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.tay...@adelaide.edu.au>, David Butler <david.but...@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.de...@jouy.inra.fr>, Regis Pouillot <rpouil...@yahoo.fr>, Kien Kieu <kien.k...@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 <beissin...@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) This email provided as a service for the R community by http://crantastic.org. 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