Title: Dental Surface Complexity Measurement Tools
Description: Surface topography calculations of Dirichlet's normal energy,
relief index, surface slope, and orientation patch count for teeth using scans of
enamel caps.
Importantly, for the relief index and orientation patch count calculations to
work, the scanned tooth files must be oriented with the occlusal plane parallel
to the x and y axes, and perpendicular to the z axis. The files should also be
simplified, and smoothed in some other software prior to uploading into R.
Author: James D. Pampush [aut, cre, cph],
Julia M. Winchester [aut, cph],
Paul E. Morse [aut, cph],
Alexander Q. Vining [aut, cph]
Maintainer: James D. Pampush <jdpampush@gmail.com>
Diff between molaR versions 4.1 dated 2016-07-28 and 4.2 dated 2016-08-30
DESCRIPTION | 6 +++--- MD5 | 6 +++--- R/molaR_Clean.R | 10 ++++++---- build/molaR.pdf |binary 4 files changed, 12 insertions(+), 10 deletions(-)
Title: A Shiny Application for Reducing Elemental LA-ICPMS Data from
Solid Structures
Description: Aims to facilitate the reduction of elemental microchemistry data from solid-phase LA-ICPMS analysis (laser ablation inductive coupled plasma mass spectrometry). The elementR package provides a reactive and user friendly interface for conducting all steps needed for an optimal data reduction while leaving maximum control for user.
Author: Charlotte Sirot, Francois Guilhaumon, Franck Ferraton, Audrey Darnaude, Jacques Panfili, Amber Child
Maintainer: Charlotte Sirot <charlott.sirot@gmail.com>
Diff between elementR versions 1.0 dated 2016-08-30 and 1.1 dated 2016-08-30
DESCRIPTION | 6 - MD5 | 6 - R/App.R | 129 +++++++++++++++++++--------------------- inst/elementR_documentation.pdf |binary 4 files changed, 68 insertions(+), 73 deletions(-)
Title: Dynamic Models for Survival Data
Description: Functions to fit time-varying coefficient models for interval
censored and right censored survival data. Three major
approaches are implemented: 1) Bayesian Cox model with
time-independent, time-varying or dynamic coefficients for
right censored and interval censored data; 2) Spline based
time-varying coefficient Cox model for right censored data;
3) Transformation model with time-varying coefficients for
right censored data using estimating equations.
Author: Wenjie Wang [cre, aut],
Ming-Hui Chen [aut],
Xiaojing Wang [aut],
Jun Yan [aut]
Maintainer: Wenjie Wang <wenjie.2.wang@uconn.edu>
Diff between dynsurv versions 0.3-0 dated 2016-07-14 and 0.3-2 dated 2016-08-30
ChangeLog | 9 +++++++++ DESCRIPTION | 12 ++++++------ MD5 | 10 +++++----- R/data.R | 2 +- man/tooth.Rd | 2 +- src/Makevars | 4 ++-- 6 files changed, 24 insertions(+), 15 deletions(-)
Title: Case-Control Analysis of Multi-Allelic Loci
Description: Data sets and functions for chi-squared Hardy-Weinberg and case-control
association tests of highly polymorphic genetic data [e.g., human leukocyte antigen
(HLA) data]. Performs association tests at multiple levels of polymorphism
(haplotype, locus and HLA amino-acids) as described in Pappas DJ, Marin W, Hollenbach
JA, Mack SJ (2016) <doi:10.1016/j.humimm.2015.12.006>. Combines rare variants to a
common class to account for sparse cells in tables as described by Hollenbach JA,
Mack SJ, Thomson G, Gourraud PA (2012) <doi:10.1007/978-1-61779-842-9_14>.
