Title: Tools for the 'Parallel' Package
Description: Miscellaneous utilities for the 'parallel' package,
cluster-oriented section; "Snowdoop" alternative to MapReduce;
file splitting and distributed operations such as sort and aggregate.
"Software Alchemy" method for parallelizing most statistical methods,
presented in N. Matloff, Parallel Computation for Data Science,
Chapman and Hall, 2015. Includes a debugging aid.
Author: Norm Matloff <normmatloff@gmail.com> [aut],
Alex Rumbaugh <aprumbaugh@ucdavis.edu> [ctb]
Maintainer: Norm Matloff <normmatloff@gmail.com>
Diff between partools versions 1.1.1 dated 2015-07-21 and 1.1.3 dated 2015-08-01
DESCRIPTION | 9 +--- MD5 | 22 +++++----- R/CA.R | 53 +++++++++++++++----------- R/DebugSnow.R | 7 +++ R/SnowUtils.R | 11 +++-- R/Snowdoop.R | 50 +++++++++++++----------- build/vignette.rds |binary inst/doc/partools.pdf |binary man/ca.Rd | 101 ++++++++++++++++++++++++++++---------------------- man/dbs.Rd | 2 man/formrowchunks.Rd | 2 man/snowdoop.Rd | 46 ++++++++++++++-------- 12 files changed, 179 insertions(+), 124 deletions(-)
Title: N-Parameter Logistic Regression
Description: Performing drug response analyses and IC50 estimations using n-Parameter logistic regression. nplr can also be applied to proliferation analyses.
Author: Frederic Commo [aut, cre],
Brian M. Bot [aut]
Maintainer: Frederic Commo <fredcommo@gmail.com>
Diff between nplr versions 0.1-3 dated 2015-07-11 and 0.1-4 dated 2015-08-01
DESCRIPTION | 8 +++--- MD5 | 26 ++++++++++--------- NEWS | 10 ++++++- R/helpers.R | 60 +++++++++++++++++++++++++++++++++------------ R/nplr.R | 2 + R/overlay.R | 4 +-- R/plot.nplr.R | 6 +++- inst/doc/nplr.R | 27 ++++++++------------ inst/doc/nplr.Rnw | 50 ++++++++++++++++++++++--------------- inst/doc/nplr.pdf |binary inst/extdata/multicell.tsv |only man/overlay.Rd | 27 ++++++++------------ man/plot.nplr.Rd | 7 +++-- vignettes/nplr.Rnw | 50 ++++++++++++++++++++++--------------- vignettes/nplrApp.png |only 15 files changed, 166 insertions(+), 111 deletions(-)
Title: Interface to the 'HDF5' Library
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.
Author: Mario Annau [aut, cre]
Maintainer: Mario Annau <mario.annau@gmail.com>
Diff between h5 versions 0.9.1 dated 2015-05-10 and 0.9.2 dated 2015-08-01
h5-0.9.1/h5/NEWS |only h5-0.9.2/h5/DESCRIPTION | 15 h5-0.9.2/h5/INSTALL | 2 h5-0.9.2/h5/MD5 | 104 +- h5-0.9.2/h5/NAMESPACE | 11 h5-0.9.2/h5/R/CommonFG-DataSet.R | 197 ++++- h5-0.9.2/h5/R/CommonFG-Group.R | 45 + h5-0.9.2/h5/R/CommonFG.R | 86 +- h5-0.9.2/h5/R/DataSet.R | 51 - h5-0.9.2/h5/R/DataSpace.R | 13 h5-0.9.2/h5/R/Dataset-Extend.R | 152 +-- h5-0.9.2/h5/R/Dataset-Subset.R | 373 +++++---- h5-0.9.2/h5/R/H5File.R | 48 - h5-0.9.2/h5/R/H5Group.R | 5 h5-0.9.2/h5/R/H5Location-Attribute.R | 43 - h5-0.9.2/h5/R/Helpers.R | 41 - h5-0.9.2/h5/R/RcppExports.R | 32 h5-0.9.2/h5/R/h5-package.R | 14 h5-0.9.2/h5/configure | 58 - h5-0.9.2/h5/configure.ac | 55 - h5-0.9.2/h5/inst/NEWS.Rd | 19 h5-0.9.2/h5/inst/benchmark/benchmark-BigSet.R | 8 h5-0.9.2/h5/man/CommonFG-DataSet.Rd | 48 - h5-0.9.2/h5/man/CommonFG-Group.Rd | 15 h5-0.9.2/h5/man/CommonFG.Rd | 27 h5-0.9.2/h5/man/DataSet-Subset.Rd | 22 h5-0.9.2/h5/man/H5File.Rd | 14 h5-0.9.2/h5/man/H5Location-Attribute.Rd | 26 