Title: Processing of Oxy-Bisulfite Microarray Data
Description:
Provides utilities for processing of Oxy-Bisulfite microarray data
(e.g. via the Illumina Infinium platform, <http://www.illumina.com>)
with tandem arrays, one using conventional
bisulfite conversion, the other using oxy-bisulfite conversion.
Author: E. Andres Houseman, Sc.D. and Kevin C. Johnson
Maintainer: E. Andres Houseman <eahouseman@gmail.com>
Diff between OxyBS versions 1.0 dated 2015-12-01 and 1.5 dated 2017-02-20
OxyBS-1.0/OxyBS/man/rfEwasExampleCovariate.Rd |only OxyBS-1.5/OxyBS/DESCRIPTION | 15 ++++++++------- OxyBS-1.5/OxyBS/MD5 | 3 +-- 3 files changed, 9 insertions(+), 9 deletions(-)
Title: Financial and Actuarial Mathematics for Life Contingencies
Description: Classes and methods that allow the user to manage life table,
actuarial tables (also multiple decrements tables). Moreover, functions to easily
perform demographic, financial and actuarial mathematics on life contingencies
insurances calculations are contained therein.
Author: Giorgio Alfredo Spedicato [cre,aut], Reinhold Kainhofer [ctb], Kevin J.
Owens [ctb], Christophe Dutang [ctb], Ernesto Schirmacher[ctb]
Maintainer: Giorgio Alfredo Spedicato <spedicato_giorgio@yahoo.it>
Diff between lifecontingencies versions 1.2.1 dated 2016-07-07 and 1.2.3 dated 2017-02-20
lifecontingencies-1.2.1/lifecontingencies/inst/doc/multiple_decrements_with_lifecontingencies_package.R |only lifecontingencies-1.2.1/lifecontingencies/inst/doc/multiple_decrements_with_lifecontingencies_package.Rnw |only lifecontingencies-1.2.1/lifecontingencies/inst/doc/multiple_decrements_with_lifecontingencies_package.pdf |only lifecontingencies-1.2.1/lifecontingencies/vignettes/lifecon.txt |only lifecontingencies-1.2.1/lifecontingencies/vignettes/multiple_decrements_with_lifecontingencies_package.Rnw |only lifecontingencies-1.2.3/lifecontingencies/ChangeLog | 3 lifecontingencies-1.2.3/lifecontingencies/DESCRIPTION | 12 lifecontingencies-1.2.3/lifecontingencies/MD5 | 54 - lifecontingencies-1.2.3/lifecontingencies/NAMESPACE | 9 lifecontingencies-1.2.3/lifecontingencies/NEWS | 5 lifecontingencies-1.2.3/lifecontingencies/R/8_mdtFunctions.R | 32 lifecontingencies-1.2.3/lifecontingencies/R/RcppExports.R | 2 lifecontingencies-1.2.3/lifecontingencies/build/vignette.rds |binary lifecontingencies-1.2.3/lifecontingencies/inst/doc/an_introduction_to_lifecontingencies_package.R | 85 ++ lifecontingencies-1.2.3/lifecontingencies/inst/doc/an_introduction_to_lifecontingencies_package.Rnw | 144 ++++ lifecontingencies-1.2.3/lifecontingencies/inst/doc/an_introduction_to_lifecontingencies_package.pdf |binary lifecontingencies-1.2.3/lifecontingencies/inst/doc/introToLifecontingencies.R | 182 ++--- lifecontingencies-1.2.3/lifecontingencies/inst/doc/introToLifecontingencies.Rmd | 351 ++++++---- lifecontingencies-1.2.3/lifecontingencies/inst/doc/introToLifecontingencies.pdf |binary lifecontingencies-1.2.3/lifecontingencies/inst/doc/mortality_projection.pdf |binary lifecontingencies-1.2.3/lifecontingencies/inst/extdata |only lifecontingencies-1.2.3/lifecontingencies/man/lifecontingencies-package.Rd | 4 lifecontingencies-1.2.3/lifecontingencies/man/multidecrins.Rd | 2 lifecontingencies-1.2.3/lifecontingencies/man/mx2qx.Rd | 1 lifecontingencies-1.2.3/lifecontingencies/man/qx2mx.Rd | 1 lifecontingencies-1.2.3/lifecontingencies/man/rmdt.Rd | 8 lifecontingencies-1.2.3/lifecontingencies/src/RcppExports.cpp | 58 - lifecontingencies-1.2.3/lifecontingencies/src/init.c |only lifecontingencies-1.2.3/lifecontingencies/src/lifecontingenciesRcpp.cpp | 14 lifecontingencies-1.2.3/lifecontingencies/vignettes/an_introduction_to_lifecontingencies_package.Rnw | 144 ++++ lifecontingencies-1.2.3/lifecontingencies/vignettes/introToLifecontingencies.Rmd | 351 ++++++---- 31 files changed, 1002 insertions(+), 460 deletions(-)
More information about lifecontingencies at CRAN
Permanent link
Title: Efficient Estimation of Discrete-Time Multivariate Frailty Model
Using Exact Likelihood Function for Grouped Survival Data
Description: The core of this 'Rcpp' based package is several functions to estimate the baseline hazard, frailty variance, and fixed effect parameter for a discrete-time shared frailty model with random effects. The functions are designed to analyze grouped time-to-event data accounting for family structure of related individuals (i.e., trios). The core functions include two processes: (1) evaluate the multivariable integration to compute the exact proportional hazards model based likelihood and (2) estimate the desired parameters using maximum likelihood estimation. The integration is evaluated by the 'Cuhre' algorithm from the 'Cuba' library (Hahn, T., Cuba-a library for multidimensional numerical integration, Comput. Phys. Commun. 168, 2005, 78-95 <doi:10.1016/j.cpc.2005.01.010>), and the source files of the 'Cuhre' function are included in this package. The maximization process is carried out using Brent's algorithm, with the 'C++' code file from John Burkardt and John Denker (Brent, R.,Algorithms for Minimization without Derivatives, Dover, 2002, ISBN 0-486-41998-3).
