Fri, 04 Sep 2015

New package Combine with initial version 1.0
Package: Combine
Type: Package
Title: Game-Theoretic Probability Combination
Version: 1.0
Date: 2015-08-30
Author: Alaa Ali, Marta Padilla and David R. Bickel
Maintainer: M. Padilla <padilla.mpf@gmail.com>
Description: Suite of R functions for combination of probabilities using a game-theoretic method.
License: GPL-3
Depends: R (>= 2.14.0), methods
URL: http://www.cran.r-project.org, http://www.statomics.com
Packaged: 2015-09-03 19:25:50 UTC; martapadilla
NeedsCompilation: no
Repository: CRAN
Date/Publication: 2015-09-04 21:49:35

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New package bedr with initial version 1.0.0
Package: bedr
Type: Package
Title: Genomic Region Processing using Tools Such as Bedtools, Bedops and Tabix
Version: 1.0.0
Date: 2015-09-03
Author: Daryl Waggott, Syed Haider, Emilie Lalonde, Clement Fung, Paul C. Boutros
Maintainer: Paul Boutros <Paul.Boutros@oicr.on.ca>
Description: Genomic region processing using tools such as bedtools, bedops and tabix.
Depends: R (>= 3.0)
Suggests: knitr (>= 1.4)
VignetteBuilder: knitr
License: GPL-2
Imports: testthat (>= 0.7.1), VennDiagram (>= 1.6.4), data.table (>= 1.8.11), R.utils (>= 2.0.2), yaml (>= 2.1.10), parallel, grid
Packaged: 2015-09-04 12:57:42 UTC; shaider
NeedsCompilation: no
Repository: CRAN
Date/Publication: 2015-09-04 21:49:38

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New package bapred with initial version 0.1
Package: bapred
Type: Package
Title: Batch Effect Removal (in Phenotype Prediction using Gene Data)
Version: 0.1
Date: 2015-09-03
Author: Roman Hornung, David Causeur
Maintainer: Roman Hornung <hornung@ibe.med.uni-muenchen.de>
Depends: R (>= 3.1.0), glmnet, lme4, MASS, sva
Imports: FNN, fuzzyRankTests, mnormt
Description: Various tools dealing with batch effects, in particular enabling the removal of discrepancies between training and test sets in prediction scenarios. The following batch effect removal methods are implemented: FAbatch, ComBat, (f)SVA, mean-centering, standardization, Ratio-A and Ratio-G. For each of these we provide an additional function which enables a posteriori ('addon') batch effect removal in independent batches ('test data'). Here, the (already batch effect adjusted) training data is not altered. For evaluating the success of batch effect adjustment several metrics are provided. Moreover, the package implements a plot for the visualization of batch effects using principal component analysis. The main functions of the package are ba() and baaddon() which enable batch effect removal and addon batch effect removal, respectively, with one of the seven methods mentioned above. Another important function is bametric() which is a wrapper function for all implemented methods for evaluating the success of batch effect removal.
License: GPL-2
Encoding: UTF-8
NeedsCompilation: no
Repository: CRAN
Date/Publication: 2015-09-04 09:25:48

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New package prozor with initial version 0.1
Package: prozor
Type: Package
Title: Minimal Protein Set Explaining Peptide Precursors
Version: 0.1
Date: 2015-08-27
Author: Witold Wolski
Maintainer: Witold Wolski <wewolski@gmail.com>
Description: Determine minimal protein set explaining peptide precursors.
License: GPL-3
LazyData: TRUE
Imports: Matrix, doParallel, foreach, seqinr
URL: https://github.com/wolski/prozor
BugReports: https://github.com/wolski/prozor/issues
Repository: CRAN
NeedsCompilation: no
Packaged: 2015-09-03 15:42:08 UTC; wolski
Date/Publication: 2015-09-04 07:28:02

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New package edesign with initial version 1.0-13
Package: edesign
Title: Maximum Entropy Sampling
Version: 1.0-13
Authors@R: c(person("Claudia", "Gebhardt", role = c("aut", "cre"), email = "claudia.gebhardt@algepop.net"), person("Robert", "Gentleman", role = c("ctb", "cph"), comment = "covers file src/chol1.f and src/ch2inv1.f"), person("Ross", "Ihaka", role = c("ctb", "cph"), comment = "covers file src/chol1.f and src/ch2inv1.f"), person("The University of Tennessee and The University of Tennessee Research Foundation", role = c("ctb", "cph"), comment = "covers file src/dschur.f"), person("The University of California Berkeley", role = c("ctb", "cph"), comment = "covers file src/dschur.f"), person("The University of Colorado Denver", role = c("ctb", "cph"), comment = "covers file src/dschur.f") )
Description: An implementation of maximum entropy sampling for spatial data is provided. An exact branch-and-bound algorithm as well as greedy and dual greedy heuristics are included.
License: GPL (>= 2.0)
NeedsCompilation: yes
Packaged: 2015-09-03 14:31:45 UTC; claudia
Author: Claudia Gebhardt [aut, cre], Robert Gentleman [ctb, cph] (covers file src/chol1.f and src/ch2inv1.f), Ross Ihaka [ctb, cph] (covers file src/chol1.f and src/ch2inv1.f), The University of Tennessee and The University of Tennessee Research Foundation [ctb, cph] (covers file src/dschur.f), The University of California Berkeley [ctb, cph] (covers file src/dschur.f), The University of Colorado Denver [ctb, cph] (covers file src/dschur.f)
Maintainer: Claudia Gebhardt <claudia.gebhardt@algepop.net>
Repository: CRAN
Date/Publication: 2015-09-04 07:38:46

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Thu, 03 Sep 2015

New package backpipe with initial version 0.1.2
Package: backpipe
Type: Package
Title: Backward Pipe Operator
Version: 0.1.2
Date: 2015-09-03
Authors@R: c( person("Christopher", "Brown", role =c("cre","aut"), email = "chris.brown@decisionpatterns.com"), person(family = "Decision Patterns", role = c("cph") ) )
Description: Provides a backward-pipe operator for 'magrittr' (%<%) or 'pipeR' (%<<%) that allows for a performing operations from right-to-left. This is useful in instances where there is right-to-left ordering commonly observed with nested structures such as trees/directories and markup languages such as HTML and XML.
Depends: R (>= 3.1.0)
Suggests: magrittr (>= 1.5), pipeR (>= 0.6.0.6), testthat, shiny, knitr
License: GPL-2
URL: https://github.com/decisionpatterns/backpipe
BugReports: https://github.com/decisionpatterns/backpipe/issues
VignetteBuilder: knitr
NeedsCompilation: no
Packaged: 2015-09-03 16:24:38 UTC; cbrown
Author: Christopher Brown [cre, aut], Decision Patterns [cph]
Maintainer: Christopher Brown <chris.brown@decisionpatterns.com>
Repository: CRAN
Date/Publication: 2015-09-04 01:21:42

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New package varhandle with initial version 1.0.0
Package: varhandle
Version: 1.0.0
Date: 2015-08-14
Title: Functions for Robust Variable Handling
Authors@R: c(person("Mehrad", "Mahmoudian", role = c("aut", "cre"), email = "m.mahmoudian@gmail.com"))
Author: Mehrad Mahmoudian [aut, cre]
Maintainer: Mehrad Mahmoudian <m.mahmoudian@gmail.com>
Depends: R (>= 3.0.1),
Suggests:
Description: Variables are the fundamental parts of each programming language but handling them might be frustrating for programmers from time to time. This package contains some functions to help user (especially data explorers) to make more sense of their variables and take the most out of variables as well as their hardware. These functions are written, collected and crafted over some years of experience in statistical data analysis and for each of them there was a need. Functions in this package are suppose to be efficient and easy to use, hence they will be frequently updated to make them more convenient.
License: GPL (>= 2)
URL: https://bitbucket.org/mehrad_mahmoudian/varhandle
BugReports: https://bitbucket.org/mehrad_mahmoudian/varhandle/issues
NeedsCompilation: no
Packaged: 2015-09-03 14:10:29 UTC; mehrad
Repository: CRAN
Date/Publication: 2015-09-04 01:10:08

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New package ICC.Sample.Size with initial version 1.0
Package: ICC.Sample.Size
Type: Package
Version: 1.0
Date: 2015-08-01
Title: Calculation of Sample Size and Power for ICC
Author: Alasdair Rathbone [aut,cre], Saurabh Shaw [aut], Dinesh Kumbhare [aut]
Maintainer: Alasdair Rathbone <alasdair.rathbone@gmail.com>
Imports: stats
Description: Provides functions to calculate the requisite sample size for studies where ICC is the primary outcome. Can also be used for calculation of power. In both cases it allows the user to test the impact of changing input variables by calculating the outcome for several different values of input variables. Based off the work of Zou. Zou, G. Y. (2012). Sample size formulas for estimating intraclass correlation coefficients with precision and assurance. Statistics in medicine, 31(29), 3972-3981.
License: GPL-3
Packaged: 2015-09-02 12:48:14 UTC; alasdairrathbone
NeedsCompilation: no
Repository: CRAN
Date/Publication: 2015-09-04 01:03:54

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New package invLT with initial version 0.2.1
Package: invLT
Type: Package
Title: Inversion of Laplace-Transformed Functions
Version: 0.2.1
Date: 2015-08-25
Author: Christopher Barry
Maintainer: Christopher Barry <cjb309@bham.ac.uk>
Description: Provides two functions for the numerical inversion of Laplace-Transformed functions, returning the value of the standard (time) domain function at a specified value. The first algorithm is the first optimum contour algorithm described by Evans and Chung (2000)[1]. The second algorithm uses the Bromwich contour as per the definition of the inverse Laplace Transform. The latter is unstable for numerical inversion and mainly included for comparison or interest. There are also some additional functions provided for utility, including plotting and some simple Laplace Transform examples, for which there are known analytical solutions. Polar-cartesian conversion functions are included in this package and are used by the inversion functions. [1] Evans & Chung, 2000: Laplace transform inversions using optimal contours in the complex plane; International Journal of Computer Mathematics v73 pp531-543.
License: MIT + file LICENSE
LazyData: TRUE
NeedsCompilation: no
Packaged: 2015-09-01 13:18:33 UTC; cjb309
Repository: CRAN
Date/Publication: 2015-09-03 13:26:48

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New package mgm with initial version 1.1-2
Package: mgm
Type: Package
Title: Estimating Mixed Graphical Models
Version: 1.1-2
Date: 2015-09-02
Author: Jonas Haslbeck
Maintainer: Jonas Haslbeck <jonashaslbeck@gmail.com>
Description: Functions to estimate and sample from a mixed Graphical model.
License: GPL (>= 2)
Imports: Rcpp (>= 0.11.4), matrixcalc, glmnet
LinkingTo: Rcpp
LazyData: true
Packaged: 2015-09-02 22:33:24 UTC; jo
NeedsCompilation: yes
Repository: CRAN
Date/Publication: 2015-09-03 12:20:18

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New package LifeHist with initial version 1.0-1
Package: LifeHist
Type: Package
Title: Life History Models of Individuals
LazyLoad: yes
LazyData: yes
Version: 1.0-1
Date: 2015-08-31
Author: Ruben H. Roa-Ureta
Maintainer: Ruben H. Roa-Ureta <ruben.roa.ureta@mail.com>
Depends: R (>= 3.0.0), Hmisc
Imports: optimx (>= 2013.8.6), BB
Description: Likelihood-based estimation of individual growth and sexual maturity models for organisms, usually fish and invertebrates. It includes methods for data organization, plotting standard exploratory and analytical plots, predictions.
License: GPL (>= 2)
NeedsCompilation: no
Packaged: 2015-09-03 07:27:28 UTC; Rubin
Repository: CRAN
Date/Publication: 2015-09-03 12:20:03

