Sun, 23 Nov 2014

New package jiebaR with initial version 0.2
Package: jiebaR
Type: Package
Title: Chinese Text Segmentation
Description: Chinese text segmentation, keyword extraction and speech tagging For R.
Version: 0.2
Date: 2014-11-23
Author: Qin Wenfeng, and the authors of CppJieba for the included version of CppJieba
Maintainer: Qin Wenfeng
License: MIT + file LICENSE
Depends: R (>= 3.1)
Imports: Rcpp,methods
LinkingTo: Rcpp
Suggests: testthat, knitr
URL: https://github.com/qinwf/jiebaR/
BugReports: https://github.com/qinwf/jiebaR/issues
VignetteBuilder: knitr
NeedsCompilation: yes
Packaged: 2014-11-23 10:36:47 UTC; outwen
Repository: CRAN
Date/Publication: 2014-11-23 12:47:46

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New package matchingMarkets with initial version 0.1-2
Package: matchingMarkets
Version: 0.1-2
Depends: R (>= 2.15.2)
Imports: Rcpp (>= 0.11.2), lpSolve (>= 5.6.6), partitions
LinkingTo: Rcpp, RcppArmadillo
Date: 2014-08-14
Title: An R package for the analysis of stable matchings
Author: Thilo Klein
Maintainer: Thilo Klein
Description: This package implements a structural estimator to correct for the sample selection bias from observed outcomes in matching markets. It also contains R code for matching algorithms such as the deferred-acceptance algorithm for college admissions, the top-trading-cycles algorithm for house allocation and a partitioning linear program for the roommates problem.
URL: https://github.com/thiloklein/matchingMarkets
License: GPL (>= 2) | file LICENSE
Repository: CRAN
Repository/R-Forge/Project: matchingmarkets
Repository/R-Forge/Revision: 16
Repository/R-Forge/DateTimeStamp: 2014-11-22 23:10:11
Date/Publication: 2014-11-23 09:35:22
Packaged: 2014-11-22 23:25:30 UTC; rforge
NeedsCompilation: yes

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New package broom with initial version 0.3.4
Package: broom
Type: Package
Title: Convert Statistical Analysis Objects Into Tidy Data Frames
Version: 0.3.4
Date: 2014-09-11
Authors@R: as.person(c( "David Robinson [aut, cre]", "Matthieu Gomez [ctb]", "Boris Demeshev [ctb]", "Hadley Wickham [ctb]" ))
Maintainer: David Robinson
Description: Convert statistical analysis objects from R into tidy data frames, so that they can more easily be combined, reshaped and otherwise processed with tools like dplyr, tidyr and ggplot2. The package provides three S3 generics: tidy, which summarizes a model's statistical findings such as coefficients of a regression; augment, which adds columns to the original data such as predictions, residuals and cluster assignments; and glance, which provides a one-row summary of model-level statistics.
Imports: plyr, dplyr, tidyr, psych
Suggests: knitr, survival, glmnet, lfe, Lahman, MASS, sp, maps, maptools, multcomp, testthat, lme4, zoo, ggplot2
URL: http://github.com/dgrtwo/broom
BugReports: http://github.com/dgrtwo/broom/issues
VignetteBuilder: knitr
License: MIT + file LICENSE
Packaged: 2014-11-23 06:37:25 UTC; dgrtwo
Author: David Robinson [aut, cre], Matthieu Gomez [ctb], Boris Demeshev [ctb], Hadley Wickham [ctb]
NeedsCompilation: no
Repository: CRAN
Date/Publication: 2014-11-23 09:23:10

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Sat, 22 Nov 2014

New package MAVIS with initial version 0.2
Package: MAVIS
Type: Package
Title: Meta Analysis via Shiny
Version: 0.2
Date: 2014-11-21
Author: William Kyle Hamilton , Atsushi Mizumoto
Maintainer: William Kyle Hamilton
Description: Interactive shiny application for running a meta-analysis, provides support for both random effects and fixed effects models.
License: GPL-3
Imports: shiny, shinyAce, metafor, MAd, MAc, quantreg, ggplot2
LazyData: true
Packaged: 2014-11-22 13:29:53 UTC; Kyle
NeedsCompilation: no
Repository: CRAN
Date/Publication: 2014-11-22 19:06:45

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New package MATA with initial version 0.1
Package: MATA
Title: Model-Averaged Tail Area Wald (MATA-Wald) Confidence Interval
Version: 0.1
Authors@R: person('Daniel', 'Turek', email='dturek@maths.otago.ac.nz', role=c('aut','cre'))
Description: Provides a function for calculating the Model-Averaged Tail Area Wald (MATA-Wald) confidence interval, which is generated from single-model estimators and AIC model weights
Depends: R (>= 3.1.1)
License: GPL-2
LazyData: true
Packaged: 2014-11-22 01:27:25 UTC; dturek
Author: Daniel Turek [aut, cre]
Maintainer: Daniel Turek
NeedsCompilation: no
Repository: CRAN
Date/Publication: 2014-11-22 08:23:28

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New package EnsembleBase with initial version 0.7
Package: EnsembleBase
Type: Package
Title: Extensible Package for Parallel, Batch Training of Base Learners for Ensemble Modeling
Version: 0.7
Date: 2014-11-17
Author: Alireza S. Mahani, Mansour T.A. Sharabiani
Maintainer: Alireza S. Mahani
Description: Extensible S4 classes and methods for batch training of regression and classification algorithms such as Random Forest, Gradient Boosting Machine, Neural Network, Support Vector Machines, and K-Nearest Neighbors. These algorithms constitute a set of 'base learners', which can subsequently be combined together to form ensemble predictions. This package provides cross-validation wrappers to allow for downstream application of ensemble integration techniques, including best-error selection. All base learner estimation objects are retained, allowing for repeated prediction calls without the need for re-training. For large problems, an option is provided to save estimation objects to disk, along with prediction methods that utilize these objects. This allows users to train and predict with large ensembles of base learners without being constrained by system RAM.
License: GPL (>= 2)
Depends: kknn,methods
Imports: gbm,nnet,e1071,randomForest,doParallel,foreach
Packaged: 2014-11-22 01:26:03 UTC; amahani
NeedsCompilation: no
Repository: CRAN
Date/Publication: 2014-11-22 08:23:23