Author: Derek Pappas <dpappas@chori.org>, Steve Mack <sjmack@chori.org>, Jill
Hollenbach <Jill.Hollenbach@ucsf.edu>
Maintainer: Steve Mack <sjmack@chori.org>
Diff between BIGDAWG versions 1.5.4 dated 2016-08-28 and 1.5.5 dated 2016-08-30
DESCRIPTION | 8 ++++---- MD5 | 18 +++++++++--------- NEWS | 5 +++++ R/A_wrapper.R | 3 +-- R/BIGDAWG.R | 2 +- R/sysdata.rda |binary inst/doc/BIGDAWG.Rmd | 18 ++++++++++-------- inst/doc/BIGDAWG.html | 18 ++++++++++-------- man/A.wrapper.Rd | 6 ++---- vignettes/BIGDAWG.Rmd | 18 ++++++++++-------- 10 files changed, 52 insertions(+), 44 deletions(-)
Title: Logic Regression
Description: Routines for fitting Logic Regression models.
Author: Charles Kooperberg <clk@fredhutch.org> and Ingo Ruczinski <ingo@jhu.edu>
Maintainer: Charles Kooperberg <clk@fredhutch.org>
Diff between LogicReg versions 1.5.8 dated 2015-07-02 and 1.5.9 dated 2016-08-30
DESCRIPTION | 8 +-- MD5 | 8 +-- src/external.f | 4 - src/slogic.f | 126 ++++++++++++++++++++++++++++----------------------------- src/trioLR.f | 11 +++- 5 files changed, 80 insertions(+), 77 deletions(-)
Title: Translate CSS Selectors to XPath Expressions
Description: Translates a CSS3 selector into an equivalent XPath
expression. This allows us to use CSS selectors when working with
the XML package as it can only evaluate XPath expressions. Also
provided are convenience functions useful for using CSS selectors on
XML nodes. This package is a port of the Python package 'cssselect'
(<https://pythonhosted.org/cssselect/>).
Author: Simon Potter [aut, trl, cre],
Simon Sapin [aut],
Ian Bicking [aut]
Maintainer: Simon Potter <simon@sjp.co.nz>
Diff between selectr versions 0.2-3 dated 2014-12-24 and 0.3-0 dated 2016-08-30
selectr-0.2-3/selectr/tests/testthat/test-querySelector.R |only selectr-0.2-3/selectr/tests/testthat/test-select.R |only selectr-0.2-3/selectr/tests/testthat/test-shakespeare.R |only selectr-0.2-3/selectr/tests/testthat/test-xmllang.R |only selectr-0.3-0/selectr/DESCRIPTION | 18 selectr-0.3-0/selectr/LICENCE | 2 selectr-0.3-0/selectr/MD5 | 39 - selectr-0.3-0/selectr/NAMESPACE | 6 selectr-0.3-0/selectr/R/main.R | 205 +++++++ selectr-0.3-0/selectr/R/parser.R | 56 +- selectr-0.3-0/selectr/R/xpath.R | 257 +++++----- selectr-0.3-0/selectr/R/zzz.R |only selectr-0.3-0/selectr/inst/NEWS.Rd | 25 selectr-0.3-0/selectr/man/css_to_xpath.Rd | 8 selectr-0.3-0/selectr/man/querySelectorAll.Rd | 58 +- selectr-0.3-0/selectr/tests/testthat/test-main.R | 8 selectr-0.3-0/selectr/tests/testthat/test-parser.R | 7 selectr-0.3-0/selectr/tests/testthat/test-pseudo.R | 7 selectr-0.3-0/selectr/tests/testthat/test-querySelector-XML.R |only selectr-0.3-0/selectr/tests/testthat/test-querySelector-xml2.R |only selectr-0.3-0/selectr/tests/testthat/test-select-XML.R |only selectr-0.3-0/selectr/tests/testthat/test-select-xml2.R |only selectr-0.3-0/selectr/tests/testthat/test-shakespeare-XML.R |only selectr-0.3-0/selectr/tests/testthat/test-shakespeare-xml2.R |only selectr-0.3-0/selectr/tests/testthat/test-translation.R | 50 + selectr-0.3-0/selectr/tests/testthat/test-xmllang-XML.R |only selectr-0.3-0/selectr/tests/testthat/test-xmllang-xml2.R |only 27 files changed, 520 insertions(+), 226 deletions(-)
Title: Regularized Linear Models
Description: Algorithms for fitting model-based penalized coefficient paths. Currently the models include penalized Poisson, negative binomial, zero-inflated Poisson and zero-inflated negative binomial regression models. The penalties include least absolute shrinkage and selection operator (LASSO), smoothly clipped absolute deviation (SCAD) and minimax concave penalty (MCP), and each possibly combining with L_2 penalty.