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New package influenceR with initial version 0.1.0
Package: influenceR
Title: Software Tools to Quantify Structural Importance of Nodes in a Network
Version: 0.1.0
Authors@R: c( person("Jacobs", "Simon", email = "sdjacobs@uchicago.edu", role = "aut"), person("Khanna", "Aditya", email = "khanna7@uchicago.edu", role = c("aut", "cre")), person("Madduri", "Kamesh", email = "madduri@cse.psu.edu", role = "ctb"), person("Bader", "David", email = "bader@cc.gatech.edu", role = "ctb"))
Description: Provides functionality to compute various node centrality measures on networks. Included are functions to compute betweenness centrality (by utilizing Madduri and Bader's SNAP library), implementations of Burt's constraint and effective network size (ENS) metrics, Borgatti's algorithm to identify key players, and Valente's bridging metric. On Unix systems, the betweenness, Key Players, and bridging implementations are parallelized with OpenMP, which may run faster on systems which have OpenMP configured.
Depends: R (>= 3.2.0)
License: GPL-2
LazyData: true
Imports: igraph (>= 1.0.1), Matrix (>= 1.1-4), methods, utils
NeedsCompilation: yes
Suggests: testthat
URL: https://github.com/rcc-uchicago/influenceR
Packaged: 2015-09-02 16:20:53 UTC; sdjacobs
Author: Jacobs Simon [aut], Khanna Aditya [aut, cre], Madduri Kamesh [ctb], Bader David [ctb]
Maintainer: Khanna Aditya <khanna7@uchicago.edu>
Repository: CRAN
Date/Publication: 2015-09-03 12:20:15

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New package glamlasso with initial version 1.0
Package: glamlasso
Type: Package
Title: Lasso Penalization in Large Scale Generalized Linear Array Models
Version: 1.0
Date: 2015-09-02
Author: Adam Lund
Maintainer: Adam Lund <adam.lund@math.ku.dk>
Description: Efficient design matrix free procedure for Lasso regularized estimation in large scale 3-dimensional generalized linear array models. The Gaussian model with identity link, the Binomial model with logit link, the Poisson model with log link and the Gamma model with log link is currently implemented.
License: GPL-3
Imports: Rcpp (>= 0.11.2)
LinkingTo: Rcpp, RcppArmadillo
NeedsCompilation: yes
Packaged: 2015-09-02 13:03:27 UTC; adamlund
Repository: CRAN
Date/Publication: 2015-09-03 12:20:13

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New package describer with initial version 0.1.0
Package: describer
Title: Describe Data in R Using Common Descriptive Statistics
Version: 0.1.0
Description: Allows users to quickly and easily describe data using common descriptive statistics.
Authors@R: person("Paul", "Hendricks", , "paul.hendricks.2013@owu.edu", c("aut", "cre"))
URL: https://github.com/paulhendricks/describer
BugReports: https://github.com/paulhendricks/describer/issues
Depends: R (>= 3.1.2)
License: MIT + file LICENSE
LazyData: true
Suggests: dplyr, testthat
NeedsCompilation: no
Packaged: 2015-09-02 14:53:11 UTC; phendricks
Author: Paul Hendricks [aut, cre]
Maintainer: Paul Hendricks <paul.hendricks.2013@owu.edu>
Repository: CRAN
Date/Publication: 2015-09-03 12:20:05

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New package BTLLasso with initial version 0.1
Package: BTLLasso
Type: Package
Title: Modelling Heterogeneity in Paired Comparison Data
Version: 0.1
Date: 2015-09-02
Author: Gunther Schauberger
Maintainer: Gunther Schauberger <gunther@stat.uni-muenchen.de>
Description: Performs 'BTLLasso', a method to model heterogeneity in paired comparison data. Subject-specific covariates are allowed to have an influence on the attractivity/strength of the objects. An L1 penalty on the pairwise differences between the object-specific parameters allows for both clustering of objects with regard to covariates and elimination of irrelevant covariates.
License: GPL (>= 2)
Imports: Rcpp (>= 0.11.3), stringr
Depends: Matrix, parallel
LinkingTo: Rcpp, RcppArmadillo
SystemRequirements: C++11
Packaged: 2015-09-02 14:45:31 UTC; schaubergerg
NeedsCompilation: yes
Repository: CRAN
Date/Publication: 2015-09-03 12:19:54

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Wed, 02 Sep 2015

New package valottery with initial version 0.0.1
Package: valottery
Type: Package
Title: Results from the Virginia Lottery Draw Games
Version: 0.0.1
Date: 2015-08-31
Authors@R: person("Clay", "Ford", , "joe.clayton.ford@gmail.com", role = c("cre", "aut"))
Description: Historical results for the state of Virginia lottery draw games. Data were downloaded from https://www.valottery.com/.
License: CC0
LazyData: TRUE
Author: Clay Ford [cre, aut]
Maintainer: Clay Ford <joe.clayton.ford@gmail.com>
NeedsCompilation: no
Packaged: 2015-09-02 02:36:42 UTC; clayford
Repository: CRAN
Date/Publication: 2015-09-02 15:52:25

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New package purge with initial version 0.1.0
Package: purge
Type: Package
Title: Purge Training Data from Models
Version: 0.1.0
Date: 2015-09-01
Authors@R: c( person("Marc", "Maier", email="mmaier@massmutual.com", role="cre"), person("Chaoqun", "Jia", email="cjia@massmutual.com", role="ctb"), person("MassMutual Advanced Analytics", comment="http://datascience.massmutual.com", role="aut"))
Maintainer: Marc Maier <mmaier@massmutual.com>
Description: Enables the removal of training data from fitted R models while retaining predict functionality. The purged models are more portable as their memory footprints do not scale with the training sample size.
License: MIT + file LICENSE
LazyData: TRUE
Imports: lme4 (>= 1.1-8), rpart, randomForest, methods
Suggests: testthat
NeedsCompilation: no
Packaged: 2015-09-02 00:32:25 UTC; mm90357
Author: Marc Maier [cre], Chaoqun Jia [ctb], MassMutual Advanced Analytics [aut] (http://datascience.massmutual.com)
Repository: CRAN
Date/Publication: 2015-09-02 15:52:22

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New package IalsaSynthesis with initial version 0.1.6
Package: IalsaSynthesis
Title: Synthesizing Information Across Collaborating Research
Description: Synthesizes information across collaborating research. Created specifically for Integrative Analysis of Longitudinal Studies of Aging (IALSA).
Version: 0.1.6
Date: 2015-09-02
Authors@R: c(person("Will", "Beasley", email="wibeasley@hotmail.com", role=c("aut", "cre")), person("Andrey", "Koval", email="andkov@uvic.ca", role = c("aut")), person(given="Integrative Analysis of Longitudinal Studies of Aging (IALSA)", role = c("cph")))
Author: Will Beasley [aut, cre], Andrey Koval [aut], Integrative Analysis of Longitudinal Studies of Aging (IALSA) [cph]
Maintainer: Will Beasley <wibeasley@hotmail.com>
URL: https://github.com/IALSA/IalsaSynthesis, http://www.ialsa.org/
BugReports: https://github.com/IALSA/IalsaSynthesis/issues
Depends: R(>= 3.0.0), stats
Imports: testit
Suggests: devtools, knitr, readr, testthat (>= 0.9)
License: GPL-2
LazyData: TRUE
NeedsCompilation: no
Packaged: 2015-09-02 14:08:22 UTC; Will
Repository: CRAN
Date/Publication: 2015-09-02 16:34:33

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New package corregp with initial version 0.1.2
Package: corregp
Title: Functions and Methods for Correspondence Regression
Version: 0.1.2
Authors@R: person("Koen", "Plevoets", email="koen.plevoets@ugent.be", role=c("aut", "cre"))
Description: A collection of tools for correspondence regression, i.e. the correspondence analysis of the crosstabulation of a categorical variable Y in function of another one X, where X can in turn be made up of the combination of various categorical variables. Consequently, correspondence regression can be used to analyze the effects for a polytomous or multinomial outcome variable.
Depends: R (>= 3.1.0), graphics, rgl, stats
Imports: ellipse, gplots
Suggests: datasets, grDevices, MASS, polytomous
License: GPL-3
LazyData: true
Date: 2015-09-02
Packaged: 2015-09-02 07:42:47 UTC; kplevoet
Author: Koen Plevoets [aut, cre]
Maintainer: Koen Plevoets <koen.plevoets@ugent.be>
NeedsCompilation: no
Repository: CRAN
Date/Publication: 2015-09-02 15:52:10

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New package clipr with initial version 0.1.0
Package: clipr
Type: Package
Title: Read and Write from the System Clipboard
Version: 0.1.0
Date: 2015-08-27
Authors@R: c( person("Matthew", "Lincoln", email = "matthew.d.lincoln@gmail.com", role = c("aut", "cre")), person("Louis", "Maddox", role = "ctb"))
Description: Simple utility functions to read from and write to the system clipboards of Windows, OS X, and Linux.
Imports: utils
License: GPL-3
LazyData: TRUE
URL: https://github.com/mdlincoln/clipr
BugReports: https://github.com/mdlincoln/clipr/issues
NeedsCompilation: no
Packaged: 2015-09-02 02:36:43 UTC; admin
Author: Matthew Lincoln [aut, cre], Louis Maddox [ctb]
Maintainer: Matthew Lincoln <matthew.d.lincoln@gmail.com>
Repository: CRAN
Date/Publication: 2015-09-02 15:55:12

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New package MixedPoisson with initial version 1.0
Package: MixedPoisson
Type: Package
Title: Mixed Poisson Models
Version: 1.0
Date: 2015-08-29
Author: Alicja Wolny-Dominiak and Michal Trzesiok
Maintainer: Alicja Wolny-Dominiak <alicja.wolny-dominiak@ue.katowice.pl>
Depends: gaussquad, MASS
Description: The estimation of the parameters in Mixed Poisson models.
License: GPL-2
NeedsCompilation: no
Packaged: 2015-08-29 13:25:29 UTC; Micha<c5><82>
Repository: CRAN
Date/Publication: 2015-09-02 09:49:03

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Tue, 01 Sep 2015

New package validate with initial version 0.1.2
Package: validate
Maintainer: Mark van der Loo <mark.vanderloo@gmail.com>
License: GPL-3
Title: Data Validation Infrastructure
LazyData: no
Type: Package
LazyLoad: yes
Authors@R: c(person("Mark", "van der Loo",role=c("cre","aut"),email="mark.vanderloo@gmail.com") , person("Edwin", "de Jonge", role="aut") , person("Paul","Hsieh",role="ctb"))
Description: Declare data validation rules and data quality indicators; confront data with them and analyze or visualize the results. The package supports rules that are per-field, in-record, cross-record or cross-dataset. Rules can be automatically analyzed for rule type and connectivity.
Version: 0.1.2
Depends: R (>= 3.0.0)
URL: https://github.com/data-cleaning/validate
BugReports: https://github.com/data-cleaning/validate/issues
Date: 2015-08-28
Imports: methods, graphics, settings, yaml
Suggests: testthat, knitr
VignetteBuilder: knitr
Collate: 'sugar.R' 'rule.R' 'validate_pkg.R' 'parse.R' 'expressionset.R' 'validator.R' 'indicator.R' 'confrontation.R' 'barplot.R' 'compare.R' 'factory.R' 'functions.R' 'retailers.R' 'utils.R' 'yaml.R'
NeedsCompilation: yes
Packaged: 2015-09-01 14:15:55 UTC; mark
Author: Mark van der Loo [cre, aut], Edwin de Jonge [aut], Paul Hsieh [ctb]
Repository: CRAN
Date/Publication: 2015-09-01 18:15:12

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New package prepdat with initial version 1.0.2
Package: prepdat
Title: Preparing Experimental Data for Statistical Analysis
Version: 1.0.2
Authors@R: c( person("Ayala S.", "Allon", email = "ayalaallon@gmail.com", role = c("aut", "cre")), person("Roy", "Luria", role = "aut"), person("Jim", "Grange", role = "ctb"), person("Nachshon", "Meiran", role = "ctb"))
Description: Prepares data collected in an experimental design for statistical analysis (e.g., analysis of variance ;ANOVA) by taking the individual data files and preparing one table that contains several possibilities for dependent variables. Most suitable when measuring reaction-times and/or accuracy, or any other variable in an interval or ratio scale. Functions included: file_merge(), read_data() and prep(). The file_merge() function vertically merges individual data files (in a long format) in which each line is a single trial within the experiment to one single dataset. The read_data() function reads a file in a txt or csv format that contains a single dataset in a long format table and creates a data frame from it. The prep() function aggregates the single dataset according to any combination of between and within grouping variables (i.e., between-subjects and within-subjects independent variables, respectively), and returns a data frame with a number of dependent measures for further analysis for each experimental cell according to the combination of provided grouping variables. Dependent measures for each experimental cell include among others means before and after rejecting all values according to a flexible standard deviation criterion/s, number of rejected values according to the flexible standard deviation criterion/s, proportions of rejected values according to the flexible standard deviation criterion/s, number of values before rejection, means after rejecting values according to procedures described in Van Selst & Jolicoeur (1994) (suitable when measuring reaction-times), standard deviations, medians, means according to any percentile (e.g., 0.05, 0.25, 0.75, 0.95) and harmonic means. The data frame prep() returns can also be exported as a txt file to be used for statistical analysis in other statistical programs.
Depends: R (>= 3.0.3)
License: GPL-3
LazyData: true
URL: http://github.com/ayalaallon/prepdat
BugReports: http://github.com/ayalaallon/prepdat/issues
Imports: dplyr (>= 0.4.2), reshape2 (>= 1.4.1), psych(>= 1.5.4)
Suggests: knitr, testthat
NeedsCompilation: no
Packaged: 2015-09-01 08:51:16 UTC; user
Author: Ayala S. Allon [aut, cre], Roy Luria [aut], Jim Grange [ctb], Nachshon Meiran [ctb]
Maintainer: Ayala S. Allon <ayalaallon@gmail.com>
Repository: CRAN
Date/Publication: 2015-09-01 17:33:09