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Fri, 21 Nov 2014

New package sisus with initial version 3.9-13
Package: sisus
Version: 3.9-13
Date: 2014-08-26
Title: SISUS: Stable Isotope Sourcing using Sampling
Authors@R: person(given = c("Erik", "Barry"), family = "Erhardt", email = "erike@stat.unm.edu", role = c("aut", "cre"))
Author: Erik Barry Erhardt [aut, cre]
Maintainer: Erik Barry Erhardt
Description: SISUS for source partitioning using stable isotopes. SISUS reads in a specific Excel-like workbook and performs an IsoSource-type analysis by returning a sample of feasible solutions to p in the non-over constrained linear systems, b=Ap. Edit \file{sisus_*_template.xls} and input data values and run parameters. Run \code{\link{sisus.run}(filename)}. See output in current working directory.
Depends: R (>= 3.0.0)
Imports: MASS, RColorBrewer, coda, gdata, gtools, moments, polyapost, rcdd, stats
Suggests:
License: GPL (>= 2)
LazyLoad: yes
URL: http://StatAcumen.com/sisus
Packaged: 2014-11-21 04:19:50 UTC; erik
NeedsCompilation: no
Repository: CRAN
Date/Publication: 2014-11-22 02:13:02

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New package rvest with initial version 0.1.0
Package: rvest
Title: Easily Harvest (Scrape) Web Pages
Version: 0.1.0
Authors@R: 'Hadley Wickham [aut,cre]'
Description: Wrappers around the XML and httr packages to make it easy to download, then manipulation html pages.
Depends: R (>= 3.0.1)
Imports: httr (>= 0.5), XML, selectr, magrittr
Suggests: testthat, knitr, png, stringi (>= 0.3.1)
License: GPL-3
LazyData: true
VignetteBuilder: knitr
Packaged: 2014-11-21 19:03:34 UTC; hadley
Author: 'Hadley Wickham' [aut, cre]
Maintainer: 'Hadley Wickham'
NeedsCompilation: no
Repository: CRAN
Date/Publication: 2014-11-22 01:26:00

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New package proteomics with initial version 0.2
Package: proteomics
Version: 0.2
Date: 2014-11
Title: Statistical Analysis of High Throughput Proteomics Data
Description: Provides methods for making inference in isobaric labelled LC-MS/MS experiments, i.e. iTRAQ experiments. It provides a function that reasonably parses a CSV-export from Proteome Discoverer(TM) into a data frame that can be easily handled in R. Functions and methods are provided for quality control, filtering, norming, and the calculation of response variables for further analysis. The merging of multiple iTRAQ experiments with respect to a reference is also covered.
Author: Thomas W. D. Möbius
Maintainer: Thomas W. D. Möbius
URL: http://00tau.github.io/proteomics-in-r/
License: GPL-3
Imports: plyr, reshape2, ggplot2, foreach
LazyData: yes
ByteCompile: yes
Encoding: UTF-8
Collate: 'data-00-selection-from-PD.r' 'data-01-consolidation.r' 'data-02-merging.r' 'data-03-analysis.r' 'zzz.R'
Packaged: 2014-11-21 13:33:54 UTC; thomas.moebius
NeedsCompilation: no
Repository: CRAN
Date/Publication: 2014-11-22 01:30:39

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New package PASWR2 with initial version 1.0
Package: PASWR2
Type: Package
Title: Probability and Statistics with R, Second Edition
Version: 1.0
Date: 2014-11-21
Author: Alan T. Arnholt
Maintainer: Alan T. Arnholt
Description: Functions and data sets for the text Probability and Statistics with R, Second Edition
Depends: R (>= 2.10), ggplot2, lattice
Imports: e1071, grid
LazyData: TRUE
License: GPL-2
Packaged: 2014-11-21 20:58:17 UTC; alan
NeedsCompilation: no
Repository: CRAN
Date/Publication: 2014-11-22 02:02:01

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New package rfUtilities with initial version 1.0
Package: rfUtilities
Title: Random Forests model selection and performance evaluation
Version: 1.0
Date: 2014-11-09
Authors@R: as.person(c(person(family="Evans", given="Jeffrey S.", email="jeffrey_evans@tnc.org", role = c("aut", "cre")), person(family="Murphy", given="Melanie A.", role = c("aut"))))
Description: Utilities for Random Forest model selection, class balance correction, significance test, cross validation and probability partial plots.
Depends: R (>= 3.1.2), randomForest (>= 4.6-10), e1071 (>= 1.6-4)
Maintainer: Jeffrey S. Evans
License: GPL-3
URL: http://evansmurphy.wix.com/evansspatial
NeedsCompilation: no
Repository: CRAN
LazyData: true
Packaged: 2014-11-21 00:40:47 UTC; jevans
Author: Jeffrey S. Evans [aut, cre], Melanie A. Murphy [aut]
Date/Publication: 2014-11-21 07:56:12

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New package Ramd with initial version 0.2
Package: Ramd
Title: Tools For Managing File/function Dependencies In R
Description: A "define" function is provided that allows for inclusion of external scripts without polluting the global namespace and makes it easier to write modular R code.
Version: 0.2
Author: Robert Krzyzanowski
Maintainer: Robert Krzyzanowski
Depends: R (>= 3.0.0)
Suggests: testthat, testthatsomemore
License: GPL (>= 2)
LazyData: true
Packaged: 2014-11-21 00:25:59 UTC; robertk
NeedsCompilation: no
Repository: CRAN
Date/Publication: 2014-11-21 07:56:08

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New package interpretR with initial version 0.1.0
Package: interpretR
Type: Package
Title: Binary Classifier Interpretation functions: Partial Dependence Plots
Version: 0.1.0
Date: 2014-11-21
Depends: randomForest
Author: Michel Ballings and Dirk Van den Poel
Maintainer: Michel Ballings
Description: Create partial dependence plots for binary (cross-validated) classification models. Currently only binary classification models estimated with the packages randomForest and ada are supported.
License: GPL (>= 2)
Packaged: 2014-11-21 06:40:26 UTC; michelballings
NeedsCompilation: no
Repository: CRAN
Date/Publication: 2014-11-21 07:56:10

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Thu, 20 Nov 2014

New package db.r with initial version 0.1.0
Package: db.r
Type: Package
Version: 0.1.0
Date: 2014-11-17
Title: A Database Exploration Tool with Assisted Querying and Schema Exploration
Author: Greg Lamp
Maintainer: Greg Lamp
Depends: R (>= 2.12), methods
Imports: DBI, rjson (>= 0.2.14), stringr
Suggests: testthat (>= 0.2), RPostgreSQL (>= 0.2.14), RMySQL (>= 0.2.14), RSQLite (>= 1.0.0)
Description: db.r uses OOP style objects (with an API akin to C++, Python, Ruby, Javascript, etc.) to help make visualizing the tables, columns, and available operations on your database easier. db.r dynamically loads database schemas, execute queries, and manage credentials.
License: FreeBSD
URL: https://github.com/yhat/db.r
BugReports: https://github.com/yhat/db.r/issues
Packaged: 2014-11-20 23:05:21.040 UTC; glamp
NeedsCompilation: no
Repository: CRAN
Date/Publication: 2014-11-21 01:25:02

