Tue, 14 Apr 2009

Package vrtest updated to version 0.91 with previous version 0.90 dated 2008-08-06

Author: Jae H. Kim
Title: Variance Ratio tests and spectral shape tests for Weak-form Market Efficiency
Description: A collection of variance ratio and spectral shapte tests

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Package superpc updated to version 1.06 with previous version 1.05 dated 2007-04-19

Author: Eric Bair, R. Tibshirani
Title: Supervised principal components
Description: Supervised principal components for regression and survival analsysis. Especially useful for high-dimnesional data, including microarray data.

Diff between superpc versions 1.05 dated 2007-04-19 and 1.06 dated 2009-04-14

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Package spgrass6 updated to version 0.6-3 with previous version 0.5-18 dated 2009-02-05

Author: Roger Bivand
Title: Interface between GRASS 6 geographical information system and R
Description: Interpreted interface between GRASS 6 geographical information system and R, based on starting R from within the GRASS environment.

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Package rgrs updated to version 0.2-9 with previous version 0.2-8 dated 2009-03-04

Author: Julien Barnier
Title: Functions to make R usage in social sciences easier (in french)
Description: This package provides functions for beginners and social sciences students or researchers. Currently it includes functions for cross-tabulation, weighting, results export, and maps plotting. The documentation and help pages are written in french.

Diff between rgrs versions 0.2-8 dated 2009-03-04 and 0.2-9 dated 2009-04-14

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Package rconifers updated to version 0.0-10 with previous version 0.0-9 dated 2008-11-26

Author: Jeff D. Hamann and Martin W. Ritchie
Title: R interface to the CONIFERS forest growth model
Description: This package contains functions for simulating future forest conditions using the CONIFERS growth model.

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Package randomLCA updated to version 0.7-1 with previous version 0.6-2 dated 2009-03-08

Author: Ken Beath
Title: Random Effects Latent Class Analysis
Description: Fits random effects latent class models, as well as standard latent class models.

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Package quantreg updated to version 4.27 with previous version 4.26 dated 2009-01-26

Author: Roger Koenker
Title: Quantile Regression
Description: Quantile regression and related methods.

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New package prueba with initial version 1.1-0
Package: prueba
Version: 1.1-0
Date: 2002-03-12
Title: Combine multi-dimensional arrays
Author: Tony Plate and Richard Heiberger
Maintainer: Tony Plate
Description: Combine multi-dimensional arrays. This is a generalization of cbind and rbind. Takes a sequence of vectors, matrices, or arrays and produces a single array of the same or higher dimension.
Depends: R (>= 1.5.0)
License: LGPL (>= 2.0)
Packaged: Wed Apr 1 20:43:52 2009; Usuario Profesor
Repository: CRAN
Date/Publication: 2009-04-14 17:32:52

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Package nsRFA updated to version 0.6-8 with previous version 0.6-7 dated 2009-03-26

Author: Alberto Viglione
Title: Non-supervised Regional Frequency Analysis
Description: A collection of statistical tools for objective (non-supervised) applications of the Regional Frequency Analysis methods in hydrology. The package refers to the index-value method and, more precisely, helps the hydrologist to: (1) regionalize the index-value; (2) form homogeneous regions with similar growth curves; (3) fit distribution functions to the empirical regional growth curves.

Diff between nsRFA versions 0.6-7 dated 2009-03-26 and 0.6-8 dated 2009-04-14

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Package mvna updated to version 1.1-9 with previous version 1.1-8 dated 2009-02-01

Author: Arthur Allignol
Title: Nelson-Aalen estimator of the cumulative hazard in multistate models
Description: This package computes the Nelson-Aalen estimator of the cumulative transition hazard for multistate models.

Diff between mvna versions 1.1-8 dated 2009-02-01 and 1.1-9 dated 2009-04-14

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Package msm updated to version 0.8.2 with previous version 0.8.1 dated 2008-07-28

Author: Christopher Jackson
Title: Multi-state Markov and hidden Markov models in continuous time
Description: Functions for fitting general continuous-time Markov and hidden Markov multi-state models to longitudinal data. Both Markov transition rates and the hidden Markov output process can be modelled in terms of covariates. A variety of observation schemes are supported, including processes observed at arbitrary times, completely-observed processes, and censored states.