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New package interactionTest with initial version 1.0
Package: interactionTest
Type: Package
Title: Calculates Critical Test Statistics to Control False Discovery and Familywise Error Rates in Marginal Effects Plots
Version: 1.0
Date: 2015-08-30
Author: Justin Esarey and Jane Lawrence Sumner
Maintainer: Jane Lawrence Sumner <jane.lawrence@emory.edu>
Description: Implements the procedures suggested in Esarey and Sumner (2015) for controlling the false discovery rate or familywise error rate when constructing marginal effects plots for models with interaction terms.
Depends: stats, R (>= 3.2.1)
License: GPL
LazyData: true
NeedsCompilation: no
Packaged: 2015-09-01 13:00:24 UTC; Jane
Repository: CRAN
Date/Publication: 2015-09-01 18:15:07

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New package Dowd with initial version 0.1
Package: Dowd
Type: Package
Title: Functions Ported from 'MMR2' Toolbox Offered in Kevin Dowd's Book Measuring Market Risk
Version: 0.1
Date: 2015-08-20
Author: Dinesh Acharya <dines.acharya@gmail.com>
Maintainer: Dinesh Acharya <dines.acharya@gmail.com>
Description: Kevin Dowd's book Measuring Market Risk is a widely read book in the area of risk measurement by students and practitioners alike. As he claims, 'MATLAB' indeed might have been the most suitable language when he originally wrote the functions, but, with growing popularity of R it is not entirely valid. As Dowd's code was not intended to be error free and were mainly for reference, some functions in this package have inherited those errors. An attempt will be made in future releases to identify and correct them. Dowd's original code can be downloaded from www.kevindowd.org/measuring-market-risk/. It should be noted that Dowd offers both 'MMR2' and 'MMR1' toolboxes. Only 'MMR2' was ported to R. 'MMR2' is more recent version of 'MMR1' toolbox and they both have mostly similar function. The toolbox mainly contains different parametric and non parametric methods for measurement of market risk as well as backtesting risk measurement methods.
Depends: R (>= 3.0.0), bootstrap, MASS, forecast
Suggests: PerformanceAnalytics, testthat
License: GPL
NeedsCompilation: no
Packaged: 2015-08-31 21:33:33 UTC; denis
Repository: CRAN
Date/Publication: 2015-09-01 17:41:37

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Mon, 31 Aug 2015

New package titanic with initial version 0.1.0
Package: titanic
Title: Titanic Passenger Survival Data Set
Version: 0.1.0
Authors@R: person("Paul", "Hendricks", , "paul.hendricks.2013@owu.edu", c("aut", "cre"))
Description: This data set provides information on the fate of passengers on the fatal maiden voyage of the ocean liner "Titanic", summarized according to economic status (class), sex, age and survival. Whereas the base R Titanic data found by calling data("Titanic") is an array resulting from cross-tabulating 2201 observations, these data sets are the individual non-aggregated observations and formatted in a machine learning context with a training sample, a testing sample, and two additional data sets that can be used for deeper machine learning analysis. These data sets are also the data sets downloaded from the Kaggle competition and thus lowers the barrier to entry for users new to R or machine learing.
URL: https://github.com/paulhendricks/titanic
BugReports: https://github.com/paulhendricks/titanic/issues
Depends: R (>= 3.1.2)
License: CC0
LazyData: true
Suggests: dplyr
NeedsCompilation: no
Packaged: 2015-08-31 18:54:02 UTC; phendricks
Author: Paul Hendricks [aut, cre]
Maintainer: Paul Hendricks <paul.hendricks.2013@owu.edu>
Repository: CRAN
Date/Publication: 2015-08-31 23:27:56

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New package MIXFIM with initial version 1.0
Package: MIXFIM
Type: Package
Title: Evaluation of the FIM in NLMEMs using MCMC
Version: 1.0
Date: 2015-08-17
Author: Marie-Karelle Riviere-Jourdan and France Mentre <france.mentre@inserm.fr>
Maintainer: Marie-Karelle Riviere-Jourdan <eldamjh@gmail.com>
Copyright: All files are copyright Institut National de la Sante Et de la Recherche Medicale.
Description: Evaluation and optimization of the Fisher Information Matrix in NonLinear Mixed Effect Models using Markov Chains Monte Carlo for continuous and discrete data.
License: GPL-3
Depends: R (>= 3.0.2), rstan (>= 2.7.0-1), mvtnorm (>= 1.0-2), ggplot2 (>= 1.0.1)
LinkingTo:
Packaged: 2015-08-31 18:49:21 UTC; Marie-Karelle
NeedsCompilation: no
Repository: CRAN
Date/Publication: 2015-08-31 23:58:27

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New package PanelCount with initial version 1.0.1
Package: PanelCount
Type: Package
Title: Random Effects and Sample Selection Models for Panel Counting Data
Version: 1.0.1
Date: 2015-08-30
Author: Jing Peng
Maintainer: Jing Peng <pengjing@live.com>
Description: A High Performance Package Implementing Random Effects and Sample Selection Models for Panel Counting Data.
License: GPL (>= 3)
LazyData: TRUE
Depends: R (>= 3.0.0)
Imports: Rcpp, statmod, stats, utils
LinkingTo: Rcpp, RcppArmadillo
NeedsCompilation: yes
Packaged: 2015-08-30 19:01:28 UTC; Peng
Repository: CRAN
Date/Publication: 2015-08-31 14:48:46

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New package abodOutlier with initial version 0.1
Package: abodOutlier
Title: Angle-Based Outlier Detection
Version: 0.1
Author: Jose Jimenez <jose@jimenezluna.com>
Maintainer: Jose Jimenez <jose@jimenezluna.com>
Description: Performs angle-based outlier detection on a given dataframe. Three methods are available, a full but slow implementation using all the data that has cubic complexity, a fully randomized one which is way more efficient and another using k-nearest neighbours. These algorithms are specially well suited for high dimensional data outlier detection.
Depends: cluster, R (>= 3.1.2)
License: MIT + file LICENSE
LazyData: true
Encoding: UTF-8
NeedsCompilation: no
Packaged: 2015-08-30 21:39:13 UTC; hawk31
Repository: CRAN
Date/Publication: 2015-08-31 14:31:42

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Sun, 30 Aug 2015

New package humaniformat with initial version 0.5.0
Package: humaniformat
Title: A Parser for Human Names
Version: 0.5.0
Author: Oliver Keyes
Maintainer: Oliver Keyes <ironholds@gmail.com>
Description: Human names are complicated and nonstandard things. Humaniformat, which is based on Anthony Ettinger's 'humanparser' project (https://github.com/chovy/humanparser) provides functions for parsing human names, making a best-guess attempt to distinguish sub-components such as prefixes, suffixes, middle names and salutations.
License: MIT + file LICENSE
LazyData: true
URL: https://github.com/ironholds/humaniformat/
BugReports: https://github.com/ironholds/humaniformat/issues
Suggests: testthat, knitr
LinkingTo: Rcpp
Imports: Rcpp, methods
VignetteBuilder: knitr
NeedsCompilation: yes
Packaged: 2015-08-30 13:58:09 UTC; ironholds
Repository: CRAN
Date/Publication: 2015-08-30 16:15:58

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Sat, 29 Aug 2015

New package xseq with initial version 0.2.0
Package: xseq
Title: Assessing Functional Impact on Gene Expression of Mutations in Cancer
Version: 0.2.0
Date: 2015-08-25
Author: Jiarui Ding, Sohrab Shah
Maintainer: Jiarui Ding <jiaruid@cs.ubc.ca>
Depends: R (>= 3.1.0)
Imports: e1071 (>= 1.6-4), gptk (>= 1.08), impute (>= 1.42.0), preprocessCore (>= 1.30.0), RColorBrewer (>= 1.1-2), sfsmisc (>= 1.0-27)
Suggests: knitr
Description: A hierarchical Bayesian approach to assess functional impact of mutations on gene expression in cancer. Given a patient-gene matrix encoding the presence/absence of a mutation, a patient-gene expression matrix encoding continuous value expression data, and a graph structure encoding whether two genes are known to be functionally related, xseq outputs: a) the probability that a recurrently mutated gene g influences gene expression across the population of patients; and b) the probability that an individual mutation in gene g in an individual patient m influences expression within that patient.
License: GPL (>= 2)
LazyLoad: ture
Packaged: 2015-08-29 19:53:11 UTC; jding
VignetteBuilder: knitr
LazyData: TRUE
NeedsCompilation: yes
Repository: CRAN
Date/Publication: 2015-08-29 23:04:29

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New package docxtractr with initial version 0.1.0.9000
Package: docxtractr
Title: Extract Data Tables from Microsoft Word Documents
Version: 0.1.0.9000
Authors@R: c(person("Bob", "Rudis", email = "bob@rudis.net", role = c("aut", "cre")))
Maintainer: Bob Rudis <bob@rudis.net>
Description: Microsoft Word docx files provide an XML structure that is fairly straightforward to navigate, especially when it applies to Word tables. The docxtractr package provides tools to determine table count/structure and extract/clean tables from Microsoft Word docx documents.
Depends: R (>= 3.0.0)
License: MIT + file LICENSE
LazyData: true
Suggests: testthat
Imports: tools, xml2, dplyr, utils
NeedsCompilation: no
Packaged: 2015-08-28 23:08:34 UTC; bob
Author: Bob Rudis [aut, cre]
Repository: CRAN
Date/Publication: 2015-08-29 13:15:01

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New package dml with initial version 1.1.0
Package: dml
Version: 1.1.0
Date: 2015-08-26
Title: Distance Metric Learning in R
Description: The state-of-the-art algorithms for distance metric learning, including global and local methods such as Relevant Component Analysis, Discriminative Component Analysis, Local Fisher Discriminant Analysis, etc. These distance metric learning methods are widely applied in feature extraction, dimensionality reduction, clustering, classification, information retrieval, and computer vision problems.
Depends: MASS
Imports: lfda
Suggests: testthat
Author: Yuan Tang <terrytangyuan@gmail.com>, Gao Tao <joegaotao@gmail.com>, Xiao Nan <road2stat@gmail.com>
Maintainer: Yuan Tang <terrytangyuan@gmail.com>
License: MIT + file LICENSE
URL: https://github.com/terrytangyuan/dml
BugReports: https://github.com/terrytangyuan/dml/issues
NeedsCompilation: no
Packaged: 2015-08-28 15:32:47 UTC; Yuan
Repository: CRAN
Date/Publication: 2015-08-29 13:14:59

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New package rwunderground with initial version 0.1.0
Package: rwunderground
Type: Package
Title: R Interface to Weather Underground API
Version: 0.1.0
Date: 2015-08-24
Author: Alex Shum <alex@ALShum.com>
Maintainer: Alex Shum <alex@ALShum.com>
Description: Tools for getting historical weather information and forecasts from wunderground.com. Historical weather and forecast data includes, but is not limited to, temperature, humidity, windchill, wind speed, dew point, heat index. Additionally, the weather underground weather API also includes information on sunrise/sunset, tidal conditions, satellite/webcam imagery, weather alerts, hurricane alerts and historical record high/low temperatures.
URL: https://github.com/ALShum/rwunderground, http://www.wunderground.com/weather/api
BugReports: https://github.com/alshum/rwunderground/issues
License: GPL (>= 2)
Imports: httr, dplyr, countrycode
LazyData: TRUE
NeedsCompilation: no
Packaged: 2015-08-28 17:00:55 UTC; MKULTRA
Repository: CRAN
Date/Publication: 2015-08-29 09:40:05

