Thu, 28 May 2015

Package Rhpc updated to version 0.15-147 with previous version 0.15-146 dated 2015-05-26

Title: Permits *apply() Style Dispatch for 'HPC'
Description: Function of apply style using 'MPI' provides better 'HPC' environment on R. and this package supports long vector, can deal with slightly big data.
Author: Junji NAKANO <nakanoj@ism.ac.jp> and Ei-ji Nakama<nakama@com-one.com>
Maintainer: Ei-ji Nakama <nakama@com-one.com>

Diff between Rhpc versions 0.15-146 dated 2015-05-26 and 0.15-147 dated 2015-05-28

 ChangeLog        |    2 ++
 DESCRIPTION      |    8 ++++----
 MD5              |    6 +++---
 src/Makevars.win |    2 +-
 4 files changed, 10 insertions(+), 8 deletions(-)

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Package Rrdrand updated to version 0.1-14 with previous version 0.1-10 dated 2014-10-16

Title: 'DRNG' on Intel CPUs with the 'RdRand' Instruction for R
Description: Make use of the hardware random number accessed by the 'RdRand' instruction in recent Intel CPUs (Ivy Bridge and later). 'DRNG' is "Digital Random Number Generator".
Author: Ei-ji Nakama <nakama@com-one.com>, Junji NAKANO <nakanoj@ism.ac.jp>
Maintainer: Ei-ji Nakama <nakama@com-one.com>

Diff between Rrdrand versions 0.1-10 dated 2014-10-16 and 0.1-14 dated 2015-05-28

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 5 files changed, 22 insertions(+), 20 deletions(-)

More information about Rrdrand at CRAN
Permanent link

Package rLakeAnalyzer updated to version 1.7.6 with previous version 1.7.3 dated 2015-04-05

Title: Package for the Analysis of Lake Physics
Description: Standardized methods for calculating common important derived physical features of lakes including water density based based on temperature, thermal layers, thermocline depth, lake number, Wedderburn number, Schmidt stability and others.
Author: Luke Winslow, Jordan Read, Richard Woolway, Jennifer Brentrup, Taylor Leach, Jake Zwart
Maintainer: Luke Winslow <lawinslow@gmail.com>

Diff between rLakeAnalyzer versions 1.7.3 dated 2015-04-05 and 1.7.6 dated 2015-05-28

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Package RhpcBLASctl updated to version 0.15-148 with previous version 0.14-256 dated 2014-09-12

Title: Control the Number of Threads on 'BLAS'
Description: Control the number of threads on 'BLAS' (Aka 'GotoBLAS', 'ACML' and 'MKL'). and possible to control the number of threads in 'OpenMP'. get a number of logical cores and physical cores if feasible.
Author: Junji NAKANO <nakanoj@ism.ac.jp> and Ei-ji Nakama<nakama@com-one.com>
Maintainer: Ei-ji Nakama <nakama@com-one.com>

Diff between RhpcBLASctl versions 0.14-256 dated 2014-09-12 and 0.15-148 dated 2015-05-28

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More information about RhpcBLASctl at CRAN
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Package relsurv updated to version 2.0-5 with previous version 2.0-4 dated 2013-04-04

Title: Relative Survival
Description: Various functions for relative survival analysis.
Author: Maja Pohar Perme [aut, cre], Klemen Pavlic [ctb]
Maintainer: Maja Pohar Perme <maja.pohar@mf.uni-lj.si>

Diff between relsurv versions 2.0-4 dated 2013-04-04 and 2.0-5 dated 2015-05-28

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Package LakeMetabolizer updated to version 1.3.3 with previous version 1.3.1 dated 2015-04-05

Title: Tools for the Analysis of Ecosystem Metabolism
Description: A collection of tools for the calculation of freewater metabolism.
Author: Luke Winslow, Jake Zwart, Ryan Batt, Jessica Corman, Hilary Dugan, Paul Hanson, Aline Jaimes, Jordan Read, Richard Woolway
Maintainer: Luke Winslow <lawinslow@gmail.com>

