeX'. It includes 'xTab' for creating traditional 'LaTeX' tables, 'lTab' for generating 'longtable' environments, and 'sTab' for generating a 'supertabular' environment. Additionally, this package contains a knitr_setup() function which fixes a well-known bug in 'knitr', which distorts the 'results="asis"' command when used in conjunction with user-defined commands; and a com command (<<com=TRUE>>=) which renders the output from 'knitr' as a 'LaTeX' command.
Depends: R (>= 3.2.0)
License: GPL-3
LazyData: true
Imports: knitr (>= 1.10.5)
VignetteBuilder: knitr
NeedsCompilation: no
Packaged: 2015-06-26 21:38:25 UTC; coachshea
Author: John Shea [aut, cre]
Maintainer: John Shea <coachshea@fastmail.com>
Repository: CRAN
Date/Publication: 2015-06-27 11:56:19

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Fri, 26 Jun 2015

New package uniqueAtomMat with initial version 0.1-0
Package: uniqueAtomMat
Version: 0.1-0
Date: 2015-06-26
Title: Finding Unique or Duplicated Rows or Columns for Atomic Matrices
Authors@R: person("Long", "Qu", role=c("aut", "cre"), email="long.qu@wright.edu")
Depends: R (>= 3.1.2)
Enhances: base
Suggests: microbenchmark
Description: An alternative implementation and extension (grpDuplicated) of base::duplicated.matrix, base:anyDuplicated.matrix and base::unique.matrix for matrices of atomic mode, avoiding the time consuming collapse of the matrix into a character vector.
License: GPL (>= 2)
NeedsCompilation: yes
URL: https://github.com/gitlongor/uniqueAtomMat
BugReports: https://github.com/gitlongor/uniqueAtomMat/issues
Packaged: 2015-06-26 13:41:21 UTC; Long
Author: Long Qu [aut, cre]
Maintainer: Long Qu <long.qu@wright.edu>
Repository: CRAN
Date/Publication: 2015-06-26 20:09:52

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New package interplot with initial version 0.1.0.0
Package: interplot
Title: Plot the Effects of Variables in Interaction Terms
Version: 0.1.0.0
Author: Frederick Solt <frederick-solt@uiowa.edu>, Yue Hu <yue-hu-1@uiowa.edu>
Maintainer: Yue Hu <yue-hu-1@uiowa.edu>
Description: Plots the conditional coefficients ("marginal effects") of variables included in multiplicative interaction terms.
Depends: R (>= 3.1.1), ggplot2, abind, arm
License: MIT + file LICENSE
LazyData: true
Suggests: knitr
VignetteBuilder: knitr
NeedsCompilation: no
Packaged: 2015-06-26 14:36:15 UTC; Sammo
Repository: CRAN
Date/Publication: 2015-06-26 18:23:27

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New package cusp with initial version 2.3.1
Package: cusp
Type: Package
Title: Cusp-Catastrophe Model Fitting Using Maximum Likelihood
Version: 2.3.1
Author: Raoul P. P. P. Grasman [aut, cre, cph]
Maintainer: Raoul Grasman <rgrasman@uva.nl>
LazyData: yes
NeedsCompilation: yes
Suggests: plot3D
Description: Cobb's maximum likelihood method for cusp-catastrophe modeling (Grasman, van der Maas, & Wagenmakers, 2009, JSS, 32:8; Cobb, L, 1981, Behavioral Science, 26:1, 75--78). Includes a cusp() function for model fitting, and several utility functions for plotting, and for comparing the model to linear regression and logistic curve models.
License: GPL-2
Repository: CRAN
Repository/R-Forge/Project: cusp
Repository/R-Forge/Revision: 18
Repository/R-Forge/DateTimeStamp: 2015-06-17 10:34:21
Date/Publication: 2015-06-26 13:34:32
Packaged: 2015-06-17 10:45:53 UTC; rforge

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New package cmsaf with initial version 1.4
Package: cmsaf
Version: 1.4
Date: 2015-06-24
Title: Tools for CM SAF netcdf data
Author: Steffen Kothe
Maintainer: Steffen Kothe <Steffen.Kothe@dwd.de>
Description: The Satellite Application Facility on Climate Monitoring (CM SAF) is a ground segment of the European Organization for the Exploitation of Meteorological Satellites (EUMETSAT) and one of EUMETSATs Satellite Application Facilities. The CM SAF contributes to the sustainable observing of the climate system by providing Essential Climate Variables related to the energy and water cycle of the atmosphere (www.cmsaf.eu). It is a joint cooperation of seven National Meteorological and Hydrological Services, including the Deutscher Wetterdienst (DWD). The cmsaf R-package provides a small collection of R-functions, which are inspired by the Climate Data Operators (cdo). This gives the opportunity to analyse and manipulate CM SAF data without the need of installing cdo. The cmsaf R-package is tested for CM SAF netcdf data, which are structured in three-dimensional arrays (longitude, latitude, time) on a rectangular grid. Layered CM SAF data have to be converted with the provided `levbox_mergetime` function. The cmsaf R-package functions have only minor checks for deviations from the recommended data structure, and give only few specific error messages. Thus, there is no warranty of accurate results.
License: GPL (>= 3)
Depends: ncdf4, RNetCDF, sp, raster, stats, fields
Packaged: 2015-06-26 11:10:52 UTC; stkothe
NeedsCompilation: no
Repository: CRAN
Date/Publication: 2015-06-26 14:00:33

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New package pmc with initial version 1.0.0
Package: pmc
Version: 1.0.0
Title: Phylogenetic Monte Carlo
Description: Monte Carlo based model choice for applied phylogenetics of continuous traits. Method described in Carl Boettiger, Graham Coop, Peter Ralph (2012) Is your phylogeny informative? Measuring the power of comparative methods, Evolution 66 (7) 2240-51. doi:10.1111/j.1558-5646.2011.01574.x.
Authors@R: person('Carl', 'Boettiger', email='cboettig@gmail.com', role =c('aut', 'cre'))
URL: https://github.com/cboettig/pmc
BugReports: https://github.com/cboettig/pmc/issues
License: CC0
LazyData: true
VignetteBuilder: knitr
Suggests: covr, gridExtra, knitr, testthat
Imports: dplyr, geiger, ggplot2, parallel, ouch, tidyr
NeedsCompilation: no
Packaged: 2015-06-26 05:57:42 UTC; rstudio
Author: Carl Boettiger [aut, cre]
Maintainer: Carl Boettiger <cboettig@gmail.com>
Repository: CRAN
Date/Publication: 2015-06-26 10:57:51

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New package loo with initial version 0.1.0
Package: loo
Type: Package
Title: Efficient Leave-One-Out Cross-Validation and WAIC for Bayesian Models
Version: 0.1.0
Date: 2015-06-24
Author: Aki Vehtari, Andrew Gelman, Jonah Gabry
Maintainer: Jonah Gabry <jsg2201@columbia.edu>
URL: https://github.com/jgabry/loo
BugReports: https://github.com/jgabry/loo/issues
Description: We efficiently approximate leave-one-out cross-validation (LOO) using very good importance sampling (VGIS), a new procedure for regularizing importance weights. As a byproduct of our calculations, we also obtain approximate standard errors for estimated predictive errors, and for the comparison of predictive errors between two models. We also compute the widely applicable information criterion (WAIC).
License: GPL (>= 3)
LazyData: TRUE
Depends: R (>= 3.2.0)
Imports: matrixStats (>= 0.14.1), parallel
Suggests: knitr, testthat
VignetteBuilder: knitr
NeedsCompilation: no
Packaged: 2015-06-26 01:00:17 UTC; jgabry
Repository: CRAN
Date/Publication: 2015-06-26 10:55:18

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Thu, 25 Jun 2015

New package whoapi with initial version 0.1.0
Package: whoapi
Type: Package
Title: A 'Whoapi' API Client
Version: 0.1.0
Date: 2015-06-16
Author: Oliver Keyes
Maintainer: Oliver Keyes <ironholds@gmail.com>
Description: Retrieve data from the 'Whoapi' (https://whoapi.com) store of domain information, including a domain's geographic location, registration status and search prominence.
License: MIT + file LICENSE
LazyData: TRUE
Depends: httr
Suggests: testthat, knitr
VignetteBuilder: knitr
NeedsCompilation: no
Packaged: 2015-06-25 17:44:21 UTC; ironholds
Repository: CRAN
Date/Publication: 2015-06-26 00:05:30

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New package TSMining with initial version 1.0
Package: TSMining
Type: Package
Title: Mining Univariate and Multivariate Motifs in Time-Series Data
Description: Implementations of a number of functions used to mine numeric time-series data. It covers the implementation of SAX transformation, univariate motif discovery (based on the random projection method), multivariate motif discovery (based on graph clustering), and several functions used for the ease of visualizing the motifs discovered. The details of SAX transformation can be found in J. Lin. E. Keogh, L. Wei, S. Lonardi, Experiencing SAX: A novel symbolic representation of time series, Data Mining and Knowledge Discovery 15 (2) (2007) 107-144. Details on univariate motif discovery method implemented can be found in B. Chiu, E. Keogh, S. Lonardi, Probabilistic discovery of time series motifs, ACM SIGKDD, Washington, DC, USA, 2003, pp. 493-498. Details on the multivariate motif discovery method implemented can be found in A. Vahdatpour, N. Amini, M. Sarrafzadeh, Towards unsupervised activity discovery using multi-dimensional motif detection in time series, IJCAI 2009 21st International Joint Conference on Artificial Intelligence.
Version: 1.0
Date: 2015-06-24
Author: Cheng Fan
Maintainer: Cheng Fan <raja8885@hotmail.com>
Depends: R (>= 3.0.1)
Imports: foreach, ggplot2, plyr, reshape2
Suggests: knitr
VignetteBuilder: knitr
LazyData: true
License: GPL-3
Packaged: 2015-06-25 13:09:35 UTC; Fan
NeedsCompilation: no
Repository: CRAN
Date/Publication: 2015-06-26 00:02:41