Author: Jiaxing Lin, Alexander Sibley, Tracy Truong, Nancy Cox, Eileen Dolan, Yu
Jiang, Janice McCarthy, Andrew Allen, Kouros Owzar, Zhiguo Li
Maintainer: Jiaxing Lin <jiaxing.lin@duke.edu>
Diff between lclGWAS versions 1.0.2 dated 2016-11-30 and 1.0.3 dated 2017-02-20
DESCRIPTION | 8 ++++---- MD5 | 15 ++++++++------- NEWS | 4 ++++ build/vignette.rds |binary inst/doc/lclGWAS.Rnw | 2 +- inst/doc/lclGWAS.pdf |binary man/lclGWAS-package.Rd | 2 +- src/init.c |only vignettes/lclGWAS.Rnw | 2 +- 9 files changed, 19 insertions(+), 14 deletions(-)
Title: Efficient Jonckheere-Terpstra Test Statistics
Description: The core of this 'Rcpp' based package is a function to compute standardized Jonckheere-Terpstra test statistics for large numbers of dependent and independent variables, e.g., genome-wide analysis. It implements 'OpenMP', allowing the option of computing on multiple threads. Supporting functions are also provided to calculate p-values and summarize results.
Author: Jiaxing Lin, Alexander Sibley, Ivo Shterev, and Kouros Owzar
Maintainer: Jiaxing Lin <jiaxing.lin@duke.edu>
Diff between jtGWAS versions 1.4 dated 2016-07-07 and 1.5 dated 2017-02-20
DESCRIPTION | 8 ++++---- MD5 | 15 ++++++++------- NEWS | 6 +++++- build/vignette.rds |binary inst/doc/jtGWAS.Rnw | 2 +- inst/doc/jtGWAS.pdf |binary man/jtGWAS-package.Rd | 4 ++-- src/init.c |only vignettes/jtGWAS.Rnw | 2 +- 9 files changed, 21 insertions(+), 16 deletions(-)
Title: Efficient Jonckheere-Terpstra Test Statistics for Robust Machine
Learning and Genome-Wide Association Studies
Description: This 'Rcpp'-based package implements highly efficient functions for the calculation of the Jonckheere-Terpstra statistic. It can be used for a variety of applications, including feature selection in machine learning problems, or to conduct genome-wide association studies (GWAS) with multiple quantitative phenotypes. The code leverages 'OpenMP' directives for multi-core computing to reduce overall processing time.
Author: Jiaxing Lin, Alexander Sibley, Ivo Shterev, and Kouros Owzar
Maintainer: Jiaxing Lin <jiaxing.lin@duke.edu>
Diff between fastJT versions 1.0.1 dated 2017-02-06 and 1.0.2 dated 2017-02-20
DESCRIPTION | 8 ++++---- MD5 | 11 ++++++----- NEWS | 6 ++++++ build/vignette.rds |binary inst/doc/fastJT.pdf |binary man/fastJT-package.Rd | 4 ++-- src/init.c |only 7 files changed, 18 insertions(+), 11 deletions(-)
Title: R Interface to W3C Markup Validation Services
Description:
R interface to a W3C Markup Validation service.
See <http://validator.w3.org/> for more information.
Author: Kurt Hornik [aut, cre]
Maintainer: Kurt Hornik <Kurt.Hornik@R-project.org>
Diff between W3CMarkupValidator versions 0.1-5 dated 2015-12-20 and 0.1-6 dated 2017-02-20
DESCRIPTION | 6 +++--- MD5 | 4 ++-- man/w3c_markup_validate.Rd | 2 +- 3 files changed, 6 insertions(+), 6 deletions(-)
More information about W3CMarkupValidator at CRAN
Permanent link
Title: N-Gram Based Text Categorization
Description: Text categorization based on n-grams.
Author: Kurt Hornik [aut, cre],
Johannes Rauch [aut],
Christian Buchta [aut],
Ingo Feinerer [aut]
Maintainer: Kurt Hornik <Kurt.Hornik@R-project.org>
Diff between textcat versions 1.0-4 dated 2016-01-04 and 1.0-5 dated 2017-02-20
DESCRIPTION | 8 ++++---- MD5 | 13 +++++++------ R/textcat.R | 6 +++--- build |only data/ECIMCI_profiles.rda |binary data/TC_byte_profiles.rda |binary data/TC_char_profiles.rda |binary man/textcat.Rd | 1 + 8 files changed, 15 insertions(+), 13 deletions(-)
Title: Text Analysis Utilities
Description: Utilities for text analysis.
Author: Christian Buchta [aut],
Kurt Hornik [aut, cre],
Ingo Feinerer [aut],
David Meyer [aut]
Maintainer: Kurt Hornik <Kurt.Hornik@R-project.org>
Diff between tau versions 0.0-18 dated 2014-06-11 and 0.0-19 dated 2017-02-20
tau-0.0-18/tau/tests/counting.Rout.save.UTF8 |only tau-0.0-18/tau/tests/counting_useBytes.Rout.save.UTF8 |only tau-0.0-19/tau/DESCRIPTION | 10 ++--- tau-0.0-19/tau/MD5 | 27 ++++++++-------- tau-0.0-19/tau/NAMESPACE | 14 +------- tau-0.0-19/tau/R/encoding.R | 10 ++--- tau-0.0-19/tau/R/sysdata.rda |binary tau-0.0-19/tau/R/textcnt.R | 12 +++---- tau-0.0-19/tau/src/encoding.c | 10 ++--- tau-0.0-19/tau/src/init.c |only tau-0.0-19/tau/src/textcnt.c | 14 ++++---- tau-0.0-19/tau/tests/counting.R | 18 +++++----- tau-0.0-19/tau/tests/counting.Rout.save |only tau-0.0-19/tau/tests/counting.Rout.save.latin1 | 24 +++++++------- tau-0.0-19/tau/tests/counting_useBytes.R | 18 +++++----- tau-0.0-19/tau/tests/counting_useBytes.Rout.save |only tau-0.0-19/tau/tests/counting_useBytes.Rout.save.latin1 | 24 +++++++------- 17 files changed, 86 insertions(+), 95 deletions(-)
Title: Spherical k-Means Clustering
Description: Algorithms to compute spherical k-means partitions.
