Thu, 27 Mar 2014

Package pomp updated to version 0.49-2 with previous version 0.49-1 dated 2014-03-23

Title: Statistical inference for partially observed Markov processes
Description: Inference methods for partially-observed Markov processes
Author: Aaron A. King [aut, cre], Edward L. Ionides [aut], Carles Breto [aut], Stephen P. Ellner [ctb], Matthew J. Ferrari [ctb], Bruce E. Kendall [ctb], Michael Lavine [ctb], Dao Nguyen [ctb], Daniel C. Reuman [ctb], Helen Wearing [ctb], Simon N. Wood [ctb]
Maintainer: Aaron A. King

Diff between pomp versions 0.49-1 dated 2014-03-23 and 0.49-2 dated 2014-03-27

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New package iFad with initial version 3.0
Package: iFad
Type: Package
Title: An integrative factor analysis model for drug-pathway association inference
Version: 3.0
Date: 2014-03-25
Author: Haisu Ma
Maintainer: Haisu Ma
Depends: R (>= 2.12.1),Rlab,MASS,coda,ROCR
Description: This package implements a Bayesian sparse factor model for the joint analysis of paired datasets, one is the gene expression dataset and the other is the drug sensitivity profiles, measured across the same panel of samples, e.g., cell lines. Prior knowledge about gene-pathway associations can be easily incorporated in the model to aid the inference of drug-pathway associations.
License: GPL (>= 2)
LazyLoad: yes
Packaged: 2014-03-27 22:56:40 UTC; Evelyn
NeedsCompilation: no
Repository: CRAN
Date/Publication: 2014-03-27 23:58:34

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New package FacPad with initial version 3.0
Package: FacPad
Type: Package
Title: Bayesian Sparse Factor Analysis model for the inference of pathways responsive to drug treatment
Version: 3.0
Date: 2014-03-25
Author: Haisu Ma
Maintainer: Haisu Ma
Depends: R (>= 2.12.1),Rlab,MASS
Description: This method tries to explain the gene-wise treatment response ratios in terms of the latent pathways. It uses bayesian sparse factor modeling to infer the loadings (weights) of each pathway on its associated probesets as well as the latent factor activity levels for each treatment.
License: GPL (>= 2)
LazyLoad: yes
Packaged: 2014-03-27 22:56:46 UTC; Evelyn
NeedsCompilation: no
Repository: CRAN
Date/Publication: 2014-03-28 00:31:36

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Package synchronicity updated to version 1.1.4 with previous version 1.1.2 dated 2013-11-06

Title: Boost mutex functionality for R.
Description: This package provides Boost mutex functionality in R.
Author: Michael J. Kane
Maintainer: Michael J. Kane

Diff between synchronicity versions 1.1.2 dated 2013-11-06 and 1.1.4 dated 2014-03-27

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New package wesanderson with initial version 0.3
Package: wesanderson
Title: A Wes Anderson Palette Generator
Description: Palettes generated mostly from \href{http://wesandersonpalettes.tumblr.com/}{Wes Anderson Palettes}.
Version: 0.3
Authors@R: c(person("Karthik", "Ram", role = c("aut", "cre"), email = "karthik.ram@gmail.com"), person("Richards", "Clark", role = "ctb", email = "crichards@whoi.edu"))
Depends: R (>= 3.0)
License: MIT + file LICENSE
LazyData: true
Suggests: ggplot2
Packaged: 2014-03-27 16:26:22 UTC; karthik
Author: Karthik Ram [aut, cre], Richards Clark [ctb]
Maintainer: Karthik Ram
NeedsCompilation: no
Repository: CRAN
Date/Publication: 2014-03-27 20:08:25

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Package TeachingSampling updated to version 3.2.1 with previous version 3.1.1 dated 2014-03-10

Title: Selection of samples and parameter estimation in finite population
Description: Foundations of inference in survey sampling
Author: Hugo Andres Gutierrez Rojas
Maintainer: Hugo Andres Gutierrez Rojas

Diff between TeachingSampling versions 3.1.1 dated 2014-03-10 and 3.2.1 dated 2014-03-27

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Package seasonal updated to version 0.50.0 with previous version 0.40.0 dated 2014-02-12

Title: R interface to X-13ARIMA-SEATS
Description: seasonal is an easy-to-use and (almost) full-featured R-interface to X-13ARIMA-SEATS, the newest seasonal adjustment software of the United States Census Bureau. For installation notes, see the README file or the vignette. seasonal includes an optional visual inspection function that uses the manipulate package of RStudio (available at www.rstudio.com).
Author: Christoph Sax
Maintainer: Christoph Sax

