Package QUIC updated to version 1.1 with previous version 1.0 dated 2012-05-16

Title: Regularized sparse inverse covariance matrix estimation
Description: Use Newton's method and coordinate descent to solve the regularized inverse covariance matrix estimation problem. Please refer to: Sparse Inverse Covariance Matrix Estimation Using Quadratic Approximation, Cho-Jui Hsieh, Matyas A. Sustik, Inderjit S. Dhillon, Pradeep Ravikumar, Advances in Neural Information Processing Systems 24, 2011, p. 2330--2338.
Author: Cho-Jui Hsieh [aut], Matyas A. Sustik [aut, cre], Inderjit S. Dhillon [aut], Pradeep Ravikumar [aut]
Maintainer: Matyas A. Sustik

Diff between QUIC versions 1.0 dated 2012-05-16 and 1.1 dated 2012-05-17

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New package spartan with initial version 1.0
Package: spartan
Type: Package
Title: Spartan (Simulation Parameter Analysis R Toolkit ApplicatioN)
Version: 1.0
Date: 2012-04-12
Author: Kieran Alden, Mark Read, Paul Andrews, Jon Timmis, Henrique Veiga-Fernandes, Mark Coles
Maintainer: Kieran Alden
Description: Computer simulations are becoming a popular technique to use in attempts to further our understanding of complex systems. This package provides code for four techniques described in available literature which aid the analysis of simulation results, at both single and multiple timepoints in the simulation run. The first technique addresses aleatory uncertainty in the system caused through inherent stochasticity, and determines the number of replicate runs necessary to generate a representative result. The second examines how robust asimulation is to parameter perturbation, through the use of a one-at-a-time parameter analysis technique. Thirdly, a latin hypercube based sensitivity analysis technique is included which can elucidate non-linear effects between parameters and indicate implications of epistemic uncertainty with reference to the system being modelled. Finally, a further sensitivity analysis technique, the extended Fourier Amplitude Sampling Test (eFAST) has been included to partition the variance in simulation results between input parameters, to determine the parameters which have a significant effect on simulation behaviour.
Suggests: lhs, gplots
License: GPL-2
Packaged: 2012-05-17 14:47:02 UTC; kieran
Repository: CRAN
Date/Publication: 2012-05-17 15:52:39

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New package DescribeDisplay with initial version 0.2.3
Package: DescribeDisplay
Version: 0.2.3
Title: R interface to DescribeDisplay (GGobi plugin)
Author: Hadley Wickham , Di Cook , Andreas Buja , Barret Schloerke
Depends: proto
Imports: grid, reshape2, ggplot2 (>= 0.9.1), plyr, scales, grid
Maintainer: Hadley Wickham
Description: Produce publication quality graphics from output of GGobi's describe display plugin
License: BSD
URL: http://www.ggobi.org/describe-display/
Collate: 'axis-geom.r' 'axis-grob.r' 'data.r' 'DescribeDisplay-package.r' 'ggplot-barchart.r' 'ggplot-parcoords.r' 'ggplot-scatmat.r' 'ggplot-timeseries.r' 'ggplot.r' 'plots.r' 'utils.r'
Packaged: 2012-05-17 15:12:15 UTC; hadley
Repository: CRAN
Date/Publication: 2012-05-17 16:03:21

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Package inlinedocs (with last version 1.8) was removed from CRAN

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

2011-10-24 1.8
2011-05-31 1.6
2010-10-20 1.4
2010-04-12 1.1
2009-09-30 1.0

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Package gdistance (with last version 1.1-2) was removed from CRAN

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

2011-09-30 1.1-2
2011-01-09 1.1-1

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Package boss updated to version 1.1 with previous version 1.0 dated 2012-04-03

Title: Boosted One-Step Statistics: Fast and accurate approximations for GLM, GEE and Mixed models for use in GWAS
Description: BOSS uses parameter estimates obtained without genotype to boost standard one-step approximations, and precomputes as much as possible without genotype (using boss.set) to minimize effort required.
Author: Arend Voorman
Maintainer: Arend Voorman