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New package Bagidis with initial version 1.0
Package: Bagidis
Type: Package
Title: BAses GIving DIStances
Version: 1.0
Date: 2015-06-24
Author: Catherine Timmermans
Maintainer: Catherine Timmermans <catherine.timmermans@uclouvain.be>
Description: This is the companion package of a PhD thesis entitled "Bases Giving Distances. A new paradigm for investigating functional data with applications for spectroscopy" by Timmermans (2012). See references for details and related publications. The core of the BAGIDIS methodology is a functional wavelet based semi-distance that has been introduced by Timmermans and von Sachs (2010, 2015) and Timmermans, Delsol and von Sachs (2013). This semi-distance allows for comparing curves with sharp local patterns that might not be well aligned from one curve to another. It is data-driven and highly adaptive to the curves being studied. Its main originality is its ability to consider simultaneously horizontal and vertical variations of patterns, which proofs highly useful when used together with clustering algorithms or visualization method. BAGIDIS is an acronym for BAsis GIving DIStances. The extension of BAGIDIS to image data relies on the same principles and has been described in Timmermans and Fryzlewicz (2012), Fryzlewicz and Timmermans (2015).
License: GPL
Depends: abind
Packaged: 2015-06-25 10:47:43 UTC; Catherine
NeedsCompilation: no
Repository: CRAN
Date/Publication: 2015-06-26 00:36:18

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New package translation.ko with initial version 0.0.1.3
Package: translation.ko
Title: R Manuals Literally Translated in Korean
Version: 0.0.1.3
Authors@R: person("Chel Hee", "Lee", email = "chl948@mail.usask.ca", role = c("aut", "cre"))
Description: R version 2.1.0 and later support Korean translations of program messages. The continuous efforts have been made by <http://developer.r-project.org/TranslationTeams.html> The R Documentation files are licensed under the General Public License, version 2 or 3. This means that the pilot project to translate them into Korean has permission to reproduce them and translate them. This work is done with GNU 'gettext' utilities. The portable object template is updated a weekly basis or whenever changes are necessary. Comments and corrections via email to the maintainer is of course most welcome. In order to voluntarily participate in or offer your help with this translation, please contact the maintainer. To check the change and progress of Korean translation, please visit <http://www.openstatistics.net>.
Maintainer: Chel Hee Lee <chl948@mail.usask.ca>
Depends: R (>= 3.2.1)
License: GPL (>= 2)
LazyData: true
URL: http://www.openstatistics.net
BugReports: chl948@mail.usask.ca
NeedsCompilation: no
Packaged: 2015-06-25 01:40:23 UTC; chel
Author: Chel Hee Lee [aut, cre]
Repository: CRAN
Date/Publication: 2015-06-25 12:15:03

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New package XMRF with initial version 1.0
Package: XMRF
Type: Package
Title: Markov Random Fields for High-Throughput Genetics Data
Version: 1.0
Date: 2015-06-12
Author: Ying-Wooi Wan, Genevera I. Allen, Yulia Baker, Eunho Yang, Pradeep Ravikumar, Zhandong Liu
Maintainer: Ying-Wooi Wan <yingwoow@bcm.edu>
Depends: R (>= 3.0.2)
Imports: igraph, glmnet, MASS, snowfall, parallel, Matrix
Description: Fit Markov Networks to a wide range of high-throughput genomics data.
License: GPL-2
URL: http://www.liuzlab.org/XMRF/
LazyLoad: true
Packaged: 2015-06-24 19:28:43 UTC; wooi
NeedsCompilation: yes
Repository: CRAN
Date/Publication: 2015-06-25 07:07:40

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Wed, 24 Jun 2015

New package RPPanalyzer with initial version 1.4.1
Package: RPPanalyzer
Type: Package
Title: Reads, Annotates, and Normalizes Reverse Phase Protein Array Data
Version: 1.4.1
Date: 2011-08-02
Author: Heiko Mannsperger with contributions of Stephan Gade
Maintainer: Astrid Wachter <astrid.wachter@med.uni-goettingen.de>
Depends: R (>= 2.14)
Imports: quantreg, limma, lattice, stats4, gam, gplots, grid, ggplot2, Hmisc, Biobase
ZipData: no
Description: Reads in sample description and slide description files and annotates the expression values taken from gpr files. After normalization data can be visualized as boxplot, heatmap or dotplot.
License: LGPL
LazyLoad: yes
Packaged: 2015-06-17 14:05:32 UTC; rforge
Repository: CRAN
Date/Publication: 2015-06-25 01:06:07
Repository/R-Forge/Project: rppanalyzer
Repository/R-Forge/Revision: 62
Repository/R-Forge/DateTimeStamp: 2015-06-17 13:51:07
NeedsCompilation: no

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New package rhandsontable with initial version 0.1
Package: rhandsontable
Title: Interface to the 'Handsontable.js' Library
Version: 0.1
Authors@R: c(person("Jonathan", "Owen", email = "jonathanro@gmail.com", role = c("aut", "cre", "cph")), person("Jeff", "Allen", role = c("ctb")), person("Yihui", "Xie", role = c("ctb")), person("Enzo", "Martoglio", email = "enzo@smartinsightsfromdata.com", role = c("ctb")), person("Warpechowski", "Marcin", role = c("ctb", "cph"), comment = "Handsontable.js library"), person("Handsoncode sp. z o.o.", role = c("ctb", "cph"), comment = "Handsontable.js library"), person("Aisch", "Gregor", role = c("ctb", "cph"), comment = "Chroma.js library"), person("Wood", "Tim", role = c("ctb", "cph"), comment = "Moment.js library"), person("Chernev", "Iskren", role = c("ctb", "cph"), comment = "Moment.js library"), person("Moment.js contributors", role = c("ctb", "cph"), comment = "Moment.js library"), person("Bushell", "David", role = c("ctb", "cph"), comment = "Pikaday.js library"))
Maintainer: Jonathan Owen <jonathanro@gmail.com>
Description: An R interface to the Handsontable JavaScript library, which is a minimalist Excel-like data grid editor.
License: MIT + file LICENSE
URL: https://github.com/jrowen/rhandsontable
BugReports: https://github.com/jrowen/rhandsontable/issues
Imports: jsonlite, htmlwidgets (>= 0.3.3), magrittr
Suggests: knitr
Enhances: shiny (>= 0.12)
VignetteBuilder: knitr
NeedsCompilation: no
Packaged: 2015-06-24 13:51:24 UTC; jrowen
Author: Jonathan Owen [aut, cre, cph], Jeff Allen [ctb], Yihui Xie [ctb], Enzo Martoglio [ctb], Warpechowski Marcin [ctb, cph] (Handsontable.js library), Handsoncode sp. z o.o. [ctb, cph] (Handsontable.js library), Aisch Gregor [ctb, cph] (Chroma.js library), Wood Tim [ctb, cph] (Moment.js library), Chernev Iskren [ctb, cph] (Moment.js library), Moment.js contributors [ctb, cph] (Moment.js library), Bushell David [ctb, cph] (Pikaday.js library)
Repository: CRAN
Date/Publication: 2015-06-24 17:28:36

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New package BCEE with initial version 1.0
Package: BCEE
Type: Package
Title: The Bayesian Causal Effect Estimation Algorithm
Version: 1.0
Date: 2015-06-24
Author: Denis Talbot, Genevive Lefebvre, Juli Atherton.
Maintainer: Denis Talbot <denis.talbot@fmed.ulaval.ca>
Description: Implementation of the Bayesian Causal Effect Estimation algorithm, a data-driven method for the estimation of the causal effect of a continuous exposure on a continuous outcome. For more details, see Talbot et al. (2015).
License: GPL (>= 2)
Depends: BMA
Encoding: latin1
NeedsCompilation: no
Packaged: 2015-06-24 15:03:54 UTC; detal9
Repository: CRAN
Date/Publication: 2015-06-24 18:22:52

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New package runittotestthat with initial version 0.0-2
Package: runittotestthat
Type: Package
Title: Convert 'RUnit' Test Functions into 'testthat' Tests
Version: 0.0-2
Date: 2015-06-24
Author: Richard Cotton [aut, cre]
Maintainer: Richard Cotton <richierocks@gmail.com>
Authors@R: person("Richard", "Cotton", role = c("aut", "cre"), email = "richierocks@gmail.com")
Description: Automatically convert a file or package worth of 'RUnit' test functions into 'testthat' tests.
Depends: R (>= 2.15.0)
Imports: assertive (>= 0.2-1), RUnit
Suggests: testthat
Enhances: devtools
License: Unlimited
LazyLoad: yes
LazyData: yes
Acknowledgments: Development of this package was partially funded by the Proteomics Core at Weill Cornell Medical College in Qatar <http://qatar-weill.cornell.edu>. The Core is supported by 'Biomedical Research Program' funds, a program funded by Qatar Foundation.
NeedsCompilation: no
Packaged: 2015-06-24 13:35:37 UTC; rjc2003
Repository: CRAN
Date/Publication: 2015-06-24 15:45:01