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Package RSocrata updated to version 1.4 with previous version 1.2 dated 2013-10-08

Title: Download Socrata datasets as R data frames
Description: Provided with a Socrata dataset resource URL, or a Socrata SoDA web API query, or a Socrata "human-friendly" URL, returns an R data frame. Converts dates to POSIX format. Manages throttling by Socrata.
Author: Hugh J. Devlin, Ph. D. and Tom Schenk, Jr.
Maintainer: Hugh J. Devlin

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Package RMessenger updated to version 0.1.4 with previous version 0.1.3 dated 2013-08-02

Title: IM Client for R
Description: RMessenger contains 2 part of works: - A derivative work of libstrophe(http://strophe.im/libstrophe/) - A sole work of wrapping libstrophe into R For any suggestion or bug report, please visit https://github.com/wush978/RMessenger
Author: Wush Wu, Jack Moffitt and Patrick Powell
Maintainer: Wush Wu

Diff between RMessenger versions 0.1.3 dated 2013-08-02 and 0.1.4 dated 2014-03-27

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Package migest updated to version 1.5 with previous version 1.4 dated 2013-10-02

Title: Useful R code for the Estimation of Migration
Description: The migest package contains a collection of R functions that are useful to estimate migration when there is missing data. Included is the ffs routine to estimate migration flows from stock data, as well as various other functions to indirectly estimate flows where marginal totals are known. Functions are illustrated with dummy data.
Author: Guy J. Abel
Maintainer: Guy J. Abel

Diff between migest versions 1.4 dated 2013-10-02 and 1.5 dated 2014-03-27

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Package MetaSKAT updated to version 0.40 with previous version 0.32 dated 2013-11-23

Title: Meta analysis for SNP-set (Sequence) Kernel Association Test
Description: Meta analysis for SNP-set (Sequence) Kernel Association Test.
Author: Seunggeun Lee
Maintainer: Seunggeun (Shawn) Lee

Diff between MetaSKAT versions 0.32 dated 2013-11-23 and 0.40 dated 2014-03-27

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Package biwavelet updated to version 0.17.3 with previous version 0.17.1 dated 2013-07-16

Title: Conduct univariate and bivariate wavelet analyses
Description: This is a port of the WTC MATLAB package written by Aslak Grinsted and the wavelet program written by Christopher Torrence and Gibert P. Compo. This package can be used to perform univariate and bivariate (cross-wavelet, wavelet coherence, wavelet clustering) analyses.
Author: Tarik C. Gouhier, Aslak Grinsted
Maintainer: Tarik C. Gouhier

Diff between biwavelet versions 0.17.1 dated 2013-07-16 and 0.17.3 dated 2014-03-27

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New package rstudioapi with initial version 0.1
Package: rstudioapi
Title: Safely access the RStudio API.
Description: This package provides functions to make it easy to access the RStudio API when available, and provide informative error messages when not.
Version: 0.1
Author: RStudio
Maintainer: Hadley Wickham
License: MIT + file LICENSE
Roxygen: list(wrap = FALSE)
Packaged: 2014-03-12 18:51:18 UTC; hadley
NeedsCompilation: no
Repository: CRAN
Date/Publication: 2014-03-27 16:27:00

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Package GUTS (with last version 0.3.3) was removed from CRAN

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

2014-03-27 0.3.3

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Package spatsurv updated to version 0.9-1 with previous version 0.9 dated 2014-01-14

Title: Bayesian spatial survival analysis with parametric proportional hazards models.
Description: Survival analysis with parametric proportional hazards models where the events have been geo-located.
Author: Benjamin M. Taylor and Barry S. Rowlingson
Maintainer: Benjamin M. Taylor

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Package RWeka updated to version 0.4-22 with previous version 0.4-21 dated 2013-10-29

Title: R/Weka interface
Description: An R interface to Weka (Version 3.7.10). Weka is a collection of machine learning algorithms for data mining tasks written in Java, containing tools for data pre-processing, classification, regression, clustering, association rules, and visualization. Package RWeka contains the interface code, the Weka jar is in a separate package RWekajars. For more information on Weka see .
Author: Kurt Hornik [aut, cre], Christian Buchta [ctb], Torsten Hothorn [ctb], Alexandros Karatzoglou [ctb], David Meyer [ctb], Achim Zeileis [ctb]
Maintainer: Kurt Hornik

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Package partykit updated to version 0.8-0 with previous version 0.1-6 dated 2013-09-03

