[R] CRAN (and crantastic) updates this week
Crantastic
cranatic at gmail.com
Mon Sep 29 00:40:06 CEST 2014
CRAN (and crantastic) updates this week
New packages
------------
* ADDT (1.0)
Maintainer: Yili Hong
Author(s): Yili Hong, Yimeng Xie, and Caleb King
License: GPL-2
http://crantastic.org/packages/ADDT
Accelerated destructive degradation tests (ADDT) are often used to
collect necessary data for assessing the long-term properties of
polymeric materials. Based on the collected data, a thermal index
(TI) is estimated. The TI can be useful for material rating and
comparison. This package performs the least squares (LS) and maximum
likelihood (ML) procedures for estimating TI for polymeric
materials. The LS approach is a two-step approach that is currently
used in industrial standards, while the ML procedure is widely used
in the statistical literature. The ML approach allows one to do
statistical inference such as quantifying uncertainties in
estimation, hypothesis testing, and predictions. Two publicly
available datasets are provided to allow users to experiment and
practice with the functions.
* ASMap (0.3)
Maintainer: Julian Taylor
Author(s): Julian Taylor <julian.taylor at adelaide.edu.au>, David Butler
<david.butler at daff.qld.gov.au>.
License: GPL (>= 2)
http://crantastic.org/packages/ASMap
Functions for (A)ccurate and (S)peedy linkage map construction,
manipulation and diagnosis of double haploid, backcross and and RIL
R/qtl objects. This includes extremely fast linkage map clustering
and optimal marker ordering using MSTmap (see Wu et al.,2008).
* causaleffect (1.0)
Maintainer: Santtu Tikka
Author(s): Santtu Tikka
License: GPL-2
http://crantastic.org/packages/causaleffect
An implementation of the complete identification algorithm constructed
by Ilya Shpitser and Judea Pearl (2006) for deriving expressions of
joint interventional distributions in causal models, which contain
unobserved variables and induce directed acyclic graphs.
* Compind (1.0)
Maintainer: Francesco Vidoli
Author(s): Francesco Vidoli, Elisa Fusco
License: GPL-3
http://crantastic.org/packages/Compind
Compind package contains several functions to enhance approaches to
the Composite Indicators
(http://stats.oecd.org/glossary/detail.asp?ID=6278},
https://composite-indicators.jrc.ec.europa.eu/) methods, focusing,
in particular, on the normalisation and weighting-aggregation steps.
* crayon (1.0.0)
Maintainer: "Gabor Csardi"
Author(s): "Gabor Csardi" [aut, cre]
License: MIT + file LICENSE
http://crantastic.org/packages/crayon
Crayon adds support for colored terminal output on terminals that
support ANSI color and highlight codes. ANSI color support is
automatically detected. Colors and highlighting can be combined and
nested. New styles can also be created easily. This package was
inspired by the chalk JavaScript project.
* deming (1.0-1)
Maintainer: Terry Therneau
Author(s): Terry Therneau
License: LGPL (>= 2)
http://crantastic.org/packages/deming
Generalized Deming regression, Theil-Sen regression and
Passing-Bablock regression functions.
* documair (0.6-0)
Maintainer: Jean-Baptiste Denis
Author(s): Jean-Baptiste Denis <Jean-Baptiste.Denis at jouy.inra.fr>, Regis Pouillot
<RPouillot at yahoo.fr>, Kien Kieu <Kien.Kieu at jouy.inra.fr>
License: GPL (>= 2.15)
http://crantastic.org/packages/documair
Production of R packages from tagged comments introduced within the
code and a minimum of additional documentation files.
* GenWin (0.1)
Maintainer: Timothy M. Beissinger
Author(s): Timothy M. Beissinger <beissinger at ucdavis.edu>
License: MIT + file LICENSE
http://crantastic.org/packages/GenWin
Defines window or bin boundaries for the analysis of genomic data.
Boundaries are based on the inflection points of a cubic smoothing
spline fitted to the raw data. Along with defining boundaries, a
technique to evaluate results obtained from unequally-sized windows
is provided. Applications are particularly pertinent for, though not
limited to, genome scans for selection based on variability between
populations (e.g. using Wright's fixations index, Fst, which
measures variability in subpopulations relative to the total
population).
* ivprobit (1.0)
Maintainer: Zaghdoudi Taha
Author(s): Zaghdoudi Taha
License: Artistic-2.0
http://crantastic.org/packages/ivprobit
ivprobit fit an Instrumental variables probit model using the
generalized least squares estimator
* kofnGA (1.0)
Maintainer: Mark A. Wolters
Author(s): Mark A. Wolters
License: GPL-2
http://crantastic.org/packages/kofnGA
Function kofnGA uses a genetic algorithm to choose a subset of a
fixed size k from the integers 1:n, such that a user-supplied
objective function is minimized at that subset. The selection step
is done by tournament selection based on ranks, and elitism may be
used to retain a portion of the best solutions from one generation
to the next.