Diff between LakeMetabolizer versions 1.3.1 dated 2015-04-05 and 1.3.3 dated 2015-05-28

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Package RecordLinkage updated to version 0.4-8 with previous version 0.4-7 dated 2015-01-15

Title: Record Linkage in R
Description: Provides functions for linking and de-duplicating data sets. Methods based on a stochastic approach are implemented as well as classification algorithms from the machine learning domain.
Author: Andreas Borg <borga@uni-mainz.de>, Murat Sariyar <murat.sariyar@charite.de>
Maintainer: Andreas Borg <borga@uni-mainz.de>

Diff between RecordLinkage versions 0.4-7 dated 2015-01-15 and 0.4-8 dated 2015-05-28

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More information about RecordLinkage at CRAN
Permanent link

Package tmap updated to version 1.0 with previous version 0.7 dated 2015-03-27

Title: Thematic Maps
Description: Thematic maps are geographical maps in which statistical data are visualized. This package offers a flexible, layer-based, way to create thematic maps, such as choropleths and bubble maps.
Author: Martijn Tennekes
Maintainer: Martijn Tennekes <mtennekes@gmail.com>

Diff between tmap versions 0.7 dated 2015-03-27 and 1.0 dated 2015-05-28

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 112 files changed, 2682 insertions(+), 1698 deletions(-)

More information about tmap at CRAN
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Package OpenMx updated to version 2.2.4 with previous version 2.2.2 dated 2015-05-19

Title: Extended Structural Equation Modelling
Description: Facilitates treatment of statistical model specifications as things that can be generated and manipulated programmatically. Structural equation models may be specified with reticular action model matrices or paths, linear structural relations matrices or paths, or directly in matrix algebra. Fit functions include full information maximum likelihood, maximum likelihood, and weighted least squares. Example models include confirmatory factor, multiple group, mixture distribution, categorical threshold, modern test theory, differential equations, state space, and many others.
Author: Steven M. Boker [aut], Michael C. Neale [aut], Hermine H. Maes [aut], Michael J. Wilde [ctb], Michael Spiegel [aut], Timothy R. Brick [aut], Ryne Estabrook [aut], Timothy C. Bates [aut], Paras Mehta [ctb], Timo von Oertzen [ctb], Ross J. Gore [aut], Michael D. Hunter [aut], Daniel C. Hackett [ctb], Julian Karch [ctb], Andreas M. Brandmaier [ctb], Joshua N. Pritikin [aut, cre], Mahsa Zahery [aut], Robert M. Kirkpatrick [aut], Yang Wang [ctb]
Maintainer: Joshua N. Pritikin <jpritikin@pobox.com>

Diff between OpenMx versions 2.2.2 dated 2015-05-19 and 2.2.4 dated 2015-05-28

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 R/MxMI.R                                                   |    7 
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 R/MxRun.R                                                  |    3 
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 src/glue.h                                                 |    2 
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 src/omxAlgebra.h                                           |    3 
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 src/omxMatrix.h                                            |    3 
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 70 files changed, 514 insertions(+), 556 deletions(-)

More information about OpenMx at CRAN
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Package IgorR updated to version 0.8 with previous version 0.7.1 dated 2014-02-11

Title: Read Binary Files Saved by 'Igor Pro' (Including 'Neuromatic' Data)
Description: Provides function to read data from the 'Igor Pro' data analysis program by Wavemetrics. The data formats supported are 'Igor' packed experiment format (pxp) and 'Igor' binary wave (ibw). See: http://www.wavemetrics.com/ for details. Also includes functions to load special pxp files produced by the 'Igor Pro' 'Neuromatic' and 'Nclamp' packages for recording and analysing neuronal data. See http://www.neuromatic.thinkrandom.com/ for details.
Author: Greg Jefferis with contributions from Thomas Braun
Maintainer: Greg Jefferis <jefferis@gmail.com>