Title: A Toolkit for Recursive Partytioning
Description: A toolkit with infrastructure for representing, summarizing, and visualizing tree-structured regression and classification models. This unified infrastructure can be used for reading/coercing tree models from different sources (rpart, RWeka, PMML) yielding objects that share functionality for print/plot/predict methods. Furthermore, new and improved reimplementations of conditional inference trees (ctree) and model-based recursive partitioning (mob) from the party package are provided based on the new infrastructure.
Author: Torsten Hothorn [aut, cre], Achim Zeileis [aut]
Maintainer: Torsten Hothorn

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Package mixexp updated to version 1.1.1 with previous version 1.0-5 dated 2012-09-22

Title: Design and analysis of mixture experiments
Description: This package contains functions for creating designs for mixture experiments, making ternary contour plots, and making mixture effect plots.
Author: John Lawson and Cameron Willden , with contributions from Greg Piepel
Maintainer: John Lawson

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Package likeLTD updated to version 5.3.2 with previous version 5.3.1 dated 2014-03-21

Title: Tools to determine DNA profile evidence.
Description: Tools to determine DNA profile Weight of Evidence. For further information see the likeLTD guide at the URL provided, or the paper under citation.
Author: David Balding, Adrian Timpson, Christopher Steele, Mayeul d'Avezac, James Hetherington.
Maintainer: Christopher Steele

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Package etm updated to version 0.6-1 with previous version 0.6 dated 2013-12-18

Title: Empirical Transition Matrix
Description: Matrix of transition probabilities for any time-inhomogeneous multistate model with finite state space
Author: Arthur Allignol
Maintainer: Arthur Allignol

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 build/vignette.rds           |binary
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 tests/tests.etm.R            |   10 ++++++++++
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Package CDVine updated to version 1.2 with previous version 1.1-13 dated 2013-08-26

Title: Statistical inference of C- and D-vine copulas
Description: This package provides functions for statistical inference of canonical vine (C-vine) and D-vine copulas. It contains tools for bivariate exploratory data analysis and for bivariate as well as vine copula selection. Models can be estimated either sequentially or by joint maximum likelihood estimation. Sampling algorithms and plotting methods are also included. Data is assumed to lie in the unit hypercube (so-called copula data).
Author: Ulf Schepsmeier, Eike Christian Brechmann
Maintainer: Tobias Erhardt

Diff between CDVine versions 1.1-13 dated 2013-08-26 and 1.2 dated 2014-03-27

 DESCRIPTION      |   10 +++++-----
 MD5              |    6 +++---
 R/BiCopPar2Tau.r |   14 ++++++++++++--
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 4 files changed, 28 insertions(+), 11 deletions(-)

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Package changepoint updated to version 1.1.2 with previous version 1.1.1 dated 2014-02-17

Title: An R package for changepoint analysis
Description: Implements various mainstream and specialised changepoint methods for finding single and multiple changepoints within data. Many popular non-parametric and frequentist methods are included. The cpt.mean, cpt.var, cpt.meanvar functions should be your first point of call.
Author: Rebecca Killick [aut, cre], Kaylea Haynes [aut], Idris Eckley [ctb], Paul Fearnhead [ctb]
Maintainer: Rebecca Killick

Diff between changepoint versions 1.1.1 dated 2014-02-17 and 1.1.2 dated 2014-03-27

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 changepoint-1.1.2/changepoint/man/changepoint-package.Rd |    6 +--
 8 files changed, 25 insertions(+), 41 deletions(-)

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Package sjPlot updated to version 1.3 with previous version 1.2.2 dated 2014-03-03

Title: sjPlot - data visualization for statistics in social science
Description: Collection of several plotting / table output functions for visualizing data and utility functions.
Author: Daniel Lüdecke
Maintainer: Daniel Luedecke

Diff between sjPlot versions 1.2.2 dated 2014-03-03 and 1.3 dated 2014-03-27

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 NAMESPACE                    |    7 
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 R/sjRecode.R                 | 1867 +++++++++++++++++++++-------------------
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 75 files changed, 9148 insertions(+), 7814 deletions(-)

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New package monitoR with initial version 1.0
Package: monitoR
Type: Package
Title: Acoustic template detection in R
Version: 1.0
Date: 2014-05-22
Author: Sasha D. Hafner and Jon Katz
Maintainer: Sasha D. Hafner
Depends: R (>= 2.10), tuneR, methods
Imports: seewave
Suggests: fftw, parallel, RODBC, knitr
Description: Acoustic template detection and monitoring database interface.
License: GPL-2
URL: http://www.uvm.edu/rsenr/vtcfwru/R/?Page=monitoR/monitoR.htm
VignetteBuilder: knitr
Packaged: 2014-03-27 08:36:11 UTC; sasha
NeedsCompilation: no
Repository: CRAN
Date/Publication: 2014-03-27 10:22:57