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New package pnea with initial version 1.0.1
Package: pnea
Type: Package
Title: Parametric Network Enrichment Analysis
Version: 1.0.1
Date: 2015-08-28
Depends: R (>= 3.2.0)
Author: Mirko Signorelli
Maintainer: Mirko Signorelli <m.signorelli@rug.nl>
Description: Collection of functions for Parametric Network Enrichment Analysis.
Suggests: igraph
License: GPL-3
NeedsCompilation: no
Packaged: 2015-08-28 15:04:40 UTC; Mirko
Repository: CRAN
Date/Publication: 2015-08-29 09:45:48

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Fri, 28 Aug 2015

New package wec with initial version 0.1
Package: wec
Type: Package
Title: Weighted Effect Coding
Version: 0.1
Date: 2015-09-05
Author: Rense Nieuwenhuis, Manfred te Grotenhuis, Ben Pelzer, Alexanter Schmidt, Ruben Konig, Rob Eisinga
Maintainer: Rense Nieuwenhuis <rense.nieuwenhuis@sofi.su.se>
Description: Provides functions to create factor variables with contrasts based on weighted effect coding. In weighted effect coding the estimates from a first order regression model show the deviations per group from the sample mean. This is especially useful when a researcher has no directional hypotheses and uses a sample from a population in which the number of observation per group is different The package also provides functionality for interactions between two factor variables based on weighted effect coding. Please note that this is a beta version: while functional, it does not follow all R conventions.
License: GPL-3
NeedsCompilation: no
Packaged: 2015-08-28 05:40:08 UTC; rensenieuwenhuis
Repository: CRAN
Date/Publication: 2015-08-28 16:37:03

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New package OriGen with initial version 1.3
Package: OriGen
Type: Package
Title: Fast Spatial Ancestry via Flexible Allele Frequency Surfaces
Version: 1.3
Author: John Michael O Ranola, John Novembre, and Kenneth Lange
Depends: maps, ggplot2
Maintainer: John Michael O. Ranola <ranolaj@uw.edu>
Description: Used primarily for estimates of allele frequency surfaces from point estimates. It can also place individuals of unknown origin back onto the geographic map with great accuracy. Additionally, it can place admixed individuals by estimating contributing fractions at each location on a map. Lastly, it can rank SNPs by their ability to differentiate populations. See "Fast Spatial Ancestry via Flexible Allele Frequency Surfaces" (John Michael Ranola, John Novembre, Kenneth Lange) in Bioinformatics 2014 for more info.
License: GPL (>= 2)
Repository: CRAN
Repository/R-Forge/Project: origen
Repository/R-Forge/Revision: 16
Repository/R-Forge/DateTimeStamp: 2015-08-27 22:57:54
Date/Publication: 2015-08-28 16:36:53
NeedsCompilation: yes
Packaged: 2015-08-27 23:05:10 UTC; rforge

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Thu, 27 Aug 2015

New package lookupTable with initial version 0.1
Package: lookupTable
Type: Package
Title: Look-Up Tables using S4
Version: 0.1
Date: 2015-08-17
Authors@R: c(person('Enzo', 'Jia', email = 'enzo.jia@gmail.com', role = c('aut', 'cre')), person('Marc', 'Maier', email = 'mmaier@massmutual.com', role = 'aut'))
Maintainer: Enzo Jia <enzo.jia@gmail.com>
Description: Fits look-up tables by filling entries with the mean or median values of observations fall in partitions of the feature space. Partitions can be determined by user of the package using input argument feature.boundaries, and dimensions of the feature space can be any combination of continuous and categorical features provided by the data set. A Predict function directly fetches corresponding entry value, and a default value is defined as the mean or median of all available observations. The table and other components are represented using the S4 class lookupTable.
License: MIT + file LICENSE
LazyData: TRUE
Imports: dplyr, methods
Depends: data.table
Suggests: testthat
NeedsCompilation: no
Packaged: 2015-08-27 13:26:20 UTC; mm87727
Author: Enzo Jia [aut, cre], Marc Maier [aut]
Repository: CRAN
Date/Publication: 2015-08-28 01:21:23

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New package kerndwd with initial version 1.0.1
Package: kerndwd
Type: Package
Title: Distance Weighted Discrimination (DWD) and Kernel Methods
Version: 1.0.1
Date: 2015-08-27
Author: Boxiang Wang <boxiang@umn.edu>, Hui Zou <hzou@stat.umn.edu>
Maintainer: Boxiang Wang <boxiang@umn.edu>
Description: A very efficient implementation that solves the generalized DWD under any kernel regularization.
Depends: methods
Imports: graphics, grDevices, stats, utils
License: GPL-2
Repository: CRAN
NeedsCompilation: yes
Packaged: 2015-08-27 16:21:16 UTC; Boxiang
Date/Publication: 2015-08-28 01:18:19

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New package GsymPoint with initial version 1.0
Package: GsymPoint
Type: Package
Title: Estimation of the Generalized Symmetry Point, an Optimal Cutpoint in Continuous Diagnostic Tests
Version: 1.0
Date: 2015-08-27
Depends: truncnorm, Rsolnp
Author: Mónica López-Ratón, Carmen Cadarso-Suárez, Elisa M. Molanes-López, Emilio Letón
Maintainer: Mónica López-Ratón
Description: Estimation of the cutpoint defined by the Generalized Symmetry point in a binary classification setting based on a continuous diagnostic test or marker. Two methods have been implemented to construct confidence intervals for this optimal cutpoint, one based on the Generalized Pivotal Quantity and the other based on Empirical Likelihood. Numerical and graphical outputs for these two methods are easily obtained.
License: GPL
Encoding: latin1
Packaged: 2015-08-27 20:47:04 UTC; Mari
NeedsCompilation: no
Repository: CRAN
Date/Publication: 2015-08-28 01:20:23

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New package detector with initial version 0.1.0
Package: detector
Title: Detect Data Containing Personally Identifiable Information
Version: 0.1.0
Description: Allows users to quickly and easily detect data containing Personally Identifiable Information (PII) through convenience functions.
Authors@R: person("Paul", "Hendricks", , "paul.hendricks.2013@owu.edu", c("aut", "cre"))
URL: https://github.com/paulhendricks/detector
BugReports: https://github.com/paulhendricks/detector/issues
Depends: R (>= 3.1.2)
License: MIT + file LICENSE
LazyData: true
Imports: stringr
Suggests: testthat, generator
NeedsCompilation: no
Packaged: 2015-08-27 19:58:34 UTC; phendricks
Author: Paul Hendricks [aut, cre]
Maintainer: Paul Hendricks <paul.hendricks.2013@owu.edu>
Repository: CRAN
Date/Publication: 2015-08-28 01:13:37

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New package apaTables with initial version 1.0.3
Package: apaTables
Title: Create American Psychological Association (APA) Style Tables
Version: 1.0.3
Authors@R: person("David", "Stanley", , "dstanley@uoguelph.ca", role = c("aut", "cre"))
Description: A common task faced by researchers is the creation of APA style (i.e., American Psychological Association style) tables from statistical output. In R a large number of function calls are often needed to obtain all of the desired information for a single APA style table. As well, the process of manually creating APA style tables in a word processor is prone to transcription errors. This package creates Word files (.doc files) containing APA style tables for several types of analyses. Using this package minimizes transcription errors and reduces the number commands needed by the user.
Depends: R (>= 3.1.2)
Date: 2015-08-27
License: Unlimited
LazyData: true
Imports: rockchalk, stats, utils, methods, MBESS, car
NeedsCompilation: no
Packaged: 2015-08-27 14:57:56 UTC; stanley
Author: David Stanley [aut, cre]
Maintainer: David Stanley <dstanley@uoguelph.ca>
Repository: CRAN
Date/Publication: 2015-08-28 01:13:36

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New package umx with initial version 0.50
Package: umx
Version: 0.50
Date: 2015-08-27
Title: Helper Functions for Structural Equation Modelling in OpenMx
Authors@R: c(person("Timothy C", "Bates", role = c("aut", "cre"), email = "timothy.c.bates@gmail.com"))
Maintainer: Timothy C Bates <timothy.c.bates@gmail.com>
License: GPL-3
URL: http://github.com/tbates/umx
Description: Helper functions for making, running, and reporting SEM models in OpenMx. If you are just starting, try typing ?umx.
Depends: R (>= 3.0.3), OpenMx (>= 2.2.0)
Imports: formula.tools, utils, MASS, Matrix, methods, mvtnorm, numDeriv, polycor, R2HTML, RCurl
Suggests: knitr
BugReports: http://github.com/tbates/umx/issues
LazyData: true
NeedsCompilation: no
Packaged: 2015-08-27 14:06:02 UTC; tim
Author: Timothy C Bates [aut, cre]
Repository: CRAN
Date/Publication: 2015-08-28 01:11:25

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New package KERE with initial version 1.0.0
Package: KERE
Title: Expectile Regression in Reproducing Kernel Hilbert Space
Version: 1.0.0
Date: 2015-8-26
Author: Yi Yang, Teng Zhang, Hui Zou
Maintainer: Yi Yang <yiyang@umn.edu>
Depends: methods
Description: An efficient algorithm inspired by majorization-minimization principle for solving the entire solution path of a flexible nonparametric expectile regression estimator constructed in a reproducing kernel Hilbert space.
License: GPL-2
Packaged: 2015-08-27 13:38:41 UTC; emeryyi
Repository: CRAN
Date/Publication: 2015-08-28 00:35:09
NeedsCompilation: yes

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New package hdnom with initial version 1.2
Package: hdnom
Type: Package
Title: Nomograms for High-Dimensional Cox Models
Version: 1.2
Date: 2015-08-27
Author: Miaozhu Li <miaozhu.li@duke.edu>, Nan Xiao <nanx@uchicago.edu>
Maintainer: Nan Xiao <nanx@uchicago.edu>
Description: Build nomograms for high-dimensional Cox models, with support for model validation and calibration.
License: GPL
LazyData: TRUE
VignetteBuilder: knitr
URL: http://nomogr.am
BugReports: https://github.com/road2stat/hdnom/issues
Depends: R (>= 3.0.2)
Imports: survival, glmnet, rms, foreach, survAUC
Suggests: knitr, doParallel, Hmisc, mice
NeedsCompilation: no
Packaged: 2015-08-27 14:07:40 UTC; jimmy
Repository: CRAN
Date/Publication: 2015-08-28 01:11:22

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New package SimReg with initial version 1.1
Package: SimReg
Type: Package
Title: Similarity Regression Functions
Version: 1.1
Date: 2015-08-26
Author: Daniel Greene
Maintainer: Daniel Greene <dg333@cam.ac.uk>
Description: Functions for performing Bayesian `similarity regression', adapted to regression of binary genotype against HPO encoded phenotype. The purpose is to weigh the evidence for an association between phenotype and genotype. This is done by estimating a Bayes factor comparing a `no association' model with one in which log odds of presenting a particular binary genotype is linked to the semantic similarity between the corresponding phenotype and an estimated characteristic phenotype.
License: GPL (>= 2)
Imports: Rcpp (>= 0.11.1), dplyr, parallel, ggplot2, plotrix, gridExtra, reshape2
LinkingTo: Rcpp
Depends: R (>= 3.0.0), hpoPlot
NeedsCompilation: yes
Packaged: 2015-08-27 09:19:17 UTC; dg333
Repository: CRAN
Date/Publication: 2015-08-27 14:14:04

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New package edgar with initial version 1.0.1
Package: edgar
Type: Package
Title: Platform for EDGAR Filling Management
Version: 1.0.1
Date: 2015-08-24
Author: Gunratan Lonare <lonare.gunratan@gmail.com>, Bharat Patil <bharatspatil@gmail.com>
Maintainer: Gunratan Lonare <lonare.gunratan@gmail.com>
Depends: R (>= 3.1), shiny, shinydashboard, rChoiceDialogs
Imports: R.utils,tcltk,tm,XML,wordcloud,RColorBrewer
Description: EDGAR is the Electronic Data Gathering, Analysis, and Retrieval system which performs automated collection, validation, indexing, acceptance, and forwarding of submissions by companies and others who are required by law to file forms with the U.S. Securities and Exchange Commission (SEC). This package downloads EDGAR Master Index and EDGAR Fillings from SEC.org site and do sentiment analysis of 10-K statements.
License: GPL-2
Packaged: 2015-08-27 10:23:06 UTC; Gunratan
NeedsCompilation: no
Repository: CRAN
Date/Publication: 2015-08-27 14:14:11