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Package mpm updated to version 1.0-13 with previous version 1.0-12 dated 2008-11-17

Author: Luc Wouters
Title: Multivariate Projection Methods
Description: Exploratory graphical analysis of multivariate data, specifically gene expression data with different projection methods: principal component analysis, correspondence analysis, spectral map analysis.

Diff between mpm versions 1.0-12 dated 2008-11-17 and 1.0-13 dated 2009-04-14

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Package mhsmm updated to version 0.2.3 with previous version 0.2.1 dated 2009-04-04

Author: Jared O'Connell , Soren Hojsgaard
Title: Parameter estimation and prediction for hidden Markov and semi-Markov models for data with multiple observation sequences
Description: Parameter estimation and prediction for hidden Markov and semi-Markov models for data with multiple observation sequences. The times must be equidistant but missing values of the observables are allowed. The observables are allowed to be multivariate. It is possible to have multiple sequences of data. Estimation of the parameters of the models are made using EM--algorithms. Computationally demanding parts of the algorithm are implemented in C for performance. Finally, the package is designed to allow users to specify their own emission distributions, giving flexibility in the type of data that may be analysed.

Diff between mhsmm versions 0.2.1 dated 2009-04-04 and 0.2.3 dated 2009-04-14

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Package mcmc updated to version 0.6 with previous version 0.5-1 dated 2005-09-17

Author: Charles J. Geyer .
Title: Markov Chain Monte Carlo
Description: functions for Markov chain Monte Carlo (MCMC).

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New package mc2d with initial version 0.1-5
Package: mc2d
Type: Package
Title: Tools for Two-Dimensional Monte-Carlo Simulations
Version: 0.1-5
Date: 2008-12-01
Author: Regis Pouillot , Marie Laure Delignette-Muller and Jean-Baptiste Denis
Maintainer: Regis Pouillot
Depends: mvtnorm
Description: Various distributions and utilities to ease the use of R to build and study Two-Dimensional Monte-Carlo simulations
License: GPL (>= 2)
Repository: CRAN
Repository/R-Forge/Project: riskassessment
Repository/R-Forge/Revision: 45
Publication/Date: 2009-04-04 00:06:23
Packaged: Tue Apr 7 05:13:34 2009; rforge
Date/Publication: 2009-04-14 17:32:05

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Package maptools updated to version 0.7-22 with previous version 0.7-21 dated 2009-03-29

Author: Nicholas J. Lewin-Koh and Roger Bivand, contributions by Edzer J. Pebesma, Eric Archer, Adrian Baddeley, Hans-Jörg Bibiko, Stéphane Dray, David Forrest, Patrick Giraudoux, Duncan Golicher, Virgilio Gómez Rubio, Patrick Hausmann, Thomas Jagger, Sebastian P. Luque, Don MacQueen, Andrew Niccolai and Tom Short
Title: Tools for reading and handling spatial objects
Description: Set of tools for manipulating and reading geographic data, in particular ESRI shapefiles; C code used from shapelib. It includes binary access to GSHHS shoreline files. The package also provides interface wrappers for exchanging spatial objects with packages such as PBSmapping, spatstat, maps, RArcInfo, Stata tmap, WinBUGS, Mondrian, and others.

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Package igraph updated to version 0.5.2 with previous version 0.5.1 dated 2008-07-12

Author: Gabor Csardi
Title: Routines for simple graphs, network analysis.
Description: Routines for simple graphs and network analysis. igraph can handle large graphs very well and provides functions for generating random and regular graphs, graph visualization, centrality indices and much more.

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Package fossil updated to version 0.2.1 with previous version 0.2.0 dated 2008-09-28

Author: Matthew Vavrek
Title: Palaeoecological and Palaeogeographical Analysis Tools
Description: A set of analytical tools useful in analysing ecological and geographical data sets, both ancient and modern. The package includes functions for estimating species richness (Chao 1 and 2, ACE, ICE, Jacknife), shared species/beta diversity, species area curves and geographic distances and areas.