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New package pscore with initial version 0.1-2
Package: pscore
Title: Standardizing Physiological Composite Risk Endpoints
Version: 0.1-2
Date: 2015-06-24
Author: Joshua F. Wiley <jwiley.psych@gmail.com>
Maintainer: Joshua F. Wiley <jwiley.psych@gmail.com>
Description: Provides a number of functions to simplify and automate the scoring, comparison, and evaluation of different ways of creating composites of data. It is particularly aimed at facilitating the creation of physiological composites of metabolic syndrome symptom score (MSSS) and allostatic load (AL).
Depends: R (>= 3.1.0)
Imports: ggplot2, reshape2, lavaan
License: LGPL-3
ByteCompile: true
URL: https://jwiley.github.io/score-project/
LazyData: true
Packaged: 2015-06-24 10:01:28 UTC; Joshua
NeedsCompilation: no
Repository: CRAN
Date/Publication: 2015-06-24 15:29:16

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New package EpiBayes with initial version 0.1.2
Package: EpiBayes
Title: Implements Hierarchical Bayesian Models for Epidemiological Applications
Version: 0.1.2
Author: Matthew Branan, Marta Remmenga, Lori Gustafson, Jennifer Hoeting
Maintainer: Matthew Branan <matthew.branan@gmail.com>
Description: Hierarchical Bayesian models for use in disease freedom and disease prevalence studies, designed with epidemiological applications in mind. The models themselves are in the spirit of those presented in Branscum et al. (2006) (see package documentation for full reference). The helper functions and methods were designed to make implementation and processing of the complex model output relatively simple in application.
Depends: R (>= 3.0.0)
License: GPL (>= 2)
LazyData: true
Imports: epiR, compiler, shape, scales, coda
Suggests: knitr
VignetteBuilder: knitr
Packaged: 2015-06-24 05:50:34 UTC; matt
NeedsCompilation: no
Repository: CRAN
Date/Publication: 2015-06-24 11:15:19

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Tue, 23 Jun 2015

New package d3heatmap with initial version 0.6.0
Package: d3heatmap
Type: Package
Title: Interactive Heat Maps Using 'htmlwidgets' and 'D3.js'
Version: 0.6.0
Date: 2015-06-22
Authors@R: c( person("Joe", "Cheng", role = c("aut", "cre"), email = "joe@rstudio.com"), person("Tal", "Galili", role = c("aut"), email = "tal.galili@gmail.com"), person("RStudio, Inc.", role = c("cph")), person("Michael", "Bostock", role = c("ctb", "cph"), comment = "D3.js library"), person("Justin", "Palmer", role = c("ctb", "cph"), comment = "d3.tip library") )
Maintainer: Joe Cheng <joe@rstudio.com>
Description: Create interactive heat maps that are usable from the R console, in the 'RStudio' viewer pane, in 'R Markdown' documents, and in 'Shiny' apps. Hover the mouse pointer over a cell to show details, drag a rectangle to zoom, and click row/column labels to highlight.
License: GPL-3 | file LICENSE
Imports: scales (>= 0.2.5), htmlwidgets, png, base64enc, dendextend (>= 0.18.0)
Suggests: shiny, knitr
VignetteBuilder: knitr
URL: https://github.com/rstudio/d3heatmap
BugReports: https://github.com/rstudio/d3heatmap/issues
Collate: 'd3heatmap.R' 'dendrogram.R'
NeedsCompilation: no
Packaged: 2015-06-23 19:29:33 UTC; jcheng
Author: Joe Cheng [aut, cre], Tal Galili [aut], RStudio, Inc. [cph], Michael Bostock [ctb, cph] (D3.js library), Justin Palmer [ctb, cph] (d3.tip library)
Repository: CRAN
Date/Publication: 2015-06-24 01:20:28

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New package longurl with initial version 0.1.0
Package: longurl
Title: Expand Short URLs Using the 'LongURL' API
Version: 0.1.0
Authors@R: c(person("Bob", "Rudis", email = "bob@rudis.net", role = c("aut", "cre")))
Description: Interface to the 'LongURL' API to identify known URL shortener services and expand vectors of short URLs with optional error checking and URL validation. See <http://longurl.org/> for more information about 'LongURL'.
Depends: R (>= 3.1.0)
License: MIT + file LICENSE
LazyData: true
Suggests: testthat
Imports: httr, dplyr, pbapply
NeedsCompilation: no
Packaged: 2015-06-23 19:20:02 UTC; bob
Author: Bob Rudis [aut, cre]
Maintainer: Bob Rudis <bob@rudis.net>
Repository: CRAN
Date/Publication: 2015-06-24 01:01:38

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New package leaflet with initial version 1.0.0
Package: leaflet
Type: Package
Title: Create Interactive Web Maps with the JavaScript 'Leaflet' Library
Version: 1.0.0
Date: 2015-06-19
Authors@R: c( person("Joe", "Cheng", email = "joe@rstudio.com", role = c("aut", "cre")), person("Yihui", "Xie", role = c("aut")), person("Hadley", "Wickham", role = c("ctb")), person("jQuery Foundation and contributors", role = c("ctb", "cph"), comment = "jQuery library"), person("Vladimir", "Agafonkin", role = c("ctb", "cph"), comment = "Leaflet library"), person("CloudMade", role = c("cph"), comment = "Leaflet library"), person("Leaflet contributors", role = c("ctb"), comment = "Leaflet library"), person("Leaflet Providers contributors", role = c("ctb", "cph"), comment = "Leaflet Providers plugin"), person("RStudio", role = c("cph")) )
Maintainer: Joe Cheng <joe@rstudio.com>
Description: Create and customize interactive maps using the 'Leaflet' JavaScript library and the 'htmlwidgets' package. These maps can be used directly from the R console, from 'RStudio', in Shiny apps and R Markdown documents.
License: GPL-3 | file LICENSE
URL: http://rstudio.github.io/leaflet/
BugReports: https://github.com/rstudio/leaflet/issues
Imports: base64enc, htmlwidgets, htmltools, magrittr, markdown, png, RColorBrewer, raster, scales (>= 0.2.5), sp
Suggests: knitr, maps, shiny, testit (>= 0.4), rgdal, R6, RJSONIO
NeedsCompilation: no
Packaged: 2015-06-23 19:42:53 UTC; jcheng
Author: Joe Cheng [aut, cre], Yihui Xie [aut], Hadley Wickham [ctb], jQuery Foundation and contributors [ctb, cph] (jQuery library), Vladimir Agafonkin [ctb, cph] (Leaflet library), CloudMade [cph] (Leaflet library), Leaflet contributors [ctb] (Leaflet library), Leaflet Providers contributors [ctb, cph] (Leaflet Providers plugin), RStudio [cph]
Repository: CRAN
Date/Publication: 2015-06-24 00:56:10

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New package CompareCausalNetworks with initial version 0.1.1
Package: CompareCausalNetworks
Type: Package
Title: Interface to Diverse Estimation Methods of Causal Networks
Version: 0.1.1
Date: 2015-06-23
Author: Christina Heinze <heinze@stat.math.ethz.ch>, Nicolai Meinshausen <meinshausen@stat.math.ethz.ch>
Depends: R (>= 3.1.0)
Imports: Matrix
Maintainer: Christina Heinze <heinze@stat.math.ethz.ch>
Description: Unified interface for the estimation of causal networks, including the methods 'backShift' (from package 'backShift'), 'bivariateANM' (bivariate additive noise model), 'bivariateCAM' (bivariate causal additive model), 'CAM' (causal additive model) (from package 'CAM'), 'hiddenICP' (invariant causal prediction with hidden variables), 'ICP' (invariant causal prediction) (from package 'InvariantCausalPrediction'), 'GES' (greedy equivalence search), 'GIES' (greedy interventional equivalence search), 'LINGAM', 'PC' (PC Algorithm), 'RFCI' (really fast causal inference) (all from package 'pcalg') and regression.
License: GPL
LazyData: true
Suggests: pcalg, InvariantCausalPrediction, glmnet, backShift, CAM, kernlab, mgcv, testthat
URL: https://github.com/christinaheinze/CompareCausalNetworks
BugReports: https://github.com/christinaheinze/CompareCausalNetworks/issues
Packaged: 2015-06-23 20:17:01 UTC; cheinze
NeedsCompilation: no
Repository: CRAN
Date/Publication: 2015-06-24 01:00:33

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New package skellam with initial version 0.1
Package: skellam
Version: 0.1
Date: 2015-06-23
Title: Densities and Sampling for the Skellam Distribution
Author: Jerry W. Lewis, Patrick E. Brown <patrick.brown@utoronto.ca>
Maintainer: Patrick E. Brown <patrick.brown@utoronto.ca>
Description: Functions for the Skellam distribution, including: density (pmf), cdf, quantiles and random variates.
License: GPL (>= 2)
Suggests: knitr
VignetteBuilder: knitr
Repository: CRAN
Repository/R-Forge/Project: healthqueues
Repository/R-Forge/Revision: 3
Repository/R-Forge/DateTimeStamp: 2015-06-23 13:36:30
Date/Publication: 2015-06-23 20:12:41
NeedsCompilation: no
Packaged: 2015-06-23 13:46:56 UTC; rforge

