Sun, 26 Apr 2015

Package dfmta updated to version 1.3-1 with previous version 1.2 dated 2015-04-21

Title: Phase I/II Adaptive Dose-Finding Design for MTA
Description: Phase I/II adaptive dose-finding design for single-agent Molecularly Targeted Agent (MTA), according to the paper "Phase I/II Dose-Finding Design for Molecularly Targeted Agent: Plateau Determination using Adaptive Randomization" (in review).
Author: Marie-Karelle Riviere and Jacques-Henri Jourdan
Maintainer: Marie-Karelle Riviere

Diff between dfmta versions 1.2 dated 2015-04-21 and 1.3-1 dated 2015-04-26

 DESCRIPTION        |   12 ++++++------
 MD5                |    8 ++++----
 configure          |   18 +++++++++---------
 man/mtaBin_next.Rd |    2 +-
 src/dfmta.cpp      |    7 +++----
 5 files changed, 23 insertions(+), 24 deletions(-)

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Package dfcomb updated to version 2.1-1 with previous version 2.1 dated 2015-04-21

Title: Phase I/II Adaptive Dose-Finding Design for Combination Studies
Description: Phase I/II adaptive dose-finding design for combination studies. Several methods are proposed depending on the type of combinations: (1) the combination of two cytotoxic agents, and (2) combination of a molecularly targeted agent with a cytotoxic agent.
Author: Marie-Karelle Riviere and Jacques-Henri Jourdan
Maintainer: Marie-Karelle Riviere

Diff between dfcomb versions 2.1 dated 2015-04-21 and 2.1-1 dated 2015-04-26

 DESCRIPTION     |    6 +++---
 MD5             |    6 +++---
 configure       |   18 +++++++++---------
 src/plateau.cpp |    1 +
 4 files changed, 16 insertions(+), 15 deletions(-)

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New package h5 with initial version 0.9
Package: h5
Type: Package
Title: Interface to the 'HDF5' Library
Version: 0.9
Date: 2015-04-22
Authors@R: c(person("Mario", "Annau", role = c("aut", "cre"), email = "mario.annau@gmail.com"))
Copyright: See COPYRIGHTS file.
Description: S4 Interface to the 'HDF5' library supporting fast storage and retrieval of R-objects like vectors, matrices and arrays to binary files in a language independent format. The 'HDF5' format can therefore be used as an alternative to R's save/load mechanism. Since h5 is able to access only subsets of stored data it can also handle data sets which do not fit into memory.
License: BSD_2_clause + file LICENSE
BugReports: https://github.com/mannau/h5/issues
SystemRequirements: libhdf5 (>= 1.8.4) with C++ interface enabled (--enable-cxx=yes)
Depends: R (>= 3.1)
Imports: Rcpp (>= 0.11.5), methods
LinkingTo: Rcpp
Suggests: testthat, roxygen2, RCurl
Collate: 'H5Location-Attribute.R' 'Attribute.R' 'CommonFG.R' 'CommonFG-DataSet.R' 'CommonFG-Group.R' 'DataSet.R' 'DataSpace.R' 'Dataset-Extend.R' 'Dataset-Subset.R' 'H5File.R' 'H5Group.R' 'Helpers.R' 'RcppExports.R' 'h5-package.R'
NeedsCompilation: yes
Packaged: 2015-04-26 17:45:02 UTC; mario
Author: Mario Annau [aut, cre]
Maintainer: Mario Annau
Repository: CRAN
Date/Publication: 2015-04-26 22:45:59

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Package Rwave updated to version 2.4 with previous version 2.2 dated 2014-05-08

Title: Time-Frequency Analysis of 1-D Signals
Description: A set of R functions which provide an environment for the Time-Frequency analysis of 1-D signals (and especially for the wavelet and Gabor transforms of noisy signals). It was originally written for Splus by Rene Carmona, Bruno Torresani, and Wen L. Hwang, first at the University of California at Irvine and then at Princeton University. Credit should also be given to Andrea Wang whose functions on the dyadic wavelet transform are included. Rwave is based on the book: "Practical Time-Frequency Analysis: Gabor and Wavelet Transforms with an Implementation in S", by Rene Carmona, Wen L. Hwang and Bruno Torresani, Academic Press, 1998.
Author: S original by Rene Carmona and Bruno Torresani ; R port by Brandon Whitcher ; upgrade by Jonathan M. Lees
Maintainer: Jonathan M. Lees