Author: Zhu Wang, with contributions from Achim Zeileis, Simon Jackman, Brian Ripley, Trevor Hastie, Rob Tibshirani, Balasubramanian Narasimhan, Gil Chu and Patrick Breheny
Maintainer: Zhu Wang <zwang@connecticutchildrens.org>
Diff between mpath versions 0.2-3 dated 2016-08-29 and 0.2-4 dated 2016-08-30
DESCRIPTION | 8 ++++---- MD5 | 10 +++++----- NEWS | 9 +++++++-- R/glmreg.R | 1 - R/zipath.R | 2 -- inst/doc/german.pdf |binary 6 files changed, 16 insertions(+), 14 deletions(-)
Title: Fast Multivariate Normal Methods
Description: Provides computationally efficient tools related to
the multivariate normal distribution. The main functionalities are:
simulating multivariate normal random vectors, evaluating multivariate
normal densities and Mahalanobis distances. These tools are very efficient
thanks to the use of C++ code and of the OpenMP API.
Author: Matteo Fasiolo, using the C++ parallel RNG of Thijs van den Berg and
Ziggurat algorithm of Jens Maurer and Steven Watanabe (boost)
Maintainer: Matteo Fasiolo <matteo.fasiolo@gmail.com>
Diff between mvnfast versions 0.1.4 dated 2016-01-08 and 0.1.5 dated 2016-08-30
mvnfast-0.1.4/mvnfast/README.md |only mvnfast-0.1.4/mvnfast/src/boost |only mvnfast-0.1.5/mvnfast/DESCRIPTION | 11 ++-- mvnfast-0.1.5/mvnfast/MD5 | 32 ++++++------- mvnfast-0.1.5/mvnfast/R/rmvn.R | 2 mvnfast-0.1.5/mvnfast/build/vignette.rds |binary mvnfast-0.1.5/mvnfast/inst/CITATION | 6 +- mvnfast-0.1.5/mvnfast/inst/COPYRIGHTS | 2 mvnfast-0.1.5/mvnfast/inst/doc/mvnfast.R | 3 + mvnfast-0.1.5/mvnfast/inst/doc/mvnfast.Rmd | 6 ++ mvnfast-0.1.5/mvnfast/inst/doc/mvnfast.html | 63 ++++++++++++++------------- mvnfast-0.1.5/mvnfast/inst/tests/test-dmvn.R | 16 +++--- mvnfast-0.1.5/mvnfast/inst/tests/test-ms.R | 4 - mvnfast-0.1.5/mvnfast/inst/tests/test-rmvn.R | 16 +++--- mvnfast-0.1.5/mvnfast/src/mahaCpp.cpp | 6 +- mvnfast-0.1.5/mvnfast/src/mvnfast.h | 4 - mvnfast-0.1.5/mvnfast/src/rmvnCpp.cpp | 10 ++-- mvnfast-0.1.5/mvnfast/vignettes/mvnfast.Rmd | 6 ++ 18 files changed, 100 insertions(+), 87 deletions(-)
Title: Categorical Landscape Simulation Facilities
Description: Package is aimed at simulating categorical maps on actual geographical realms, starting from either empty landscapes, or landscapes provided by the user (e.g. land use maps). landscapeR allows to tweak or create landscapes while retaining a high degree of control on its features, without the hassle of specifying each location attribute. In this it differs from other tools which generate null or neutral landscape in a theoretical space. The basic algorithm currently implemented uses a simple agent style/cellular automata growth model, with no rules (apart from areas of exclusion). Outputs are raster dataset exportable to any common GIS format.