Features several methods, including a genetic and a fixed-point
algorithm and an interface to the CLUTO vcluster program.
Author: Kurt Hornik [aut, cre],
Ingo Feinerer [aut],
Martin Kober [aut]
Maintainer: Kurt Hornik <Kurt.Hornik@R-project.org>
Diff between skmeans versions 0.2-9 dated 2016-12-12 and 0.2-10 dated 2017-02-20
DESCRIPTION | 6 +++--- MD5 | 6 +++--- R/skmeans.R | 6 +++--- build/partial.rdb |binary 4 files changed, 9 insertions(+), 9 deletions(-)
Title: SYMPHONY in R
Description: An R interface to the SYMPHONY solver for mixed-integer linear programs.
Author: Reinhard Harter [aut],
Kurt Hornik [aut, cre],
Stefan Theussl [aut],
Cyrille Szymanski [ctb]
Maintainer: Kurt Hornik <Kurt.Hornik@R-project.org>
Diff between Rsymphony versions 0.1-25 dated 2016-12-27 and 0.1-26 dated 2017-02-20
DESCRIPTION | 6 +++--- MD5 | 7 ++++--- NAMESPACE | 2 +- R/symphony.R | 2 +- src/init.c |only 5 files changed, 9 insertions(+), 8 deletions(-)
Title: Physical Activity with Accelerometers
Description: This is a collection of functions to process, format and store accelerometer data.
Author: Marco Geraci
Maintainer: Marco Geraci <geraci@mailbox.sc.edu>
Diff between pawacc versions 1.2.1 dated 2014-12-10 and 1.2.2 dated 2017-02-20
DESCRIPTION | 16 +++++----- MD5 | 22 ++++++------- NAMESPACE | 20 +++++++++++- R/pawacc.R | 75 ++++++++++++++++++++++++++--------------------- inst/CITATION | 4 +- inst/ChangeLog | 9 +++++ man/gt1mAccDir.Rd | 6 +++ man/gt3xAccDir.Rd | 6 +++ man/markbouts.acclist.Rd | 10 ++++-- man/markpa.acclist.Rd | 9 +++-- man/markwear.acclist.Rd | 10 ++++-- man/pawacc-package.Rd | 4 +- 12 files changed, 122 insertions(+), 69 deletions(-)
Title: Time Series Analysis and Computational Finance
Description: Time series analysis and computational finance.
Author: Adrian Trapletti [aut],
Kurt Hornik [aut, cre],
Blake LeBaron [ctb] (BDS test code)
Maintainer: Kurt Hornik <Kurt.Hornik@R-project.org>
Diff between tseries versions 0.10-37 dated 2017-01-17 and 0.10-38 dated 2017-02-20
ChangeLog | 18 +++++++++++++++++- DESCRIPTION | 6 +++--- MD5 | 26 +++++++++++++------------- R/arma.R | 4 ++-- R/garch.R | 8 ++++---- R/test.R | 8 ++++---- R/tsutils.R | 4 ++-- src/arma.c | 4 ++-- src/bdstest.c | 3 ++- src/boot.c | 2 +- src/garch.c | 13 ++++++++----- src/init.c | 43 +++++++++++++++++++++++-------------------- src/ppsum.c | 2 +- src/tsutils.c | 2 +- 14 files changed, 83 insertions(+), 60 deletions(-)
Title: Functions for Handling Dates
Description: Functions for handling dates.
Author: Terry Therneau [aut],
Thomas Lumley [trl] (R port),
Kjetil Halvorsen [trl] (R port),
Kurt Hornik [trl, ctb, cre] (R port)
Maintainer: Kurt Hornik <Kurt.Hornik@R-project.org>
Diff between date versions 1.2-36 dated 2017-01-17 and 1.2-37 dated 2017-02-20
ChangeLog | 11 +++++++++++ DESCRIPTION | 6 +++--- MD5 | 10 +++++----- R/date.R | 2 +- src/char_date.c | 4 ++-- src/init.c | 6 +++--- 6 files changed, 25 insertions(+), 14 deletions(-)
Title: Chronological Objects which can Handle Dates and Times
Description: Provides chronological objects which can handle dates and times.
Author: David James [aut] (S original),
Kurt Hornik [aut, trl, cre],
Gabor Grothendieck [ctb]
Maintainer: Kurt Hornik <Kurt.Hornik@R-project.org>
Diff between chron versions 2.3-49 dated 2017-01-17 and 2.3-50 dated 2017-02-20
ChangeLog | 10 ++++++++++ DESCRIPTION | 6 +++--- MD5 | 14 +++++++------- R/utils.R | 4 ++-- src/Rchron.h | 4 ++-- src/chron_strs.c | 4 ++-- src/init.c | 4 ++-- src/unpaste.c | 2 +- 8 files changed, 29 insertions(+), 19 deletions(-)
Title: Gene Model Plotting in R
Description: Using simple input, this package creates plots of gene models. Users can create plots of alternatively spliced gene variants and the positions of mutations and other gene features.
Author: J Grey Monroe [aut, cre]
Maintainer: J Grey Monroe <greymonroe@gmail.com>
Diff between genemodel versions 1.0.0.0 dated 2016-05-17 and 1.1.0 dated 2017-02-20
DESCRIPTION | 12 ++++++------ MD5 | 13 +++++++------ NEWS.md |only README.md | 6 +++--- build/vignette.rds |binary inst/doc/vignette.Rmd | 2 +- inst/doc/vignette.html | 23 +++++++++++------------ vignettes/vignette.Rmd | 2 +- 8 files changed, 29 insertions(+), 29 deletions(-)
Title: Multi-Purpose Core Subset Selection
Description: Core Hunter is a tool to sample diverse, representative subsets from large germplasm
collections, with minimum redundancy. Such so-called core collections have applications in plant
breeding and genetic resource management in general. Core Hunter can construct cores based on
genetic marker data, phenotypic traits or precomputed distance matrices, optimizing one of many
provided evaluation measures depending on the precise purpose of the core (e.g. high diversity,
representativeness, or allelic richness). In addition, multiple measures can be simultaneously
optimized as part of a weighted index to bring the different perspectives closer together.
