CRAN (and crantastic) updates this week New packages ------------
* addreg (1.2) Maintainer: Mark Donoghoe Author(s): Mark Donoghoe <mark.donog...@mq.edu.au> License: GPL (>= 2) http://crantastic.org/packages/addreg Methods for fitting identity-link GLMs and GAMs to discrete data. The package uses EM-type algorithms with more stable convergence properties than standard methods. * CateSelection (1.0) Maintainer: Yi Xu Author(s): Yi Xu and Jixiang Wu License: GPL (>= 2) http://crantastic.org/packages/CateSelection A multi-factor dimensionality reduction based forward selection method for genetic association mapping. * DAMOCLES (1.0) Maintainer: Rampal S. Etienne Author(s): Rampal S. Etienne & Alex L. Pigot License: GPL-2 http://crantastic.org/packages/DAMOCLES Simulates and computes (maximum) likelihood of a dynamical model of community assembly that takes into account the phylogenetic history * exCon (0.1-0) Maintainer: Bryan A. Hanson Author(s): Bryan Hanson [aut, cre], Kristina Mulry [ctb] License: GPL-3 http://crantastic.org/packages/exCon exCon is an interactive tool to explore topographic-like data sets. Such data sets take the form of a matrix in which the rows and columns provide location/frequency information, and the matrix elements contain altitude/response information. Such data is found in cartography, 2D spectroscopy and chemometrics. exCon creates an interactive web page showing the contoured data set along with slices from the original matrix parallel to each dimension. The page is written in d3/javascript. * genpathmox (0.1) Maintainer: "Giuseppe Lamberti" Author(s): "Giuseppe Lamberti" [aut, cre] License: GPL-3 http://crantastic.org/packages/genpathmox genpathmox provides a very interesting solution for handling segmentation variables in complex statistical methodology. It contains en extended version of the PATHMOX algorithm in the context of partial least square path modeling (Sanchez, 2009) including the F-block test (to detect the responsible latent endogenous equations of the difference), the F-coefficient (to detect the path coefficients responsible of the difference) and the invariance test (to realize a comparison between the sub-models' latent variables). Furthermore, the package contains a generalized version of the PATHMOX algorithm to approach different methodologies: linear regression and least absolute regression models. * hermite (1.0) Maintainer: David Moriña Soler Author(s): David Moriña (Centre for Research in Environmental Epidemiology, CREAL), Manuel Higueras (Universitat Autònoma de Barcelona and Public Health England) and Pedro Puig (Universitat Autònoma de Barcelona) License: GPL (>= 2) http://crantastic.org/packages/hermite Probability functions for the generalized Hermite distribution * MfUSampler (0.9) Maintainer: Alireza S. Mahani Author(s): Alireza S. Mahani, Mansour T.A. Sharabiani License: GPL (>= 2) http://crantastic.org/packages/MfUSampler Convenience Functions for Multivariate MCMC Using Univariate Samplers, including Slice Sampler with Stepout and Shrinkage (Neal, 2003), and Adaptive Rejection Sampler (Gilks and Wild, 1992). * myTAI (0.0.1) Maintainer: Hajk-Georg Drost Author(s): Hajk-Georg Drost License: GPL-3 http://crantastic.org/packages/myTAI The present collection of functions can be used to perform phylotranscriptomics analyses to investigate phenomena within the field of Evolutionary Developmental Biology * PrevMap (1.0) Maintainer: Emanuele Giorgi Author(s): Emanuele Giorgi, Peter J. Diggle License: GPL (>= 2) http://crantastic.org/packages/PrevMap The PrevMap package provides functions for both likelihood-based and Bayesian analysis of spatially referenced prevalence data. 