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New package treethresh with initial version 0.1-8
Package: treethresh
Version: 0.1-8
Date: 2014-11-20
Title: Methods for Tree-based Local Adaptive Thresholding
Author: Ludger Evers and Tim Heaton
Maintainer: Ludger Evers
Depends: R (>= 2.10), EbayesThresh, wavethresh
Description: This package implements TreeThresh, a locally adaptive version of EbayesThresh.
License: GPL (>= 3)
Repository: CRAN
Packaged: 2014-11-20 13:25:37 UTC; levers
NeedsCompilation: yes
Date/Publication: 2014-11-20 17:38:02

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New package sprinter with initial version 1.0.0
Package: sprinter
Type: Package
Title: Framework for Screening Prognostic Interactions
Version: 1.0.0
Date: 2014-04-11
Author: Isabell Hoffmann
Maintainer: Isabell Hoffmann
VignetteBuilder: knitr
Suggests: parallel, knitr
Depends: R (>= 3.0.0), randomForestSRC, CoxBoost, survival, LogicReg
Description: The main function of this package builds prognostic models for time-to-event settings that consider interactions by combining available statistical components. Furthermore, it provides a function for evaluating the relevance of the selected interactions by resampling techniques.
License: GPL-2
Packaged: 2014-11-20 16:07:06 UTC; hoffm005
NeedsCompilation: no
Repository: CRAN
Date/Publication: 2014-11-20 17:29:53

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New package bglm with initial version 1.0
Package: bglm
Type: Package
Title: Bayesian Estimation in Generalized Linear Models
Version: 1.0
Date: 2014-10-29
Author: Nicolas Molano-Gonzalez, Edilberto Cepeda-Cuervo
Maintainer: Nicolas Molano-Gonzalez
Description: Implementation of Bayesian estimation in generalized linear models following Gamerman (1997).
License: GPL-2
Depends: R (>= 3.0.2), mvtnorm, methods
Suggests: car, coda, faraway
Packaged: 2014-11-20 17:02:59 UTC; A80873475
NeedsCompilation: no
Repository: CRAN
Date/Publication: 2014-11-20 18:16:40

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New package statcheck with initial version 1.0.0
Package: statcheck
Type: Package
Title: Extract statistics from articles and recompute p values
Version: 1.0.0
Date: 2014-11-15
Author: Sacha Epskamp & Michele B. Nuijten
Maintainer: Michele B. Nuijten
Depends: R (>= 2.14.2), plyr
Description: Extract statistics from articles and recompute p values.
License: GPL-2
LazyLoad: yes
ByteCompile: yes
Packaged: 2014-11-18 12:25:05 UTC; mnuijten
NeedsCompilation: no
Repository: CRAN
Date/Publication: 2014-11-20 10:44:36

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New package frmhet with initial version 1.0
Package: frmhet
Type: Package
Title: Regression Analysis of Fractional Responses Under Unobserved Heterogeneity
Version: 1.0
Date: 2014-11-18
Author: Joaquim J.S. Ramalho
Maintainer: Joaquim J.S. Ramalho
Description: Estimation and specification analysis of fractional regression models with neglected heterogeneity and/or endogenous covariates.
License: GPL-2
Packaged: 2014-11-20 08:27:53 UTC; Joaquim
NeedsCompilation: no
Repository: CRAN
Date/Publication: 2014-11-20 10:32:36

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New package dfmta with initial version 1.0-3
Package: dfmta
Type: Package
Title: Phase I/II Adaptive Dose-Finding Design For MTA
Version: 1.0-3
Date: 2014-11-19
Author: Marie-Karelle Riviere and Jacques-Henri Jourdan
Maintainer: Marie-Karelle Riviere
Copyright: All files in src/CppBugs are copyright Whit Armstrong. All other files are copyright Institut de Recherches Internationales Servier and Institut national de la sante et de la recherche medicale.
Description: Phase I/II adaptive dose-finding design for single-agent Molecularly Targeted Agent (MTA), according to the paper "Phase I/II Dose-Finding Design for Molecularly Targeted Agent: Plateau Determination using Adaptive Randomization", Statistics in Medicine, 2014.
License: GPL-3
Depends: R (>= 3.1.0)
LinkingTo: RcppArmadillo (>= 0.3.910), BH (>= 1.54), RcppProgress (>= 0.1), Rcpp
Packaged: 2014-11-19 10:24:40 UTC; jjourdan
NeedsCompilation: yes
X-CRAN-Comment: Archived on 2014-11-18 as attempts to use a non-portable mix of C++11 and Fortran.
Repository: CRAN
Date/Publication: 2014-11-20 11:03:17

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New package curl with initial version 0.2
Package: curl
Type: Package
Title: A Connection Interface to Libcurl.
Version: 0.2
Date: 2014-11-19
Author: Jeroen Ooms
Maintainer: Jeroen Ooms
Description: The curl() function provides a drop-in replacement for base url() with better performance and support for http 2.0, ssl (https, ftps), gzip, deflate and other libcurl goodies. This interface is implemented using the RConnection API in order to support incremental processing of both binary and text streams. If you are looking for a more user friendly http client, try the RCurl or httr packages instead.
License: MIT + file LICENSE
SystemRequirements: libcurl, OpenSSL (e.g: libcurl4-openssl-dev)
URL: http://github.com/jeroenooms/curl
BugReports: http://github.com/jeroenooms/curl/issues
Packaged: 2014-11-20 07:59:04 UTC; jeroen
NeedsCompilation: yes
Repository: CRAN
Date/Publication: 2014-11-20 10:54:22

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New package oaxaca with initial version 0.1
Package: oaxaca
Type: Package
Title: Blinder-Oaxaca decomposition
Version: 0.1
Date: 2014-11-19
Author: Marek Hlavac
Maintainer: Marek Hlavac
Description: An implementation of the Blinder-Oaxaca decomposition for linear regression models.
License: GPL (>= 2)
Imports: Formula, ggplot2, reshape2
LazyData: yes
Collate: 'oaxaca-internal.R' 'oaxaca.R'
Packaged: 2014-11-20 03:13:39 UTC; Marek Hlavac
NeedsCompilation: no
Repository: CRAN
Date/Publication: 2014-11-20 08:13:35

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New package EGRET with initial version 2.0.0
Package: EGRET
Type: Package
Title: Exploration and Graphics for RivEr Trends (EGRET)
Version: 2.0.0
Date: 2014-10-13
Authors@R: c( person("Robert", "Hirsch", role = c("aut"), email = "rhirsch@usgs.gov"), person("Laura", "DeCicco", role = c("aut","cre"), email = "ldecicco@usgs.gov"))
Description: EGRET includes statistics and graphics for streamflow history, water quality trends, and the statistical modeling algorithm Weighted Regressions on Time, Discharge, and Season (WRTDS).
License: CC0
Depends: R (>= 3.0)
Imports: dataRetrieval, survival, fields, stats, lubridate, methods
Suggests: xtable, knitr, extrafont
LazyLoad: yes
LazyData: yes
VignetteBuilder: knitr
BuildVignettes: true
URL: http://pubs.usgs.gov/tm/04/a10/
Packaged: 2014-11-20 04:21:11 UTC; ldecicco
Author: Robert Hirsch [aut], Laura DeCicco [aut, cre]
Maintainer: Laura DeCicco
NeedsCompilation: no
Repository: CRAN
Date/Publication: 2014-11-20 08:05:16