Diff between boss versions 1.0 dated 2012-04-03 and 1.1 dated 2012-05-17

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New package googlePublicData with initial version 0.12.05
Package: googlePublicData
Type: Package
Title: An R library to build Google's Public Data Explorer DSPL Metadata files
Version: 0.12.05
Date: 2012-05-15
Author: George Vega Yon
Maintainer: George Vega Yon
Description: package provides a collection of functions to set up Google Public Data Explorer data visualization tool with your own data, building automaticaly the corresponding DSPL (XML) metadata file jointly with the CSV files. All zipped up and ready to be published at Public Data Explorer.
Depends: R (>= 2.11.0), XML, utils, XLConnect
License: GPL (>= 3)
URL: http://code.google.com/p/rdspl/
LazyLoad: yes
Packaged: 2012-05-16 18:07:12 UTC; George
Repository: CRAN
Date/Publication: 2012-05-17 12:55:21

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New package simSummary with initial version 0.1.0
Package: simSummary
Title: Simulation summary
Description: simSummary is a small utility package which eases the process of summarizing simulation results. Simulations often produce intermediate results - some focal statistics that need to be summarized over several scenarios and many replications. This step is in principle easy, but tedious. The package simSummary fills this niche by providing a generic way of summarizing the focal statistics of simulations. The useR must provide properly structured input, holding focal statistics, and then the summary step can be performed with one line of code, calling the simSummary function.
Author: Gregor Gorjanc
Maintainer: Gregor Gorjanc
License: GPL (>= 2)
Version: 0.1.0
Depends: abind (>= 1.4-0), svUnit (>= 0.7-5)
Imports: gdata (>= 2.8.0)
Date: Check NEWS file for changes: news(package='simSummary')
Packaged: 2012-05-16 21:33:40 UTC; ggorjan
Repository: CRAN
Date/Publication: 2012-05-17 11:36:45

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Package biwavelet updated to version 0.11 with previous version 0.1 dated 2012-04-28

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

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Package tclust updated to version 1.1-02 with previous version 1.1 dated 2011-05-04

Title: Robust Trimmed Clustering
Description: Robust Trimmed Clustering
Author: Agustin Mayo Iscar, Luis Angel Garcia Escudero, Heinrich Fritz
Maintainer: Heinrich Fritz

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Package HAC updated to version 0.2-2 with previous version 0.2-1 dated 2012-05-04

Title: Estimation, simulation and visualization of Hierarchical Archimedean Copulae (HAC)
Description: Package provides the estimation of the structure and the parameters, simulation methods and structural plots of high-dimensional Hierarchical Archimedean Copulae (HAC).
Author: Ostap Okhrin and Alexander Ristig
Maintainer: Alexander Ristig

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Package fastICA updated to version 1.1-15 with previous version 1.1-14 dated 2012-03-04

Title: FastICA Algorithms to perform ICA and Projection Pursuit
Description: Implementation of FastICA algorithm to perform Independent Component Analysis (ICA) and Projection Pursuit.
Author: J L Marchini , C Heaton and B D Ripley
Maintainer: Brian Ripley

Diff between fastICA versions 1.1-14 dated 2012-03-04 and 1.1-15 dated 2012-05-17

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New package fanc with initial version 0.17
Package: fanc
Type: Package
Title: Penalized likelihood factor analysis via non-concave penalty
Version: 0.17
Date: 2012-05-17
Author: Kei Hirose, Michio Yamamoto
Maintainer: Kei Hirose
Suggests: RGtk2
Description: This package computes the penalized maximum likelihood estimates of factor loadings and unique variances for various tuning parameters. The pathwise coordinate descent along with EM algorithm is used.
License: GPL (>= 2)
URL: http://www.keihirose.com/.
Packaged: 2012-05-17 01:21:56 UTC; hirosekei
Repository: CRAN
Date/Publication: 2012-05-17 07:55:01

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Package rrBLUP updated to version 3.8 with previous version 3.7 dated 2012-04-10

Title: Ridge regression and other kernels for genomic selection
Description: One application is to estimate marker effects by ridge regression; alternatively, BLUPs can be calculated based on kinship. The genetic covariance between lines can be modeled using a marker-based, additive relationship matrix, or via Gaussian and exponential kernels.
Author: Jeffrey Endelman
Maintainer: Jeffrey Endelman