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New package translateSPSS2R with initial version 1.0.0
Package: translateSPSS2R
Type: Package
Title: Toolset for Translating SPSS-Syntax to R-Code
Version: 1.0.0
Date: 2015-06-23
Authors@R: c(person("Andreas","Wygrabek", role=c("aut","cre"), email= "Andreas.Wygrabek@eoda.de"), person("Bastian","Wiessner",role=c("aut"), email= "Bastian.Wiessner@eoda.de"), person(family = "eoda GmbH", role = "cph"))
Description: Package with translated commands of SPSS. The usage is oriented on the handling of SPSS-Syntax. Mainly the package has two purposes: It facilitates SPSS-Users to change over to R and aids migration projects from SPSS to R.
License: GPL-3
LazyData: true
Depends: R (>= 3.1.3)
Imports: car (>= 2.0), data.table (>= 1.9.4), e1071 (>= 1.6-3), foreign (>= 0.8), Hmisc (>= 3.14-5), plyr (>= 1.8.1), stringr (>= 0.6.2), tidyr (>= 0.1), zoo (>= 1.7-11)
URL: http://www.eoda.de/en/
BugReports: https://github.com/eodaGmbH/translateSPSS2R/issues
NeedsCompilation: no
Packaged: 2015-06-23 14:32:46 UTC; andreas
Author: Andreas Wygrabek [aut, cre], Bastian Wiessner [aut], eoda GmbH [cph]
Maintainer: Andreas Wygrabek <Andreas.Wygrabek@eoda.de>
Repository: CRAN
Date/Publication: 2015-06-23 17:50:10

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New package ClustGeo with initial version 1.0
Package: ClustGeo
Type: Package
Title: Clustering of Observations with Geographical Constraints
Version: 1.0
Date: 2015-06-22
LazyData: TRUE
Author: Amaury Labenne, Marie Chavent, Vanessa Kuentz-Simonet and Jerome Saracco
Maintainer: Amaury Labenne <amaury.labenne@irstea.fr>
Description: Functions which allow to integrate geographical constraints in Ward hierarchical clustering. Geographical maps of typologies obtained can be displayed with the use of shapefiles.
License: GPL (>= 2.0)
Depends: R(>= 2.10.0), rCarto, FactoMineR, plyr,
Packaged: 2015-06-23 12:41:59 UTC; Amaury.Labenne
NeedsCompilation: no
Repository: CRAN
Date/Publication: 2015-06-23 17:26:29

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New package OasisR with initial version 1.0.0
Package: OasisR
Type: Package
Version: 1.0.0
Date: 2015-06-18
Title: Outright Tool for the Analysis of Spatial Inequalities and Segregation
Author: Mihai Tivadar <mihai.tivadar@irstea.fr>
Maintainer: Mihai Tivadar <mihai.tivadar@irstea.fr>
Description: A set of indexes and tests for the analysis of social segregation.
Depends: R (>= 3.1.2)
Imports: rgdal (>= 0.9-1), rgeos (>= 0.3-8), spdep (>= 0.5-83)
License: GPL-2 | GPL-3
LazyData: true
Suggests: testthat, knitr
VignetteBuilder: knitr
Packaged: 2015-06-23 09:17:34 UTC; mihai.tivadar
NeedsCompilation: no
Repository: CRAN
Date/Publication: 2015-06-23 15:06:56

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New package meteo with initial version 0.1-4
Package: meteo
Type: Package
Title: Spatio-Temporal Analysis and Mapping of Meteorological Observations
Version: 0.1-4
Date: 2015-06-11
Author: Milan Kilibarda, Aleksandar Sekulic, Tomislav Hengl, Edzer Pebesma, Benedikt Graeler
Maintainer: Milan Kilibarda <kili@grf.bg.ac.rs>
Description: Spatio-temporal geostatistical mapping of meteorological data. Global spatio-temporal models calculated using publicly available data are stored in package.
License: GPL (>= 2.0) | file LICENCE
URL: http://meteo.r-forge.r-project.org/
LazyLoad: yes
Depends: R (>= 3.0.0)
Imports: sp, spacetime, rgdal, gstat, raster, snowfall, plyr
NeedsCompilation: no
Packaged: 2015-06-23 07:47:36 UTC; kili
Repository: CRAN
Date/Publication: 2015-06-23 15:07:01

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New package geosptdb with initial version 0.5-0
Package: geosptdb
Type: Package
Title: Spatio-Temporal; Inverse Distance Weighting and Radial Basis Functions with Distance-Based Regression
Version: 0.5-0
Date: 2015-06-22
Author: Carlos Melo, Oscar Melo <oomelom@unal.edu.co>
Maintainer: Carlos Melo <cmelo@udistrital.edu.co>
Depends: R (>= 2.15.0), FD, StatMatch, fields, sp
Imports: minqa, limSolve, gsl, geospt
Description: Spatio-temporal: Inverse Distance Weighting (IDW) and radial basis functions; optimization, prediction, summary statistics from leave-one-out cross-validation, adjusting distance-based linear regression model and generation of the principal coordinates of a new individual from Gower's distance.
License: GPL (>= 2)
Encoding: latin1
NeedsCompilation: no
Packaged: 2015-06-23 02:49:21 UTC; Carlos Melo
Repository: CRAN
Date/Publication: 2015-06-23 15:06:59

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New package Sofi with initial version 0.0.26
Package: Sofi
Type: Package
Language: es
Title: Interfaz interactiva con fines didacticos
Version: 0.0.26
Date: 2015-06-22
Depends: R (>= 3.1.0), shiny
Imports: sampling, foreign
Suggests: ggplot2, VGAM, shinyjs, ggExtra, grid, gridExtra
Encoding: UTF-8
Author: Jose D. Loera
Maintainer: Jose D. Loera <jose.loera@inegi.org.mx>
URL: http://www.inegi.info/sofi
BugReports: https://github.com/loerasg/Sofi/issues
Description: Este paquete tiene la finalidad de ayudar a aprender de una forma interactiva, teniendo ejemplos y la posibilidad de resolver nuevos al mismo tiempo. Apuntes de clase interactivos.
License: GPL (>= 2)
NeedsCompilation: no
Packaged: 2015-06-22 21:07:18 UTC; jose.loera
Repository: CRAN
Date/Publication: 2015-06-23 08:05:21

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New package parallelML with initial version 1.1
Package: parallelML
Type: Package
Title: A Parallel-Voting Algorithm for many Classifiers
Version: 1.1
Date: 2015-06-23
Author: Wannes Rosiers (InfoFarm)
Maintainer: Wannes Rosiers <wannes.rosiers@infofarm.be>
Description: By sampling your data, running the provided classifier on these samples in parallel on your own machine and letting your models vote on a prediction, we return much faster predictions than the regular machine learning algorithm and possibly even more accurate predictions.
License: GPL-2
Depends: R (>= 2.14.0)
Imports: parallel (>= 3.1.1), foreach (>= 1.2.0), doParallel (>= 1.0.8)
URL: www.infofarm.be
NeedsCompilation: no
Packaged: 2015-06-23 05:47:46 UTC; wannes
Repository: CRAN
Date/Publication: 2015-06-23 08:14:36

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Mon, 22 Jun 2015

New package primes with initial version 0.1.0
Package: primes
Type: Package
Title: Generate and Test for Prime Numbers
Version: 0.1.0
Date: 2015-06-21
Author: Oliver Keyes
Maintainer: Oliver Keyes <ironholds@gmail.com>
Description: Functions to test whether a number is prime and generate the prime numbers within a specified range. Based around an implementation of Wilson's theorem for testing for an integer's primality.
License: MIT + file LICENSE
Suggests: testthat
LinkingTo: Rcpp
Imports: Rcpp
NeedsCompilation: yes
Packaged: 2015-06-22 17:05:25 UTC; ironholds
Repository: CRAN
Date/Publication: 2015-06-22 19:53:27

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New package cometExactTest with initial version 0.1
Package: cometExactTest
Version: 0.1
Date: 2015-06-22
Title: Exact Test from the Combinations of Mutually Exclusive Alterations (CoMEt) Algorithm
Authors@R: c(person("Max", "Leiserson", role = c("aut", "cre"), email = "mdml@cs.brown.edu"), person("Hsin-Ta", "Wu", role = "aut", email = "bournewu@cs.brown.edu"), person("Fabio", "Vandin", role = "ctb", email = "vandinfa@cs.brown.edu"), person("Vivian", "Hsiao", role = "ctb"), person("Benjamin", "Raphael", role = "ctb", email = "braphael@cs.brown.edu"))
Author: Max Leiserson [aut, cre], Hsin-Ta Wu [aut], Fabio Vandin [ctb], Vivian Hsiao [ctb], Benjamin Raphael [ctb]
Maintainer: Max Leiserson <mdml@cs.brown.edu>
Depends: R (>= 2.15.0)
Description: An algorithm for identifying combinations of mutually exclusive alterations in cancer genomes. CoMEt represents the mutations in a set M of k genes with a 2^k dimensional contingency table, and then computes the tail probability of observing T(M) exclusive alterations using an exact statistical test.
License: MIT + file LICENSE
URL: http://compbio.cs.brown.edu/projects/comet, http://www.r-project.org
NeedsCompilation: yes
Packaged: 2015-06-22 14:10:07 UTC; mdml
Repository: CRAN
Date/Publication: 2015-06-22 19:53:20