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Wed, 19 Nov 2014

New package ilc with initial version 1.0
Package: ilc
Type: Package
Title: Lee-Carter Mortality Models using Iterative Fitting Algorithms
Version: 1.0
Date: 2014-11-19
Depends: R (>= 3.0.3), demography, rainbow, forecast, date
Imports: survival
Author: Zoltan Butt, Steven Haberman and Han Lin Shang
Maintainer: Zoltan Butt
Description: Fitting a class of Lee-Carter mortality models using iterative fitting algorithm.
License: GPL (>= 2)
LazyData: yes
LazyLoad: yes
LazyDataCompression: xz
Packaged: 2014-11-19 19:29:14 UTC; cbeit
NeedsCompilation: no
Repository: CRAN
Date/Publication: 2014-11-20 00:45:16

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New package PGICA with initial version 1.0
Package: PGICA
Type: Package
Title: Parallel Group ICA Algorithm
Version: 1.0
Date: 2014-11-12
Author: Shaojie Chen; Lei Huang; Huitong Qiu; Ani Eloyan; Brian Caffo; Ciprian Crainiceanu
Maintainer: Shaojie Chen
Description: A Group ICA Algorithm that can run in parallel on an SGE platform or multi-core PCs
License: GPL-2
Imports: parallel, fastICA
Packaged: 2014-11-19 16:15:49 UTC; Jason
NeedsCompilation: no
Repository: CRAN
Date/Publication: 2014-11-19 17:33:48

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New package SEAsic with initial version 0.1
Package: SEAsic
Title: Score Equity Assessment- summary index computation
Version: 0.1
Authors@R: c(person("Anne Corinne", "Huggins-Manley", role = c("aut", "cre"), email = "ahuggins@coe.ufl.edu"), person("Douglas", "Whitaker", role = "aut"))
Author: Anne Corinne Huggins-Manley [aut, cre], Douglas Whitaker [aut]
Maintainer: Anne Corinne Huggins-Manley
Description: This package conducts Score Equity Assessment (SEA; Dorans, 2004) by calculating and plotting multiple SEA indices as introduced by a variety of authors and summarized by Huggins and Penfield (2012).
Depends: R (>= 3.1.1)
License: GPL-3
LazyData: true
Packaged: 2014-11-19 01:32:05 UTC; Doug
NeedsCompilation: no
Repository: CRAN
Date/Publication: 2014-11-19 16:46:34

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New package QuACN with initial version 1.8.0
Package: QuACN
Type: Package
Title: QuACN: Quantitative Analysis of Complex Networks
Version: 1.8.0
Date: 2014-11-18
Author: Karl G. Kugler, Matthias Wieser, Matthias Dehmer, Michael Schutte, Laurin A.J. Mueller
Maintainer: Karl G. Kugler
Description: Quantitative Analysis of Complex Networks. This package offers a set of topological network measures to analyze complex Networks structurally.
License: LGPL
LazyLoad: yes
Depends: graph, RBGL, combinat
Suggests: Rmpfr
Imports: igraph
Packaged: 2014-11-19 13:47:45 UTC; karl.kugler
NeedsCompilation: yes
Repository: CRAN
Date/Publication: 2014-11-19 16:45:22

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New package acnr with initial version 0.2.4
Package: acnr
Type: Package
Title: Annotated Copy-Number Regions
Version: 0.2.4
Date: 2014-10-27
Author: Morgane Pierre-Jean and Pierre Neuvial
Maintainer: Morgane Pierre-Jean
Description: This data package contains SNP array data from different types of copy-number regions. These regions were identified manually by the authors of the package and may be used to generate realistic data sets with known truth.
License: LGPL (>= 2.1)
Depends: R (>= 2.10), R.utils, xtable
Repository: CRAN
Repository/R-Forge/Project: jointseg
Repository/R-Forge/Revision: 142
Repository/R-Forge/DateTimeStamp: 2014-11-17 15:27:15
Date/Publication: 2014-11-19 11:43:31
Packaged: 2014-11-17 15:45:28 UTC; rforge
NeedsCompilation: no

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Tue, 18 Nov 2014

New package analogueExtra with initial version 0.1-0
Package: analogueExtra
Type: Package
Title: Additional functions for use with the analogue package
Version: 0.1-0
Date: 18 Nov 2014
Depends: vegan3d (>= 0.65-0), analogue (>= 0.16-0)
Imports: rgl
Suggests: testthat
Authors@R: c(person(given = c("Gavin", "L."), family = "Simpson", role = c("aut", "cre"), email = "ucfagls@gmail.com"))
Maintainer: Gavin L. Simpson
BugReports: https://github.com/gavinsimpson/analogueExtra/issues
NeedsCompilation: yes
Description: Provides additional functionality for the analogue package that is not required by all users of the main package.
License: GPL-2
ByteCompile: true
URL: https://github.com/gavinsimpson/analogueExtra
Packaged: 2014-11-18 23:01:34.400 UTC; gavin
Author: Gavin L. Simpson [aut, cre]
Repository: CRAN
Date/Publication: 2014-11-19 02:11:54

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New package attribrisk with initial version 0.1
Package: attribrisk
Type: Package
Title: Population Attributable Risk
Version: 0.1
Date: 2014-03-06
Author: Louis Schenck, Elizabeth Atkinson, Cynthia Crowson, Terry Therneau
Maintainer: Louis Schenck
VignetteBuilder: knitr
Suggests: knitr,xtable,testthat
Depends: survival,boot
LazyData: Yes
LazyLoad: Yes
Description: Estimates population (etiological) attributable risk for unmatched, pair-matched or set-matched case-control designs and returns a list containing the estimated attributable risk, estimates of coefficients, and their standard errors, from the (conditional, If necessary) logistic regression used for estimating the relative risk.
License: LGPL (>= 2)
Packaged: 2014-11-18 19:57:43 UTC; m110631
NeedsCompilation: no
Repository: CRAN
Date/Publication: 2014-11-18 21:15:06