Diff between IgorR versions 0.7.1 dated 2014-02-11 and 0.8 dated 2015-05-28

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Package biogas updated to version 1.0.1 with previous version 1.0 dated 2015-03-05

Title: Analyze Biogas Data and Predict Biogas Production
Description: Functions for working with biogas data. Both low- and high-level functions are included for carrying out common tasks for analysis of biogas and related data. Molar mass and calculated oxygen demand (COD') can be determined from a chemical formula. Measured gas volume can be corrected for water vapor and to (possibly user-defined) standard temperature and pressure. Gas composition, cumulative production, or other variables can be interpolated to a specified time. Cumulative biogas and methane production (and rates) can be calculated from individual biogas volume (or reactor mass) and biogas composition measurements for any number of reactors. With cumulative methane production data and data on reactor contents, biochemical methane potential (BMP) can be calculated and summarized, including subtraction of the inoculum contribution and normalization by substrate mass. Cumulative production and production rates can be summarized in several different ways (e.g., omitting normalization) using the same function. Lastly, biogas and methane production can be predicted from substrate composition and additional, optional data.
Author: Sasha D. Hafner, Charlotte Rennuit, Jin Mi Triolo, and Ali Heidarzadeh Vazifehkhoran.
Maintainer: Sasha D. Hafner <saha@kbm.sdu.dk>

Diff between biogas versions 1.0 dated 2015-03-05 and 1.0.1 dated 2015-05-28

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Package timereg updated to version 1.8.9 with previous version 1.8.8 dated 2015-05-27

Title: Flexible Regression Models for Survival Data
Description: Programs for Martinussen and Scheike (2006), `Dynamic Regression Models for Survival Data', Springer Verlag. Plus more recent developments. Additive survival model, semiparametric proportional odds model, fast cumulative residuals, excess risk models and more. Flexible competing risks regression including GOF-tests. Two-stage frailty modelling. PLS for the additive risk model. Lasso in the 'ahaz' package.
Author: Thomas Scheike with contributions from Torben Martinussen, Jeremy Silver and Klaus Holst
Maintainer: Thomas Scheike <ts@biostat.ku.dk>

Diff between timereg versions 1.8.8 dated 2015-05-27 and 1.8.9 dated 2015-05-28

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 MD5                     |    8 ++++----
 man/two.stage.reg.Rd    |    4 ++--
 src/ipcw-residualmean.c |    2 +-
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Package nabor updated to version 0.4.6 with previous version 0.4.4 dated 2015-01-12

Title: Wraps 'libnabo', a Fast K Nearest Neighbour Library for Low Dimensions
Description: An R wrapper for 'libnabo', an exact or approximate k nearest neighbour library which is optimised for low dimensional spaces (e.g. 3D). 'libnabo' has speed and space advantages over the 'ANN' library wrapped by package 'RANN'. 'nabor' includes a knn function that is designed as a drop-in replacement for 'RANN' function nn2. In addition, objects which include the k-d tree search structure can be returned to speed up repeated queries of the same set of target points.
Author: Stephane Mangenat (for 'libnabo'), Gregory Jefferis
Maintainer: Gregory Jefferis <jefferis@gmail.com>

Diff between nabor versions 0.4.4 dated 2015-01-12 and 0.4.6 dated 2015-05-28

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 README.md                 |    3 +++
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New package forestFloor with initial version 1.4
Package: forestFloor
Type: Package
Title: Visualizes Random Forests with Feature Contributions
Version: 1.4
Date: 2015-05-19
Author: Soeren Havelund Welling
Maintainer: Soeren Havelund Welling <SOWE@DTU.DK>
Depends:
Suggests:
Description: Enables user to form appropriate visualization of high dimensional mapping curvature of random forests.
SystemRequirements: OpenGL, GLU Library, zlib
License: GPL-2
Imports: Rcpp (>= 0.11.6), randomForest, rgl, kknn, trimTrees
LinkingTo: Rcpp
Repository: CRAN
Repository/R-Forge/Project: forestfloor
Repository/R-Forge/Revision: 118
Repository/R-Forge/DateTimeStamp: 2015-05-28 07:26:59
Date/Publication: 2015-05-28 10:41:47
NeedsCompilation: yes
Packaged: 2015-05-28 07:45:11 UTC; rforge