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New package parsec with initial version 1.1
Package: parsec
Version: 1.1
Date: 2015-06-19
Title: Partial Orders in Socio-Economics
Authors@R: c(person("Alberto", "Arcagni", role = c("aut", "cre"), email = "alberto.arcagni@unimib.it"), person("Marco", "Fattore", role = c("ctb")))
Author: Alberto Arcagni [aut, cre], Marco Fattore [ctb]
Maintainer: Alberto Arcagni <alberto.arcagni@unimib.it>
Description: Implements basic partial order tools for multidimensional poverty evaluation with ordinal variables. Its main goal is to provide socio-economic scholars with an integrated set of elementary functions for multidimensional poverty evaluation, based on ordinal information. The package is organized in four main parts. The first two comprise functions for data management and basic partial order analysis; the third and the fourth are devoted to evaluation and implement both the poset-based approach and a more classical counting procedure.
License: GPL (>= 2)
Packaged: 2015-06-22 10:06:06 UTC; Alberto
NeedsCompilation: yes
Repository: CRAN
Date/Publication: 2015-06-22 12:49:26

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New package kergp with initial version 0.1.0
Package: kergp
Type: Package
Title: Gaussian Process Laboratory
Version: 0.1.0
Date: 2015-06-22
Author: Yves Deville, David Ginsbourger, Olivier Roustant. Contributors: Nicolas Durrande.
Maintainer: Yves Deville <deville.yves@alpestat.com>
Description: Gaussian Process models with customised covariance kernels.
License: GPL-3
Depends: Rcpp (>= 0.10.5), methods, testthat
Suggests: DiceKriging, DiceDesign, lhs, inline
Imports: MASS, numDeriv, stats4
LinkingTo: Rcpp
NeedsCompilation: yes
Packaged: 2015-06-22 09:04:28 UTC; yves
Repository: CRAN
Date/Publication: 2015-06-22 12:49:23

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New package qrage with initial version 1.0
Package: qrage
Type: Package
Title: Tools that Create D3 JavaScript Force Directed Graph from R
Version: 1.0
Date: 2015-06-21
Author: Shingo Yamamoto
Maintainer: Shingo Yamamoto <yamamototto@gmail.com>
Description: Tools that create D3 JavaScript force directed graph from R. D3 JavaScript was created by Michael Bostock. See http://d3js.org/ and, more specifically for Force Directed Graph https://github.com/mbostock/d3/wiki/Force-Layout.
License: MIT + file LICENSE
Imports: htmlwidgets,shiny
NeedsCompilation: no
Packaged: 2015-06-22 02:15:52 UTC; si.yamamoto
Repository: CRAN
Date/Publication: 2015-06-22 06:50:59

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New package cgwtools with initial version 3.0
Package: cgwtools
Type: Package
Title: Miscellaneous Tools
Version: 3.0
Date: 2015-6-20
Author: Carl Witthoft
Maintainer: Carl Witthoft <carl@witthoft.com>
Description: A set of tools the author has found useful for performing quick observations or evaluations of data, including a variety of ways to list objects by size, class, etc. Several other tools mimic Unix shell commands, including 'head', 'tail' ,'pushd' ,and 'popd'. The functions 'seqle' and 'reverse.seqle' mimic the base 'rle' but can search for linear sequences. The function 'splatnd' allows the user to generate zero-argument commands without the need for 'makeActiveBinding' .
License: LGPL-3
Packaged: 2015-06-21 14:53:11 UTC; cgw
NeedsCompilation: no
Repository: CRAN
Date/Publication: 2015-06-22 06:54:04

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Sun, 21 Jun 2015

New package STMedianPolish with initial version 0.1
Package: STMedianPolish
Type: Package
Title: Spatio-Temporal Median Polish
Version: 0.1
Date: 2015-06-21
Author: William Martinez, Carlos Melo <cmelo@udistrital.edu.co>
Maintainer: William Martinez <willimarti2008@gmail.com>
Depends: R (>= 2.15.0), maptools, reshape2, sp, spacetime, zoo
Description: Analysis by spatio-temporal data using the decomposition in n-dimensional arrays and using median polish technique.
License: GPL (>= 2)
LazyData: true
Encoding: latin1
NeedsCompilation: no
Packaged: 2015-06-21 17:51:19 UTC; willimarti2008
Repository: CRAN
Date/Publication: 2015-06-22 01:52:24

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New package sbmSDP with initial version 0.2
Package: sbmSDP
Type: Package
Title: Semidefinite Programming for Fitting Block Models of Equal Block Sizes
Version: 0.2
Date: 2015-06-18
Author: Arash A. Amini
Maintainer: Arash A. Amini <amini.aa@gmail.com>
Description: An ADMM implementation of SDP-1, a semidefinite programming relaxation of the maximum likelihood estimator for fitting a block model. SDP-1 has a tendency to produce equal-sized blocks and is ideal for producing a form of network histogram approximating a nonparametric graphon model. Alternatively, it can be used for community detection. (This is experimental code, proceed with caution.)
License: GPL-3
Imports: Rcpp (>= 0.11.6)
LinkingTo: Rcpp, RcppArmadillo
NeedsCompilation: yes
Packaged: 2015-06-21 05:51:08 UTC; arash
Repository: CRAN
Date/Publication: 2015-06-22 01:31:11

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New package missDeaths with initial version 1.0
Package: missDeaths
Date: 2015-06-21
Title: 'Correctly Analyse Disease Recurrence with Missing at Risk Information using Population Mortality'
Version: 1.0
Authors@R: c( person("Tomaz","Stupnik",role=c("aut","cre"), email="tomaz.stupnik@guest.arnes.si"), person("Maja","Pohar Perme",role="aut", email="maja.pohar@mf.uni-lj.si"))
Maintainer: Tomaz Stupnik <tomaz.stupnik@guest.arnes.si>
Description: Implements two methods: a nonparametric risk adjustment and a data imputation method that use general population mortality tables to allow a correct analysis of time to disease recurrence.
License: GPL (>= 2)
Imports: Rcpp (>= 0.11.1), mitools
LinkingTo: Rcpp
Depends: survival, rms, relsurv
NeedsCompilation: yes
Packaged: 2015-06-21 18:39:45 UTC; tomaz
Author: Tomaz Stupnik [aut, cre], Maja Pohar Perme [aut]
Repository: CRAN
Date/Publication: 2015-06-22 01:38:07

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New package AssocTests with initial version 0.0-1
Package: AssocTests
Type: Package
Title: Genetic Association Studies
Version: 0.0-1
Date: 2015-06-21
Author: Lin Wang [aut], Wei Zhang [aut], Qizhai Li [aut], Weicheng Zhu [ctb]
Maintainer: Lin Wang <wanglin2009@amss.ac.cn>
Depends: cluster, mvtnorm, combinat, fExtremes, R(>= 2.10.0)
Description: Some procedures including EIGENSTRAT (a procedure for detecting and correcting for population stratification through searching for the eigenvectors in genetic association studies), PCoC (a procedure for correcting for population stratification through calculating the principal coordinates and the clustering of the subjects), Tracy-Wisdom test (a procedure for detecting the significant eigenvalues of a matrix), distance regression (a procedure for detecting the association between a distance matrix and some independent variants of interest), single-marker test (a procedure for identifying the association between the genotype at a biallelic marker and a trait using the Wald test or the Fisher exact test), MAX3 (a procedure for testing for the association between a single nucleotide polymorphism and a binary phenotype using the maximum value of the three test statistics derived for the recessive, additive, and dominant models), nonparametric trend test (a procedure for testing for the association between a genetic variant and a non-normal distributed quantitative trait based on the nonparametric risk), and nonparametric MAX3 (a procedure for testing for the association between a biallelic single nucleotide polymorphism and a quantitative trait using the maximum value of the three nonparametric trend tests derived for the recessive, additive, and dominant models), which are commonly used in genetic association studies.
License: GPL
Collate: 'AssociationTestWithCorrectPS.R' 'CalculateGapK.R' 'CalculateWAll.R' 'CalExpect.R' 'ChangeX.R' 'CorrMatNRTest.R' 'DR_main.R' 'EigenStrat_main.R' 'FindCNumRandom.R' 'MAX3_main.R' 'MAX3Sign.R' 'MDS.R' 'PCoC_main.R' 'ModifyNormalization.R' 'NMAX3_main.R' 'NPT_main.R' 'RhombusFormula.R' 'ScoreTest.R' 'SimilarityMatrix.R' 'SMT_main.R' 'Str2Num.R' 'TrendTest.R' 'TW_main.R' 'UniformSample.R' 'UniformTest.R' 'WaldTest.R'
NeedsCompilation: no
Packaged: 2015-06-21 14:52:12 UTC; Administrator
Repository: CRAN
Date/Publication: 2015-06-22 01:45:34

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Sat, 20 Jun 2015

New package hqreg with initial version 0.9
Package: hqreg
Type: Package
Title: Regularization Paths for Huber Loss Regression and Quantile Regression Penalized by Lasso or Elastic-Net
Version: 0.9
Date: 2015-06-18
Author: Congrui Yi
Maintainer: Congrui Yi <congrui-yi@uiowa.edu>
Description: Efficient algorithms for fitting entire regularization paths for Huber loss regression and quantile regression penalized by lasso or elastic-net.
License: GPL-2
Packaged: 2015-06-20 16:11:31 UTC; congrui
NeedsCompilation: yes
Repository: CRAN
Date/Publication: 2015-06-20 23:56:09