Diff between fossil versions 0.2.0 dated 2008-09-28 and 0.2.1 dated 2009-04-14

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Package fmri updated to version 1.3 with previous version 1.2-6 dated 2008-05-19

Author: Karsten Tabelow , Joerg Polzehl
Title: Analysis of fMRI experiments
Description: The library contains R-functions to perform an fmri analysis as described in Tabelow, K., Polzehl, J., Voss, H.U., and Spokoiny, V. Analysing fMRI experiments with structure adaptive smoothing procedures, NeuroImage, 33:55-62 (2006).

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Package feature updated to version 1.2.3 with previous version 1.2.2 dated 2009-02-16

Author: Tarn Duong & Matt Wand
Title: Feature significance for multivariate kernel density estimation
Description: Feature significance for multivariate kernel density estimation

Diff between feature versions 1.2.2 dated 2009-02-16 and 1.2.3 dated 2009-04-14

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Package fame updated to version 2.6 with previous version 2.5 dated 2009-01-22

Author: Jeff Hallman
Title: Interface for FAME time series database
Description: Read and write FAME databases.

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Package etm updated to version 0.4-0 with previous version 0.3-7 dated 2009-02-04

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

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Package drc updated to version 1.6-3 with previous version 1.6-1 dated 2009-03-25

Author: Christian Ritz , Jens Strebig
Title: Analysis of dose-response curves
Description: Analysis of one or multiple curves with focus on concentration-response, dose-response and time-response curves used, for example in biology, environmental sciences, medicine, pharmacology, toxicology.

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Package cem updated to version 1.0.96 with previous version 1.0.90 dated 2009-02-18

Author: Stefano Iacus Gary King Giuseppe Porro
Title: CEM: Software for Coarsened Exact Matching
Description: This program implements the coarsened exact matching algorithm (and many extensions) described in Stefano M. Iacus, Gary King, and Giuseppe Porro, "Matching for Causal Inference Without Balance Checking," http://gking.harvard.edu/files/abs/cem-abs.shtml

Diff between cem versions 1.0.90 dated 2009-02-18 and 1.0.96 dated 2009-04-14

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Package bear updated to version 2.3.1 with previous version 2.3.0 dated 2009-03-09

Author: Hsin-ya Lee , Yung-jin Lee
Title: Average bioequivalence and bioavailability data analysis tool
Description: An average bioequivalence (ABE) and bioavailability data analysis tool including sample size estimation, noncompartmental analysis (NCA), ANOVA (lm) for a standard RT/TR 2x2x2 crossover design and linear mixed effect model (lme of nlme) for a 2-treatment, 2-sequence, with 2 periods or more (i.e. 2x2x3/2x2x4) replicate design or a 2-treatment, 2-sequence, and 1-period parallel ABE study (2x2x1).

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Package ascii updated to version 0.1.1 with previous version 0.1 dated 2009-04-04

Author: David Hajage
Title: Export R objects to asciidoc or txt2tags
Description: Coerce R object to asciidoc or txt2tags syntax. Package comes with two drivers for Sweave.

Diff between ascii versions 0.1 dated 2009-04-04 and 0.1.1 dated 2009-04-14

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Package adimpro updated to version 0.7.2 with previous version 0.7.1 dated 2008-10-07

Author: Karsten Tabelow , Joerg Polzehl
Title: Adaptive Smoothing of Digital Images
Description: This package implements tools for manipulationg digital images and the Propagation Separation approach by Polzehl and Spokoiny (2006) for smoothing digital images.

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Package TSodbc updated to version 2009.3-3 with previous version 2009.3-2 dated 2009-03-25

Author: Paul Gilbert
Title: Time Series Database Interface extensions for ODBC
Description: TSodbc provides a ODBC interface for TSdbi.

Diff between TSodbc versions 2009.3-2 dated 2009-03-25 and 2009.3-3 dated 2009-04-14

 DESCRIPTION          |   12 ++++++------
 NEWS                 |    5 +++++
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 3 files changed, 12 insertions(+), 7 deletions(-)

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Package SGP updated to version 0.0-4 with previous version 0.0-3 dated 2009-02-16

Author: Damian W. Betebenner , with contributions from Jonathan Weeks, Jinnie Choi, Marie Huchton, Xin Wei, and Hi Shin Shim
Title: Student Growth Percentile and Percentile Growth Projection/Trajectory Functions
Description: Functions to calculate growth percentiles and percentile growth projections/trajectories for students using large scale, longitudinal assessment data. Functions use quantile regression to estimate the conditional density associated with each students achievement history. Percentile growth projections/trajectories are calculated using the coefficient matrices derived from the quantile regression analyses and specify what percentile growth is required for students to reach future achievement targets.

