Mon, 30 Nov 2009

Package testthat updated to version 0.1.1 with previous version 0.1 dated 2009-11-17

Author: Hadley Wickham
Title: Testthat code. Tools to make testing fun :)
Description: A testing package specifically tailored for R that's fun, flexible and easy to set up.

Diff between testthat versions 0.1 dated 2009-11-17 and 0.1.1 dated 2009-11-30

 DESCRIPTION     |   11 ++++++-----
 R/colour-text.r |    4 +++-
 2 files changed, 9 insertions(+), 6 deletions(-)

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New package phyloclim with initial version 0.0.1
Package: phyloclim
Type: Package
Title: Integrating phylogenetics and climatic niche modelling
Version: 0.0.1
Date: 2009-11-27
Author: Christoph Heibl
Maintainer: Christoph Heibl
Depends: ape, adehabitat
Description: This package implements some recently developed methods in phyloclimatic modeling.
License: GPL (>= 2)
Packaged: 2009-11-30 18:39:21 UTC; Stoffi
Repository: CRAN
Date/Publication: 2009-11-30 20:26:59

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Package benchden updated to version 1.0.3 with previous version 1.0.2 dated 2009-09-28

Author: Thoralf Mildenberger, Henrike Weinert, Sebastian Tiemeyer
Title: 28 benchmark densities from Berlinet/Devroye (1994)
Description: Full implementation of the 28 distributions introduced as benchmarks for nonparametric density estimation by Berlinet and Devroye (1994). Includes densities, cdfs, quantile functions and generators for samples as well as additional information on features of the densities. Also contains the 4 histogram densities used in Rozenholc/Mildenberger/Gather (2009).

Diff between benchden versions 1.0.2 dated 2009-09-28 and 1.0.3 dated 2009-11-30

 DESCRIPTION   |    8 ++++----
 man/bhisto.Rd |    5 +++--
 man/dhisto.Rd |    5 +++--
 man/histo.Rd  |    5 +++--
 4 files changed, 13 insertions(+), 10 deletions(-)

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Package CHNOSZ updated to version 0.9 with previous version 0.8 dated 2009-04-23

Author: Jeffrey M. Dick
Title: Chemical Thermodynamics and Activity Diagrams
Description: Calculation of the standard molal thermodynamic properties and chemical affinities of reactions between and among minerals, inorganic, organic, and/or biomolecular aqueous and crystalline species. Incorporation of an extensive database of thermodynamic properties of species and algorithms for computing the standard thermodynamic properties of neutral and ionized proteins from amino acid group contributions. Generation of chemical speciation and predominance diagrams for stable and metastable equilibrium in open systems as a function of temperature, pressure, and chemical activities or fugacities of basis species.

Diff between CHNOSZ versions 0.8 dated 2009-04-23 and 0.9 dated 2009-11-30

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 CHNOSZ-0.9/CHNOSZ/R/thermo.R            | 1196 ++++++++++++++++++++++++++++++--
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 CHNOSZ-0.9/CHNOSZ/man/water.Rd          |   79 +-
 43 files changed, 3966 insertions(+), 2181 deletions(-)

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Package hash updated to version 1.10.0 with previous version 1.0.3 dated 2009-11-05

Author: Christopher Brown
Title: Implements hash/associated arrays/dictionaries
Description: This package implements a data structure similar to hashes in Perl and dictionaries in Python but with a purposefully R flavor.

Diff between hash versions 1.0.3 dated 2009-11-05 and 1.10.0 dated 2009-11-30

 ChangeLog             |   26 ++++++++++++++++++
 DESCRIPTION           |    8 ++---
 R/Class-hash.R        |   71 +++++++++++++++++++-------------------------------
 R/invert.R            |    6 +---
 R/set.R               |    8 ++++-
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 man/hash-package.Rd   |    4 +-
 man/invert.Rd         |    6 ++--
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 11 files changed, 95 insertions(+), 74 deletions(-)

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Package RScaLAPACK updated to version 0.6.1 with previous version 0.5.1 dated 2005-09-03

Author: Nagiza F. Samatova , Srikanth Yoginath , David Bauer and Guruprasad Kora
Title: A seamless interface to perform parallel computation on linear algebra problems using the ScaLAPACK library.
Description: An R add-on package capable of carrying out parallel computation through a single function call from the R environment. It uses the high-performance ScaLAPACK library for the linear algebra computations.