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Package depend.truncation updated to version 2.4 with previous version 2.3 dated 2015-05-10

Title: Statistical Inference for Parametric and Semiparametric Models Based on Dependently Truncated Data
Description: Suppose that one can observe bivariate random variables (X, Y) only when X<=Y holds. Data (Xj, Yj), subject to Xj<=Yj, for all j=1,...,n, are called truncated data. Parametric approach (Emura & Konno 2012 Stat Papers), semiparametric approach (Chaieb et al. 2006 Biometrika; Emura et al. 2011 Sinica; Emura & Murotani 2015 TEST), nonparametric maximum likelihood approach (Emura & Wang 2012 JMVA), and regression approach (Emura & Wang 2015 AISM) are implemented for statistical inference on (X, Y), when X and Y are dependent. Also included is truncated data on the number of deaths at each year (1963-1980) for Japanese male centenarians (Emura & Murotani 2015 TEST).
Author: Takeshi Emura
Maintainer: Takeshi Emura <emura@stat.ncu.edu.tw>

Diff between depend.truncation versions 2.3 dated 2015-05-10 and 2.4 dated 2015-05-28

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Package biorxivr updated to version 0.1.1 with previous version 0.1.0 dated 2015-05-05

Title: Search and Download Papers from the bioRxiv Preprint Server
Description: The bioRxiv preprint server (http://www.biorxiv.org) is a website where scientists can post preprints of scholarly texts in biology. Users can search and download PDFs in bulk from the preprint server. The text of abstracts are stored as raw text within R, and PDFs can easily be saved and imported for text mining with packages such as 'tm'.
Author: Edmund Hart [aut, cre]
Maintainer: Edmund Hart <edmund.m.hart@gmail.com>

Diff between biorxivr versions 0.1.0 dated 2015-05-05 and 0.1.1 dated 2015-05-28

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Package AGD updated to version 0.35 with previous version 0.32 dated 2015-01-11

Title: Analysis of Growth Data
Description: Tools for NIHES course EP18 'Analysis of Growth Data', May 22-23 2012, Rotterdam.
Author: Stef van Buuren <stef.vanbuuren@tno.nl>
Maintainer: Stef van Buuren <stef.vanbuuren@tno.nl>

Diff between AGD versions 0.32 dated 2015-01-11 and 0.35 dated 2015-05-28

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Package R.utils updated to version 2.1.0 with previous version 2.0.2 dated 2015-04-27

Title: Various Programming Utilities
Description: Utility functions useful when programming and developing R packages.
Author: Henrik Bengtsson [aut, cre, cph]
Maintainer: Henrik Bengtsson <henrikb@braju.com>

Diff between R.utils versions 2.0.2 dated 2015-04-27 and 2.1.0 dated 2015-05-28

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 40 files changed, 391 insertions(+), 87 deletions(-)

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Package qtbase updated to version 1.0.9 with previous version 1.0.4 dated 2012-03-03

Title: Interface Between R and Qt
Description: Dynamic bindings to the Qt library for calling Qt methods and extending Qt classes from R. Other packages build upon 'qtbase' to provide special-purpose high-level interfaces to specific parts of Qt.
Author: Michael Lawrence, Deepayan Sarkar
Maintainer: Michael Lawrence <michafla@gene.com>