Author: Dario Masante [aut, cre]
Maintainer: Dario Masante <dmasan@ceh.ac.uk>
Diff between landscapeR versions 1.0.0 dated 2016-05-22 and 1.1 dated 2016-08-30
landscapeR-1.0.0/landscapeR/vignettes/landscapeR.html |only landscapeR-1.0.0/landscapeR/vignettes/landscapeR.pdf |only landscapeR-1.1/landscapeR/DESCRIPTION | 25 +- landscapeR-1.1/landscapeR/MD5 | 31 ++- landscapeR-1.1/landscapeR/NAMESPACE | 2 landscapeR-1.1/landscapeR/NEWS.md |only landscapeR-1.1/landscapeR/R/expandClass.R | 81 +++++---- landscapeR-1.1/landscapeR/R/makeClass.R | 35 +++- landscapeR-1.1/landscapeR/R/makeLine.R |only landscapeR-1.1/landscapeR/R/makePatch.R | 152 ++++++++++++------ landscapeR-1.1/landscapeR/R/rmSingle.R |only landscapeR-1.1/landscapeR/R/zzz.R |only landscapeR-1.1/landscapeR/build |only landscapeR-1.1/landscapeR/inst |only landscapeR-1.1/landscapeR/man/expandClass.Rd | 6 landscapeR-1.1/landscapeR/man/makeClass.Rd | 8 landscapeR-1.1/landscapeR/man/makeLine.Rd |only landscapeR-1.1/landscapeR/man/makePatch.Rd | 22 +- landscapeR-1.1/landscapeR/man/rmSingle.Rd |only landscapeR-1.1/landscapeR/vignettes/landscapeR.Rmd | 96 +++++++---- 20 files changed, 294 insertions(+), 164 deletions(-)
Title: Correct Overloaded Peaks from GC-APCI-MS Data
Description: Analyzes and modifies metabolomics raw data (generated using GC-APCI-MS, Gas Chromatography-Atmospheric Pressure Chemical Ionization-Mass Spectrometry) to correct overloaded signals, i.e. ion intensities exceeding detector saturation leading to a cut-off peak. Data in xcmsRaw format are accepted as input and mzXML files can be processed alternatively. Overloaded signals are detected automatically and modified using an Gaussian or Isotopic-Ratio approach, QC plots are generated and corrected data are stored within the original xcmsRaw or mzXML respectively to allow further processing.
Author: Jan Lisec [aut, cre]
Maintainer: Jan Lisec <jan.lisec@charite.de>
Diff between CorrectOverloadedPeaks versions 1.2.13 dated 2016-07-22 and 1.2.14 dated 2016-08-30
DESCRIPTION | 8 +++++--- MD5 | 8 ++++++-- build |only inst |only vignettes/CorrectOverloadedPeaks.Rmd | 33 +++++++++++++++++++++++---------- 5 files changed, 34 insertions(+), 15 deletions(-)
More information about CorrectOverloadedPeaks at CRAN
Permanent link
Title: Bayesian Inference for Image Boundaries
Description: Provides tools for carrying out a Bayesian analysis of image boundaries. Functions are provided
for both binary (Bernoulli) and continuous (Gaussian) images. Examples, along with an interactive shiny function
illustrate how to perform simulations, analyze custom data, and plot estimates and credible intervals.