Diff between rrBLUP versions 3.7 dated 2012-04-10 and 3.8 dated 2012-05-17

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Package OrgMassSpecR updated to version 0.3-12 with previous version 0.3-5 dated 2011-08-26

Title: Organic Mass Spectrometry
Description: Organic/biological mass spectrometry data analysis.
Author: Nathan G. Dodder, with code contributions from Katharine M. Mullen.
Maintainer: Nathan Dodder

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Package msgps updated to version 1.3 with previous version 1.1 dated 2011-12-06

Title: Degrees of freedom of elastic net, adaptive lasso and generalized elastic net
Description: This package computes the degrees of freedom of the lasso, elastic net, generalized elastic net and adaptive lasso based on the generalized path seeking algorithm. The optimal model can be selected by model selection criteria including Mallows' Cp, bias-corrected AIC (AICc), generalized cross validation (GCV) and BIC.
Author: Kei Hirose
Maintainer: Kei Hirose

Diff between msgps versions 1.1 dated 2011-12-06 and 1.3 dated 2012-05-17

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New package MissingDataGUI with initial version 0.1-3
Package: MissingDataGUI
Type: Package
Title: A GUI for Missing Data Exploration
Version: 0.1-3
Date: 2012-05-15
Author: Xiaoyue Cheng, Dianne Cook, Heike Hofmann
Maintainer: Xiaoyue Cheng
Description: This package provides numeric and graphical summaries for the missing values from both discrete and continuous variables. A variety of imputation methods are applied, including univariate imputations like fixed or random values, multiple imputations based on other packages, and imputations conditioned on a categorical variable.
Depends: gWidgetsRGtk2, Hmisc, norm, GGally, ggplot2
Imports: cairoDevice, grid, plyr, reshape2, reshape
License: GPL
Collate: 'MissingDataGUI-package.r' 'MissingDataGUI.r' 'WatchMissingValues.r' 'imputation.r' 'SingleImputation.r' 'zzz.r'
Packaged: 2012-05-17 03:11:05 UTC; xiaoyue
Repository: CRAN
Date/Publication: 2012-05-17 07:00:23

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Package MatrixEQTL updated to version 1.6.0 with previous version 1.5.2 dated 2012-02-15

Title: Matrix eQTL: Ultra fast eQTL analysis via large matrix operations
Description: Matrix eQTL is designed for fast eQTL analysis on large datasets. Matrix eQTL can test for association between genotype and gene expression using linear regression with either additive or ANOVA genotype effects. The models can include covariates to account for factors as population stratification, gender, and clinical variables. It also supports models with heteroscedastic and/or correlated errors, false discovery rate estimation and separate treatment of local (cis) and distant (trans) eQTLs.
Author: Andrey Shabalin
Maintainer: Andrey Shabalin

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Package heplots updated to version 0.9-12 with previous version 0.9-11 dated 2012-02-12

Title: Visualizing Hypothesis Tests in Multivariate Linear Models
Description: Provides HE plot functions for visualizing hypothesis tests in multivariate linear models. They represents sums-of-squares-and-products matrices for linear hypotheses and for error using ellipses (in two dimensions) and ellipsoids (in three dimensions).
Author: John Fox, Michael Friendly, and Georges Monette
Maintainer: Michael Friendly

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New package CUMP with initial version 1.0
Package: CUMP
Type: Package
Title: Analyze Multivariate Phenotypes by Combining Univariate results
Version: 1.0
Date: 2012-03-08
Author: Xuan Liu and Qiong Yang
Maintainer: Xuan Liu
Description: Combining Univariate Association Test Results of Multiple Phenotypes for Detecting Pleiotropy
License: GPL (>= 2)
LazyLoad: yes
Packaged: 2012-05-16 18:49:39 UTC; liuxuan
Repository: CRAN
Date/Publication: 2012-05-17 06:23:23

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New package bisectr with initial version 0.0.2
Package: bisectr
Title: Tools to find bad commits with git bisect
Version: 0.0.2
Author: Winston Chang
Maintainer: Winston Chang
Description: Tools to find bad commits with git bisect
Depends: R (>= 2.14)
Imports: devtools
License: GPL-2
Collate: 'bisect.r'
Packaged: 2012-05-16 19:06:34 UTC; winston
Repository: CRAN
Date/Publication: 2012-05-17 06:18:53

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