The Core Hunter library is implemented in Java 8 as an open source project (see
<http://www.corehunter.org>).
Author: Herman De Beukelaer [aut, cre],
Guy Davenport [aut],
Veerle Fack [ths]
Maintainer: Herman De Beukelaer <herman.debeukelaer@gmail.com>
Diff between corehunter versions 3.0.1 dated 2016-10-04 and 3.1.0 dated 2017-02-20
corehunter-3.0.1/corehunter/inst/java/corehunter-3.0.0.jar |only corehunter-3.1.0/corehunter/DESCRIPTION | 8 corehunter-3.1.0/corehunter/LICENSE | 4 corehunter-3.1.0/corehunter/MD5 | 46 corehunter-3.1.0/corehunter/NEWS.md | 8 corehunter-3.1.0/corehunter/R/corehunter.R | 28 corehunter-3.1.0/corehunter/R/data.R | 191 ++- corehunter-3.1.0/corehunter/R/execution.R | 22 corehunter-3.1.0/corehunter/README.md | 27 corehunter-3.1.0/corehunter/inst/java/corehunter-3.1.0.jar |only corehunter-3.1.0/corehunter/man/coreHunterData.Rd | 2 corehunter-3.1.0/corehunter/man/corehunter.Rd | 28 corehunter-3.1.0/corehunter/man/exampleData.Rd | 12 corehunter-3.1.0/corehunter/man/genotypes.Rd | 48 corehunter-3.1.0/corehunter/man/getNormalizationRanges.Rd | 2 corehunter-3.1.0/corehunter/man/read.autodelim.Rd | 8 corehunter-3.1.0/corehunter/man/sampleCore.Rd | 18 corehunter-3.1.0/corehunter/tests/testthat/data/distances-small.txt | 6 corehunter-3.1.0/corehunter/tests/testthat/data/genotypes-bi-small.csv |only corehunter-3.1.0/corehunter/tests/testthat/data/genotypes-freq-small.csv |only corehunter-3.1.0/corehunter/tests/testthat/data/genotypes-small.csv | 12 corehunter-3.1.0/corehunter/tests/testthat/data/phenotypes-no-types.csv | 12 corehunter-3.1.0/corehunter/tests/testthat/data/phenotypes-small.csv | 18 corehunter-3.1.0/corehunter/tests/testthat/testData.R | 586 ++++++---- corehunter-3.1.0/corehunter/tests/testthat/testExecution.R | 2 corehunter-3.1.0/corehunter/tests/testthat/testUtils.R | 69 - 26 files changed, 720 insertions(+), 437 deletions(-)
Title: Fix Data and Create Report Tables from Different Objects
Description: Fixes data errors in numerical, factor and date variables, checks data quality and performs report tables from models and summaries.
Author: Victoria Fornes Ferrer, David Hervas Marin
Maintainer: David Hervas Marin <ddhervas@yahoo.es>
Diff between clickR versions 0.1.12 dated 2016-12-07 and 0.2.0 dated 2017-02-20
DESCRIPTION | 8 ++++---- MD5 | 20 +++++++++++++------- NAMESPACE | 1 + NEWS | 12 ++++++++++++ R/check_quality.R |only R/descriptive.R | 6 +++--- R/report_model.R | 8 ++++---- man/check_quality.Rd |only man/extreme_values.Rd |only man/make_table.Rd | 3 ++- man/make_word_table.Rd | 2 +- man/may.numeric.Rd |only man/numeros.Rd |only man/ttrue.Rd |only 14 files changed, 40 insertions(+), 20 deletions(-)
Title: Comparing Restricted Mean Survival Time
Description: Performs two-sample comparisons using the restricted mean survival time (RMST) as a summary measure of the survival time distribution. Three kinds of between-group contrast metrics (i.e., the difference in RMST, the ratio of RMST and the ratio of the restricted mean time lost (RMTL)) are computed. It performs an ANCOVA-type covariate adjustment as well as unadjusted analyses for those measures.
Author: Hajime Uno, Lu Tian, Angel Cronin, Chakib Battioui, Miki Horiguchi
Maintainer: Hajime Uno <huno@jimmy.harvard.edu>
Diff between survRM2 versions 1.0-1 dated 2015-03-16 and 1.0-2 dated 2017-02-20
survRM2-1.0-1/survRM2/inst/doc/survRM2-vignette3-1.R |only survRM2-1.0-1/survRM2/inst/doc/survRM2-vignette3-1.Rnw |only survRM2-1.0-1/survRM2/inst/doc/survRM2-vignette3-1.pdf |only survRM2-1.0-1/survRM2/vignettes/survRM2-vignette3-1.Rnw |only survRM2-1.0-2/survRM2/DESCRIPTION | 14 survRM2-1.0-2/survRM2/MD5 | 25 survRM2-1.0-2/survRM2/NAMESPACE | 22 survRM2-1.0-2/survRM2/NEWS.md |only survRM2-1.0-2/survRM2/R/rmst2-ver002.R | 1186 ++++++++-------- survRM2-1.0-2/survRM2/build/vignette.rds |binary survRM2-1.0-2/survRM2/inst/doc/survRM2-vignette3-2.R |only survRM2-1.0-2/survRM2/inst/doc/survRM2-vignette3-2.Rmd |only survRM2-1.0-2/survRM2/inst/doc/survRM2-vignette3-2.html |only survRM2-1.0-2/survRM2/man/plot.rmst2.Rd |only survRM2-1.0-2/survRM2/man/print.rmst2.Rd |only survRM2-1.0-2/survRM2/man/rmst2.Rd | 161 +- survRM2-1.0-2/survRM2/man/rmst2.sample.data.Rd | 48 survRM2-1.0-2/survRM2/man/survRM2-package.Rd | 102 - survRM2-1.0-2/survRM2/vignettes/survRM2-vignette3-2.Rmd |only 19 files changed, 834 insertions(+), 724 deletions(-)
Title: Exemplar Data Sets for SGP Analyses
Description: Data sets utilized by the SGP Package as exemplars for users to conduct their own SGP analyses.