Author: Nicholas Syring, Meng Li
Maintainer: Nicholas Syring <nasyrin@gmail.com>
Diff between BayesBD versions 0.1 dated 2015-11-17 and 1.0 dated 2016-08-30
BayesBD-0.1/BayesBD/R/sourceFunction.R |only BayesBD-0.1/BayesBD/data/BayesEst.RData |only BayesBD-0.1/BayesBD/data/datalist |only BayesBD-0.1/BayesBD/man/BayesBD.binary.Rd |only BayesBD-0.1/BayesBD/man/BayesEst.Rd |only BayesBD-0.1/BayesBD/man/eigen.fun.Rd |only BayesBD-0.1/BayesBD/man/triangle.Rd |only BayesBD-0.1/BayesBD/man/uni.slice.Rd |only BayesBD-1.0/BayesBD/DESCRIPTION | 28 ++--- BayesBD-1.0/BayesBD/MD5 | 41 +++++-- BayesBD-1.0/BayesBD/NAMESPACE | 11 +- BayesBD-1.0/BayesBD/R/BayesBDshiny.R |only BayesBD-1.0/BayesBD/R/RcppExports.R |only BayesBD-1.0/BayesBD/R/besselIs.R |only BayesBD-1.0/BayesBD/R/ellipse.R |only BayesBD-1.0/BayesBD/R/par2obs.R |only BayesBD-1.0/BayesBD/R/parnormobs.R |only BayesBD-1.0/BayesBD/R/plotBD.R |only BayesBD-1.0/BayesBD/R/triangle2.R |only BayesBD-1.0/BayesBD/data/example_image_data.txt.gz |only BayesBD-1.0/BayesBD/man/BayesBD-package.Rd | 112 ++++++++------------- BayesBD-1.0/BayesBD/man/BayesBDbinary.Rd |only BayesBD-1.0/BayesBD/man/BayesBDnormal.Rd |only BayesBD-1.0/BayesBD/man/BayesBDshiny.Rd |only BayesBD-1.0/BayesBD/man/besselIs.Rd |only BayesBD-1.0/BayesBD/man/eigenfun.Rd |only BayesBD-1.0/BayesBD/man/ellipse.Rd | 72 ++++++------- BayesBD-1.0/BayesBD/man/example_image_data.Rd |only BayesBD-1.0/BayesBD/man/par2obs.Rd | 83 ++++++++------- BayesBD-1.0/BayesBD/man/parnormobs.Rd |only BayesBD-1.0/BayesBD/man/plotBD.Rd |only BayesBD-1.0/BayesBD/man/triangle2.Rd |only BayesBD-1.0/BayesBD/man/unisliceL.Rd |only BayesBD-1.0/BayesBD/src |only 34 files changed, 175 insertions(+), 172 deletions(-)
Title: Tools for Archiving, Managing and Sharing R Objects via GitHub
Description: The extension of the 'archivist' package integrating the archivist with GitHub via GitHub API, 'git2r' packages and 'httr' package.
Author: Marcin Kosinski [aut, cre],
Przemyslaw Biecek [aut]
Maintainer: Marcin Kosinski <m.p.kosinski@gmail.com>
Diff between archivist.github versions 0.2.1 dated 2016-06-27 and 0.2.2 dated 2016-08-30
archivist.github-0.2.1/archivist.github/vignettes/archivist_github.png |only archivist.github-0.2.2/archivist.github/DESCRIPTION | 8 +++-- archivist.github-0.2.2/archivist.github/MD5 | 16 ++++++---- archivist.github-0.2.2/archivist.github/NEWS.md | 8 +++++ archivist.github-0.2.2/archivist.github/R/addHooksToPrintGitHub.R | 4 +- archivist.github-0.2.2/archivist.github/README.md | 13 +++++--- archivist.github-0.2.2/archivist.github/build |only archivist.github-0.2.2/archivist.github/inst |only archivist.github-0.2.2/archivist.github/vignettes/archivist_and_GitHub_integration.Rmd | 8 ++--- archivist.github-0.2.2/archivist.github/vignettes/archivist_github.jpg |only 10 files changed, 37 insertions(+), 20 deletions(-)
More information about archivist.github at CRAN
Permanent link
Title: SPArse Matrix
Description: Set of functions for sparse matrix algebra.
Differences with SparseM/Matrix are:
(1) we only support (essentially) one sparse matrix format,
(2) based on transparent and simple structure(s),
(3) tailored for MCMC calculations within GMRF.
(4) S3 and S4 like-"compatible" ... and it is fast.