Diff between RScaLAPACK versions 0.5.1 dated 2005-09-03 and 0.6.1 dated 2009-11-30

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 RScaLAPACK-0.6.1/RScaLAPACK/R/Rscalapack.R       |  382 ++
 RScaLAPACK-0.6.1/RScaLAPACK/R/StartUpLam.R.in    |    1 
 RScaLAPACK-0.6.1/RScaLAPACK/R/StartUpMpich2.R.in |    3 
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 RScaLAPACK-0.6.1/RScaLAPACK/configure            | 3340 +++++++++++++----------
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Package sandwich updated to version 2.2-3 with previous version 2.2-2 dated 2009-11-17

Author: Thomas Lumley, Achim Zeileis
Title: Robust Covariance Matrix Estimators
Description: Model-robust standard error estimators for cross-sectional, time series and longitudinal data.

Diff between sandwich versions 2.2-2 dated 2009-11-17 and 2.2-3 dated 2009-11-30

 DESCRIPTION               |    8 ++++----
 NAMESPACE                 |    1 +
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Package hmm.discnp updated to version 0.1-1 with previous version 0.1-0 dated 2009-09-28

Author: Rolf Turner and Limin Liu.
Title: Hidden Markov models with discrete non-parametric observation distributions.
Description: Fits hidden Markov models with discrete non-parametric observation distributions to data sets. Simulates data from such models. Finds most probable underlying hidden states and most probable sequences of such states.

Diff between hmm.discnp versions 0.1-0 dated 2009-09-28 and 0.1-1 dated 2009-11-30

 ChangeLog      |   27 ++++++++++++++++++++++++++-
 DESCRIPTION    |    8 ++++----
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 R/ffun.R       |    1 +
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 6 files changed, 35 insertions(+), 7 deletions(-)

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New package crmn with initial version 0.0.7
Package: crmn
Version: 0.0.7
Date: 2008-05-08
Author: Henning Redestig
Maintainer: Henning Redestig
Title: CCMN and other noRMalizatioN methods for metabolomics data
Depends: pcaMethods (>= 1.20.2), Biobase, pls, methods
Description: Implements the Cross-contribution Compensating Multiple standard Normalization (CCMN) method and other normalization algorithms.
License: GPL (>= 3)
Collate: 'classes.R' 'crmn-package.R' 'misc.R' 'norm.R' 'generic.R'
Packaged: 2009-11-30 03:58:19 UTC; henning
Repository: CRAN
Date/Publication: 2009-11-30 14:27:26

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Package RSEIS updated to version 2.3-1 with previous version 2.2-0 dated 2009-10-15

Author: Jonathan M. Lees
Title: Seismic Time Series Analysis Tools
Description: Multiple interactive codes to analyze seismic data, via, spectrum analysis, wavelet transforms, particle motion, hodograms.

Diff between RSEIS versions 2.2-0 dated 2009-10-15 and 2.3-1 dated 2009-11-30

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Package FD updated to version 1.0-5 with previous version 1.0-1 dated 2009-10-26

Author: Etienne Laliberté, Bill Shipley
Title: Measuring functional diversity (FD) from multiple traits, and other tools for functional ecology
Description: FD is a package to compute different multidimensional FD indices. It implements a distance-based framework to measure FD that allows any number and type of functional traits, and can also consider species relative abundances. It also contains other useful tools for functional ecology.

Diff between FD versions 1.0-1 dated 2009-10-26 and 1.0-5 dated 2009-11-30

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Package BiodiversityR updated to version 1.4.2 with previous version 1.4 dated 2009-10-23

Author: Roeland Kindt
Title: GUI for biodiversity and community ecology analysis
Description: This package provides a GUI (Graphical User Interface, via the R-Commander) and some utility functions (often based on the vegan package) for statistical analysis of biodiversity and ecological communities, including species accumulation curves, diversity indices, Renyi profiles, GLMs for analysis of species abundance and presence-absence, distance matrices, Mantel tests, and cluster, constrained and unconstrained ordination analysis. A book on biodiversity and community ecology analysis is available for free download from the website.

Diff between BiodiversityR versions 1.4 dated 2009-10-23 and 1.4.2 dated 2009-11-30

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