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New package ssd with initial version 0.2
Package: ssd
Type: Package
Title: Sample Size Determination (SSD) for Unordered Categorical Data
Version: 0.2
Date: 2014-11-10
Author: Junheng Ma and Jiayang Sun
Maintainer: Junheng Ma
Description: ssd calculates the sample size needed to detect the differences between two sets of unordered categorical data.
License: GPL-2
Packaged: 2014-11-18 14:05:32 UTC; Junheng Ma
NeedsCompilation: no
Repository: CRAN
Date/Publication: 2014-11-18 15:55:21

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New package selectspm with initial version 0.1
Package: selectspm
Type: Package
Title: Select point patterns models based on minimum contrast and AIC
Version: 0.1
Date: 2014-11-18
Author: Marcelino de la Cruz
Depends: spatstat, ecespa
Maintainer: Marcelino de la Cruz
Description: Package to fit and select point patterns models based on minimum contrast and AIC
License: GPL (>= 2)
LazyLoad: yes
Packaged: 2014-11-18 13:19:51 UTC; marcelino
NeedsCompilation: no
Repository: CRAN
Date/Publication: 2014-11-18 15:28:45

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New package MCS with initial version 0.1.0
Package: MCS
Type: Package
Title: Model Confidence Set Procedure
Version: 0.1.0
Date: 2014-10-20
Author: Leopoldo Catania & Mauro Bernardi
Maintainer: Leopoldo Catania
Depends: R(>= 3.0.1)
Description: Perform the model confidence set procedure of Hansen et al (2011).
License: GPL-2
Imports: methods
Packaged: 2014-11-18 11:00:54 UTC; Leopoldo Catania
NeedsCompilation: no
Repository: CRAN
Date/Publication: 2014-11-18 13:49:53

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New package ensurer with initial version 1.0
Package: ensurer
Type: Package
Title: Ensure values at runtime
Version: 1.0
Date: 2014-11-17
Author: Stefan Holst Milton Bache
Maintainer: Stefan Holst Milton Bache
Description: Add simple runtime contracts to R values. These ensure that values fulfil certain conditions and will raise appropriate errors if they do not.
License: MIT + file LICENSE
Suggests: magrittr, testthat, knitr
VignetteBuilder: knitr
ByteCompile: Yes
URL: https://github.com/smbache/ensurer
Packaged: 2014-11-17 21:48:45 UTC; shb
NeedsCompilation: no
Repository: CRAN
Date/Publication: 2014-11-18 13:27:13

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New package simPop with initial version 0.2.6
Package: simPop
Type: Package
Title: Simulation of Synthetic Populations for Survey Data Considering Auxiliary Information
Version: 0.2.6
Date: 2014-09-17
Author: Bernhard Meindl, Matthias Templ, Andreas Alfons, Alexander Kowarik, and with contributions from Mathieu Ribatet
Maintainer: Matthias Templ
Depends: R(>= 3.0.0), lattice, vcd, data.table
Imports: laeken, MASS, Rcpp (>= 0.11.0), e1071, parallel, nnet, doParallel, foreach, colorspace, methods
LinkingTo: Rcpp
Description: Simulate populations for surveys based on auxiliary data including model-based methods, calibration and combinatorial optimization tools. Developed with support of the International Household Survey Network, DFID Trust Fund TF011722
License: GPL (>= 2)
LazyLoad: yes
Packaged: 2014-11-17 12:53:32 UTC; templ
NeedsCompilation: yes
Repository: CRAN
Date/Publication: 2014-11-18 11:19:59

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Mon, 17 Nov 2014

New package wrassp with initial version 0.1.2
Package: wrassp
Version: 0.1.2
Title: Interface to the ASSP Library
Authors@R: as.person(c( "Raphael Winkelmann [aut, cre]", "Lasse Bombien [aut]", "Michel Scheffers [aut]"))
Description: wrassp is a wrapper around Michel Scheffers's libassp (Advanced Speech Signal Processor). The libassp library aims at providing functionality for handling speech signal files in most common audio formats and for performing analyses common in phonetic science/speech science. This includes the calculation of formants, fundamental frequency, root mean square, auto correlation, a variety of spectral analyses, zero crossing rate, filtering etc. This wrapper provides R with a large subset of libassp's signal processing functions and provides them to the user in a (hopefully) user-friendly manner.
Depends: R (>= 3.1.1)
VignetteBuilder: knitr
Suggests: compare(>= 0.2.4), knitr(>= 1.7), testthat(>= 0.7.1.99)
License: GPL (>= 3)
URL: https://github.com/IPS-LMU/wrassp
BugReports: https://github.com/IPS-LMU/wrassp/issues
Packaged: 2014-11-17 10:59:15 UTC; ripley
Author: Raphael Winkelmann [aut, cre], Lasse Bombien [aut], Michel Scheffers [aut]
Maintainer: Raphael Winkelmann
SystemRequirements: GNU make
NeedsCompilation: yes
Repository: CRAN
Date/Publication: 2014-11-17 11:59:34

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New package spThin with initial version 0.1.0
Package: spThin
Type: Package
Title: Functions for Spatial Thinning of Species Occurrence Records for Use in Ecological Models
Version: 0.1.0
Date: 2014-11-16
Author: Matthew E. Aiello-Lammens, Robert A. Boria, Aleksandar Radosavljevic, Bruno Vilela, and Robert P. Anderson
Maintainer: Matthew E. Aiello-Lammens
Description: spThin is a set of functions that can be used to spatially thin species occurrence data. The resulting thinned data can be used in ecological modeling, such as ecological niche modeling.
Depends: spam, grid, fields, knitr
LazyData: TRUE
License: GPL-3
VignetteBuilder: knitr
Packaged: 2014-11-17 02:17:13 UTC; mlammens
NeedsCompilation: no
Repository: CRAN
Date/Publication: 2014-11-17 08:57:55

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Sun, 16 Nov 2014

New package sla with initial version 0.1
Package: sla
Type: Package
Title: Two-Group Straight Line ANCOVA
Description: Provides directly interpretable estimated coefficients for four models in connection with the two-group straight line ANCOVA problem: (A) the full model, which requires the fitting of two intercepts and two slopes; (B) a reduced model, which requires the fitting of a single intercept and single slope; (C) a reduced model, which requires the fitting of two separate intercepts and a single, common slope; and (D) a reduced model, which requires the fitting of a single, common intercept and two separate slopes. The summary function provides tests of fit for the (null) hypotheses of: (1) equivalent data sets, (2) equivalent slopes, and (3) equivalent intercepts.
Version: 0.1
License: GPL-2
Authors@R: as.person(c( "W. Gregory Alvord [aut, cre]", "Nick Carchedi [aut]" ))
Depends: R (>= 3.0.2)
Suggests: MASS, car, ISwR, knitr
VignetteBuilder: knitr
Packaged: 2014-11-16 21:31:22 UTC; nicholasacarchedi
Author: W. Gregory Alvord [aut, cre], Nick Carchedi [aut]
Maintainer: W. Gregory Alvord
NeedsCompilation: no
Repository: CRAN
Date/Publication: 2014-11-17 00:54:34