Author: Reinhard Furrer [aut, cre], Florian Gerber [ctb]
Maintainer: Reinhard Furrer <reinhard.furrer@math.uzh.ch>
Diff between spam versions 1.3-0 dated 2015-10-29 and 1.4-0 dated 2016-08-30
spam-1.3-0/spam/tests/constructors.Rout.save |only spam-1.3-0/spam/tests/covmat.Rout.save |only spam-1.3-0/spam/tests/crossprod.Rout.save |only spam-1.3-0/spam/tests/demo_article-jss-example1.Rout.save |only spam-1.3-0/spam/tests/demo_article-jss-example2.Rout.save |only spam-1.3-0/spam/tests/demo_article-jss.Rout.save |only spam-1.3-0/spam/tests/demo_cholesky.Rout.save |only spam-1.3-0/spam/tests/demo_jss15-BYM.Rout.save |only spam-1.3-0/spam/tests/demo_jss15-Leroux.Rout.save |only spam-1.3-0/spam/tests/demo_spam.Rout.save |only spam-1.3-0/spam/tests/demo_timing.Rout.save |only spam-1.3-0/spam/tests/diff.Rout.save |only spam-1.3-0/spam/tests/dim.Rout.save |only spam-1.3-0/spam/tests/displays.Rout.save |only spam-1.3-0/spam/tests/dist.Rout.save |only spam-1.3-0/spam/tests/foreign.Rout.save |only spam-1.3-0/spam/tests/helper.Rout.save |only spam-1.3-0/spam/tests/jss_areal_counts.Rout.save |only spam-1.3-0/spam/tests/kronecker.Rout.save |only spam-1.3-0/spam/tests/math.Rout.save |only spam-1.3-0/spam/tests/mle.Rout.save |only spam-1.3-0/spam/tests/norm.Rout.save |only spam-1.3-0/spam/tests/ops.Rout.save |only spam-1.3-0/spam/tests/overall.Rout.save |only spam-1.3-0/spam/tests/permutation.Rout.save |only spam-1.3-0/spam/tests/rowcolstats.Rout.save |only spam-1.3-0/spam/tests/solve.Rout.save |only spam-1.3-0/spam/tests/spamlist.Rout.save |only spam-1.3-0/spam/tests/subsetting.Rout.save |only spam-1.3-0/spam/tests/xybind.Rout.save |only spam-1.4-0/spam/ChangeLog | 18 ++++ spam-1.4-0/spam/DESCRIPTION | 8 - spam-1.4-0/spam/MD5 | 62 +++----------- spam-1.4-0/spam/R/helper.R | 2 spam-1.4-0/spam/R/rowcolstats.R | 4 spam-1.4-0/spam/R/subset.R | 1 spam-1.4-0/spam/R/xybind.R | 2 spam-1.4-0/spam/build/vignette.rds |binary spam-1.4-0/spam/inst/NEWS | 8 + spam-1.4-0/spam/src/cholmodified.f | 60 +++++++------ spam-1.4-0/spam/src/dist.f | 6 - spam-1.4-0/spam/src/fromsparsekit.f | 34 ++++--- spam-1.4-0/spam/src/permutation.f | 31 +++---- spam-1.4-0/spam/src/rowcolstats.f | 10 +- spam-1.4-0/spam/src/spamown.f | 22 ++-- spam-1.4-0/spam/src/xybind.f | 4 spam-1.4-0/spam/tests/math.R | 38 +++++++- 47 files changed, 173 insertions(+), 137 deletions(-)
Title: Interpolate Data for Smooth Animations
Description: In order to create smooth animation between states of data,
tweening is necessary. This package provides a range of functions for
creating tweened data that plugs right into functions such as gg_animate()
from the 'gganimate' package. Furthermore it adds a number of vectorized
interpolaters for common R data types such as numeric, date and colour.
