Sun, 21 Jun 2015

Package simplexreg updated to version 1.1 with previous version 1.0 dated 2014-01-31

Title: Regression Analysis of Proportional Data Using Simplex Distribution
Description: Simplex density, distribution, quantile functions as well as random variable generation of the simplex distribution are given. Regression analysis of proportional data using various kinds of simplex models is available. In addition, GEE method can be applied to longitudinal data to model the correlation. Residual analysis is also involved. Some subroutines are written in C with GNU Scientific Library (GSL) so as to facilitate the computation.
Author: Peng Zhang, Zhengguo Qiu and Chengchun Shi
Maintainer: Peng Zhang <pengz@zju.edu.cn>

Diff between simplexreg versions 1.0 dated 2014-01-31 and 1.1 dated 2015-06-21

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New package STMedianPolish with initial version 0.1
Package: STMedianPolish
Type: Package
Title: Spatio-Temporal Median Polish
Version: 0.1
Date: 2015-06-21
Author: William Martinez, Carlos Melo <cmelo@udistrital.edu.co>
Maintainer: William Martinez <willimarti2008@gmail.com>
Depends: R (>= 2.15.0), maptools, reshape2, sp, spacetime, zoo
Description: Analysis by spatio-temporal data using the decomposition in n-dimensional arrays and using median polish technique.
License: GPL (>= 2)
LazyData: true
Encoding: latin1
NeedsCompilation: no
Packaged: 2015-06-21 17:51:19 UTC; willimarti2008
Repository: CRAN
Date/Publication: 2015-06-22 01:52:24

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New package sbmSDP with initial version 0.2
Package: sbmSDP
Type: Package
Title: Semidefinite Programming for Fitting Block Models of Equal Block Sizes
Version: 0.2
Date: 2015-06-18
Author: Arash A. Amini
Maintainer: Arash A. Amini <amini.aa@gmail.com>
Description: An ADMM implementation of SDP-1, a semidefinite programming relaxation of the maximum likelihood estimator for fitting a block model. SDP-1 has a tendency to produce equal-sized blocks and is ideal for producing a form of network histogram approximating a nonparametric graphon model. Alternatively, it can be used for community detection. (This is experimental code, proceed with caution.)
License: GPL-3
Imports: Rcpp (>= 0.11.6)
LinkingTo: Rcpp, RcppArmadillo
NeedsCompilation: yes
Packaged: 2015-06-21 05:51:08 UTC; arash
Repository: CRAN
Date/Publication: 2015-06-22 01:31:11

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Package rAvis updated to version 0.1.4 with previous version 0.1.3 dated 2015-06-18

Title: Interface to the Bird-Watching Dataset Proyecto AVIS
Description: Interface to <http://proyectoavis.com> database. It provides means to download data filtered by species, order, family, and several other criteria. Provides also basic functionality to plot exploratory maps of the datasets.
Author: Javier González Hernández <javigzz@yahoo.es>, Sara Varela <svarela@paleobiogeography.org>
Maintainer: Sara Varela <svarela@paleobiogeography.org>

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New package missDeaths with initial version 1.0
Package: missDeaths
Date: 2015-06-21
Title: 'Correctly Analyse Disease Recurrence with Missing at Risk Information using Population Mortality'
Version: 1.0
Authors@R: c( person("Tomaz","Stupnik",role=c("aut","cre"), email="tomaz.stupnik@guest.arnes.si"), person("Maja","Pohar Perme",role="aut", email="maja.pohar@mf.uni-lj.si"))
Maintainer: Tomaz Stupnik <tomaz.stupnik@guest.arnes.si>
Description: Implements two methods: a nonparametric risk adjustment and a data imputation method that use general population mortality tables to allow a correct analysis of time to disease recurrence.
License: GPL (>= 2)
Imports: Rcpp (>= 0.11.1), mitools
LinkingTo: Rcpp
Depends: survival, rms, relsurv
NeedsCompilation: yes
Packaged: 2015-06-21 18:39:45 UTC; tomaz
Author: Tomaz Stupnik [aut, cre], Maja Pohar Perme [aut]
Repository: CRAN
Date/Publication: 2015-06-22 01:38:07