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New package ISOpureR with initial version 1.0.4
Package: ISOpureR
Version: 1.0.4
Date: 2013-08-25
Title: Deconvolution of Tumour Profiles
Authors@R: c(person("Gerald Quon", role = "aut", email = "gquon@mit.edu"), person("Catalina V Anghel", role = c("aut", "trl"), email="Catalina Anghel@oicr.on.ca"), person("Syed Haider", role = "aut", email="Syed.Haider@oicr.on.ca"), person("Francis Nguyen", role = "aut"), person("Amit G Deshwar", role = "aut"), person("Quaid D Morris", role = "aut", email = "Quaid.Morris@utoronto.ca"), person("Paul C Boutros", role = c("aut", "cre"), email = "Paul.Boutros@oicr.on.ca"))
Author: Gerald Quon [aut], Catalina V Anghel [aut, trl], Syed Haider [aut], Francis Nguyen [aut], Amit G Deshwar [aut], Quaid D Morris [aut], Paul C Boutros [aut, cre]
Maintainer: Paul C Boutros
Depends: R (>= 3.1.1)
Suggests: knitr
VignetteBuilder: knitr
Description: Deconvolution of mixed tumour profiles into normal and cancer for each patient, using the ISOpure algorithm in Quon et al. Genome Medicine, 2013 5:29. Deconvolution requires mixed tumour profiles and a set of unmatched "basis" normal profiles.
License: GPL-2
Packaged: 2014-11-16 18:20:24 UTC; canghel
NeedsCompilation: no
Repository: CRAN
Date/Publication: 2014-11-16 22:15:14

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New package RcppAnnoy with initial version 0.0.2
Package: RcppAnnoy
Type: Package
Title: Rcpp Bindings for Annoy, a Library for Approximate Nearest Neighbors
Version: 0.0.2
Date: 2014-11-13
Author: Dirk Eddelbuettel
Maintainer: Dirk Eddelbuettel
Description: Annoy is a small C++ library for Approximate Nearest Neighbors written for efficient memory usage as well an ability to load from / save to disk. This package provides an R interface by relying on the Rcpp and BH packages, exposing the same interface as the original Python wrapper to Annoy. See https://github.com/spotify/annoy for more on Annoy. Annoy is released under Version 2.0 of the Apache License.
License: GPL (>= 2)
Imports: methods, Rcpp (>= 0.11.3)
LinkingTo: Rcpp, BH
Suggests: RUnit
OS_type: unix
Packaged: 2014-11-13 17:33:28.744301 UTC; edd
NeedsCompilation: yes
Repository: CRAN
Date/Publication: 2014-11-16 12:19:15

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New package vudc with initial version 1.0
Package: vudc
Type: Package
Title: Visualization of Univariate Data for Comparison
Version: 1.0
Date: 2014-11-15
Author: Csaba Farago
Maintainer: Csaba Farago
Description: Contains 2 new functions for visualization of univariate data: ccdplot and qddplot, along with input data.
License: GPL (>= 2)
Packaged: 2014-11-15 22:12:23 UTC; U521684
NeedsCompilation: no
Repository: CRAN
Date/Publication: 2014-11-16 08:49:31

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Sat, 15 Nov 2014

New package GUIProfiler with initial version 0.1.2
Package: GUIProfiler
Type: Package
Title: Profiler Graphical User Interface
Version: 0.1.2
Date: 2014-11-14
Author: Fernando de Villar and Angel Rubio
Depends: Nozzle.R1, MASS
Maintainer: Fernando de Villar
Description: GUIProfiler shows graphically the results of profiling R programs by tracking their execution time.
License: GPL
Packaged: 2014-11-14 23:31:50 UTC; Gonzalo
NeedsCompilation: no
Repository: CRAN
Date/Publication: 2014-11-15 08:15:18

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New package EMDomics with initial version 0.99.0
Package: EMDomics
Title: Earth Mover's Distance for Differential Analysis of Genomics Data
Description: The EMDomics algorithm is used to perform a supervised two-class analysis to measure the magnitude and statistical significance of observed continuous genomics data between two groups. Usually the data will be gene expression values from array-based or sequence-based experiments, but data from other types of experiments can also be analyzed (e.g. copy number variation). Traditional methods like Significance Analysis of Microarrays (SAM) and Linear Models for Microarray Data (LIMMA) use significance tests based on summary statistics (mean and standard deviation) of the two distributions. This approach lacks power to identify expression differences between groups that show high levels of intra-group heterogeneity. The Earth Mover's Distance (EMD) algorithm instead computes the "work" needed to transform one distribution into the other, thus providing a metric of the overall difference in shape between two distributions. Permutation of sample labels is used to generate q-values for the observed EMD scores.
Version: 0.99.0
Authors@R: c( person("Daniel", "Schmolze", email="emd@schmolze.com", role=c("aut", "cre")), person("Andrew", "Beck", email="abeck2@bidmc.harvard.edu", role="aut"), person("Sheida", "Nabavi", email="sheida_nabavi@hms.harvard.edu", role="aut"))
Maintainer: Daniel Schmolze
Depends: R (>= 2.14.0)
Imports: emdist, BiocParallel, matrixStats, ggplot2
Suggests: knitr
License: MIT + file LICENSE
LazyData: true
VignetteBuilder: knitr
Packaged: 2014-11-14 21:41:39 UTC; Daniel
Author: Daniel Schmolze [aut, cre], Andrew Beck [aut], Sheida Nabavi [aut]
NeedsCompilation: no
Repository: CRAN
Date/Publication: 2014-11-15 08:16:29

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Thu, 13 Nov 2014

New package toxtestD with initial version 2.0
Package: toxtestD
Type: Package
Title: Experimental design for binary toxicity tests
Version: 2.0
Date: 2014-11-12
Author: Nadia Keddig and Werner Wosniok
Maintainer: Nadia Keddig
Description: Calculates sample size and dose allocation for binary toxicity tests, using the Fish Embryo Toxicity Test as example. An optimal test design is obtained by running (i) spoD (calculate the number of individuals to test under control conditions), (ii) setD (estimate the minimal sample size per treatment given the users precision requirements) and (iii) doseD (construct an individual dose scheme).
License: GPL-2
Packaged: 2014-11-13 13:46:15 UTC; wwosniok
NeedsCompilation: no
Repository: CRAN
Date/Publication: 2014-11-13 17:22:05