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New package OptiQuantR with initial version 0.0.1
Package: OptiQuantR
Type: Package
Title: Simplifies and Automates Analyzing and Reporting OptiQuant's log Data
Version: 0.0.1
Date: 2015-08-24
Authors@R: person("Joao", "Pinelo Silva", email = "j.pinelo@mac.com", role = c("aut", "cre"))
Description: Greatly simplifies the process to read, analyze and report log data collated by OptiQuant (optiquant.opti55.com) in R. It automates efficient import of databases while preparing them for analysis and for semi-automated reporting.
Depends: R (>= 3.2.2)
Imports: data.table (>= 1.9.4), lubridate (>= 1.3.3)
License: GPL-3
LazyData: TRUE
Suggests: testthat
Encoding: UTF-8
NeedsCompilation: no
Packaged: 2015-08-27 07:39:59 UTC; jpinelo
Author: Joao Pinelo Silva [aut, cre]
Maintainer: Joao Pinelo Silva <j.pinelo@mac.com>
Repository: CRAN
Date/Publication: 2015-08-27 10:30:56

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New package cate with initial version 1.0.1
Package: cate
Type: Package
Title: High Dimensional Factor Analysis and Confounder Adjusted Testing and Estimation
Version: 1.0.1
Date: 2015-08-22
Authors@R: c(person("Jingshu", "Wang", email = "jingshuw@stanford.edu", role = c("aut")), person("Qingyuan", "Zhao", email = "qyzhao@stanford.edu", role = c("aut", "cre")))
Description: Provides several methods for factor analysis in high dimension (both n,p >> 1) and methods to adjust for possible confounders in multiple hypothesis testing.
Imports: MASS, esaBcv, ruv, sva, corpcor, leapp
License: GPL-2
LazyData: TRUE
Packaged: 2015-08-26 03:29:53 UTC; qyzhao
Author: Jingshu Wang [aut], Qingyuan Zhao [aut, cre]
Maintainer: Qingyuan Zhao <qyzhao@stanford.edu>
NeedsCompilation: no
Repository: CRAN
Date/Publication: 2015-08-27 09:08:54

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New package nhanesA with initial version 0.4
Package: nhanesA
Version: 0.4
Date: 2015-08-26
Title: NHANES Data Retrieval
Author: Christopher Endres
Maintainer: Christopher Endres <cjendres1@gmail.com>
Depends: R (>= 3.0.0)
Imports: stringr, Hmisc
Description: Utility to retrieve data from the National Health and Nutrition Examination Survey (NHANES).
License: GPL (>= 2)
LazyData: TRUE
URL: https://github.com/cjendres1/nhanes
Packaged: 2015-08-26 22:59:01 UTC; Endres
NeedsCompilation: no
Repository: CRAN
Date/Publication: 2015-08-27 08:31:57

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New package CensMixReg with initial version 0.5
Package: CensMixReg
Type: Package
Title: Modeling Censored Data Using Mixture Regression
Version: 0.5
Date: 2015-08-26
Author: Luis Benites Sanchez, Victor Hugo Lachos
Maintainer: Luis Benites Sanchez <lbenitesanchez@gmail.com>
Imports: mixsmsn
Description: Fit censored linear mixture regression model of Normal or Student-t distribution.
License: GPL (>= 2)
LazyData: TRUE
Packaged: 2015-08-26 23:28:54 UTC; luis
NeedsCompilation: no
Repository: CRAN
Date/Publication: 2015-08-27 08:56:09

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New package artfima with initial version 1.0
Package: artfima
Type: Package
Title: Fit ARTFIMA Model
Version: 1.0
Date: 2015-08-25
Author: A. I. McLeod, Farzad Sabzikar, Mark M. Meerschaert
Maintainer: A.I. McLeod <aimcleod@uwo.ca>
Description: Fit and simulate ARTFIMA. Theoretical autocovariance function and spectral density function for stationary ARTFIMA.
Depends: R (>= 2.1.0)
Imports: ltsa, gsl
LazyLoad: yes
LazyData: yes
Classification/ACM: G.3, G.4, I.5.1
Classification/MSC: 62M10, 91B84
License: GPL (>= 2)
URL: http://www.stats.uwo.ca/faculty/aim
NeedsCompilation: no
Packaged: 2015-08-27 04:54:54 UTC; IanMcLeod
Repository: CRAN
Date/Publication: 2015-08-27 08:35:42

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Wed, 26 Aug 2015

New package ldamatch with initial version 0.6.3
Package: ldamatch
Title: Multivariate Condition Matching by Backwards Elimination Using Linear Discriminant Analysis
Version: 0.6.3
Authors@R: c(person("Kyle", "Gorman", email = "kylebgorman@gmail.com", role = c("aut", "cre")), person("Geza", "Kiss", email = "kiss@ohsu.edu", role = c("ctb")))
Description: Performs group matching by backward elimination using linear discriminant analysis.
Depends: R (>= 3.0.0)
License: MIT + file LICENSE
LazyData: true
Suggests: knitr
VignetteBuilder: knitr
Imports: RUnit, data.table, foreach, kSamples, MASS, entropy, iterators, iterpc
NeedsCompilation: no
Packaged: 2015-08-26 11:47:34 UTC; kgorman
Author: Kyle Gorman [aut, cre], Geza Kiss [ctb]
Maintainer: Kyle Gorman <kylebgorman@gmail.com>
Repository: CRAN
Date/Publication: 2015-08-27 01:04:08

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New package generator with initial version 0.1.0
Package: generator
Title: Generate Data Containing Fake Personally Identifiable Information
Version: 0.1.0
Description: Allows users to quickly and easily generate fake data containing Personally Identifiable Information (PII) through convenience functions.
Authors@R: person("Paul", "Hendricks", , "paul.hendricks.2013@owu.edu", c("aut", "cre"))
URL: https://github.com/paulhendricks/generator
BugReports: https://github.com/paulhendricks/generator/issues
Depends: R (>= 3.1.2)
License: MIT + file LICENSE
LazyData: true
Suggests: testthat
NeedsCompilation: no
Packaged: 2015-08-26 15:43:39 UTC; phendricks
Author: Paul Hendricks [aut, cre]
Maintainer: Paul Hendricks <paul.hendricks.2013@owu.edu>
Repository: CRAN
Date/Publication: 2015-08-26 23:11:56

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New package ms.sev with initial version 1.0
Package: ms.sev
Type: Package
Title: Package for Calculation of ARMSS, Local MSSS and Global MSSS
Version: 1.0
Date: 2015-08-25
Author: Helga Westerlind, Ali Manouchehrinia
Maintainer: Helga Westerlind <Helga.Westerlind@ki.se>
Description: Calculates ARMSS, age related multiple sclerosis severity score, and both local and global msss.
License: GPL-2
Packaged: 2015-08-26 13:04:49 UTC; hewest
NeedsCompilation: no
Repository: CRAN
Date/Publication: 2015-08-26 16:43:37

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New package SurvRank with initial version 0.1
Package: SurvRank
Title: Rank Based Survival Modelling
Version: 0.1
Authors@R: c(person("Michael", "Laimighofer", role = c("aut", "cre","ctb"), email = "michael.laimighofer@helmholtz-muenchen.de") )
Author: Michael Laimighofer [aut, cre, ctb]
Maintainer: Michael Laimighofer <michael.laimighofer@helmholtz-muenchen.de>
Description: Estimation of the prediction accuracy in a unified survival AUC approach. Model selection and prediction estimation based on a survival AUC. Stepwise model selection, based on several ranking approaches.
License: GPL-2
Depends: R (>= 3.0.0), survival(>= 2.37-6), foreach(>= 1.0.11)
Imports: ipred(>= 0.9-3), sampling(>= 2.6), glmnet(>= 1.9-8), utils(>= 3.1.0), survAUC(>= 1.0-5), randomForestSRC(>= 1.5.4), ggplot2(>= 1.0.0), reshape(>= 0.8), gplots(>= 2.16.0), mboost(>= 2.3-0), parallel(>= 3.2.0), doParallel(>= 1.0.8), rpart(>= 4.1-8)
LazyData: true
Suggests: knitr
VignetteBuilder: knitr
NeedsCompilation: no
Packaged: 2015-08-26 09:57:55 UTC; michael.laimighofer
Repository: CRAN
Date/Publication: 2015-08-26 14:22:13

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New package LightningR with initial version 1.0.1
Package: LightningR
Type: Package
Title: Tools for Communication with Lightning-Viz Server
Version: 1.0.1
Date: 2015-08-14
Author: Ermlab
Maintainer: Kolodziejski Kamil <kolodziejski.kamil@hotmail.com>
Description: The purpose of this package is to enable usage of lightningviz server to be accessible from R. The server itself can be found at http://lightning-viz.org/ and is required to work with this package. Package by itself cannot and will not create any visualizations.
License: MIT + file LICENSE
Depends: RJSONIO, RCurl, R6, httr
URL: https://github.com/Ermlab/lightining-rstat/
BugReports: https://github.com/Ermlab/lightining-rstat/issues
NeedsCompilation: no
Packaged: 2015-08-26 06:20:27 UTC; kamil
Repository: CRAN
Date/Publication: 2015-08-26 14:12:51

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New package Langevin with initial version 1.0.3
Package: Langevin
Type: Package
Title: Langevin Analysis in One and Two Dimensions
Version: 1.0.3
Date: 2015-08-26
Authors@R: c(person('David', 'Bastine', role='ctb'), person('Pedro G.', 'Lind', role='aut'), person('Philip', 'Rinn', email='philip.rinn@uni-oldenburg.de', role=c('aut','cre')))
Description: Estimate drift and diffusion functions from time series and generate synthetic time series from given drift and diffusion coefficients.
Encoding: UTF-8
License: GPL (>= 2)
LazyLoad: yes
ByteCompile: yes
NeedsCompilation: yes
Depends: R (>= 3.0.2)
Imports: Rcpp (>= 0.11.0)
LinkingTo: Rcpp, RcppArmadillo (>= 0.4.600.0)
Packaged: 2015-08-26 10:31:55 UTC; philip
Author: David Bastine [ctb], Pedro G. Lind [aut], Philip Rinn [aut, cre]
Maintainer: Philip Rinn <philip.rinn@uni-oldenburg.de>
Repository: CRAN
Date/Publication: 2015-08-26 14:40:25

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New package ioncopy with initial version 1.0
Package: ioncopy
Type: Package
Title: Calling Copy Number Alterations in Amplicon Sequencing Data
Version: 1.0
Date: 2015-08-25
Author: Jan Budczies
Maintainer: Jan Budczies <jan.budczies@charite.de>
Imports: stats, multtest
Description: Method for the calculation of copy numbers and calling of copy number alterations. The algorithm uses coverage data from amplicon sequencing of a sample cohort as input. The method includes significance assessment, correction for multiple testing and does not depend on normal DNA controls.
License: GPL-3
Packaged: 2015-08-26 10:08:21 UTC; jbudczie
NeedsCompilation: no
Repository: CRAN
Date/Publication: 2015-08-26 14:53:52

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New package imager with initial version 0.13
Package: imager
Type: Package
Title: Image Processing Library Based on CImg
Version: 0.13
Date: 2015-08-25
Author: Simon Barthelme [aut, cre], Antoine Cecchi [ctb]
Authors@R: c(person("Simon","Barthelme",email="simon.barthelme@gipsa-lab.fr",role=c("aut","cre")), person("Antoine","Cecchi",email="antoine.cecchi@phelma.grenoble-inp.fr",role="ctb"))
Maintainer: Simon Barthelme <simon.barthelme@gipsa-lab.fr>
Description: Fast image processing for images in up to 4 dimensions (two spatial dimensions, one time/depth dimension, one colour dimension). Provides most traditional image processing tools (filtering, morphology, transformations, etc.) as well as various functions for easily analysing image data using R.
License: LGPL
Imports: Rcpp (>= 0.11.5)
Depends: R (>= 2.10.0),plyr,magrittr,stringr,grDevices,png,jpeg
SystemRequirements: fftw3
Enhances: spatstat
LinkingTo: Rcpp
LazyData: true
Packaged: 2015-08-26 07:10:20 UTC; barthesi
NeedsCompilation: yes
Repository: CRAN
Date/Publication: 2015-08-26 14:43:02