Author: Damian W. Betebenner [aut, cre],
Adam Van Iwaarden [aut],
Ben Domingue [aut]
Maintainer: Damian W. Betebenner <dbetebenner@nciea.org>
Diff between SGPdata versions 14.0-0.0 dated 2016-09-16 and 15.0-0.0 dated 2017-02-20
DESCRIPTION | 8 ++++---- MD5 | 14 +++++++------- R/zzz.R | 2 +- data/sgptData_LONG.rda |binary inst/CITATION | 8 ++++---- inst/NEWS | 4 ++++ man/SGPdata-package.Rd | 4 ++-- man/sgptData_LONG.Rd | 1 + 8 files changed, 23 insertions(+), 18 deletions(-)
Title: Multivariate Adaptive Regression Splines
Description: Build regression models using the techniques in Friedman's
papers "Fast MARS" and "Multivariate Adaptive Regression
Splines". (The term "MARS" is trademarked and thus not used in
the name of the package.)
Author: Stephen Milborrow. Derived from mda:mars by Trevor Hastie and
Rob Tibshirani. Uses Alan Miller's Fortran utilities
with Thomas Lumley's leaps wrapper.
Maintainer: Stephen Milborrow <milbo@sonic.net>
Diff between earth versions 4.4.8 dated 2017-02-19 and 4.4.9 dated 2017-02-20
DESCRIPTION | 6 +++--- MD5 | 22 +++++++++++----------- NEWS | 11 ++++++++--- build/partial.rdb |binary inst/doc/earth-notes.pdf |binary inst/doc/earth-varmod.pdf |binary inst/slowtests/test.earthc.out.save | 4 ++-- inst/slowtests/test.full.Rout.save | 6 +++--- src/allowed.c | 8 +++++--- src/earth.c | 14 +++++++------- src/leaps.f | 2 +- src/rentries.c | 5 ++++- 12 files changed, 44 insertions(+), 34 deletions(-)
Title: Tools for Computation on Batch Systems
Description: As a successor of the packages 'BatchJobs' and 'BatchExperiments',
this package provides a parallel implementation of the Map function for high
performance computing systems managed by schedulers 'IBM Spectrum LSF'
(<http://www-03.ibm.com/systems/spectrum-computing/products/lsf/>),
'OpenLava' (<http://www.openlava.org/>), 'Univa Grid Engine'/'Oracle Grid
Engine' (<http://www.univa.com/>), 'Slurm' (<http://slurm.schedmd.com/>),
'TORQUE/PBS'
(<http://www.adaptivecomputing.com/products/open-source/torque/>), or
'Docker Swarm' (<https://docs.docker.com/swarm/>).
A multicore and socket mode allow the parallelization on a local machines,
and multiple machines can be hooked up via SSH to create a makeshift
cluster. Moreover, the package provides an abstraction mechanism to define
large-scale computer experiments in a well-organized and reproducible way.
Author: Michel Lang [cre, aut],
Bernd Bischl [aut],
Dirk Surmann [ctb]
Maintainer: Michel Lang <michellang@gmail.com>
Diff between batchtools versions 0.9.0 dated 2016-11-07 and 0.9.2 dated 2017-02-20
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Title: Discovering Multiple, Statistically-Equivalent Signatures
Description: Feature selection methods for identifying minimal, statistically-equivalent and equally-predictive feature subsets. Bayesian network algorithms and related functions are also included. The package name 'MXM' stands for "Mens eX Machina", meaning "Mind from the Machine" in Latin.
Author: Ioannis Tsamardinos, Vincenzo Lagani, Giorgos Athineou, Michail Tsagris, Giorgos Borboudakis, Anna Roumpelaki
Maintainer: Michail Tsagris <mtsagris@csd.uoc.gr>
Diff between MXM versions 0.9.7 dated 2016-12-20 and 0.9.8 dated 2017-02-20
DESCRIPTION | 10 - MD5 | 122 +++++++++------- NAMESPACE | 17 +- R/MMPC.R | 203 +++++++++++++++++++++------ R/MMPC.temporal.R | 2 R/SES.R | 206 ++++++++++++++++++++-------- R/SES.temporal.R | 6 R/beta.bsreg.R | 6 R/beta.fsreg.R | 3 R/beta.regs.R | 5 R/bic.betafsreg.R | 11 - R/bic.fsreg.R | 18 +- R/bic.glm.fsreg.R | 36 ++-- R/bic.zipfsreg.R | 12 - R/bs.reg.R | 12 - R/cat.ci.R | 3 R/condi.R | 27 --- R/cvses.par.R | 6 R/dist.condi.R |only R/fs.reg.R | 20 +- R/generatefolds.R | 14 - R/glm.bsreg.R | 8 - R/glm.fsreg.R | 118 +++------------- R/glm.fsreg_2.R | 4 R/iamb.R |only R/iamb.betabs.R |only R/iamb.bs.R |only R/iamb.glmbs.R |only R/iamb.zipbs.R |only R/lm.fsreg.R | 248 ++++++---------------------------- R/lm.fsreg_2.R | 357 ++++++++++++------------------------------------- R/lm.fsreg_2.heavy.R |only R/lm.fsreg_heavy.R |only R/mmpc.model.R | 4 R/partialcor.R | 13 - R/pc.con.R | 16 -- R/pc.skel.R | 29 +-- R/permFisher.R |only R/permcor.R | 5 R/permcorrels.R |only R/reg.fit.R | 2 R/ses.model.R | 10 - R/testIndClogit.R | 6 R/testIndFisher.R | 43 +---- R/testIndGLMM.R | 8 - R/testIndPois.R | 9 - R/testIndSpeedglm.R | 2 R/univregs.R |only R/zip.bsreg.R | 6 R/zip.fsreg.R | 3 inst/doc/article.pdf |binary man/MXM-internal.Rd | 18 +- man/MXM-package.Rd | 9 - man/MXMCondIndTests.Rd | 8 - man/SES.Rd | 10 + man/bs.reg.Rd | 6 man/censIndCR.Rd | 4 man/condi.Rd | 37 +++-- man/findDescendants.Rd | 12 - man/gSquare.Rd | 2 man/iamb.Rd |only man/iamb.bs.Rd |only man/lm.fsreg.Rd | 12 - man/pc.skel.Rd | 9 - man/permcor.Rd | 18 +- man/rdag.Rd | 2 man/testIndFisher.Rd | 38 ++++- man/undir.path.Rd | 2 man/univregs.Rd |only 69 files changed, 820 insertions(+), 997 deletions(-)
Title: Routines for L1 Estimation
Description: L1 estimation for linear regression, density, distribution function,
quantile function and random number generation for univariate and multivariate
Laplace distribution.