Diff between SGP versions 0.0-3 dated 2009-02-16 and 0.0-4 dated 2009-04-14

 CITATION                        |    4 
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Package RMySQL updated to version 0.7-4 with previous version 0.7-3 dated 2009-02-04

Author: David A. James and Saikat DebRoy
Title: R interface to the MySQL database
Description: Database interface and MySQL driver for R. This version complies with the database interface definition as implemented in the package DBI 0.2-2.

Diff between RMySQL versions 0.7-3 dated 2009-02-04 and 0.7-4 dated 2009-04-14

 DESCRIPTION    |   16 +++++++++-------
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Package R2WinBUGS updated to version 2.1-14 with previous version 2.1-13 dated 2009-03-29

Author: originally written by Andrew Gelman ; changes and packaged by Sibylle Sturtz and Uwe Ligges . With considerable contributions by Gregor Gorjanc and Jouni Kerman . Ported to S-PLUS by Insightful Corp.
Title: Running WinBUGS and OpenBUGS from R / S-PLUS
Description: Using this package, it is possible to call a BUGS model, summarize inferences and convergence in a table and graph, and save the simulations in arrays for easy access in R / S-PLUS. In S-PLUS, the openbugs functionality and the windows emulation functionality is not yet available.

Diff between R2WinBUGS versions 2.1-13 dated 2009-03-29 and 2.1-14 dated 2009-04-14

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Package PKfit updated to version 1.1.8 with previous version 1.1.7 dated 2009-02-01

Author: Chun-Ying Lee, Yung-Jin Lee
Title: A Data Analysis Tool for Pharmacokinetics
Description: PKfit is a nonlinear regression (including a genetic algorithm) program which was designed to perform model/curve fitting and model simulations for pharmacokinetics.

Diff between PKfit versions 1.1.7 dated 2009-02-01 and 1.1.8 dated 2009-04-14

 DESCRIPTION         |   24 ++++++++++++++----------
 R/extravascular-f.R |    2 +-
 2 files changed, 15 insertions(+), 11 deletions(-)

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Package MasterBayes updated to version 2.43 with previous version 2.42 dated 2009-03-06

Author: Jarrod Hadfield
Title: ML and MCMC Methods for Pedigree Reconstruction and Analysis
Description: The primary aim of MasterBayes is to use MCMC techniques to integrate over uncertainty in pedigree configurations estimated from molecular markers and phenotypic data. Emphasis is put on the marginal distribution of parameters that relate the phenotypic data to the pedigree. All simulation is done in compiled C++ for efficency.

Diff between MasterBayes versions 2.42 dated 2009-03-06 and 2.43 dated 2009-04-14

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Package LambertW updated to version 0.1.6 with previous version 0.1.0 dated 2009-03-23

Author: Georg M. Goerg
Title: Lambert W parameter estimation, plots, simulation (Skew Analysis)
Description: Lambert W random variables (RV) offer a new way of dealing with slightly skewed data. It is based on an input/ouput framework - for details see References. This package contains the most important functions to perform an adequate analysis. Lambert W data can be simulated, parameters estimated and results can be plotted in a proper way.

Diff between LambertW versions 0.1.0 dated 2009-03-23 and 0.1.6 dated 2009-04-14

 DESCRIPTION                 |   23 ++++++++++++--------
 R/IGMM.default.R            |   11 +++------
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Package IDPmisc updated to version 1.1.00 with previous version 1.0.01 dated 2009-03-16

Author: Andreas Ruckstuhl, Thomas Unternaehrer, Rene Locher
Title: Utilities of Institute of Data Analyses and Process Design (www.idp.zhaw.ch)
Description: The IDPmisc package contains different high-level graphics functions for displaying large datasets, displaying circular data in a very flexible way, finding local maxima, brewing color ramps, drawing nice arrows, zooming 2D-plots, creating figures with differently colored margin and plot region. In addition, the package contains auxiliary functions for data manipulation like omitting observations with irregular values or selecting data by logical vectors, which include NAs. Other functions are especially useful in spectroscopy and analyses of environmental data: robust baseline fitting, finding peaks in spectra.