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New package AF with initial version 0.1
Package: AF
Type: Package
Title: Model-Based Estimation of Confounder-Adjusted Attributable Fractions
Version: 0.1
Date: 2015-08-20
Author: Elisabeth Dahlqwist and Arvid Sjolander
Maintainer: Elisabeth Dahlqwist <elisabeth.dahlqwist@ki.se>
Description: Estimates the attributable fraction in different sampling designs adjusted for measured confounders using logistic regression (cross-sectional and case-control designs), conditional logistic regression (matched case-control design) and Cox proportional hazard regression (cohort design with time-to-event outcome). The variance of the estimator is obtained by combining the delta method with the the sandwich formula.
License: GPL-2 | GPL-3
LazyData: FALSE
Depends: stats, base, graphics, survival, drgee, R (>= 3.0.0)
NeedsCompilation: no
Packaged: 2015-08-26 12:26:41 UTC; elidah
Repository: CRAN
Date/Publication: 2015-08-26 14:57:32

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New package lcopula with initial version 0.205
Package: lcopula
Type: Package
Title: Liouville Copulas
Version: 0.205
Date: 2015-08-23
Authors@R: c(person("Leo", "Belzile", role = c("aut", "cre"), email = "leo.belzile@epfl.ch"), person("Christian", " Genest", role = c("aut","ctb")), person("Alexander", "J. McNeil", role = c("ctb")), person("Johanna", "G. Neslehova", role = c("ctb")))
Description: Collections of functions allowing random number generations and estimation of Liouville copulas.
License: GPL-3
Imports: Rcpp (>= 0.11.4), pcaPP, utils, graphics, stats
Depends: copula (>= 0.999-12), R (>= 2.12.0)
LinkingTo: Rcpp
NeedsCompilation: yes
Packaged: 2015-08-25 18:25:28 UTC; leo
Author: Leo Belzile [aut, cre], Christian Genest [aut, ctb], Alexander J. McNeil [ctb], Johanna G. Neslehova [ctb]
Maintainer: Leo Belzile <leo.belzile@epfl.ch>
Repository: CRAN
Date/Publication: 2015-08-26 08:39:24

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Tue, 25 Aug 2015

New package SACOBRA with initial version 0.7
Package: SACOBRA
Type: Package
Title: Self-Adjusting COBRA
Version: 0.7
Date: 2015-08-24
Author: Wolfgang Konen <wolfgang.konen@fh-koeln.de> [aut], Samineh Bagheri [cre, aut], Patrick Koch [aut]
Maintainer: Samineh Bagheri <samineh.bagheri@fh-koeln.de>
Description: Performs constrained optimization for expensive black-box problems.
License: GPL (>= 2)
Depends: R (>= 2.14.0),
Suggests: nloptr, FNN, MASS, dfoptim, DEoptim, lhs, rgl, grDevices, scales
Imports: testit, methods
Collate: 'cobraInit.R' 'cobraPhaseI.R' 'cobraPhaseII.R' 'defaultRI.R' 'defaultSAC.R' 'defaultTR.R' 'drawSurrogate3d.R' 'fnArchive.R' 'initialHjkb.R' 'isres2.R' 'multiRunPlot.R' 'multiCOBRA.R' 'nmkb2.R' 'RbfInter.R' 'repairChootinan.R' 'repairInfeasRI2.R' 'SACOBRA.R' 'startCobra.R' 'trustRegion.R'
NeedsCompilation: no
Packaged: 2015-08-25 14:26:21 UTC; bagheri
Repository: CRAN
Date/Publication: 2015-08-25 19:20:50

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New package optismixture with initial version 0.1
Package: optismixture
Title: Optimal Mixture Weights in Multiple Importance Sampling
Description: Code for optimal mixture weights in importance sampling. Workhorse functions penoptpersp() and penoptpersp.alpha.only() minimize estimated variances with and without control variates respectively. It can be used in adaptive mixture importance sampling, for example, function batch.estimation() does two stages, a pilot estimate of mixing alpha and a following importance sampling.
Version: 0.1
Author: Hera Y. He, Art B. Owen
Maintainer: Hera Y. He <yhe1@stanford.edu>
Depends: R (>= 3.0.2)
Imports: mvtnorm, Matrix
License: GPL-2
LazyData: true
Packaged: 2015-08-25 16:39:58 UTC; hera
NeedsCompilation: no
Repository: CRAN
Date/Publication: 2015-08-25 19:20:56

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New package anonymizer with initial version 0.1.0
Package: anonymizer
Title: Anonymize Data Containing Personally Identifiable Information
Version: 0.1.0
Description: Allows users to quickly and easily anonymize data containing Personally Identifiable Information (PII) through convenience functions.
Authors@R: person("Paul", "Hendricks", , "paul.hendricks.2013@owu.edu", c("aut", "cre"))
URL: https://github.com/paulhendricks/anonymizer
BugReports: https://github.com/paulhendricks/anonymizer/issues
Depends: R (>= 3.1.2)
License: MIT + file LICENSE
LazyData: true
Suggests: digest, testthat
NeedsCompilation: no
Packaged: 2015-08-25 16:51:31 UTC; phendricks
Author: Paul Hendricks [aut, cre]
Maintainer: Paul Hendricks <paul.hendricks.2013@owu.edu>
Repository: CRAN
Date/Publication: 2015-08-25 19:28:50

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New package ggplot2movies with initial version 0.0.1
Package: ggplot2movies
Version: 0.0.1
Title: Movies Data
Description: A dataset about movies. This was previously contained in ggplot2, but has been moved its own package to reduce the download size of ggplot2.
Authors@R: c( person("Hadley", "Wickham", , "hadley@rstudio.com", role = c("aut", "cre")), person("RStudio", role = "cph") )
Depends: R (>= 2.10.0)
License: GPL-3
LazyData: true
NeedsCompilation: no
Packaged: 2015-08-25 13:37:51 UTC; hadley
Author: Hadley Wickham [aut, cre], RStudio [cph]
Maintainer: Hadley Wickham <hadley@rstudio.com>
Repository: CRAN
Date/Publication: 2015-08-25 16:05:24

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Mon, 24 Aug 2015

New package FastBandChol with initial version 0.1.0
Package: FastBandChol
Type: Package
Title: Fast Estimation of a Covariance Matrix by Banding the Cholesky Factor
Version: 0.1.0
Author: Aaron Molstad <molst029@umn.edu>
Maintainer: Aaron Molstad <molst029@umn.edu>
Description: Fast and numerically stable estimation of a covariance matrix by banding the Cholesky factor using a modified Gram-Schmidt algorithm implemented in RcppArmadilo. See <http://stat.umn.edu/~molst029> for details on the algorithm.
License: GPL-2
LazyData: TRUE
Imports: Rcpp
LinkingTo: Rcpp, RcppArmadillo
Packaged: 2015-08-24 15:05:44 UTC; aaronmolstad
NeedsCompilation: yes
Repository: CRAN
Date/Publication: 2015-08-25 01:05:04

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New package bimixt with initial version 1.0
Package: bimixt
Type: Package
Title: Estimates Mixture Models for Case-Control Data
Version: 1.0
Date: 2015-08-24
Author: Michelle Winerip, Garrick Wallstrom, Joshua LaBaer
Maintainer: Michelle Winerip <mwinerip@asu.edu>
Description: Estimates non-Gaussian mixture models of case-control data. The four types of models supported are binormal, two component constrained, two component unconstrained, and four component. The most general model is the four component model, under which both cases and controls are distributed according to a mixture of two unimodal distributions. In the four component model, the two component distributions of the control mixture may be distinct from the two components of the case mixture distribution. In the two component unconstrained model, the components of the control and case mixtures are the same; however the mixture probabilities may differ for cases and controls. In the two component constrained model, all controls are distributed according to one of the two components while cases follow a mixture distribution of the two components. In the binormal model, cases and controls are distributed according to distinct unimodal distributions. These models assume that Box-Cox transformed case and control data with a common lambda parameter are distributed according to Gaussian mixture distributions. Model parameters are estimated using the expectation-maximization (EM) algorithm. Likelihood ratio test comparison of nested models can be performed using the lr.test function. AUC and PAUC values can be computed for the model-based and empirical ROC curves using the auc and pauc functions, respectively. The model-based and empirical ROC curves can be graphed using the roc.plot function. Finally, the model-based density estimates can be visualized by plotting a model object created with the bimixt.model function.
Depends: pROC
License: GPL (>= 3)
LazyLoad: yes
NeedsCompilation: no
Packaged: 2015-08-24 18:18:50 UTC; mwinerip
Repository: CRAN
Date/Publication: 2015-08-25 00:54:26

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New package SSRMST with initial version 0.1.0
Package: SSRMST
Type: Package
Title: Sample Size Calculation using Restricted Mean Survival Time
Description: Calculates the power and sample size based on the difference in Restricted Mean Survival Times.
Version: 0.1.0
Date: 2015-08-24
Author: Miki Horiguchi
Maintainer: Miki Horiguchi <horiguchimiki@gmail.com>
Imports: survival, survRM2
License: GPL-2
NeedsCompilation: no
Suggests: knitr
VignetteBuilder: knitr
Packaged: 2015-08-24 11:56:20 UTC; PP10211
Repository: CRAN
Date/Publication: 2015-08-24 16:21:32

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New package onewaytests with initial version 1.0
Package: onewaytests
Type: Package
Title: One Way Independent Groups Design
Version: 1.0
Date: 2015-8-24
Depends: R (>= 3.1.1)
Imports: stats
Author: Osman Dag, Anil Dolgun, N. Meric Konar
Maintainer: Osman Dag <osman.dag@hacettepe.edu.tr>
Description: Two or more samples in one-way independent groups design are compared via different tests.
License: GPL (>= 2)
Packaged: 2015-08-24 13:26:45 UTC; osmandag
NeedsCompilation: no
Repository: CRAN
Date/Publication: 2015-08-24 16:21:47

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New package mev with initial version 1.2
Package: mev
Type: Package
Title: Multivariate Extreme Value Distributions
Version: 1.2
Date: 2015-08-23
Authors@R: c(person("Leo", "Belzile", role = c("aut", "cre"), email = "leo.belzile@epfl.ch"))
Description: Exact simulation from max-stable processes and multivariate extreme value distributions for various parametric models.
License: GPL-3
Imports: Rcpp (>= 0.11.6)
LinkingTo: Rcpp, RcppArmadillo
NeedsCompilation: yes
Packaged: 2015-08-24 07:14:57 UTC; leo
Author: Leo Belzile [aut, cre]
Maintainer: Leo Belzile <leo.belzile@epfl.ch>
Repository: CRAN
Date/Publication: 2015-08-24 16:21:45

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Sun, 23 Aug 2015

New package ZRA with initial version 0.1
Package: ZRA
Type: Package
Title: Dynamic Plots for Time Series Forecasting
Version: 0.1
Date: 2015-08-22
Author: David Beiner
Maintainer: David Beiner <zra.r.package@gmail.com>
Description: Combines a forecast of a time series, using the function forecast(), with the dynamic plots from dygraphs.
Depends: R (>= 3.0.2), forecast, dygraphs, stats
License: GPL (>= 2)
NeedsCompilation: no
Packaged: 2015-08-23 18:59:26 UTC; DBE
Repository: CRAN
Date/Publication: 2015-08-23 23:43:14

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New package qrcode with initial version 0.1.1
Package: qrcode
Type: Package
Title: QRcode Generator for R
Version: 0.1.1
Date: 2015-08-13
Author: Victor Teh
Maintainer: Victor Teh <victorteh@gmail.com>
Description: Create QRcode in R.
License: GPL-3
Depends: R (>= 3.0.0)
Imports: R.utils, stringr, stats, utils
LazyData: TRUE
NeedsCompilation: no
Packaged: 2015-08-23 17:04:26 UTC; 09776
Repository: CRAN
Date/Publication: 2015-08-23 23:27:47

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New package clttools with initial version 1.0
Package: clttools
Type: Package
Title: Central Limit Theorem Experiments (Theoretical and Simulation)
Version: 1.0
Date: 2015-08-23
Author: Simiao Ye, Jingning Mei
Maintainer: Simiao Ye <simiao.ye@gmail.com>
Description: Central limit theorem experiments presented by data frames or plots. Functions include generating theoretical sample space, corresponding probability, and simulated results as well.
License: GPL-2
LazyData: true
NeedsCompilation: no
Packaged: 2015-08-23 18:55:59 UTC; ye
Repository: CRAN
Date/Publication: 2015-08-23 23:52:23