'PrevMap' is also an extension of the 'geoR' package which should be installed first together with the 'maxLik', 'raster' and 'pdist' packages. * qdm (0.1-0) Maintainer: Nora Umbach Author(s): Nora Umbach [aut, cre], Florian Wickelmaier [aut] License: GPL (>= 2) http://crantastic.org/packages/qdm This package provides different specifications of a Quadrilateral Dissimilarity Model which can be used to fit same-different judgments in order to get a predicted matrix that satisfies regular minimality [Colonius & Dzhafarov, 2006, Measurement and representations of sensations, Erlbaum]. From such a matrix, Fechnerian distances can be computed. * RealVAMS (0.3-1) Maintainer: Andrew Karl Author(s): Andrew Karl, Jennifer Broatch, and Jennifer Green License: GPL-2 http://crantastic.org/packages/RealVAMS The RealVAMs package fits a multivariate value-added model (VAM) (see Broatch and Lohr 2012) with normally distributed test scores and a binary outcome indicator. This material is based upon work supported by the National Science Foundation under grants DRL-1336027 and DRL-1336265. * rqPen (1.0) Maintainer: Ben Sherwood Author(s): Ben Sherwood License: MIT + file LICENSE http://crantastic.org/packages/rqPen Performs penalized quantile regression for LASSO, SCAD and MCP functions. Provides a function that automatically generates lambdas and evaluates different models with cross validation or BIC, including a large p version of BIC. * safi (1.0) Maintainer: Jana Fruth Author(s): Jana Fruth, Malte Jastrow License: GPL (>= 2) http://crantastic.org/packages/safi Design and sensitivity analysis for computer experiments with scalar-valued output and functional input, e.g. over time or space. The aim is to explore the behavior of the sensitivity over the functional domain. * settings (0.1.1) Maintainer: Mark van der Loo Author(s): Mark van der Loo License: GPL-3 http://crantastic.org/packages/settings Provides option settings management that goes beyond R's default 'options' function. With this package, users can define their own option settings manager holding option names and default values. Settings can then be retrieved, altered and reset to defaults with ease. For R programmers and package developers it offers cloning and merging functionality which allows for conveniently defining global and local options, possibly in a multilevel options hierarchy. See the package vignette for some examples concerning functions, S4 classes, and reference classes. * smac (1.0) Maintainer: Chong Zhang Author(s): Chong Zhang, Guo Xian Yau, Yufeng Liu License: GPL-2 http://crantastic.org/packages/smac This package provides a solution path for L1-penalized angle-based classification. Three loss functions are implemented in smac, including the deviance loss in logistic regression, the exponential loss in boosting, and the proximal support vector machine loss. * smacpod (1.0.0) Maintainer: Joshua French Author(s): Joshua French License: GPL (>= 2) http://crantastic.org/packages/smacpod Various statistical methods for analyzing case-control point data. The methods available closely follow those in chapter 6 of Applied Spatial Statistics for Public Health Data by Waller and Gotway (2004). * webutils (0.2) Maintainer: Jeroen Ooms Author(s): Jeroen Ooms License: MIT + file LICENSE http://crantastic.org/packages/webutils Utility functions for developing web applications. Includes parsers for application/x-www-form-urlencoded as well as multipart/form-data and examples of using the parser with either httpuv or rhttpd. Updated packages ---------------- astsa (1.3), BatchExperiments (1.4), BatchJobs (1.5), BBmisc (1.8), bdscale (1.1), bio3d (2.1-3), CountsEPPM (2.0), DALY (1.4.0), deSolve (1.11), eHOF (1.5.4), energy (1.6.2), FAOSTAT (1.9), fAssets (3011.83), fBasics (3011.87), fPortfolio (3011.81), GLDEX (2.0.0.1), hglm (2.0-11), hht (2.1.1), isdals (2.0-4), kaps (1.0.2), knitcitations (1.0.4), ldr (1.3.3), logconPH (1.3), mapplots (1.5), MortalitySmooth (2.3.3), nullabor (0.3.0), pander (0.5.0), pander (0.5.1), pitchRx (1.6), PopGenReport (2.1), PrivateLR (1.2-21), qtl (1.34-16), qtl (1.34-17), rangeMapper (0.2-8), Rcmdr (2.1-4), RcppArmadillo (0.4.500.0), rex (0.1.2), rgl (0.95.1157), rjags (3-14), RMTstat (0.3), rNOMADS (2.0.4), robustreg (0.1-7), ropensecretsapi (1.0.1), RQDA (0.2-7), seqinr (3.0-9), seqMeta (1.5), sirt (1.0-3), SKAT (1.0), sn (1.1-1), sqldf (0.4-9), statar (0.1.2), surveillance (1.8-1), Taxonstand (1.5), texreg (1.34), timeDate (3011.99), timeSeries (3011.98), TSclust (1.2.2), vcdExtra (0.6-3), vegdata (0.6-7) This email provided as a service for the R community by http://crantastic.org. Like it? Hate it? Please let us know: crana...@gmail.com. ______________________________________________ R-help@r-project.org mailing list https://stat.ethz.ch/mailman/listinfo/r-help PLEASE do read the posting guide http://www.R-project.org/posting-guide.html and provide commented, minimal, self-contained, reproducible code.