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Package metaLik updated to version 0.42.0 with previous version 0.41.0 dated 2014-04-09

Title: Likelihood Inference in Meta-Analysis and Meta-Regression Models
Description: First- and higher-order likelihood inference in meta-analysis and meta-regression models.
Author: Annamaria Guolo and Cristiano Varin
Maintainer: Cristiano Varin <sammy@unive.it>

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Package lava updated to version 1.4.1 with previous version 1.4.0 dated 2015-02-17

Title: Latent Variable Models
Description: Estimation and simulation of latent variable models.
Author: Klaus K. Holst
Maintainer: Klaus K. Holst <klaus@holst.it>

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Package import updated to version 1.1.0 with previous version 1.0.2 dated 2015-04-09

Title: An Import Mechanism for R
Description: This is an alternative mechanism for importing objects from packages. The syntax allows for importing multiple objects from a package with a single command in an expressive way. The import package bridges some of the gap between using library (or require) and direct (single-object) imports. Furthermore the imported objects are not placed in the current environment. It is also possible to import objects from stand-alone .R files. For more information, refer to the package vignette.
Author: Stefan Milton Bache
Maintainer: Stefan Milton Bache <stefan@stefanbache.dk>

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Package biplotbootGUI updated to version 1.1 with previous version 1.0 dated 2013-12-31

Title: Bootstrap on Classical Biplots and Clustering Disjoint Biplot
Description: A GUI with which the user can construct and interact with Bootstrap methods on Classical Biplots and with Clustering and/or Disjoint Biplot.
Author: Ana Belen Nieto Librero<ananieto@usal.es>, Purificacion Galindo Villardon<pgalindo@usal.es>
Maintainer: Ana Belen Nieto Librero <ananieto@usal.es>

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New package AssocTests with initial version 0.0-1
Package: AssocTests
Type: Package
Title: Genetic Association Studies
Version: 0.0-1
Date: 2015-06-21
Author: Lin Wang [aut], Wei Zhang [aut], Qizhai Li [aut], Weicheng Zhu [ctb]
Maintainer: Lin Wang <wanglin2009@amss.ac.cn>
Depends: cluster, mvtnorm, combinat, fExtremes, R(>= 2.10.0)
Description: Some procedures including EIGENSTRAT (a procedure for detecting and correcting for population stratification through searching for the eigenvectors in genetic association studies), PCoC (a procedure for correcting for population stratification through calculating the principal coordinates and the clustering of the subjects), Tracy-Wisdom test (a procedure for detecting the significant eigenvalues of a matrix), distance regression (a procedure for detecting the association between a distance matrix and some independent variants of interest), single-marker test (a procedure for identifying the association between the genotype at a biallelic marker and a trait using the Wald test or the Fisher exact test), MAX3 (a procedure for testing for the association between a single nucleotide polymorphism and a binary phenotype using the maximum value of the three test statistics derived for the recessive, additive, and dominant models), nonparametric trend test (a procedure for testing for the association between a genetic variant and a non-normal distributed quantitative trait based on the nonparametric risk), and nonparametric MAX3 (a procedure for testing for the association between a biallelic single nucleotide polymorphism and a quantitative trait using the maximum value of the three nonparametric trend tests derived for the recessive, additive, and dominant models), which are commonly used in genetic association studies.
License: GPL
Collate: 'AssociationTestWithCorrectPS.R' 'CalculateGapK.R' 'CalculateWAll.R' 'CalExpect.R' 'ChangeX.R' 'CorrMatNRTest.R' 'DR_main.R' 'EigenStrat_main.R' 'FindCNumRandom.R' 'MAX3_main.R' 'MAX3Sign.R' 'MDS.R' 'PCoC_main.R' 'ModifyNormalization.R' 'NMAX3_main.R' 'NPT_main.R' 'RhombusFormula.R' 'ScoreTest.R' 'SimilarityMatrix.R' 'SMT_main.R' 'Str2Num.R' 'TrendTest.R' 'TW_main.R' 'UniformSample.R' 'UniformTest.R' 'WaldTest.R'
NeedsCompilation: no
Packaged: 2015-06-21 14:52:12 UTC; Administrator
Repository: CRAN
Date/Publication: 2015-06-22 01:45:34