Diff between Rwave versions 2.2 dated 2014-05-08 and 2.4 dated 2015-04-26

 DESCRIPTION            |   12 +++++-----
 MD5                    |   54 ++++++++++++++++++++++++-------------------------
 src/choldc.c           |   28 ++++++++++++-------------
 src/compinteg.c        |   12 +++++-----
 src/crazy_family.c     |    4 +--
 src/cwt_maxima.c       |    3 --
 src/cwt_morlet.c       |    6 ++---
 src/cwt_thierry.c      |    4 +--
 src/dau.c              |    5 ++--
 src/dau_wave.c         |    2 -
 src/dualwavelet.c      |    8 +++----
 src/dwfilter.c         |   10 ++++-----
 src/dwkernel.c         |    2 -
 src/gabor.c            |    8 +++----
 src/gkernel.c          |    8 +++----
 src/hessian_climbers.c |    2 -
 src/mreconst.c         |    8 +++----
 src/pca_climbers.c     |   10 ++++-----
 src/pca_family.c       |    8 +++----
 src/ridge_annealing.c  |    2 -
 src/ridge_coronoid.c   |    2 -
 src/ridge_snakenoid.c  |    6 ++---
 src/rwkernel.c         |   18 ++++++++--------
 src/snake_annealing.c  |    4 +--
 src/splridge.c         |    2 -
 src/splsnake.c         |    2 -
 src/svd.c              |    2 -
 src/wv.c               |    4 +--
 28 files changed, 118 insertions(+), 118 deletions(-)

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Package RPMG updated to version 2.1-7 with previous version 2.1-5 dated 2014-01-03

Title: Graphical User Interface (GUI) for Interactive R Analysis Sessions
Description: Really Poor Man's Graphical User Interface, used to create interactive R analysis sessions with simple R commands.
Author: Jonathan M. Lees
Maintainer: Jonathan M. Lees

Diff between RPMG versions 2.1-5 dated 2014-01-03 and 2.1-7 dated 2015-04-26

 DESCRIPTION         |   16 ++++----
 MD5                 |   15 ++++----
 R/jpng.R            |   96 +++++++++++++++++++++++++++++++++++++++-------------
 man/SELOPT.Rd       |    2 -
 man/SHOWPAL.Rd      |    2 -
 man/aGETXprofile.Rd |    3 +
 man/chooser.Rd      |    4 +-
 man/jpng.Rd         |only
 man/jpostscript.Rd  |    2 -
 9 files changed, 95 insertions(+), 45 deletions(-)

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Package R.utils updated to version 2.0.1 with previous version 2.0.0 dated 2015-03-01

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

Diff between R.utils versions 2.0.0 dated 2015-03-01 and 2.0.1 dated 2015-04-26

 DESCRIPTION            |    8 -
 MD5                    |   18 +-
 NEWS                   |   21 ++-
 R/addFinalizerToLast.R |    5 
 R/compressFile.R       |    2 
 R/toCamelCase.R        |    2 
 R/withSeed.R           |  144 ++++++++++-----------
 R/withSink.R           |  334 ++++++++++++++++++++++++-------------------------
 tests/toCamelCase.R    |   13 +
 tests/withLocale.R     |  118 ++++++++---------
 10 files changed, 344 insertions(+), 321 deletions(-)

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New package haplotypes with initial version 1.0
Package: haplotypes
Title: Haplotype Inference and Statistical Analysis of Genetic Variation
Version: 1.0
Date: 2015-04-24
Author: Caner Aktas
Maintainer: Caner Aktas
Description: Provides S4 classes and methods for reading and manipulating aligned DNA sequences, supporting an indel coding methods (only simple indel coding method is available in the current version), showing base substitutions and indels, calculating absolute pairwise distances between DNA sequences, and inferring haplotypes from DNA sequences or user provided absolute character difference matrix. This package also includes S4 classes and methods for estimating genealogical relationships among haplotypes using statistical parsimony.
License: GPL-2
URL: http://cran.r-project.org, https://biolsystematics.wordpress.com/r/
Depends: R (>= 3.1.1), methods, network
Suggests: sna
NeedsCompilation: no
Packaged: 2015-04-25 18:32:05 UTC; cnr
Repository: CRAN
Date/Publication: 2015-04-26 09:49:28

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