[R] CRAN (and crantastic) updates this week

From: Crantastic <cranatic_at_gmail.com>
Date: Sun, 11 Mar 2012 18:40:05 -0400


CRAN (and crantastic) updates this week

New packages


  The package provides functions to visualize regression models with   categorical response. The effects of the covariates are plotted with   star plots in order to allow for an optical impression of the fitted   model.

  This package tests for differences in minor allele frequency between   groups and is based on an extra-binomial variation model for pooled   sequencing data. A set of simulated pooled sequencing data can be   generated using this package.

  This package represents a bare-bones implementation of an interface to   the core Familias functions (www.familias.name), which are   programmed in C++. The package itself functions as a kind of   database, where information about persons, pedigrees, allele systems   and observations for persons are entered stepwise. In the end,   probability calculations are made.

  Functions, methods, and datasets for cancer survival analysis,   including the proportional hazard relative survival model, the join   point relative survival model.

  This package contains basic tools for the purpose of sample size   estimation in studies of interobserver/interrater agreement   (reliability). This package contains sample size estimation   functions for both the power-based and confidence interval-based   methods, with binary or multinomial outcomes and two through six   raters.

  A set of tools to analyze texts. Includes, amongst others, functions   for automatic language detection, hyphenation, several indices of   lexical diversity (e.g., type token ratio, HD-D/vocd-D, MTLD) and   readability (e.g., Flesch, SMOG, LIX, Dale-Chall). Basic import   functions for language corpora are also provided, to enable   frequency analyses (supports Celex and Leipzig Corpora Collection   file formats). #' Note: For full functionality a local installation   of TreeTagger is recommended. Be encouraged to send feedback to the   author(s)!

  Simple interface routines to facilitate the handling of network   objects with complex intertemporal data.

  Functions to implement Q-learning for estimating optimal dynamic   treatment regimes from two stage sequentially randomized trials, and   to perform inference via m-out-of-n bootstrap for parameters   indexing the optimal regime.

  Analysis of line transect surveys. Estimates distance-based   sightability functions and abundances.

  A set of tools to explore the behaviour statistics used for forensic   DNA interpretation when close relatives are involved

  RForcecom provides the connection to Force.com (Salesforce.com) from   R.

  Using any importation code designed for SAS users to read ASCII files   into sas7bdat files, the SAScii package parses through the INPUT   block of a (.sas) syntax file to design the parameters needed for a   read.fwf function call. This allows the user to specify the   location of the ASCII (often a .dat) file and the location of the   .sas syntax file, and then load the data frame directly into R in   just one step.

  This package builds on the save.session function by making installed   packages, options and search paths savable and restorable.

  Analyzes shot group data: Read in data, plot, describe, and compare   shot groups. Perform statistical tests including standard,   nonparametric, and robust methods. Works with files exported by   OnTarget PC and OnTarget TDS.

  This interface was created to develop a standard procedure of temporal   trend analysis in the framework of the OSPAR convention. It is   based on 5 successive steps : chossing and simply manipulate your   database, select the parameters you want to analyse, build your   regulated time series, perform analysis and read the results all in   one easy to use interface. Statistical analysis call other package   function such as Kendall tests (wq package) or cusum function   (Pastec package).

Updated packages


bnlearn (2.9), catspec (0.96), cda (1.1.3), clue (0.3-44), coin (1.0-21), crs (0.15-13), cvTools (0.3.0), Deducer (0.6-2), directlabels (2.4), doRNG (1.2.1), dplR (1.5.3), DSL (0.1-1), eqtl (1.1-7), ergm (3.0-1), ergm.userterms (3.0-1), fda.usc (0.9.6), frailtypack (2.2-22), games (1.0-5), gdsfmt (0.9.6), geosphere (1.2-27), GeoXp (1.5.6), GLDEX (1.0.4.3), gMCP (0.7-8), GSM (1.3), hive (0.1-14), HLMdiag (0.1.5), HumMeth27QCReport (1.2.13), ibr (1.4.1), LaplacesDemon (12.03.05), lattice (0.20-5), lattice (0.20-6), lifecontingencies (0.9.1), lifecontingencies (0.9), lubridate (1.1.0), Mangrove (1.1), matrixStats (0.4.4), maxLik (1.1-2), meboot (1.1-4), MHadaptive (1.1-7), miRtest (1.2), mondate (0.9.9.03), multcomp (1.2-12), multitable (1.3), MVA (1.0-3), networkDynamic (0.2-2), np (0.40-13), npRmpi (0.40-13), openair (0.5-23), OpenCL (0.1-2), pheatmap (0.6.1), pks (0.2-0), planar (1.2), plotGoogleMaps (1.2), PowerTOST (0.9-4), ppstat (0.8), pROC (1.5.1), PTAk (1.2-5), qgraph (1.0.2), qtl (1.23-16), rbamtools (2.0), rconifers (1.0.7), RcppArmadillo (0.2.36), readBrukerFlexData (1.2.5), readBrukerFlexData (1.2.7), readMzXmlData (2.2.1), REGENT (1.0.4), regress (1.3-7), relevent (1.0-2), Renext (2.0-0), rmongodb (1.0.3), rngSetSeed (0.2-3), RODBC (1.3-5), RSEIS (3.0-1), rworldmap (0.1300), sampleSelection (0.7-0), skmeans (0.2-1), Snowball (0.0-8), SNPRelate (0.9.3), soiltexture (1.2.9), soobench (1.0-73), sp (0.9-97), SpatioTemporal (0.9.2), SPOT (1.0.2257), support.CEs (0.2-1), tabuSearch (1.1), tdthap (1.1-3), textir (1.8-2), timsac (1.2.6), tm.plugin.dc (0.2-1), twang (1.2-5), XLConnect (0.1-9)

New reviews


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