h5-0.9.2/h5/man/h5-package.Rd | 14 h5-0.9.2/h5/src/Attribute.cpp | 66 - h5-0.9.2/h5/src/Attribute.h | 1 h5-0.9.2/h5/src/Dataset.cpp | 120 +-- h5-0.9.2/h5/src/Dataset.h | 1 h5-0.9.2/h5/src/Dataspace.cpp | 31 h5-0.9.2/h5/src/Dataspace.h | 6 h5-0.9.2/h5/src/File.cpp | 14 h5-0.9.2/h5/src/Group.cpp | 119 ++- h5-0.9.2/h5/src/Group.h | 8 h5-0.9.2/h5/src/Helpers.cpp | 495 +++++++++++-- h5-0.9.2/h5/src/Helpers.h | 22 h5-0.9.2/h5/src/RcppExports.cpp | 84 +- h5-0.9.2/h5/tests/testthat.R | 2 h5-0.9.2/h5/tests/testthat/test-Attribute.R | 58 + h5-0.9.2/h5/tests/testthat/test-DataSet-IO.R | 80 +- h5-0.9.2/h5/tests/testthat/test-DataSet-Select-Elem.R | 20 h5-0.9.2/h5/tests/testthat/test-DataSet-Select-Hyperslab.R | 21 h5-0.9.2/h5/tests/testthat/test-DataSet-Select-Subset.R | 84 +- h5-0.9.2/h5/tests/testthat/test-DataSet-extend.R | 56 - h5-0.9.2/h5/tests/testthat/test-DataSet.R | 103 ++ h5-0.9.2/h5/tests/testthat/test-H5File-Subset.R | 35 h5-0.9.2/h5/tests/testthat/test-H5File.R | 63 + h5-0.9.2/h5/tests/testthat/test-H5Group.R | 54 + h5-0.9.2/h5/tests/testthat/test-io.R | 10 h5-0.9.2/h5/tests/testthat/test-vlen.R |only 54 files changed, 2124 insertions(+), 967 deletions(-)
Title: Circular Visualization in R
Description: Circular layout is an efficient way for the visualization of huge
amounts of information. Here the circlize package provides an implementation
of circular layout generation in R as well as an enhancement of available
software. The flexibility of this package is based on the usage of low-level
graphics functions such that self-defined high-level graphics can be easily
implemented by users for specific purposes. Together with the seamless
connection between the powerful computational and visual environment in R,
circlize gives users more convenience and freedom to design figures for
better understanding complex patterns behind multi-dimensional data.
Author: Zuguang Gu
Maintainer: Zuguang Gu <z.gu@dkfz.de>
Diff between circlize versions 0.2.5 dated 2015-07-08 and 0.3.0 dated 2015-08-01
circlize |only 1 file changed
Title: Large, Sparse Optimal Matching with Refined Covariate Balance
Description: Tools for large, sparse optimal matching of treated units
and control units in observational studies. Provisions are
made for refined covariate balance constraints, which include
fine and near-fine balance as special cases. Matches are
optimal in the sense that they are computed as solutions to
network optimization problems rather than greedy algorithms.
Author: Samuel D. Pimentel
Maintainer: Samuel D. Pimentel <spi@wharton.upenn.edu>
Diff between rcbalance versions 1.6 dated 2015-05-23 and 1.7 dated 2015-08-01
DESCRIPTION | 8 ++-- MD5 | 14 +++---- NAMESPACE | 2 + R/build.dist.struct.R | 32 ++++++++++++----- R/rcbalance-internal.R | 16 +++++++- R/rcbalance.R | 85 ++++++++++++++++++++++++++++++++++------------- man/rcbalance-package.Rd | 4 +- man/rcbalance.Rd | 4 +- 8 files changed, 117 insertions(+), 48 deletions(-)
Title: Uncertainty Analysis for Species Distribution Models
Description: This is a framework that aims to provide methods and tools for assessing the impact of different sources of uncertainties (e.g.positional uncertainty) on performance of species distribution models (SDMs).)