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New package plotROC with initial version 1.2
Package: plotROC
Type: Package
Title: Generate Useful ROC Curve Charts for Print and Interactive Use
Version: 1.2
Date: 2014-11-12
Author: Michael C Sachs
Maintainer: Michael C Sachs
Description: Most ROC curve plots obscure the cutoff values and inhibit interpretation and comparison of multiple curves. This attempts to address those shortcomings by providing plotting and interactive tools. Functions are provided to generate an interactive ROC curve plot for web use, and print versions. A Shiny application implementing the functions is also included.
License: MIT + file LICENSE
URL: http://sachsmc.github.io/plotROC
Depends: R (>= 3.0.0)
Imports: grid, ggplot2, gridSVG, shiny
Suggests: ggthemes, knitr
VignetteBuilder: knitr
Packaged: 2014-11-13 14:30:53 UTC; sachsmc
NeedsCompilation: no
Repository: CRAN
Date/Publication: 2014-11-13 17:20:59

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New package DetR with initial version 0.0.1
Package: DetR
Type: Package
Title: Suite of Deterministic and Robust Algorithms for Linear Regression
Version: 0.0.1
Date: 2013-01-13
Suggests: mvtnorm
Imports: matrixStats, robustbase
Depends: R (>= 3.1.1),
LinkingTo: Rcpp (>= 0.10.5), RcppEigen (>= 0.3.2.2)
SystemRequirements: C++11
Description: DetLTS, DetMM (and DetS) Algorithms for Deterministic, Robust Linear Regression.
License: GPL (>= 2)
LazyLoad: yes
Authors@R: c(person( "Kaveh","Vakili" , role = c("aut", "cre"), email = "vakili.kaveh.email@gmail.com"), person("Mia", "Hubert", role = "ths", email = "mia.hubert@wis.kuleuven.be"), person("Peter", "Rousseeuw", role = "ths", email = "peter.rousseeuw@wis.kuleuven.be"))
Maintainer: Kaveh Vakili
Author: Kaveh Vakili [aut, cre], Mia Hubert [ths], Peter Rousseeuw [ths]
Packaged: 2014-11-13 13:26:20 UTC; kaveh
NeedsCompilation: yes
Repository: CRAN
Date/Publication: 2014-11-13 17:19:53

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New package nodiv with initial version 0.9.1
Package: nodiv
Type: Package
Title: Compares the distribution of sister clades through a phylogeny
Version: 0.9.1
Date: 2014-11-09
Author: Michael Krabbe Borregaard
Maintainer: Michael Krabbe Borregaard
Description: An implementation of the nodiv algorithm, (see Borregaard, M.K., Rahbek, C., Fjeldsaa, J., Parra, J.L., Whittaker, R.J. & Graham, C.H. 2014. Node-based analysis of species distributions. Methods in Ecology and Evolution). DOI: 10.1111/2041-210X.12283. Package for phylogenetic analysis of species distributions. The main function goes through each node in the phylogeny, compares the distributions of the two descendant nodes, and compares the result to a null model. This highlights nodes where major distributional divergence have occurred. The distributional divergence for these nodes is mapped using the SOS statistic.
Depends: R (>= 3.0), picante, raster, ape, sp, vegan
License: GPL-2
Packaged: 2014-11-13 09:50:41 UTC; michael
NeedsCompilation: no
Repository: CRAN
Date/Publication: 2014-11-13 14:24:58

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New package megaptera with initial version 1.0-0
Package: megaptera
Type: Package
Title: MEGAPhylogeny Techniques in R
Version: 1.0-0
Date: 2014-10-30
Author: Christoph Heibl
Maintainer: Christoph Heibl
Depends: R (>= 2.10), snowfall, ips
Imports: ape, seqinr, methods, RPostgreSQL, XML
Suggests: knitr
Description: Given a set of taxa and marker, the goal is build a complete and correct sequence alignment for phylogenetic analysis.
License: GPL (>= 2)
VignetteBuilder: knitr
Packaged: 2014-11-13 06:55:15 UTC; stoffi
NeedsCompilation: no
Repository: CRAN
Date/Publication: 2014-11-13 08:44:56

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New package ega with initial version 1.0.0
Package: ega
Title: Error Grid Analysis
Version: 1.0.0
Authors@R: c( person("Daniel", "Schmolze", email="ega@schmolze.com", role=c("aut", "cre")) )
Maintainer: Daniel Schmolze
Description: Functions for assigning Clarke or Parkes (Consensus) error grid zones to blood glucose values, and for plotting both types of error grids.
Depends: R (>= 2.14.0)
Imports: ggplot2
Suggests: knitr
License: MIT + file LICENSE
LazyData: true
VignetteBuilder: knitr
Packaged: 2014-11-13 03:06:49 UTC; daniel
Author: Daniel Schmolze [aut, cre]
NeedsCompilation: no
Repository: CRAN
Date/Publication: 2014-11-13 07:43:13

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New package bde with initial version 1.0
Package: bde
Type: Package
Title: Bounded Density Estimation
Version: 1.0
Date: 2013-06-19
Author: Guzman Santafe, Borja Calvo, Aritz Perez and Jose A. Lozano
Maintainer: Guzman Santafe
Depends: R (>= 2.0)
Imports: methods,shiny,ggplot2
Description: This package includes S4 classes to deal with different estimators for densities in bounded domains. That is, a collection of different approaches to estimate densities defined within the interval [lower.limit, upper.limit], where lower.limit and upper.limit are values that can be set by the user.
License: GPL-2
LazyData: TRUE
Collate: BoundedDensity.R KernelDensity.R Chen99Kernel.R MicroBetaChen99Kernel.R MacroBetaChen99Kernel.R BoundaryKernel.R NoBoundaryKernel.R NormalizedBoundaryKernel.R Muller91BoundaryKernel.R JonesCorrectionMuller91BoundaryKernel.R Muller94BoundaryKernel.R JonesCorrectionMuller94BoundaryKernel.R BernsteinPolynomials.R Vitale.R BrVitale.R KakizawaB1.R KakizawaB2.R KakizawaB3.R HirukawaJLNKernel.R HirukawaTSKernel.R MacroBetaHirukawaJLNKernel.R MacroBetaHirukawaTSKernel.R utils.R bde.R
Packaged: 2014-11-12 17:42:43 UTC; gsantafe
NeedsCompilation: no
Repository: CRAN
Date/Publication: 2014-11-13 07:38:50

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Wed, 12 Nov 2014

New package tufterhandout with initial version 1.2
Package: tufterhandout
Type: Package
Title: Tufte-style html document format for rmarkdown
Version: 1.2
Date: 2014-11-07
Author: Michael Sachs
Maintainer: Michael Sachs
Description: Custom template and output formats for use with rmarkdown. Produce Edward Tufte-style handouts in html formats with full support for rmarkdown features
License: MIT + file LICENSE
URL: http://sachsmc.github.io/tufterhandout
Depends: rmarkdown, knitr
Suggests: ggplot2
VignetteBuilder: knitr
Packaged: 2014-11-12 16:04:09 UTC; sachsmc
NeedsCompilation: no
Repository: CRAN
Date/Publication: 2014-11-12 18:28:26