Diff between qtbase versions 1.0.4 dated 2012-03-03 and 1.0.9 dated 2015-05-28

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 qtbase-1.0.9/qtbase/DESCRIPTION                                                |   16 
 qtbase-1.0.9/qtbase/INSTALL                                                    |   73 ++-
 qtbase-1.0.9/qtbase/MD5                                                        |   77 ++--
 qtbase-1.0.9/qtbase/NAMESPACE                                                  |    1 
 qtbase-1.0.9/qtbase/R/class.R                                                  |   10 
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 qtbase-1.0.9/qtbase/R/object.R                                                 |    4 
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 qtbase-1.0.9/qtbase/src/DataFrameModel.hpp                                     |    4 
 qtbase-1.0.9/qtbase/src/EventLoop.cpp                                          |  184 +++++++++-
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 qtbase-1.0.9/qtbase/src/convert.cpp                                            |   67 ++-
 qtbase-1.0.9/qtbase/src/mkdef.sh                                               |    2 
 qtbase-1.0.9/qtbase/src/module.cpp                                             |   10 
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New package listenv with initial version 0.3.0
Package: listenv
Version: 0.3.0
Depends: R (>= 3.1.2)
Title: Environments Behaving (Almost) as Lists
Authors@R: c(person("Henrik", "Bengtsson", role=c("aut", "cre", "cph"), email = "henrikb@braju.com"))
Description: List Environments are environments that can be indexed similarly to lists, e.g. 'x <- listenv(); x[[2]] <- "b"; names(x)[2] <- "B"; print(x$B)'.
License: LGPL (>= 2.1)
LazyLoad: TRUE
URL: https://github.com/HenrikBengtsson/listenv
BugReports: https://github.com/HenrikBengtsson/listenv/issues
NeedsCompilation: no
Packaged: 2015-05-28 01:35:55 UTC; hb
Author: Henrik Bengtsson [aut, cre, cph]
Maintainer: Henrik Bengtsson <henrikb@braju.com>
Repository: CRAN
Date/Publication: 2015-05-28 08:01:27

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Package fishmethods updated to version 1.8-0 with previous version 1.7-0 dated 2014-11-18

Title: Fishery Science Methods and Models in R
Description: Fishery science methods and models from published literature and contributions from colleagues.
Author: Gary A. Nelson <gary.nelson@state.ma.us>
Maintainer: Gary A. Nelson <gary.nelson@state.ma.us>

Diff between fishmethods versions 1.7-0 dated 2014-11-18 and 1.8-0 dated 2015-05-28

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New package fermicatsR with initial version 1.3
Package: fermicatsR
Title: Fermi Large Area Telescope Catalogs
Version: 1.3
Date: 2015-05-26
Authors@R: person("Pablo", "Saz Parkinson", email = "sazpark2@gmail.com", role = c("aut", "cre"))
Description: Data from various catalogs of astrophysical gamma-ray sources detected by NASA's Large Area Telescope (The Astrophysical Journal, 697, 1071, 2009 June 1), on board the Fermi gamma-ray satellite. More information on Fermi and its data products is available from the Fermi Science Support Center (http://fermi.gsfc.nasa.gov/ssc/).
Depends: R (>= 3.1.0)
Suggests: ggplot2
License: CC0
LazyData: true
URL: https://github.com/sazpark/fermicatsR.git
NeedsCompilation: no
Packaged: 2015-05-27 00:10:23 UTC; pablo
Author: Pablo Saz Parkinson [aut, cre]
Maintainer: Pablo Saz Parkinson <sazpark2@gmail.com>
Repository: CRAN
Date/Publication: 2015-05-28 08:36:28

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Package ApacheLogProcessor updated to version 0.1.3 with previous version 0.1 dated 2015-05-08

Title: Process the Apache Web Server Log Combined Files
Description: Provides a function to process Apache Log Combined files. The main functionality is to extract data from log files to data frames.
Author: Diogo Silveira Mendonca
Maintainer: Diogo Silveira Mendonca <diogosmendonca@gmail.com>

Diff between ApacheLogProcessor versions 0.1 dated 2015-05-08 and 0.1.3 dated 2015-05-28

 DESCRIPTION                     |    7 ++++---
 MD5                             |    6 +++---
 R/ApacheLogProcessor.R          |   23 +++++++++++++++++++----
 man/read.apache.log.combined.Rd |    7 +++++--
 4 files changed, 31 insertions(+), 12 deletions(-)

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