Author: Felipe Osorio [aut, cre] and Tymoteusz Wolodzko [aut]
Maintainer: Felipe Osorio <felipe.osorio@ucv.cl>
Diff between L1pack versions 0.3 dated 2015-04-13 and 0.38 dated 2017-02-20
ChangeLog |only DESCRIPTION | 19 +++--- MD5 | 20 ++++-- NAMESPACE | 29 ++++++++- R/distn.R |only R/lad.R | 160 +++++++++++++++++++++++++++++++++++++++++++++++++++- inst/CITATION | 16 ++--- man/Laplace.Rd |only man/simulate.lad.Rd |only src/distn.c |only src/distn.h |only src/init.c | 5 + src/lad.c | 10 +-- src/random.c | 78 ++++++++++++------------- 14 files changed, 264 insertions(+), 73 deletions(-)
Title: '2D plots of linear or integer programming models'
Description: Make 2D plots of the polyeder of a LP or IP problem, including
integer points and iso profit curve. Can also make a plot of a bi-objective
criterion space.
Author: Lars Relund [aut, cre]
Maintainer: Lars Relund <lars@relund.dk>
Diff between gMOIP versions 1.0.0 dated 2017-01-23 and 1.1.0 dated 2017-02-20
gMOIP-1.0.0/gMOIP/man/getA.Rd |only gMOIP-1.0.0/gMOIP/man/getC.Rd |only gMOIP-1.1.0/gMOIP/DESCRIPTION | 10 +- gMOIP-1.1.0/gMOIP/MD5 | 24 ++---- gMOIP-1.1.0/gMOIP/NAMESPACE | 3 gMOIP-1.1.0/gMOIP/R/functions.R | 108 +++++++---------------------- gMOIP-1.1.0/gMOIP/R/package_doc.R | 2 gMOIP-1.1.0/gMOIP/inst/examples/examples.R | 31 +++----- gMOIP-1.1.0/gMOIP/man/cornerPoints.Rd | 32 +++----- gMOIP-1.1.0/gMOIP/man/criterionPoints.Rd | 32 +++----- gMOIP-1.1.0/gMOIP/man/gMOIP.Rd | 40 ++++------ gMOIP-1.1.0/gMOIP/man/integerPoints.Rd | 70 +++++++++++++----- gMOIP-1.1.0/gMOIP/man/plotCriterion.Rd | 36 ++++----- gMOIP-1.1.0/gMOIP/man/plotPolytope.Rd | 38 ++++------ 14 files changed, 180 insertions(+), 246 deletions(-)
Title: Multivariate Exploratory Data Analysis and Data Mining
Description: Exploratory data analysis methods to summarize, visualize and describe datasets. The main principal component methods are available, those with the largest potential in terms of applications: principal component analysis (PCA) when variables are quantitative, correspondence analysis (CA) and multiple correspondence analysis (MCA) when variables are categorical, Multiple Factor Analysis when variables are structured in groups, etc. and hierarchical cluster analysis.
Author: Francois Husson, Julie Josse, Sebastien Le, Jeremy Mazet
Maintainer: Francois Husson <francois.husson@agrocampus-ouest.fr>
Diff between FactoMineR versions 1.34 dated 2016-11-17 and 1.35 dated 2017-02-20
DESCRIPTION | 8 ++--- MD5 | 16 +++++----- R/CA.R | 67 ++++++++++++++++++++++++++++++++++++++++------ R/HCPC.R | 10 +++--- R/plot.CA.R | 9 +++++- inst/doc/FactoMineR.pdf |binary inst/doc/clustering.pdf |binary man/FactoMineR-package.Rd | 2 - man/plot.CA.Rd | 4 ++ 9 files changed, 88 insertions(+), 28 deletions(-)
Title: A Lending Club API Wrapper
Description: Functions to access Lending Club's API and assist the investor manage
their account. Lending Club is a peer-to-peer lending service where loans are
broken up into $25 notes that investors buy with the expectation of earning a
return on the interest. You can learn more about the API here:
<http://www.lendingclub.com/developers/lc-api.action>.
Author: Ryan Kuhn
Maintainer: Ryan Kuhn <kuhnrl30@gmail.com>
Diff between LendingClub versions 1.0.1 dated 2016-12-11 and 1.0.2 dated 2017-02-20
DESCRIPTION | 8 ++++---- MD5 | 10 +++++----- R/CleanData.R | 19 ++++++++++--------- R/SubmitOrder.R | 2 +- README.md | 4 ++-- build/vignette.rds |binary 6 files changed, 22 insertions(+), 21 deletions(-)
Title: Bayesian Inference for Factor Modeling
Description: Collection of procedures to perform Bayesian analysis on a variety
of factor models. Currently, it includes: Bayesian Exploratory Factor
Analysis (befa), an approach to dedicated factor analysis with stochastic
search on the structure of the factor loading matrix. The number of latent
factors, as well as the allocation of the manifest variables to the factors,
are not fixed a priori but determined during MCMC sampling.
More approaches will be included in future releases of this package.