Diff between IDPmisc versions 1.0.01 dated 2009-03-16 and 1.1.00 dated 2009-04-14

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New package HaploSim with initial version 1.8
Package: HaploSim
Type: Package
Title: HaploSim
Version: 1.8
Date: 2009-02-05
Author: Albart Coster, John Bastiaansen
Maintainer:
Depends: methods,utils, R (>= 2.6.0), pedigree (>= 1.1)
Description: Simulate haplotypes through meioses. Allows specification of population parameters.
License: GPL (>= 2)
Packaged: Mon Apr 6 09:24:41 2009; root
Repository: CRAN
Date/Publication: 2009-04-14 17:26:10

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Package GeneCycle updated to version 1.1.1 with previous version 1.1.0 dated 2008-07-11

Author: Miika Ahdesmaki, Konstantinos Fokianos, and Korbinian Strimmer.
Title: Identification of Periodically Expressed Genes
Description: The GeneCycle package implements the approaches of Wichert et al. (2004), Ahdesmaki et al. (2005) and Ahdesmaki et al. (2007) for detecting periodically expressed genes from gene expression time series data.

Diff between GeneCycle versions 1.1.0 dated 2008-07-11 and 1.1.1 dated 2009-04-14

 CHANGES             |   13 +++++++++++++
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Package FITSio updated to version 1.0-3 with previous version 1.0-2 dated 2008-08-06

Author: Andrew Harris
Title: FITS (Flexible Image Transport System) utilities
Description: Utilities to read and write files in the FITS (Flexible Image Transport System) format, a standard format in astronomy. Present low-level routines allow: * Reading and parsing FITS headers * Reading FITS images (multi-dimensional arrays) * Reading FITS binary tables * Writing FITS images (multi-dimensional arrays) Higher-level functions allow: * Reading files composed of one or more headers and a single (perhaps multidimensional) image or single bintable * Reading bintables into data frames * Generating vectors for image array axes * Scaling and writing images as 16-bit integers Known incompletenesses are reading FITS ASCII table and random group extensions, as well as bit, complex, and array descriptor data types in binary tables.

Diff between FITSio versions 1.0-2 dated 2008-08-06 and 1.0-3 dated 2009-04-14

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 4 files changed, 29 insertions(+), 29 deletions(-)

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Package EVER updated to version 1.1 with previous version 1.0 dated 2008-09-12

Author: Diego Zardetto
Title: Estimation of Variance by Efficient Replication
Description: Delete-A-Group Jackknife replication. Calibration of replicate weights. Estimates, standard errors and confidence intervals for: totals, means, absolute and relative frequency distributions, contingency tables, ratios, quantiles and regression coefficients. Estimates, standard errors and confidence intervals for user-defined estimators (even non-analytic). Domain (subpopulation) estimation.

Diff between EVER versions 1.0 dated 2008-09-12 and 1.1 dated 2009-04-14

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Package Amelia updated to version 1.2-0 with previous version 1.1-33 dated 2008-07-28

Author: James Honaker , Gary King , Matthew Blackwell
Title: Amelia II: A Program for Missing Data
Description: Amelia II "multiply imputes" missing data in a single cross-section (such as a survey), from a time series (like variables collected for each year in a country), or from a time-series-cross-sectional data set (such as collected by years for each of several countries). Amelia II implements our bootstrapping-based algorithm that gives essentially the same answers as the standard IP or EMis approaches, is usually considerably faster than existing approaches and can handle many more variables. Unlike Amelia I and other statistically rigorous imputation software, it virtually never crashes (but please let us know if you find to the contrary!). The program also generalizes existing approaches by allowing for trends in time series across observations within a cross-sectional unit, as well as priors that allow experts to incorporate beliefs they have about the values of missing cells in their data. Amelia II also includes useful diagnostics of the fit of multiple imputation models. The program works from the R command line or via a graphical user interface that does not require users to know R.

Diff between Amelia versions 1.1-33 dated 2008-07-28 and 1.2-0 dated 2009-04-14

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