* MetFns (1.0)
Maintainer: Kristina Veljkovic
Author(s): Kristina Veljkovic
License: GPL-2 | GPL-3
http://crantastic.org/packages/MetFns
Functions for selection of visual meteor data, calculations of
Zenithal Hourly Rate (ZHR) and population index, graphics of ZHR and
magnitude distribution
* mpath (0.1-15)
Maintainer: Zhu Wang
Author(s): Zhu Wang, with contributions from Achim Zeileis, Simon Jackman, Brian
Ripley, Trevor Hastie, Rob Tibshirani, Balasubramanian
Narasimhan, Gil Chu and Patrick Breheny
License: GPL-2
http://crantastic.org/packages/mpath
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.
* NHMM (3.3)
Maintainer: Tracy Holsclaw
Author(s): Tracy Holsclaw
License: GPL (>= 3)
http://crantastic.org/packages/NHMM
Bayesian NHMM modeling for multiple time series. The emission
distribution can be mixtures of Gammas, Poissons, Normals and zero
inflation is possible.
* ordinalgmifs (1.0.0)
Maintainer: Kellie J. Archer
Author(s): Kellie J. Archer, Jiayi Hou, Qing Zhou, Kyle Ferber, John G. Layne,
Amanda Gentry
License: GPL (>= 2)
http://crantastic.org/packages/ordinalgmifs
This package provides a function for fitting cumulative link, adjacent
category, forward and backward continuation ratio, and stereotype
ordinal response models when the number of parameters exceeds the
sample size, using the the generalized monotone incremental forward
stagewise method.
* pingr (1.0.0)
Maintainer: "Gabor Csardi"
Author(s): "Gabor Csardi" [aut, cre]
License: MIT + file LICENSE
http://crantastic.org/packages/pingr
Check if a remote computer is up. It can either just call the system
ping command, or check a specified TCP port.
* RJSDMX (1.1)
Maintainer: Attilio Mattiocco
Author(s): Attilio Mattiocco, Diana Nicoletti, Gianpaolo Lopez, Banca d'Italia
License: EUPL
http://crantastic.org/packages/RJSDMX
This package provides functions that can be used to retrieve data
and metadata from SDMX compliant data providers.
* SimplicialCubature (1.0)
Maintainer: John P. Nolan
Author(s): John P. Nolan, with parts based on code by Alan Genz
License: GPL (>= 2)
http://crantastic.org/packages/SimplicialCubature
This package provides methods to integrate functions over
m-dimensional simplices in n-dimensional Euclidean space. There
are exact methods for polynomials and adaptive methods for
integrating an arbitrary function.
* SPREDA (1.0)
Maintainer: Yili Hong
Author(s): Yili Hong, Yimeng Xie, and Zhibing Xu
License: GPL-2
http://crantastic.org/packages/SPREDA
The Statistical Package for REliability Data Analysis (SPREDA)
implements recently-developed statistical methods for the analysis
of reliability data. Modern technological developments, such as
sensors and smart chips, allow us to dynamically track
product/system usage as well as other environmental variables, such
as temperature and humidity. We refer to these variables as dynamic
covariates. The package contains functions for the analysis of
time-to-event data with dynamic covariates and degradation data with
dynamic covariates. The package also contains functions that can be
used for analyzing time-to-event data with right censoring, and with
left truncation and right censoring. Financial support from NSF and
DuPont are acknowledged.
* virtualspecies (1.0)
Maintainer: Boris Leroy
Author(s): Boris Leroy with help from C. N. Meynard, C. Bellard & F. Courchamp
License: GPL (>= 2.0)
http://crantastic.org/packages/virtualspecies
Provides a framework for generating virtual species distributions, a
procedure increasingly used in ecology to improve species
distribution models. This package integrates the existing
methodological approaches with the objective of generating virtual
species distributions with increased ecological realism.
Updated packages
----------------
agrmt (1.35), alr4 (1.0.5), aplpack (1.3.0), BatchExperiments (1.3),
BatchJobs (1.4), BDgraph (2.12), BDgraph (2.11), betareg (3.0-5),
BrailleR (0.11), cape (1.3), copBasic (1.6.0), datacheck (1.0.4), DBI
(0.3.1), Delaporte (2.2-1), devtools (1.6), diseasemapping (1.0.1),
eHOF (1.5), exactci (1.3-0), fAssets (3011.82), flexmix (2.3-12),
flexsurv (0.5), forecast (5.6), GENLIB (1.0.1), GSE (3.1), Guerry
(1.6-1), hglm (2.0-9), hht (2.1.0), HiddenMarkov (1.8-1), IBrokers
(0.9-12), indicspecies (1.7.3), ivivc (0.2.1), lessR (3.1.1),
lmSupport (2.9.1), lsmeans (2.12), maps (2.3-9), MAT (2.0), mmand
(1.1.0), Morpho (2.1), mpath (0.1-15), mrds (2.1.10), oc (0.95),
oro.pet (0.2.3), polysat (1.3-3), proxy (0.4-13), pvsR (0.3),
qdapRegex (0.1.2), RandomFields (3.0.42), Rcmdr (2.1-2), RcppArmadillo
(0.4.450.1.0), readBrukerFlexData (1.8), rentrez (0.3), rentrez
(0.3.1), rpf (0.39), RSurvey (0.8-2), RVAideMemoire (0.9-40), secr
(2.9.0), SemiPar (1.0-4.1), snpEnrichment (1.5-0), testthat (0.9),
TreePar (3.1), trip (1.1-18), trustOptim (0.8.4.1), VennDiagram
(1.6.9), wnominate (0.99)
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