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New package AutoModel with initial version 0.4.9
Package: AutoModel
Type: Package
Title: Automated Hierarchical Multiple Regression with Assumptions Checking
Version: 0.4.9
Date: 2015-08-12
Author: Alex Lishinski
Maintainer: Alex Lishinski <alexlishinski@gmail.com>
Description: A set of functions that automates the process and produces reasonable output for hierarchical multiple regression models. It allows you to specify predictor blocks, from which it generates all of the linear models, and checks the assumptions of the model, producing the requisite plots and statistics to allow you to judge the suitability of the model.
License: GPL-3
LazyData: TRUE
Depends: R (>= 3.1.3),
Imports: lmtest, car, MASS, broom, rowr, ROCR, dplyr, BaylorEdPsych, aod, gtools
URL: https://github.com/alishinski/AutoModel
Suggests: knitr, xtable, testthat
VignetteBuilder: knitr
NeedsCompilation: no
Packaged: 2015-08-12 21:04:25 UTC; alex
Repository: CRAN
Date/Publication: 2015-08-23 23:42:08

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New package wbsts with initial version 0.1
Package: wbsts
Title: Multiple Change-Point Detection for Nonstationary Time Series
Version: 0.1
Author: Karolos Korkas and Piotr Fryzlewicz
Maintainer: Karolos Korkas <kkorkas@yahoo.co.uk>
Description: Implements detection for the number and locations of the change-points in a time series using the Wild Binary Segmentation and the Locally Stationary Wavelet model.
Depends: mvtnorm,wmtsa, R (>= 3.0.0)
License: GPL-3
LazyData: true
Packaged: 2015-08-23 17:32:22 UTC; korkas
NeedsCompilation: yes
Repository: CRAN
Date/Publication: 2015-08-23 23:06:37

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New package SensMixed with initial version 2.0-8
Package: SensMixed
Type: Package
Title: Analysis of Sensory and Consumer Data in a Mixed Model Framework
Version: 2.0-8
Authors@R: c(person("Alexandra", "Kuznetsova", role = c("aut", "cre"), email = "alku@dtu.dk"), person("Per", "Bruun Brockhoff", role = c("aut", "ths")), person("Rune", "Haubo Bojesen Christensen", role = "aut"))
Maintainer: Alexandra Kuznetsova <alku@dtu.dk>
Depends: stats, methods, lmerTest
Imports: Hmisc, parallel, plyr, doBy, xtable, reshape2, ggplot2, shiny, shinyBS, lme4
Suggests: pbkrtest
Description: Functions that facilitate analysis of Sensory as well as Consumer data within a mixed effects model framework are provided. The so-called mixed assessor models, that correct for the scaling effect are implemented. The generation of the d-tilde plots forms part of the package. The shiny application for the functionalities forms part of the package.
LazyData: TRUE
License: GPL (>= 2)
Repository: CRAN
NeedsCompilation: no
Packaged: 2015-08-23 13:56:13 UTC; alku
Author: Alexandra Kuznetsova [aut, cre], Per Bruun Brockhoff [aut, ths], Rune Haubo Bojesen Christensen [aut]
Date/Publication: 2015-08-23 17:36:22

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New package meta4diag with initial version 1.0.19
Package: meta4diag
Type: Package
Title: Meta-Analysis for Diagnostic Test Studies
Version: 1.0.19
Date: 2015-08-23
Author: Jingyi Guo <jingyi.guo@math.ntnu.no> and Andrea Riebler <andrea.riebler@math.ntnu.no>
Maintainer: Jingyi Guo <jingyi.guo@math.ntnu.no>
Description: Bayesian inference analysis for bivariate meta-analysis of diagnostic test studies using integrated nested Laplace approximation with INLA. A purpose built graphic user interface is available. The installation of R package INLA is compulsory for successful usage. The INLA package can be obtained from <http://www.r-inla.org>. We recommend the testing version, which can be downloaded by running: source("http://www.math.ntnu.no/inla/givemeINLA-testing.R").
License: GPL
Depends: R (>= 2.10), RGtk2, cairoDevice, methods, grid
Suggests: INLA
Additional_repositories: http://www.math.ntnu.no/inla/R/testing
Packaged: 2015-08-23 11:24:28 UTC; jingyig
NeedsCompilation: no
Repository: CRAN
Date/Publication: 2015-08-23 17:41:53

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Sat, 22 Aug 2015

New package flowr with initial version 0.9.7.10
Package: flowr
Type: Package
Title: Streamlining Design and Deployment of Complex Workflows
Description: An interface to streamline design of complex workflows and their deployment to a High Performance Computing Cluster.
Version: 0.9.7.10
Date: 2015-08-22
Depends: methods, utils
Imports: diagram, whisker, params (>= 0.2.4), tools, knitr
Suggests: reshape2, ggplot2, openxlsx, testthat
VignetteBuilder: knitr
URL: https://github.com/sahilseth/flowr
BugReports: https://github.com/sahilseth/flowr/issues
Authors@R: c( person("Sahil", "Seth", role = c("aut", "cre"), email = "me@sahilseth.com"))
License: MIT + file LICENSE
NeedsCompilation: no
Packaged: 2015-08-22 17:24:46 UTC; sahilseth
Author: Sahil Seth [aut, cre]
Maintainer: Sahil Seth <me@sahilseth.com>
Repository: CRAN
Date/Publication: 2015-08-22 23:25:37

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New package ggsn with initial version 0.2.0
Package: ggsn
Type: Package
Title: North Symbols and Scale Bars for Maps Created with 'ggplot2' or 'ggmap'
Depends: R (>= 3.2.1), ggplot2
Imports: png, grid, maptools, graphics
Suggests: rgdal, ggmap, rgeos
Description: Adds north symbols (18 options) and scale bars in kilometers to maps in geographic or metric coordinates created with 'ggplot2' or 'ggmap'.
License: GPL (>= 2)
LazyLoad: yes
URL: https://github.com/oswaldosantos/ggsn
Authors@R: c(person(given='Oswaldo', family='Santos Baquero', email='oswaldosant@gmail.com', role=c("aut", "cre")))
Version: 0.2.0
Date: 2015-08-22
NeedsCompilation: no
Packaged: 2015-08-22 10:20:07 UTC; oswaldo
Author: Oswaldo Santos Baquero [aut, cre]
Maintainer: Oswaldo Santos Baquero <oswaldosant@gmail.com>
Repository: CRAN
Date/Publication: 2015-08-22 14:36:49

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New package contoureR with initial version 1.0.1
Package: contoureR
Type: Package
Title: Contouring of Non-Regular Three-Dimensional Data
Version: 1.0.1
Date: 2015-08-10
Author: Nicholas Hamilton
Maintainer: Nicholas Hamilton <n.hamilton@unsw.edu.au>
Description: Create contour lines for a non regular series of points, potentially from a non-regular canvas.
License: GPL (>= 2)
SystemRequirements: C++11
Depends: geometry
Imports: Rcpp (>= 0.11.5), reshape, plyr
Suggests: ggplot2
LinkingTo: Rcpp
URL: http://contoureR.com
Collate: 'contoureR-package.R' 'RcppExports.R' 'RcppExports-Doc.R' 'convexHull.R' 'delaunayMesh.R' 'contourLines.R' 'orderPoints.R'
NeedsCompilation: yes
Packaged: 2015-08-21 08:58:47 UTC; nick
Repository: CRAN
Date/Publication: 2015-08-22 11:05:51

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Fri, 21 Aug 2015

New package MFAg with initial version 1.0
Package: MFAg
Type: Package
Title: Multiple Factor Analysis (MFA)
Version: 1.0
Date: 2015-08-20
Author: Paulo Cesar Ossani <ossanipc@hotmail.com> Marcelo Angelo Cirillo <macufla@dex.ufla.br>
Maintainer: Paulo Cesar Ossani <ossanipc@hotmail.com>
Description: Performs Multiple Factor Analysis method for quantitative, categorical, frequency and mixed data, in addition to generating a lot of graphics, also has other useful functions.
License: GPL-2
NeedsCompilation: no
Packaged: 2015-08-21 14:39:10 UTC; Pc
Repository: CRAN
Date/Publication: 2015-08-21 18:04:51

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New package searchConsoleR with initial version 0.1.2
Package: searchConsoleR
Title: Google Search Console APIv3 R Client
Version: 0.1.2
Authors@R: c(person("Mark", "Edmondson",email = "r@sunholo.com", role = c("aut", "cre")), person("Jennifer", "Bryan",email="jenny@stat.ubc.ca", role = "ctb"))
Description: Provides an interface with the Google Search Console API v3, formally called Google Webmaster Tools.
URL: http://www.google.com/webmasters/tools/, https://developers.google.com/webmaster-tools/
Depends: R (>= 3.2.0)
License: MIT + file LICENSE
LazyData: true
Imports: googleAuthR (>= 0.1.1), stringr (>= 1.0.0)
Suggests: shiny (>= 0.12.1), knitr
VignetteBuilder: knitr
NeedsCompilation: no
Packaged: 2015-08-21 14:28:33 UTC; mark
Author: Mark Edmondson [aut, cre], Jennifer Bryan [ctb]
Maintainer: Mark Edmondson <r@sunholo.com>
Repository: CRAN
Date/Publication: 2015-08-21 16:57:54

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New package rsggm with initial version 0.3
Package: rsggm
Type: Package
Title: Robust Sparse Gaussian Graphical Modeling via the Gamma-Divergence
Version: 0.3
Date: 2015-08-21
Author: Kei Hirose
Maintainer: Kei Hirose <mail@keihirose.com>
Depends: MASS, Matrix, glasso, QUIC
Imports: methods
Description: Robust estimation of sparse inverse covariance matrix via the gamma-divergence.
License: GPL (>= 2)
URL: http://www.keihirose.com
NeedsCompilation: no
Packaged: 2015-08-21 09:54:25 UTC; hirosekei
Repository: CRAN
Date/Publication: 2015-08-21 15:53:12

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New package lasvmR with initial version 0.1
Package: lasvmR
Type: Package
Title: A Simple Wrapper for the LASVM Solver
Version: 0.1
Date: 2015-08-21
Author: Aydin Demircioglu
Maintainer: Aydin Demircioglu <aydin.demircioglu@ini.rub.de>
Description: This is a simple wrapper for the LASVM Solver (see http://leon.bottou.org/projects/lasvm). LASVM is basically an online variant of the SMO solver.
Copyright: Original C/C++ code (GPL) by Leon Bottou (http://leon.bottou.org) and coworkers.
License: GPL (>= 2)
Imports: Rcpp (>= 0.11.6), checkmate (>= 1.5.1)
LinkingTo: Rcpp
Suggests: knitr, testthat
VignetteBuilder: knitr
URL: http://github.com/aydindemircioglu/lasvmR
BugReports: http://github.com/aydindemircioglu/lasvmR/issues
NeedsCompilation: yes
Packaged: 2015-08-21 14:49:14 UTC; drunkeneye
Repository: CRAN
Date/Publication: 2015-08-21 16:57:53

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New package epifit with initial version 0.0.1
Package: epifit
Type: Package
Title: Flexible Modelling Functions for Epidemiological Data Analysis
Version: 0.0.1
Date: 2015-08-20
Author: Kazutaka DOI [aut,cre], Kei SAKABE [ctb], Masataka TAGURI [ctb]
Maintainer: Kazutaka Doi <kztkdi@gmail.com>
Description: Provides flexible model fitting used in epidemiological data analysis by a unified model specification, along with some data manipulation functions. This package covers fitting of variety models including Cox regression models, linear regression models, Poisson regression models, logistic models and others whose likelihood is expressed in negative binomial, gamma and Weibull distributions.
License: GPL-3
NeedsCompilation: yes
Imports: stats, MASS
Suggests: survival
Packaged: 2015-08-21 09:47:33 UTC; kazutaka
Repository: CRAN
Date/Publication: 2015-08-21 15:53:11