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Package mkin updated to version 0.9-36 with previous version 0.9-35 dated 2015-05-15

Title: Routines for Fitting Kinetic Models with One or More State Variables to Chemical Degradation Data
Description: Calculation routines based on the FOCUS Kinetics Report (2006). Includes a function for conveniently defining differential equation models, model solution based on eigenvalues if possible or using numerical solvers and a choice of the optimisation methods made available by the 'FME' package. If a C compiler (on windows: 'Rtools') is installed, differential equation models are solved using compiled C functions. Please note that no warranty is implied for correctness of results or fitness for a particular purpose.
Author: Johannes Ranke [aut, cre, cph], Katrin Lindenberger [ctb], René Lehmann [ctb], Eurofins Regulatory AG [cph]
Maintainer: Johannes Ranke <jranke@uni-bremen.de>

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 NAMESPACE                                                                                      |    5 
 NEWS                                                                                           |   22 
 R/IORE.solution.R                                                                              |    4 
 R/endpoints.R                                                                                  |    2 
 R/mkinerrmin.R                                                                                 |    6 
 R/mkinfit.R                                                                                    |  125 ++-
 R/mkinmod.R                                                                                    |   83 ++
 R/mkinpredict.R                                                                                |   62 +
 R/transform_odeparms.R                                                                         |   12 
 README.md                                                                                      |   96 ++
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 inst/doc/FOCUS_Z.Rnw                                                                           |    2 
 inst/doc/FOCUS_Z.pdf                                                                           |binary
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 inst/doc/mkin.pdf                                                                              |binary
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 man/IORE.solution.Rd                                                                           |    4 
 man/mkinfit.Rd                                                                                 |   46 -
 man/mkinmod.Rd                                                                                 |   25 
 man/mkinpredict.Rd                                                                             |   24 
 man/synthetic_data_for_UBA.Rd                                                                  |    2 
 man/transform_odeparms.Rd                                                                      |    8 
 tests/testthat.R                                                                               |    4 
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 tests/testthat/test_FOCUS_chi2_error_level.R                                                   |    2 
 tests/testthat/test_mkinpredict_SFO_SFO.R                                                      |    4 
 tests/testthat/test_schaefer07_complex_case.R                                                  |    2 
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 vignettes/FOCUS_D.Rmd                                                                          |only
 vignettes/FOCUS_Z.Rnw                                                                          |    2 
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 vignettes/mkin_vignettes.css                                                                   |only
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Package htmlwidgets updated to version 0.5 with previous version 0.4 dated 2015-05-18

Title: HTML Widgets for R
Description: A framework for creating HTML widgets that render in various contexts including the R console, 'R Markdown' documents, and 'Shiny' web applications.
Author: Ramnath Vaidyanathan [aut, cph], Yihui Xie [aut], JJ Allaire [aut, cre], Joe Cheng [aut], Kenton Russell [aut, cph], RStudio [cph]
Maintainer: JJ Allaire <jj@rstudio.com>

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Package FAMILY updated to version 0.1.19 with previous version 0.1.18 dated 2014-11-04

Title: A Convex Formulation for Modeling Interactions with Strong Heredity
Description: Fits penalized linear and logistic regression models with pairwise interaction terms.
Author: Asad Haris
Maintainer: Asad Haris <aharis@uw.edu>

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Package cncaGUI updated to version 1.0 with previous version 0.0-2 dated 2012-07-18

Title: Canonical Non-Symmetrical Correspondence Analysis in R
Description: A GUI with which users can construct and interact with Canonical Correspondence Analysis and Canonical Non-Symmetrical Correspondence Analysis and provides inferential results by using Bootstrap Methods.
Author: Ana Belen Nieto Librero <ananieto@usal.es>, Priscila Willems <pwillems@bariloche.inta.gov.ar>, Purificacion Galindo Villardon <pgalindo@usal.es>
Maintainer: Ana Belen Nieto Librero <ananieto@usal.es>

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