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Fri, 19 Jun 2015

New package crrp with initial version 1.0
Package: crrp
Type: Package
Title: Penalized Variable Selection in Competing Risks Regression
Version: 1.0
Date: 2015-06-19
Author: Zhixuan Fu
Maintainer: Zhixuan Fu <zhixuan.fu@yale.edu>
Depends: survival, Matrix, cmprsk
Description: In competing risks regression, the proportional subdistribution hazards(PSH) model is popular for its direct assessment of covariate effects on the cumulative incidence function. This package allows for penalized variable selection for the PSH model. Penalties include LASSO, SCAD, MCP, and their group versions.
License: GPL (>= 2)
Packaged: 2015-06-19 22:39:06 UTC; Evie
NeedsCompilation: yes
Repository: CRAN
Date/Publication: 2015-06-20 00:56:59

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New package tmod with initial version 0.19
Package: tmod
Type: Package
Title: Transcriptional Module Analysis
Version: 0.19
Date: 2015-06-17
Author: January Weiner
Maintainer: January Weiner <january.weiner@gmail.com>
Description: The tmod package contains definitions of human blood transcriptional modules and tools to analyse them.
License: GPL (>= 2.0)
LazyData: false
VignetteBuilder: knitr
URL: http://bioinfo.mpiib-berlin.mpg.de/tmod/
Imports: beeswarm,pca3d,tagcloud,XML,methods
Suggests: limma,org.Hs.eg.db, testthat,knitr
NeedsCompilation: no
Packaged: 2015-06-18 13:50:40.640 UTC; january
Depends: R (>= 2.10)
Repository: CRAN
Date/Publication: 2015-06-19 11:20:46

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New package future with initial version 0.6.0
Package: future
Version: 0.6.0
Title: A Future API for R
Imports: listenv, globals
Suggests: parallel, R.rsp
VignetteBuilder: R.rsp
Authors@R: c(person("Henrik", "Bengtsson", role=c("aut", "cre", "cph"), email = "henrikb@braju.com"))
Description: A Future API for R is provided. In programming, a future is an abstraction for a value that may be available at some point in the future. The state of a future can either be unresolved or resolved. As soon as it is resolved, the value is available. Futures are useful constructs in for instance concurrent evaluation, e.g. multicore parallel processing and distributed processing on compute clusters. The purpose of this package is to provide a lightweight interface for using futures in R. Functions 'future()' and 'value()' exist for creating futures and requesting their values. An infix assignment operator '%<=%' exists for creating futures whose values are accessible by the assigned variables (as promises). This package implements the synchronous "lazy" and "eager" futures, and the asynchronous "multicore" future (not on Windows). Additional types of futures are provided by other packages enhancing this package.
License: LGPL (>= 2.1)
LazyLoad: TRUE
URL: https://github.com/HenrikBengtsson/future
BugReports: https://github.com/HenrikBengtsson/future/issues
NeedsCompilation: no
Packaged: 2015-06-19 06:25:42 UTC; hb
Author: Henrik Bengtsson [aut, cre, cph]
Maintainer: Henrik Bengtsson <henrikb@braju.com>
Repository: CRAN
Date/Publication: 2015-06-19 10:25:33

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New package pnf with initial version 0.1.1
Package: pnf
Title: Prime Numbers and Integer Factorization
Version: 0.1.1
Date: 2015-06-19
Author: Abby Rothway
Maintainer: Abby Rothway <rothway.a@gmail.com>
Description: An R package for prime number generation, primality testing and integer factorization, currently, using simple methods.
License: GPL (>= 2)
NeedsCompilation: no
Packaged: 2015-06-19 01:20:50 UTC; 9
Repository: CRAN
Date/Publication: 2015-06-19 08:51:13

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New package GRANBase with initial version 1.0.8
Package: GRANBase
Type: Package
Title: Creating Continuously Integrated Package Repositories from Manifests
Version: 1.0.8
Author: Gabriel Becker[aut,cre], Cory Barr [cre,ctb]
Maintainer: Gabriel Becker <becker.gabriel@gene.com>
Copyright: Genentech Inc
Description: Repository based tools for department and analysis level reproducibility. 'GRANBase' allows creation of custom branched, continuous integration-ready R repositories, including incremental testing of only packages which have changed versions since the last repository build.
License: Artistic-2.0
Imports: tools, XML, hwriter
Depends: switchr (>= 0.9.6), methods
Suggests: parallel, BiocStyle
SystemRequirements: svn, git
URL: https://github.com/gmbecker/gRAN
BugReports: https://github.com/gmbecker/gRAN/issues
NeedsCompilation: no
Packaged: 2015-06-16 23:03:54 UTC; beckerg4
Repository: CRAN
Date/Publication: 2015-06-19 08:45:11

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New package gamsel with initial version 1.7-3
Package: gamsel
Type: Package
Title: Fit Regularization Path for Generalized Additive Models
Version: 1.7-3
Date: 2015-06-18
Author: Alexandra Chouldechova and Trevor Hastie
Maintainer: Trevor Hastie <hastie@stanford.edu>
Description: Using overlap grouped lasso penalties, gamsel selects whether a term in a gam is nonzero, linear, or a non-linear spline (up to a specified max df per variable). It fits the entire regularization path on a grid of values for the overall penalty lambda, both for gaussian and binomial families.
License: GPL-2
Depends: mda, foreach
URL: http://arxiv.org/abs/1506.03850
NeedsCompilation: yes
Packaged: 2015-06-19 05:44:32 UTC; hastie
Repository: CRAN
Date/Publication: 2015-06-19 08:45:13

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Thu, 18 Jun 2015

New package modQR with initial version 0.1.0
Package: modQR
Encoding: UTF-8
Version: 0.1.0
Date: 2015-06-17
Title: Multiple-Output Directional Quantile Regression
Authors@R: c(person("Miroslav","Šiman", role=c("aut")), person("Pavel","Boček", role=c("aut", "cre"), email="bocek@utia.cas.cz"))
Author: Miroslav Šiman [aut], Pavel Boček [aut, cre]
Maintainer: Pavel Boček <bocek@utia.cas.cz>
Copyright: The Institute of Information Theory and Automation of the Czech Academy of Sciences Pod Vodárenskou věží 4, CZ-182 08 Prague 8, Czech Republic email: utia@utia.cas.cz, phone: +420 266 053 111
Description: Contains basic tools for performing multiple-output quantile regression and computing regression quantile contours by means of directional regression quantiles. In the location case, one can thus obtain halfspace depth contours in two to six dimensions.
Classification/MSC: 62H05, 62J99, 62G08, 65C60
Keywords: quantile regression, multivariate regression, semiparametric regression, nonparametric regression, data depth, regression depth, halfspace depth, Tukey depth, depth contour, multivariate quantile, regression quantile, quantile-based inference
Repository: CRAN
Depends: R (>= 2.5.0), lpSolve (>= 5.6.1), geometry (>= 0.3-1)
Suggests: rgl
License: LGPL-2
Collate: addItem.R findItem.R delItem.R addRow.R findRow.R checkArray.R checkCTechSTu.R getCTechSTM1u.R getCTechSTM2u.R getCharSTM1u.R getCharSTM2u.R findOptimalBasisM1FromScratch.R findOptimalBasisM2FromScratch.R compContourM1u.R compContourM2u.R evalContour.R
NeedsCompilation: no
Packaged: 2015-06-18 12:04:54 UTC; bocek
Date/Publication: 2015-06-18 18:00:31

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New package CopyNumber450kCancer with initial version 1.0.3
Package: CopyNumber450kCancer
Type: Package
Title: Baseline Correction for Copy Number Data from Cancer Samples
Version: 1.0.3
Date: 2015-06-17
Author: Nour-al-dain Marzouka [aut, cre]
Maintainer: Nour-al-dain Marzouka <nour.marzouka@medsci.uu.se>
Description: The 450k arrays are frequently used in the epigenetic studies, the copy number calling from the 450k data is possible but it faces some difficulties in cancer samples regarding the determination of the copy number status due to the false sample centering and baseline shifting. Without solving this issue the CN calling will be inaccurate. CopyNumber450kCancer-package was designed to correct the baseline in cancer samples using the Maximum Density Peak Estimation (MDPE) method. The main advantages for CopyNumber450kCancer-package are: Fast (few seconds per sample), high accuracy rate, in-sample correction, no input parameters needed, low computer sources required, and adaptable for 450k-similar technologies.
Depends: R (>= 3.1.0)
License: GPL (>= 2)
Packaged: 2015-06-18 09:45:21 UTC; nouma923
NeedsCompilation: no
Repository: CRAN
Date/Publication: 2015-06-18 13:38:49

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Wed, 17 Jun 2015

New package controlTest with initial version 1.0
Package: controlTest
Type: Package
Title: Median Comparison for Two-Sample Right-Censored Survival Data
Version: 1.0
Date: 2015-06-17
Author: Eric Kawaguchi
Maintainer: Eric Kawaguchi <erickawaguchi@ucla.edu>
Description: Nonparametric two-sample procedure for comparing the median survival time.
Depends: R (>= 3.1.0)
Imports: survival (>= 2.38)
License: GPL-2
Packaged: 2015-06-17 19:30:43 UTC; eskawaguchi
NeedsCompilation: no
Repository: CRAN
Date/Publication: 2015-06-17 23:57:22