Author: Thomas Lin Pedersen [aut, cre]
Maintainer: Thomas Lin Pedersen <thomasp85@gmail.com>
Diff between tweenr versions 0.1.3 dated 2016-03-29 and 0.1.4 dated 2016-08-30
DESCRIPTION | 8 ++++---- MD5 | 6 +++--- R/tween_elements.R | 2 +- README.md | 2 +- 4 files changed, 9 insertions(+), 9 deletions(-)
Title: Natural Ordering
Description: Provides functions related to human natural ordering.
It handles adjacent digits in a character sequence as a number so that
natural sort function arranges a character vector by their numbers, not digit
characters. It is typically seen when operating systems lists file names. For
example, a sequence a-1.png, a-2.png, a-10.png looks naturally ordered because 1
< 2 < 10 and natural sort algorithm arranges so whereas general sort algorithms
arrange it into a-1.png, a-10.png, a-2.png owing to their third and fourth
characters.
Author: Kosei Abe
Maintainer: Kosei Abe <mail@recyclebin.jp>
Diff between naturalsort versions 0.1.2 dated 2014-01-31 and 0.1.3 dated 2016-08-30
naturalsort-0.1.2/naturalsort/R/naturalsort.R |only naturalsort-0.1.3/naturalsort/DESCRIPTION | 25 ++++---- naturalsort-0.1.3/naturalsort/MD5 | 16 +++-- naturalsort-0.1.3/naturalsort/NAMESPACE | 6 +- naturalsort-0.1.3/naturalsort/R/factor.R |only naturalsort-0.1.3/naturalsort/R/naturalsort-package.R |only naturalsort-0.1.3/naturalsort/R/order.R |only naturalsort-0.1.3/naturalsort/R/sort.R |only naturalsort-0.1.3/naturalsort/man/naturalfactor.Rd |only naturalsort-0.1.3/naturalsort/man/naturalsort-package.Rd | 22 ++----- naturalsort-0.1.3/naturalsort/man/naturalsort.Rd | 43 ++++++--------- naturalsort-0.1.3/naturalsort/tests/spec.R | 17 +++++ 12 files changed, 70 insertions(+), 59 deletions(-)
Title: A Very Basic Templating Engine
Description: Replace parameters in strings and/or text files with specified
values.
Author: Bart Smeets
Maintainer: Bart Smeets <bartsmeets86@gmail.com>
Diff between infuser versions 0.2.3 dated 2016-04-06 and 0.2.4 dated 2016-08-30
DESCRIPTION | 11 ++++++----- MD5 | 12 ++++++++---- R/core.R | 3 +++ build |only inst/doc |only tests/testthat/test_core_functionality.R | 4 ++++ vignettes/getting_started.Rmd | 2 +- 7 files changed, 22 insertions(+), 10 deletions(-)
Title: Simulation of Supply Reservoir Systems using Standard Operation
Policy
Description: Reservoir Systems Standard Operation Policy. A system for simulation of supply reservoirs. It proposes functionalities for plotting and evaluation of supply reservoirs systems.
Author: Rezgar Arabzadeh, Parisa Aberi, Kaveh Panaghi, Shahab Araghinejad, Majid Montaseri
Maintainer: Rezgar Arabzadeh <rezgararabzadeh@ut.ac.ir>
Diff between RSSOP versions 1.0 dated 2016-08-29 and 1.1 dated 2016-08-30
DESCRIPTION | 6 +++--- MD5 | 4 ++-- R/createDemandSite.R | 24 ++++++++++++++++-------- 3 files changed, 21 insertions(+), 13 deletions(-)
Title: Reproducible Research Tools
Description: Reproducible research tools automates the creation of an analysis directory structure and work flow. There are R markdown
skeletons which encapsulate typical analytic work flow steps. Functions will create appropriate modules which may
pass data from one step to another.