Author: Babak Naimi
Maintainer: Babak Naimi <naimi.b@gmail.com>
Diff between usdm versions 1.1-12 dated 2013-07-23 and 1.1-15 dated 2015-08-01
DESCRIPTION | 20 +++--- MD5 | 6 +- NAMESPACE | 10 ++- R/exclude.R | 172 ++++++++++++++++++++++++++++++------------------------------ 4 files changed, 106 insertions(+), 102 deletions(-)
Title: Convert Letters to Numbers and Back as on a Telephone Keypad
Description: Convert English letters to numbers or numbers to English letters as
on a telephone keypad. When converting letters to numbers, a character
vector is returned with "A," "B," or "C" becoming 2, "D," "E", or "F"
becoming 3, etc. When converting numbers to letters, a character vector is
returned with multiple elements (i.e., "2" becomes a vector of "A," "B," and
"C").
Author: Steve Myles [aut, cre]
Maintainer: Steve Myles <steve@mylesandmyles.info>
Diff between phonenumber versions 0.1.0 dated 2015-07-10 and 0.2.0 dated 2015-08-01
DESCRIPTION | 9 ++-- MD5 | 26 ++++++------ R/letterToNumber.R | 47 ++++++++++++++++------ R/numberToLetter.R | 57 ++++++++++++++++++++------- R/phonenumber.R |only README.md | 72 +++++++++++++++++++++++++++++------ build/vignette.rds |binary inst/doc/phonenumber.Rmd | 57 +++++++++++++++++++-------- inst/doc/phonenumber.html | 39 +++++++++++++++--- man/letterToNumber.Rd | 25 ++++++++++-- man/numberToLetter.Rd | 26 ++++++++++-- man/phonenumber.Rd |only tests/testthat/test-letterToNumber.R | 5 ++ tests/testthat/test-numberToLetter.R | 8 +++ vignettes/phonenumber.Rmd | 57 +++++++++++++++++++-------- 15 files changed, 325 insertions(+), 103 deletions(-)
Title: Computations over Distributed Data without Aggregation
Description: Implementing algorithms and fitting models when sites (possibly remote) share
computation summaries rather than actual data over HTTP with a master R process (using
'opencpu', for example). A stratified Cox model and a singular value decomposition are
provided. The former makes direct use of code from the R 'survival' package. (That is,
the underlying Cox model code is derived from that in the R 'survival' package.)
Sites may provide data via several means: CSV files, Redcap API, etc. An extensible
design allows for new methods to be added in the future. Web applications are provided
(via 'shiny') for the implemented methods to help in designing and deploying the
computations.
Author: Balasubramanian Narasimhan [aut, cre],
Marina Bendersky [aut],
Sam Gross [aut],
Terry M. Therneau [ctb],
Thomas Lumley [ctb]
Maintainer: Balasubramanian Narasimhan <naras@stat.Stanford.EDU>
Diff between distcomp versions 0.25.2 dated 2015-07-14 and 0.25.3 dated 2015-08-01
DESCRIPTION | 6 +++--- MD5 | 6 +++--- R/coxstuff.R | 9 ++++++--- R/distcomp.R | 8 +++++--- 4 files changed, 17 insertions(+), 12 deletions(-)
Title: Compute the Median Ranking(s) According to the Kemeny's
Axiomatic Approach
Description: Compute the median ranking according the Kemeny's axiomatic approach. Rankings can or cannot contain ties, rankings can be both complete or incomplete.
Author: Antonio D'Ambrosio <antdambr@unina.it>, Sonia Amodio <sonia.amodio@unina.it>
Maintainer: Antonio D'Ambrosio <antdambr@unina.it>
Diff between ConsRank versions 0.0 dated 2015-07-22 and 0.0.1 dated 2015-08-01
DESCRIPTION | 8 ++++---- MD5 | 6 +++--- R/ALL.r | 33 ++++++++++++++++++++++++++++++--- man/ConsRank-package.Rd | 2 -- 4 files changed, 37 insertions(+), 12 deletions(-)