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New package oapackage with initial version 2.0.17
Package: oapackage
Type: Package
Title: Orthogonal Array Package
Version: 2.0.17
Date: 2015-05-25
Author: P. T. Eendebak
Maintainer: P. T. Eendebak <pieter.eendebak@gmail.com>
Description: Interface to D-optimal design generation code of the Orthogonal Array package. Can generate D-optimal designs with specified number of runs and factors. The optimality of the designs is defined in terms of a user specified optimization function based on the D-efficiency and Ds-efficiency.
License: BSD_2_clause + file LICENSE
License_is_FOSS: yes
URL: http://www.pietereendebak.nl/oapackage/index.html
Depends:
LinkingTo: RcppEigen
Suggests: ggplot2, reshape2
NeedsCompilation: yes
Packaged: 2015-06-17 15:08:10 UTC; eendebakpt
Repository: CRAN
Date/Publication: 2015-06-17 17:57:51

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New package statnetWeb with initial version 0.3.4
Package: statnetWeb
Type: Package
Title: A Graphical User Interface for Network Modeling with 'Statnet'
Version: 0.3.4
Date: 2015-05-21
Authors@R: c( person("Emily", "Beylerian", email = "ebey@uw.edu", role = c("cre", "aut")), person("Kirk", "Li", email = "kirkli@uw.edu", role = "ctb"), person("Samuel", "Jenness", email = "sjenness@uw.edu", role = "ctb"), person("Martina", "Morris", email = "morrism@uw.edu", role = "ctb"))
Description: A graphical user interface for network modeling with the 'statnet' software.
License: GPL-3
Depends: R (>= 3.1.0), shiny, ergm (>= 3.2.4), network
Imports: sna, RColorBrewer
LazyData: true
NeedsCompilation: no
Packaged: 2015-06-17 04:47:04 UTC; emily2
Author: Emily Beylerian [cre, aut], Kirk Li [ctb], Samuel Jenness [ctb], Martina Morris [ctb]
Maintainer: Emily Beylerian <ebey@uw.edu>
Repository: CRAN
Date/Publication: 2015-06-17 08:53:15

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New package stationaRy with initial version 0.2
Package: stationaRy
Type: Package
Title: Get Hourly Meteorological Data from Global Stations
Version: 0.2
Date: 2015-06-15
Authors@R: person( "Richard", "Iannone", role = c("aut", "cre"), email = "riannone@me.com")
Maintainer: Richard Iannone <riannone@me.com>
Description: Selectively acquire hourly meteorological data from stations located all over the world.
License: MIT + file LICENSE
Imports: lubridate (>= 1.3.3), plyr (>= 1.8.2), downloader (>= 0.3), sp (>= 1.1-0), proj4 (>= 1.0-8)
URL: https://github.com/rich-iannone/stationaRy
NeedsCompilation: no
Packaged: 2015-06-16 14:25:02 UTC; riannone
Author: Richard Iannone [aut, cre]
Repository: CRAN
Date/Publication: 2015-06-17 08:53:13

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New package kdecopula with initial version 0.0.1
Package: kdecopula
Type: Package
Title: Kernel Smoothing for Bivariate Copula Densities
Version: 0.0.1
Date: 2015-06-16
Author: Thomas Nagler
Maintainer: Thomas Nagler <thomas.nagler@tum.de>
Description: Provides fast implementations of kernel smoothing techniques for bivariate copula densities, in particular density estimation and resampling.
License: GPL-3
Depends: R (>= 3.0.0)
Imports: lattice, cubature, locfit, Rcpp (>= 0.11.2), VineCopula (>= 1.2)
LinkingTo: Rcpp, RcppArmadillo
NeedsCompilation: yes
Packaged: 2015-06-16 23:55:14 UTC; n
Repository: CRAN
Date/Publication: 2015-06-17 08:53:11

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Tue, 16 Jun 2015

New package aop with initial version 0.99.5
Package: aop
Type: Package
Title: Adverse Outcome Pathway Analysis
Version: 0.99.5
Date: 2015-06-16
Author: Lyle D. Burgoon <lyle.d.burgoon@usace.army.mil>
Maintainer: Lyle D. Burgoon <lyle.d.burgoon@usace.army.mil>
Description: Provides tools for analyzing adverse outcome pathways (AOPs) that are either 1) developed in and exported from Cytoscape or 2) already exist in R as a graph object.
License: CC0
Suggests: RUnit, BiocGenerics, knitr, rmarkdown
Imports: graph (>= 1.38.3), rjson (>= 0.2.14), igraph (>= 0.7.1), Rgraphviz (>= 2.10.0), methods
VignetteBuilder: knitr
Collate: 'aopCytoscape_Class.R' 'aop_cytoscape_methods.R' 'aop_graph_analysis.R'
Packaged: 2015-06-16 18:35:52 UTC; Lyle
NeedsCompilation: no
Repository: CRAN
Date/Publication: 2015-06-17 00:45:52

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New package CommT with initial version 0.1.1
Package: CommT
Type: Package
Title: Comparative Phylogeographic Analysis using the Community Tree Framework
Version: 0.1.1
Date: 2015-06-16
Author: Michael Gruenstaeudl, PhD
Maintainer: Michael Gruenstaeudl <mi.gruenstaeudl@gmail.com>
Depends: R (>= 3.0.0)
Imports: ape (>= 3.1-4), ggplot2 (>= 1.0.0), gridExtra, phangorn, reshape
Description: Provides functions to measure the difference between constrained and unconstrained gene tree distributions using various tree distance metrics. Constraints are enforced prior to this analysis via the estimation of a tree under the community tree model.
License: GPL (>= 2)
OS_type: unix
Packaged: 2015-06-16 16:26:28 UTC; michael
NeedsCompilation: no
Repository: CRAN
Date/Publication: 2015-06-16 19:51:19

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New package bcrypt with initial version 0.1
Package: bcrypt
Type: Package
Title: 'Blowfish' Password Hashing Algorithm
Version: 0.1
Authors@R: c( person("Jeroen", "Ooms", , "jeroen.ooms@stat.ucla.edu", role = c("cre", "aut")), person("Damien", "Miller", role = "cph"), person("Niels", "Provos", role = "cph") )
Description: An R interface to the 'OpenBSD Blowfish' password hashing algorithm, as described in "A Future-Adaptable Password Scheme" by 'Niels Provos'. The implementation is derived from the 'py-bcrypt' module for Python which is a wrapper for the 'OpenBSD' implementation.
License: BSD_2_clause + file LICENSE
Imports: openssl
NeedsCompilation: yes
Packaged: 2015-06-16 14:11:08 UTC; jeroen
Author: Jeroen Ooms [cre, aut], Damien Miller [cph], Niels Provos [cph]
Maintainer: Jeroen Ooms <jeroen.ooms@stat.ucla.edu>
Repository: CRAN
Date/Publication: 2015-06-16 18:20:12

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New package TMDb with initial version 1.0
Package: TMDb
Type: Package
Title: Access to TMDb API - Apiary
Version: 1.0
Date: 2015-06-14
Author: Andrea Capozio <andreacapozio@gmail.com>
Maintainer: Andrea Capozio <andreacapozio@gmail.com>
Description: Provides an R-interface to the TMDb API (see TMDb API on <http://docs.themoviedb.apiary.io/#>). The Movie Database (TMDb) is a popular user editable database for movies and TV shows (see <https://www.themoviedb.org>).
License: Artistic-2.0
LazyData: true
Depends: R (>= 3.1.3), httr(>= 0.4), jsonlite(>= 0.9.15)
Collate: 'certification_movie_list.R' 'certification_tv_list.R' 'changes_movie.R' 'changes_person.R' 'changes_tv.R' 'collection.R' 'collection_images.R' 'company.R' 'company_movies.R' 'configuration.R' 'credit.R' 'discover_movie.R' 'discover_tv.R' 'find_tmdb.R' 'genres_movie_list.R' 'genres_movies.R' 'genres_tv_list.R' 'is.wholenumber.R' 'jobs.R' 'keyword.R' 'keyword_movies.R' 'list_get.R' 'list_item_status.R' 'movie.R' 'movie_alternative_title.R' 'movie_changes.R' 'movie_credits.R' 'movie_images.R' 'movie_keywords.R' 'movie_latest.R' 'movie_lists.R' 'movie_now_playing.R' 'movie_popular.R' 'movie_releases.R' 'movie_reviews.R' 'movie_similar.R' 'movie_top_rated.R' 'movie_translations.R' 'movie_upcoming.R' 'movie_videos.R' 'network.R' 'person_tmdb.R' 'person_changes.R' 'person_combined_credits.R' 'person_external_ids.R' 'person_images.R' 'person_latest.R' 'person_movie_credits.R' 'person_popular.R' 'person_tagged_images.R' 'person_tv_credits.R' 'review.R' 'search_collection.R' 'search_company.R' 'search_keyword.R' 'search_list.R' 'search_movie.R' 'search_multi.R' 'search_person.R' 'search_tv.R' 'timezone.R' 'tv.R' 'tv_airing_today.R' 'tv_alternative_title.R' 'tv_changes.R' 'tv_content_ratings.R' 'tv_credits.R' 'tv_episode.R' 'tv_episode_changes.R' 'tv_episode_credits.R' 'tv_episode_external_ids.R' 'tv_episode_images.R' 'tv_episode_videos.R' 'tv_external_ids.R' 'tv_images.R' 'tv_keywords.R' 'tv_latest.R' 'tv_on_the_air.R' 'tv_popular.R' 'tv_season.R' 'tv_season_changes.R' 'tv_season_credits.R' 'tv_season_external_ids.R' 'tv_season_images.R' 'tv_season_videos.R' 'tv_similar.R' 'tv_top_rated.R' 'tv_translations.R' 'tv_videos.R'
NeedsCompilation: no
Packaged: 2015-06-16 05:30:12 UTC; Andrea
Repository: CRAN
Date/Publication: 2015-06-16 11:24:01