Author: Rémi Piatek [aut, cre]
Maintainer: Rémi Piatek <remi.piatek@econ.ku.dk>
Diff between BayesFM versions 0.1.1 dated 2017-02-06 and 0.1.2 dated 2017-02-20
BayesFM-0.1.1/BayesFM/src/simul_prior_nfac.f95 |only BayesFM-0.1.2/BayesFM/DESCRIPTION | 8 - BayesFM-0.1.2/BayesFM/MD5 | 47 ++++--- BayesFM-0.1.2/BayesFM/NAMESPACE | 5 BayesFM-0.1.2/BayesFM/NEWS | 6 BayesFM-0.1.2/BayesFM/R/befa.R | 60 ++++----- BayesFM-0.1.2/BayesFM/R/extract.data.R | 2 BayesFM-0.1.2/BayesFM/R/plot.befa.R | 6 BayesFM-0.1.2/BayesFM/R/plot.simul.R.prior.R | 2 BayesFM-0.1.2/BayesFM/R/post.column.switch.R | 2 BayesFM-0.1.2/BayesFM/R/post.sign.switch.R | 10 - BayesFM-0.1.2/BayesFM/R/print.simul.nfac.prior.R | 2 BayesFM-0.1.2/BayesFM/R/simul.dedic.facmod.R | 28 ++-- BayesFM-0.1.2/BayesFM/R/simul.nfac.prior.R | 22 +-- BayesFM-0.1.2/BayesFM/R/summary.befa.R | 23 ++- BayesFM-0.1.2/BayesFM/R/summary.simul.R.prior.R | 11 + BayesFM-0.1.2/BayesFM/README |only BayesFM-0.1.2/BayesFM/configure | 145 +++++++++++++++-------- BayesFM-0.1.2/BayesFM/configure.ac | 49 +++++-- BayesFM-0.1.2/BayesFM/configure.win |only BayesFM-0.1.2/BayesFM/man/befa.Rd | 4 BayesFM-0.1.2/BayesFM/man/simul.nfac.prior.Rd | 8 - BayesFM-0.1.2/BayesFM/man/summary.befa.Rd | 10 - BayesFM-0.1.2/BayesFM/src/BayesFM-win.def |only BayesFM-0.1.2/BayesFM/src/BayesFM.h |only BayesFM-0.1.2/BayesFM/src/Makevars | 7 - BayesFM-0.1.2/BayesFM/src/init.c |only BayesFM-0.1.2/BayesFM/src/simul_nfac_prior.f95 |only 28 files changed, 277 insertions(+), 180 deletions(-)
Title: Co-Clustering with Document-Term Matrix
Description: Functions for co-clustering with C code illustrating two diagonal approaches,
(Ailem & Role & Nadif, 2016, <doi:10.1016/j.knosys.2016.07.002>),
(Laclau & Nadif, 2016, <doi:10.1016/j.neucom.2016.02.003>).
A relevant initialization and a suitable setting of the parameters are required.
For a dimensionality reduction via random projection, a function is included.
Author: R. Priam <rpriam@gmail.com>
Maintainer: R. Priam <rpriam@gmail.com>
Diff between Rcoclust versions 0.1 dated 2017-02-08 and 0.1.1 dated 2017-02-20
Rcoclust-0.1.1/Rcoclust/DESCRIPTION | 16 +- Rcoclust-0.1.1/Rcoclust/MD5 | 51 +++--- Rcoclust-0.1.1/Rcoclust/NAMESPACE | 2 Rcoclust-0.1.1/Rcoclust/R/checks.R |only Rcoclust-0.1.1/Rcoclust/R/inits.R |only Rcoclust-0.1.1/Rcoclust/R/rcoclust.R | 195 +++++++++++-------------- Rcoclust-0.1.1/Rcoclust/data/data_classic3.rda |binary Rcoclust-0.1.1/Rcoclust/data/data_cstr.rda |binary Rcoclust-0.1.1/Rcoclust/data/data_news4.rda |binary Rcoclust-0.1.1/Rcoclust/data/data_ng20.rda |only Rcoclust-0.1.1/Rcoclust/data/data_ng5.rda |binary Rcoclust-0.1.1/Rcoclust/data/data_webace.rda |only Rcoclust-0.1.1/Rcoclust/data/datalist |only Rcoclust-0.1.1/Rcoclust/man/cc_coclus.Rd | 14 + Rcoclust-0.1.1/Rcoclust/man/cc_ddkm.Rd | 14 + Rcoclust-0.1.1/Rcoclust/man/data_classic3.Rd | 2 Rcoclust-0.1.1/Rcoclust/man/data_cstr.Rd | 2 Rcoclust-0.1.1/Rcoclust/man/data_news4.Rd | 2 Rcoclust-0.1.1/Rcoclust/man/data_ng20.Rd |only Rcoclust-0.1.1/Rcoclust/man/data_ng5.Rd | 2 Rcoclust-0.1.1/Rcoclust/man/data_webace.Rd |only Rcoclust-0.1.1/Rcoclust/man/get_envrdata.Rd |only Rcoclust-0.1.1/Rcoclust/man/randp.Rd | 6 Rcoclust-0.1.1/Rcoclust/src/coclus.c |only Rcoclust-0.1.1/Rcoclust/src/data.c |only Rcoclust-0.1.1/Rcoclust/src/ddkm.c |only Rcoclust-0.1.1/Rcoclust/src/divrs.c |only Rcoclust-0.1.1/Rcoclust/src/fddkm.c |only Rcoclust-0.1.1/Rcoclust/src/init.c |only Rcoclust-0.1.1/Rcoclust/src/randomp.c |only Rcoclust-0.1.1/Rcoclust/src/rcoclust.h |only Rcoclust-0.1/Rcoclust/build |only Rcoclust-0.1/Rcoclust/man/Rcoclust-package.Rd |only Rcoclust-0.1/Rcoclust/man/cc_fddkm.Rd |only Rcoclust-0.1/Rcoclust/man/envrdata.Rd |only Rcoclust-0.1/Rcoclust/src/Makevars.in |only Rcoclust-0.1/Rcoclust/src/Makevars.win |only Rcoclust-0.1/Rcoclust/src/Rcoclust.c |only 38 files changed, 155 insertions(+), 151 deletions(-)
Title: Utilities for Quantiles
Description: This is a collection of functions for unconditional and conditional quantiles. These include methods for transformation-based quantile regression, quantile-based measures of location, scale and shape, methods for quantiles of discrete variables, quantile-based multiple imputation, and restricted quantile regression.