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Package ks updated to version 1.9.0 with previous version 1.8.13 dated 2013-07-05

Title: Kernel smoothing
Description: Kernel smoothers for univariate and multivariate data
Author: Tarn Duong
Maintainer: Tarn Duong

Diff between ks versions 1.8.13 dated 2013-07-05 and 1.9.0 dated 2014-03-27

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 ks-1.9.0/ks/R/kde-test.R       |   27 
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 ks-1.9.0/ks/R/prelim.R         |  774 ++++++++++++------------
 ks-1.9.0/ks/R/selector.R       |  750 +++++++++--------------
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New package GUTS with initial version 0.3.3
Package: GUTS
Type: Package
Title: GUTS: Fast Calculation of the Likelihood of a Stochastic Survival Model
Version: 0.3.3
Date: 2014-03-26
Author: Carlo Albert & Sören Vogel
Maintainer: Sören Vogel
Description: Given exposure and survival time series as well as parameter values, GUTS allows for the calculation of the survival probabilities as well as the logarithm of the corresponding likelihood.
License: GPL-3
LazyLoad: yes
Suggests: adaptMCMC (>= 1.1)
Depends: methods, Rcpp (>= 0.11.1)
LinkingTo: Rcpp
RcppModules: modguts
LazyData: no
Encoding: UTF-8
Repository: CRAN
Repository/R-Forge/Project: guts
Repository/R-Forge/Revision: 15
Repository/R-Forge/DateTimeStamp: 2014-03-26 17:57:49
Date/Publication: 2014-03-27 11:10:06
Packaged: 2014-03-26 19:15:56 UTC; rforge
NeedsCompilation: yes

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Package GGIR updated to version 1.0-3 with previous version 1.0-2 dated 2014-03-14

Title: GGIR
Description: GGIR is a tool to process multi-day raw acceleration data
Author: Vincent T van Hees [aut, cre], Zhou Fang [ctb], Jing Hua Zhao [ctb]
Maintainer: Vincent T van Hees

Diff between GGIR versions 1.0-2 dated 2014-03-14 and 1.0-3 dated 2014-03-27

 DESCRIPTION         |    8 ++++----
 MD5                 |    8 ++++----
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 5 files changed, 23 insertions(+), 13 deletions(-)

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Package polyaAeppli updated to version 2.0 with previous version 1.0 dated 2013-11-25

Title: Implementation of the Polya-Aeppli distribution
Description: Functions for evaluating the mass density, cumulative distribution function, quantile function and random variate generation for the Polya-Aeppli distribution, also known as the geometric compound Poisson distribution.
Author: Conrad Burden
Maintainer: Conrad Burden

Diff between polyaAeppli versions 1.0 dated 2013-11-25 and 2.0 dated 2014-03-27

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Package jsonlite updated to version 0.9.5 with previous version 0.9.4 dated 2014-03-01

Title: A smarter JSON encoder/decoder for R
Description: This package is a fork of the RJSONIO package by Duncan Temple Lang. It builds on the same libjson c++ parser, but implements a smarter mapping between JSON data and R classes. The vignette describes the behavior in great detail. In addition to drop-in replacements for toJSON and fromJSON, the package contains functions to serialize objects and many unit tests to make verify that all edge cases are encoded and decoded consistently for use with dynamic data in systems and applications.
Author: Jeroen Ooms, Duncan Temple Lang, Jonathan Wallace
Maintainer: Jeroen Ooms

Diff between jsonlite versions 0.9.4 dated 2014-03-01 and 0.9.5 dated 2014-03-27

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 jsonlite-0.9.5/jsonlite/vignettes/json-mapping.bib             |   69 +-
 16 files changed, 504 insertions(+), 318 deletions(-)

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New package COSINE with initial version 2.0
Package: COSINE
Type: Package
Title: COndition SpecIfic sub-NEtwork
Version: 2.0
Date: 2014-03-25
Author: Haisu Ma
Maintainer: Haisu Ma
Depends: R (>= 2.10), MASS, genalg
Description: To identify the globally most discriminative subnetwork from gene expression profiles using an optimization model and genetic algorithm
License: GPL (>= 2)
LazyLoad: yes
Packaged: 2014-03-27 00:19:57 UTC; Evelyn
NeedsCompilation: no
Repository: CRAN
Date/Publication: 2014-03-27 06:40:18

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