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New package stringgaussnet with initial version 1.0
Package: stringgaussnet
Type: Package
Title: PPI and Gaussian Network Construction from Transcriptomic Analysis Results Integrating a Multilevel Factor
Version: 1.0
Date: 2015-06-01
Author: Emmanuel Chaplais, Henri-Jean Garchon
Maintainer: Emmanuel Chaplais <emmanuel.chaplais@inserm.fr>
Description: A toolbox for a construction of PPI networks through STRING API and an inference of gaussian networks through SIMoNe and WGCNA approach, from DE genes analysis results and expression data. Additional functions are provided to import automatically networks into an active Cytoscape session.
Imports: AnnotationDbi,GO.db,VennDiagram,simone,biomaRt,limma,pspearman,igraph,httr,RJSONIO,RCurl
Suggests: org.Hs.eg.db
License: GPL-3
NeedsCompilation: no
Packaged: 2015-06-15 23:08:54 UTC; emmanuel
Repository: CRAN
Date/Publication: 2015-06-16 11:24:18

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New package RedditExtractoR with initial version 1.0.0
Package: RedditExtractoR
Type: Package
Title: Reddit Data Extraction Toolkit
Version: 1.0.0
Imports: RJSONIO
Suggests: tcltk
Date: 2015-06-14
Author: Ivan Rivera <ivan.s.rivera@gmail.com>
Maintainer: Ivan Rivera <ivan.s.rivera@gmail.com>
Description: Reddit is an online bulletin board and a social networking website where registered users can submit and discuss content. This package uses Reddit API to extract Reddit data using Reddit API. The retrieved data has flat structure, i.e. the relationship between comments is not preserved.This may be addressed in the next update of this package. Note that due to the API limitations, the number of comments that can extracted is limited to 500 per thread. The package consists of 3 functions, one for extracting relevant URLS, one for extracting features out of given URLs and one that does both together.
License: GPL-3
Packaged: 2015-06-16 05:56:56 UTC; Ivan
NeedsCompilation: no
Repository: CRAN
Date/Publication: 2015-06-16 11:24:00

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New package desiR with initial version 1.0
Package: desiR
Type: Package
Title: Desirability Functions for Ranking, Selection, and Data Integration
Version: 1.0
Date: 2015-06-03
Author: Stanley E. Lazic
Maintainer: Stanley E. Lazic <stan.lazic@cantab.net>
Description: Functions for (1) ranking, selection, and prioritisation of genes, proteins, and metabolites from high dimensional biology experiments, (2) multivariate hit calling in high content screens, and (3) combining data from diverse sources.
License: GPL-3
LazyData: true
Depends: R (>= 2.10)
Suggests: knitr
VignetteBuilder: knitr
NeedsCompilation: no
Packaged: 2015-06-16 08:52:50 UTC; sel
Repository: CRAN
Date/Publication: 2015-06-16 11:49:40

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New package CryptRndTest with initial version 1.0.5
Package: CryptRndTest
Type: Package
Title: Statistical Tests for Cryptographic Randomness
Version: 1.0.5
Date: 2015-06-16
Author: Haydar Demirhan
Maintainer: Haydar Demirhan <haydarde@hacettepe.edu.tr>
Description: Performs cryptographic randomness tests on a sequence of random integers or bits. Most of the included tests are not covered by standard test suites. In addition to the chi-square goodness-of-fit test, results of Anderson-Darling, Kolmogorov-Smirnov, and Jarque-Bera tests are also generated by some of the cryptographic randomness tests. Additionally, it includes two functions for the calculation of greatest common divisor and the Stirling numbers of the second kind.
Depends: MissMech, kSamples, sfsmisc, tseries
Imports: LambertW, copula
License: GPL-3
NeedsCompilation: no
Packaged: 2015-06-16 07:16:51 UTC; Stat
Repository: CRAN
Date/Publication: 2015-06-16 11:49:35

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Mon, 15 Jun 2015

New package repijson with initial version 0.1.0
Package: repijson
Title: Tools for Handling EpiJSON (Epidemiology Data) Files
Version: 0.1.0
Authors@R: c( AS=person("Andy", "South", , "southandy@gmail.com", role = c("aut", "cre")), TF=person("Thomas", "Finnie", , "Thomas.Finnie@phe.gov.uk", role = c("aut")), ESS=person("Ellie", "Sherrard-Smith", , "e.sherrard-smith@imperial.ac.uk", role = c("aut")), AB=person("Ana", "Bento", , "anisabelbento@gmail.com", role = c("aut")), TB=person("Thibaut", "Jombart", , "thibautjombart@gmail.com", role = c("aut")))
Description: Supplies classes and routines to convert data to and from EpiJSON files. This package provides conversion functions for data.frame, sp and obkData.
Depends: R (>= 3.1.0)
Imports: OutbreakTools, jsonlite, plyr, sp, ggplot2, geojsonio
Suggests: HistData, knitr, testthat, rgdal, base64enc
VignetteBuilder: knitr
License: GPL (>= 2)
LazyData: true
NeedsCompilation: no
Packaged: 2015-06-15 22:49:51 UTC; andy
Author: Andy South [aut, cre], Thomas Finnie [aut], Ellie Sherrard-Smith [aut], Ana Bento [aut], Thibaut Jombart [aut]
Maintainer: Andy South <southandy@gmail.com>
Repository: CRAN
Date/Publication: 2015-06-16 01:19:04

More information about repijson at CRAN
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New package sgRSEA with initial version 0.1
Package: sgRSEA
Type: Package
Title: Enrichment Analysis of CRISPR/Cas9 Knockout Screen Data
Version: 0.1
Date: 2015-06-11
Author: Jungsik Noh, Beibei Chen
Maintainer: Jungsik Noh <Jungsik.Noh@UTSouthwestern.edu>
Description: Provides functions to implement sgRSEA (single-guide RNA Set Enrichment Analysis), which is a robust test for identification of essential genes from genetic screening data using CRISPR (clustered regularly interspaced short palindromic repeats) and Cas9 (CRISPR-associated nuclease 9) system.
License: GPL-2
Depends: R (>= 2.10)
Packaged: 2015-06-15 14:26:14 UTC; jnoh
NeedsCompilation: no
Repository: CRAN
Date/Publication: 2015-06-15 17:08:25

More information about sgRSEA at CRAN
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New package DYM with initial version 0.1.1
Package: DYM
Type: Package
Title: Did You Mean?
Version: 0.1.1
Date: 2015-06-15
Author: Kosei Abe
Maintainer: Kosei Abe <mail@recyclebin.jp>
Description: Add a "Did You Mean" feature to the R interactive. With this package, error messages for misspelled input of variable names or package names suggest what you really want to do in addition to notification of the mistake.
License: BSD_3_clause + file LICENSE
BugReports: https://github.com/kos59125/DYM/issues
Suggests: testthat
Encoding: UTF-8
NeedsCompilation: no
Packaged: 2015-06-15 03:03:00 UTC; kos59125
Repository: CRAN
Date/Publication: 2015-06-15 07:59:01

More information about DYM at CRAN
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Sun, 14 Jun 2015

New package metricsgraphics with initial version 0.8.5
Package: metricsgraphics
Type: Package
Title: Create Interactive Charts with the JavaScript 'MetricsGraphics' Library
Version: 0.8.5
Date: 2015-06-14
Authors@R: c( person("Bob", "Rudis", email = "bob@rudis.net", role = c("aut", "cre")), person("Ali", "Almossawi", role = c("ctb", "cph"), comment = "MetricsGraphics library"), person("Hamilton", "Ulmer", role = c("ctb", "cph"), comment = "MetricsGraphics library"), person("Mozilla", role = c("cph"), comment = "MetricsGraphics library"), person("jQuery Foundation and contributors", role = c("ctb", "cph"), comment = "jQuery library") )
Maintainer: Bob Rudis <bob@rudis.net>
Description: Provides an 'htmlwidgets' interface to the 'MetricsGraphics.js' ('D3'-based) charting library which is geared towards displaying time-series data.
URL: http://github.com/hrbrmstr/metricsgraphics
BugReports: https://github.com/hrbrmstr/metricsgraphics/issues
License: MIT + file LICENSE
Suggests: testthat, RColorBrewer, ggplot2, jsonlite (>= 0.9.16), knitr (>= 1.8), shiny (>= 0.12.0), binom, dplyr
Depends: R (>= 3.0.0)
Imports: magrittr, htmlwidgets, htmltools
VignetteBuilder: knitr
NeedsCompilation: no
Packaged: 2015-06-14 13:05:00 UTC; bob
Author: Bob Rudis [aut, cre], Ali Almossawi [ctb, cph] (MetricsGraphics library), Hamilton Ulmer [ctb, cph] (MetricsGraphics library), Mozilla [cph] (MetricsGraphics library), jQuery Foundation and contributors [ctb, cph] (jQuery library)
Repository: CRAN
Date/Publication: 2015-06-14 15:21:10

More information about metricsgraphics at CRAN
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