Author: Marco Geraci
Maintainer: Marco Geraci <geraci@mailbox.sc.edu>
Diff between Qtools versions 1.1 dated 2016-05-26 and 1.2 dated 2017-02-20
DESCRIPTION | 8 - MD5 | 33 ++-- NAMESPACE | 3 NEWS | 11 + R/Qtools.R | 382 +++++++++++++++++++++++++++++++++++++++---------- build/vignette.rds |binary inst/CITATION |only inst/doc/Qtools.pdf |binary man/Orthodont.Rd | 2 man/Qtools-internal.Rd | 3 man/Qtools-package.Rd | 4 man/mice.impute.rq.Rd | 17 +- man/nlControl.Rd |only man/plot.qlss.Rd | 8 - man/rq.counts.Rd | 8 - man/rrq.Rd | 2 man/sparsity.rqt.Rd | 2 man/tsrq.Rd | 23 +- src/Qtools_init.c |only 19 files changed, 392 insertions(+), 114 deletions(-)
Title: Client for the HuffPost Pollster API
Description: Client for the HuffPost Pollster API, which provides
access to U.S. polls on elections and political opinion.
Author: Jeffrey B. Arnold [aut, cre],
Thomas J. Leeper [aut],
Drew Linzer [aut]
Maintainer: Jeffrey B. Arnold <jeffrey.arnold@gmail.com>
Diff between pollstR versions 1.4.0 dated 2016-07-24 and 2.0.0 dated 2017-02-20
pollstR-1.4.0/pollstR/NEWS |only pollstR-1.4.0/pollstR/R/chart.R |only pollstR-1.4.0/pollstR/R/chart_tbl.R |only pollstR-1.4.0/pollstR/R/charts.R |only pollstR-1.4.0/pollstR/R/house-effects.R |only pollstR-1.4.0/pollstR/R/polls.R |only pollstR-1.4.0/pollstR/R/pollstr-package.R |only pollstR-1.4.0/pollstR/inst/doc/introduction.R |only pollstR-1.4.0/pollstR/inst/doc/introduction.Rmd |only pollstR-1.4.0/pollstR/inst/doc/introduction.html |only pollstR-1.4.0/pollstR/inst/examples |only pollstR-1.4.0/pollstR/man/pollster_chart.Rd |only pollstR-1.4.0/pollstR/man/pollster_chart_data.Rd |only pollstR-1.4.0/pollstR/man/pollster_charts.Rd |only pollstR-1.4.0/pollstR/man/pollster_house_effects.Rd |only pollstR-1.4.0/pollstR/man/pollster_polls.Rd |only pollstR-1.4.0/pollstR/tests |only pollstR-1.4.0/pollstR/vignettes/children |only pollstR-1.4.0/pollstR/vignettes/figures |only pollstR-1.4.0/pollstR/vignettes/introduction.Rmd |only pollstR-1.4.0/pollstR/vignettes/introduction.md |only pollstR-2.0.0/pollstR/DESCRIPTION | 15 ++--- pollstR-2.0.0/pollstR/MD5 | 54 ++++---------------- pollstR-2.0.0/pollstR/NAMESPACE | 37 +++++++------ pollstR-2.0.0/pollstR/NEWS.md |only pollstR-2.0.0/pollstR/R/pollstr.R |only pollstR-2.0.0/pollstR/build/vignette.rds |binary pollstR-2.0.0/pollstR/inst/doc/examples.R |only pollstR-2.0.0/pollstR/inst/doc/examples.Rmd |only pollstR-2.0.0/pollstR/inst/doc/examples.html |only pollstR-2.0.0/pollstR/man/pollstR.Rd | 12 +--- pollstR-2.0.0/pollstR/man/pollster_api.Rd |only pollstR-2.0.0/pollstR/man/pollster_iter.Rd |only pollstR-2.0.0/pollstR/vignettes/examples.Rmd |only 34 files changed, 44 insertions(+), 74 deletions(-)
Title: Chunk Processing or Split-Apply-Combine on Delimited Files and
Distributed Dataframes
Description: Perform chunk processing or split-apply-combine on data in a
delimited file (example: CSV) and Distributed Dataframes (DDF) across multiple
cores of a single machine with low memory footprint. These functions are a
convenient wrapper over the versatile package 'datadr'.
Author: KS Srikanth [aut, cre]
Maintainer: KS Srikanth <sri.teach@gmail.com>
Diff between fileplyr versions 0.1.0 dated 2017-02-03 and 0.2.0 dated 2017-02-20
DESCRIPTION | 20 +++++++++++--------- MD5 | 10 ++++++---- NAMESPACE | 1 + R/ddfply.R |only R/fileply.R | 4 ++-- man/ddfply.Rd |only man/fileply.Rd | 2 +- 7 files changed, 21 insertions(+), 16 deletions(-)
Title: Simulating Community Assembly and Ecological Diversification
Using Ecospace Frameworks
Description: Implements stochastic simulations of community assembly (ecological
diversification) using customizable ecospace frameworks (functional trait
spaces). Provides a wrapper to calculate common ecological disparity and
functional ecology statistical dynamics as a function of species richness.
Functions are written so they will work in a parallel-computing environment.
Author: Phil Novack-Gottshall [aut, cre]
Maintainer: Phil Novack-Gottshall <pnovack-gottshall@ben.edu>
Diff between ecospace versions 1.1.1 dated 2017-01-06 and 1.1.3 dated 2017-02-20
DESCRIPTION | 12 +++++++----- MD5 | 12 +++++++++--- R/ecospace.R | 4 +++- build |only inst |only man/ecospace-package.Rd | 4 +++- vignettes |only 7 files changed, 22 insertions(+), 10 deletions(-)
Title: Cross-Entropy R Package for Optimization
Description: Optimization solver based on the Cross-Entropy method.
Author: Tim Benham and Qibin Duan and Dirk P. Kroese and Benoit Liquet
Maintainer: Benoit Liquet <b.liquet@uq.edu.au>
Diff between CEoptim versions 1.1 dated 2015-08-22 and 1.2 dated 2017-02-20
DESCRIPTION | 8 ++++---- MD5 | 15 ++++++++------- inst |only man/CEoptim-package.Rd | 4 ++-- man/CEoptim.Rd | 6 +++--- man/FitzHugh.Rd | 6 +++--- man/lesmis.Rd | 6 +++--- man/print.CEoptim.Rd | 6 +++--- man/yt.Rd | 5 ++--- 9 files changed, 28 insertions(+), 28 deletions(-)