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New package rpdo with initial version 0.0.1
Package: rpdo
Type: Package
Title: Pacific Decadal Oscillation Index
Version: 0.0.1
Date: 2015-08-20
Authors@R: c( person("Joe", "Thorley", email = "joe@poissonconsulting.ca", role = c("aut", "cre")), person("Nathan", "Mantua", email = "nate.mantua@noaa.gov", role = c("aut", "dtc")), person("Steven R.", "Hare", email = "hare@iphc.washington.edu", role = c("aut", "dtc")))
Description: Monthly Pacific Decadal Oscillation (PDO) index values from January 1900 to present.
License: CC0
URL: https://github.com/poissonconsulting/rpdo
LazyData: true
Depends: R (>= 3.2.2)
Suggests: curl (>= 0.9.2), magrittr (>= 1.5), readr (>= 0.1.1), tidyr (>= 0.2.0), dplyr (>= 0.4.2), devtools (>= 1.8.0), ggplot2 (>= 1.0.1)
NeedsCompilation: no
Packaged: 2015-08-20 22:06:24 UTC; joe
Author: Joe Thorley [aut, cre], Nathan Mantua [aut, dtc], Steven R. Hare [aut, dtc]
Maintainer: Joe Thorley <joe@poissonconsulting.ca>
Repository: CRAN
Date/Publication: 2015-08-21 07:38:56

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Wed, 19 Aug 2015

New package graticule with initial version 0.1.0
Package: graticule
Type: Package
Title: Meridional and Parallel Lines for Maps
Version: 0.1.0
Authors@R: person("Michael D.","Sumner", role = c("aut", "cre"), email = "mdsumner@gmail.com")
Description: Create graticule lines and labels for maps. Control the creation of lines by setting their placement (at particular meridians and parallels) and extent (along parallels and meridians). Labels are created independently of lines.
License: GPL-3
LazyData: TRUE
Depends: sp
Imports: raster
Suggests: devtools, knitr, maptools, oce, rgdal, rworldmap, testthat
VignetteBuilder: knitr
BugReports: https://github.com/mdsumner/graticule/issues
URL: https://github.com/mdsumner/graticule
NeedsCompilation: no
Packaged: 2015-08-19 21:43:17 UTC; mdsumner
Author: Michael D. Sumner [aut, cre]
Maintainer: Michael D. Sumner <mdsumner@gmail.com>
Repository: CRAN
Date/Publication: 2015-08-20 00:24:15

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New package eel with initial version 1.0
Package: eel
Type: Package
Title: Extended Empirical Likelihood
Version: 1.0
Date: 2015-08-14
Author: Fan Wu and Yu Zhang
Maintainer: Yu Zhang <yuz@uvic.ca>
Description: Compute the extended empirical log likelihood ratio (Tsao & Wu, 2014) for the mean and parameters defined by estimating equations.
Depends: emplik, rootSolve
License: GPL (>= 2)
NeedsCompilation: no
Packaged: 2015-08-19 19:22:13 UTC; yza137
Repository: CRAN
Date/Publication: 2015-08-20 00:16:41

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New package tmvnsim with initial version 1.0-0
Package: tmvnsim
Version: 1.0-0
Date: 2015-08-19
Title: Truncated Multivariate Normal Simulation
Author: Samsiddhi Bhattacjarjee <sb1@nibmg.ac.in>
Maintainer: Samsiddhi Bhattacharjee <sb1@nibmg.ac.in>
Depends: R (>= 3.2.1)
Description: Importance sampling from the truncated multivariate normal using the GHK (Geweke-Hajivassiliou-Keane) simulator. Unlike Gibbs sampling which can get stuck in one truncation sub-region depending on initial values, this package allows truncation based on disjoint regions that are created by truncation of absolute values. The GHK algorithm uses simple Cholesky transformation followed by recursive simulation of univariate truncated normals hence there are also no convergence issues. Importance sample is returned along with sampling weights, based on which, one can calculate integrals over truncated regions for multivariate normals.
License: GPL-2
Repository: CRAN
URL: http://www.r-project.org
NeedsCompilation: yes
Packaged: 2015-08-19 17:48:27 UTC; samsiddhi
Date/Publication: 2015-08-19 20:35:03

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New package spsi with initial version 0.1
Package: spsi
Title: Shape-Preserving Uni-Variate and Bi-Variate Spline Interpolation
Date: 2015-08-12
Version: 0.1
Author: Szymon Sacher & Andrew Clausen, The University of Edinburgh. Excerpts adapted from Fortran code Copyright (C) Paolo Costantini
Maintainer: Szymon Sacher <s1340144@sms.ed.ac.uk>
Description: Program uses method of polynomial of variable degrees to interpolate gridded data preserving monotonicity and/or convexity or none. Method is implemented for univariate and bivariate cases. If values of derivatives are provided, spline will fix them,if not program will estimate them numerically. Package written purely in R.
License: GPL (>= 2.0)
LazyData: TRUE
Depends: plot3D, R(>= 2.10.0)
NeedsCompilation: no
Packaged: 2015-08-19 16:56:35 UTC; Szymon
Repository: CRAN
Date/Publication: 2015-08-19 20:35:02

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New package subscore with initial version 1.1
Package: subscore
Title: Sub-Score Computing Functions in Classical Test Theory
Version: 1.1
Authors@R: c(person("Shenghai", "Dai", role = c("aut", "cre"), email = "dais@indiana.edu"), person("Xiaolin", "Wang", role = "aut"), person("Dubravka", "Svetina", role = "aut"))
Author: Shenghai Dai [aut, cre], Xiaolin Wang [aut], Dubravka Svetina [aut]
Maintainer: Shenghai Dai <dais@indiana.edu>
Description: Functions that compute sub-scores for a test using different methods in classical test theory (CTT).
Depends: R (>= 3.1.0), CTT, stats
NeedsCompilation: no
LazyData: true
License: GPL (>= 2)
Packaged: 2015-08-19 16:16:41 UTC; Kevin_DSH
Repository: CRAN
Date/Publication: 2015-08-19 18:44:44

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New package DIFboost with initial version 0.1
Package: DIFboost
Type: Package
Title: Detection of Differential Item Functioning (DIF) in Rasch Models by Boosting Techniques
Version: 0.1
Date: 2015-08-19
Imports: mboost, penalized, stabs
Author: Gunther Schauberger
Maintainer: Gunther Schauberger <gunther@stat.uni-muenchen.de>
Description: Performs detection of Differential Item Functioning using the method DIFboost as proposed in Schauberger and Tutz (2015): Detection of Differential item functioning in Rasch models by boosting techniques, British Journal of Mathematical and Statistical Psychology.
License: GPL-2
LazyLoad: yes
NeedsCompilation: no
Packaged: 2015-08-19 15:26:20 UTC; schaubergerg
Repository: CRAN
Date/Publication: 2015-08-19 17:38:58

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New package docopulae with initial version 0.2.1
Package: docopulae
Title: Optimal Designs for Copula Models
Version: 0.2.1
Authors@R: person("Andreas", "Rappold", email = "arappold@gmx.at", role = c("aut", "cre"))
Author: Andreas Rappold [aut, cre]
Maintainer: Andreas Rappold <arappold@gmx.at>
Description: A direct approach to optimal designs for copula models based on the Fisher information. Provides flexible functions for building joint PDFs, evaluating the Fisher information and finding Ds-optimal designs. It includes an extensible solution to summation and integration called 'nint', functions for transforming, plotting and comparing designs, as well as a set of tools for common low-level tasks.
Depends: R (>= 3.1.2)
Imports: graphics, grDevices, stats, utils
Suggests: copula, numDeriv, Deriv, cubature, SparseGrid, mvtnorm, testthat
URL: https://github.com/arappold/docopulae
BugReports: https://github.com/arappold/docopulae/issues
License: MIT + file LICENSE
LazyData: true
NeedsCompilation: no
Packaged: 2015-08-19 14:23:08 UTC; arappold
Repository: CRAN
Date/Publication: 2015-08-19 17:03:53

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New package simplr with initial version 0.1-0
Package: simplr
Version: 0.1-0
Title: Basic Symbolic Expression Simplification
Description: Basic tools for symbolic expression simplification, e.g. simplify(x*1) => x, or simplify(sin(x)^2+cos(x)^2) => 1. Based on the "Expression v3" (Ev3) 1.0 system by Leo Liberti.
Authors@R: c(person("Oliver", "Flasch", role = c("aut", "cre"), email = "of@sourcewerk.de"), person("Felix", "Gorschlueter", role = "aut", email = "fg@sourcewerk.de"), person("Leo", "Liberti", role = "ctb"))
Author: Oliver Flasch [aut, cre], Felix Gorschlueter [aut], Leo Liberti [ctb]
Maintainer: Oliver Flasch <of@sourcewerk.de>
License: CPL
ByteCompile: true
LazyData: true
Depends: R (>= 3.0.0), utils
Suggests: testthat
Date: 2015-08-19
NeedsCompilation: yes
Packaged: 2015-08-19 07:20:36 UTC; oflasch
Repository: CRAN
Date/Publication: 2015-08-19 13:32:14

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New package REGENT with initial version 1.0.6
Package: REGENT
Title: Risk Estimation for Genetic and Environmental Traits
Version: 1.0.6
Date: 2015-08-18
Author: Daniel J.M. Crouch, Graham H.M. Goddard & Cathryn M. Lewis
Maintainer: Daniel Crouch <djmcrouch@gmail.com>
Description: Produces population distribution of disease risk and statistical risk categories, and predicts risks for individuals with genotype information.
Depends: R (>= 2.14.0)
Packaged: 2015-08-19 09:15:41 UTC; dancrouch
License: GPL
NeedsCompilation: no
Repository: CRAN
Date/Publication: 2015-08-19 13:49:39

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New package plfMA with initial version 1.0
Package: plfMA
Type: Package
Title: A GUI to View, Design and Export Various Graphs of Data
Version: 1.0
Date: 2015-08-18
Author: Dhammapal Bharne
Maintainer: Dhammapal Bharne <dhammapalb@uohyd.ac.in>
Imports: gWidgets, limma, gWidgetsRGtk2, tcltk, cairoDevice, grDevices, graphics, stats
Description: Provides a graphical user interface for viewing and designing various types of graphs of the data. The graphs can be saved in different formats of an image.
License: GPL-2
LazyLoad: yes
NeedsCompilation: no
Packaged: 2015-08-19 10:18:48 UTC; dhamma
Repository: CRAN
Date/Publication: 2015-08-19 13:49:44

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New package STI with initial version 0.1
Package: STI
Type: Package
Title: Calculation of the Standardized Temperature Index
Version: 0.1
Date: 2015-08-18
Author: Marc Fasel [aut, cre]
Maintainer: Marc Fasel <marc.fasel@unige.ch>
Description: A set of functions for computing the Standardized Temperature Index (STI).
License: GPL-3
Imports: fitdistrplus, zoo
NeedsCompilation: no
Packaged: 2015-08-19 09:03:09 UTC; ISE
Repository: CRAN
Date/Publication: 2015-08-19 11:50:10

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New package qualvar with initial version 0.1.0
Package: qualvar
Type: Package
Title: Implements Indices of Qualitative Variation Proposed by Wilcox (1973)
Version: 0.1.0
Author: Joel Gombin
Maintainer: Joel Gombin <joel.gombin@gmail.com>
Description: Implements indices of qualitative variation proposed by Wilcox (1973).
License: GPL-3
LazyData: TRUE
Depends: R (>= 2.10)
Imports: stats
Suggests: knitr,dplyr,tidyr,ggplot2,GGally,DT
VignetteBuilder: knitr
NeedsCompilation: no
Packaged: 2015-08-18 23:25:57 UTC; joel
Repository: CRAN
Date/Publication: 2015-08-19 08:14:12

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Tue, 18 Aug 2015

New package pla with initial version 0.1
Package: pla
Type: Package
Title: Parallel Line Assays
Version: 0.1
Date: 2015-08-18
Author: Jens Henrik Badsberg
Depends: R (>= 3.1.0), methods
Maintainer: Jens Henrik Badsberg <pla2015@badsberg.eu>
Description: Parallel Line Assays: Completely randomized design, Randomized Block design, and Latin squares design. Balanced data are fitted as described in the Ph.Eur. In the presence of missing values complete data analysis can be performed (with computation of Fieller's confidence intervals for the estimated potency), or imputation of values can be applied. The package contains a script such that a pdf-document with a report of an analysis of an assay can be produced from an input file with data of the assay. Here no knowledge of R is needed by the user.
License: GPL (>= 2)
Packaged: 2015-08-18 21:58:53 UTC; Jens Henrik
NeedsCompilation: no
Repository: CRAN
Date/Publication: 2015-08-19 00:18:25

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