Author: Brian Fannin [aut, cre]
Maintainer: Brian Fannin <FanninQED@Yahoo.com>
Diff between represtools versions 0.1.1 dated 2016-06-21 and 0.1.2 dated 2016-08-30
DESCRIPTION | 7 ++++--- MD5 | 13 +++++++++---- README.md | 39 ++++++++++++++++++++++++++++++++++++++- build |only inst/doc |only inst/templates/Makefile.win | 4 ++++ inst/templates/rstudio.Rproj |only tests/testthat/testNewAnalysis.R | 15 +++++++++++++++ 8 files changed, 70 insertions(+), 8 deletions(-)
Title: MetaIntegrator- Meta-Analysis of Gene Expression Data
Description: A pipeline for the meta-analysis of gene expression data. We have
assembled several analysis and plot functions to
perform integrated multi-cohort analysis of gene expression data (meta-
analysis). Methodology described in:
<http://biorxiv.org/content/early/2016/08/25/071514>.
Author: Winston A. Haynes, Francesco Vallania, Aurelie Tomczak, Timothy Sweeney,
Erika Bongen, Purvesh Khatri
Maintainer: Winston A. Haynes <hayneswa@stanford.edu>
Diff between MetaIntegrator versions 1.0.0 dated 2016-08-05 and 1.0.1 dated 2016-08-30
DESCRIPTION | 14 +++--- MD5 | 29 +++++++++----- R/ROC_and_search_functions.R | 2 R/checkDataObject_functions.R | 42 ++++++++++++++++++++ R/getGEOData.R | 69 +++++++++++++++++++++++++++------- R/violinPlot.R | 3 + README.md | 18 ++------ build/vignette.rds |binary data/datalist |only data/ens_ensgID_table.rda |only data/ens_entrez_table.rda |only data/tinyMetaObject.RData |binary data/ucsc_genbank_table.rda |only data/ucsc_refseq_table.rda |only inst/CITATION |only inst/doc/MetaIntegrator.html | 14 +++--- inst/unitTests/test_checkDataObject.R |only man/ens_ensgID_table.Rd |only man/ens_entrez_table.Rd |only man/ucsc_genbank_table.Rd |only man/ucsc_refseq_table.Rd |only 21 files changed, 140 insertions(+), 51 deletions(-)
More information about MetaIntegrator at CRAN
Permanent link
Title: Hidden Markov Models
Description: Contains functions for the analysis of Discrete Time Hidden Markov Models, Markov Modulated GLMs and the Markov Modulated Poisson Process. It includes functions for simulation, parameter estimation, and the Viterbi algorithm. See the topic "HiddenMarkov" for an introduction to the package, and "Change Log" for a list of recent changes. The algorithms are based of those of Walter Zucchini.
Author: David Harte
Maintainer: David Harte <d.s.harte@gmail.com>
Diff between HiddenMarkov versions 1.8-4 dated 2015-07-06 and 1.8-7 dated 2016-08-30
DESCRIPTION | 12 ++++++------ MD5 | 10 +++++----- inst/doc/index.html | 5 ----- man/Changes.Rd | 4 ++++ man/HiddenMarkov.Rd | 25 +++++++++++++------------ src/extract.f | 4 ++-- 6 files changed, 30 insertions(+), 30 deletions(-)
Title: Optimal and Fast Univariate k-Means Clustering
Description: A fast dynamic programming algorithm for optimal univariate k-means clustering. The algorithm minimizes the sum of squares of within-cluster distances. As an alternative to heuristic k-means algorithms, this method guarantees optimality and reproducibility. Its advantage in efficiency and accuracy over heuristic k-means clustering is increasingly pronounced as the number of clusters k increases.
Author: Joe Song and Haizhou Wang
Maintainer: Joe Song <joemsong@cs.nmsu.edu>
Diff between Ckmeans.1d.dp versions 3.4.6 dated 2016-06-02 and 3.4.6-1 dated 2016-08-30
DESCRIPTION | 6 ++--- MD5 | 8 +++---- NEWS | 13 +++++++++-- man/Ckmeans.1d.dp-package.Rd | 2 - src/Ckmeans.1d.dp.cpp | 47 ++++++++++++++++++++++++++++++++----------- 5 files changed, 53 insertions(+), 23 deletions(-)