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Tue, 11 Nov 2014

New package GLDreg with initial version 1.0
Package: GLDreg
Type: Package
Title: Fit GLD Regression Model and GLD Quantile Regression Model to Empirical Data
Version: 1.0
Date: 2014-11-11
Author: Steve Su, with contributions from: R core team for qqgld.default function.
Maintainer: Steve Su
Depends: GLDEX (>= 2.0.0.1)
Description: Owing to the rich shapes of GLDs, GLD standard/quantile regression is a competitive flexible model compared to standard/quantile regression. The proposed method has some major advantages: 1) it provides a reference line which is very robust to outliers with the attractive property of zero mean residuals and 2) it gives a unified, elegant quantile regression model from the reference line with smooth regression coefficients across different quantiles. The goodness of fit of the proposed model can be assessed via QQ plots and the Kolmogorov-Smirnov test, to ensure the appropriateness of the statistical inference under consideration. Statistical distributions of coefficients of the GLD regression line are obtained using simulation, and interval estimates are obtained directly from simulated data.
License: GPL (>= 3)
Packaged: 2014-11-10 21:54:01 UTC; Steve
NeedsCompilation: no
Repository: CRAN
Date/Publication: 2014-11-11 12:23:43

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Mon, 10 Nov 2014

New package tumblR with initial version 1.0
Package: tumblR
Type: Package
Title: Tumblr API
Version: 1.0
Date: 2014-09-27
Author: Andrea Capozio
Maintainer: Andrea Capozio
Description: This package provides an R-interface to the Tumblr web API (see Tumblr v2 API on https://www.tumblr.com/docs/en/api/v2). Tumblr is a microblogging platform and social networking website (https://www.tumblr.com).
Depends: R (>= 3.0.0), httr (>= 0.4), RCurl (>= 1.95-4.3), ROAuth (>= 0.9.3), stringr (>= 0.6.2), RJSONIO (>= 1.3-0)
License: Artistic-2.0
Collate: 'avatar.R' 'dashboard.R' 'def.postParams.R' 'follow.R' 'followers.R' 'http.connection.R' 'info.blog.R' 'like.post.R' 'likes.R' 'post.R' 'post.delete.R' 'post.edit.R' 'post.reblog.R' 'posts.R' 'posts.draft.R' 'posts.queue.R' 'posts.submission.R' 'tagged.R' 'unfollow.R' 'unlike.post.R' 'user.following.R' 'user.info.R' 'user.likes.R' 'compact.R' 'nonce.R' 'oauth.encode.R' 'oauth.encode1.R' 'sort.names.R'
Packaged: 2014-11-10 20:43:21 UTC; Andrea
NeedsCompilation: no
Repository: CRAN
Date/Publication: 2014-11-10 22:46:49

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New package episplineDensity with initial version 0.0-1
Package: episplineDensity
Version: 0.0-1
Date: 2014-11-08
Title: Density Estimation with Soft Information by Exponential Epi-splines
Author: Sam Buttrey, Johannes Royset, and Roger Wets, based on the Matlab code of Royset and Wets
Maintainer: Sam Buttrey
Depends: nloptr, pracma
Description: Produce one-dimensional density estimates using exponential epi-splines. The user may incorporate soft information, by imposing constraints that (i) require unimodality; (ii) require that the density be monotone non-increase or non-decreasing; (iii) put upper bounds on first or second moments; (iv) bound the density's values at mesh points; (v) require that the estimate be continuous or continuously differentiable; and more.
License: GPL-2
Packaged: 2014-11-10 15:51:07 UTC; sebuttre
NeedsCompilation: no
Repository: CRAN
Date/Publication: 2014-11-10 18:33:30

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New package D2C with initial version 1.0
Package: D2C
Type: Package
Title: Predicting Causal Direction from Dependency Features
Version: 1.0
Date: 2014-06-10
Author: Gianluca Bontempi, Catharina Olsen, Maxime Flauder
Maintainer: Catharina Olsen
Description: The relationship between statistical dependency and causality lies at the heart of all statistical approaches to causal inference. The D2C package implements a supervised machine learning approach to infer the existence of a directed causal link between two variables in multivariate settings with n>2 variables. The approach relies on the asymmetry of some conditional (in)dependence relations between the members of the Markov blankets of two variables causally connected. The D2C algorithm predicts the existence of a direct causal link between two variables in a multivariate setting by (i) creating a set of of features of the relationship based on asymmetric descriptors of the multivariate dependency and (ii) using a classifier to learn a mapping between the features and the presence of a causal link
License: Artistic-2.0
Depends: randomForest
Imports: gRbase, lazy, RBGL, MASS, corpcor, infotheo, methods, Rgraphviz
LazyData: true
Packaged: 2014-11-10 14:36:35 UTC; cat
NeedsCompilation: no
Repository: CRAN
Date/Publication: 2014-11-10 18:07:50

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New package ionflows with initial version 1.1
Package: ionflows
Type: Package
Title: Calculate the Number of Required Flows for Semiconductor Sequencing
Version: 1.1
Date: 2014-10-21
Author: Michael Bockmayr and Jan Budczies
Depends: Biostrings
Maintainer: Michael Bockmayr
Description: Two methods for calculation of the number of required flows for semiconductor sequencing: 1. Using a simulation, the number of flows can be calculated for a concrete list of amplicons. 2. An exact combinatorial model is evaluated to calculate the number of flows for a random ensemble of sequences.
License: GPL-3
Encoding: UTF-8
Packaged: 2014-11-09 23:24:42 UTC; mlb47
NeedsCompilation: no
Repository: CRAN
Date/Publication: 2014-11-10 09:55:34

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Sun, 09 Nov 2014

New package PHYLOGR with initial version 1.0.8
Package: PHYLOGR
Version: 1.0.8
Date: 2014/11/09
Title: Functions for Phylogenetically Based Statistical Analyses
Author: Ramon Diaz-Uriarte and Theodore Garland, Jr
Maintainer: Ramon Diaz-Uriarte
Depends: R(>= 1.8.1)
Description: Manipulation and analysis of phylogenetically simulated data sets and phylogenetically based analyses using GLS.
License: GPL (>= 2)
URL: http://ligarto.org/rdiaz
Packaged: 2014-11-09 14:42:16.696 UTC; ramon
NeedsCompilation: no
Repository: CRAN
Date/Publication: 2014-11-10 01:39:39

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New package EBglmnet with initial version 3.4
Package: EBglmnet
Type: Package
Title: Empirical Bayesian Lasso (EBlasso) and Elastic Net (EBEN) Methods for Generalized Linear Models
Version: 3.4
Date: 2014-11-08
Author: Anhui Huang
Maintainer: Anhui Huang
Description: Empirical Bayesian Lasso and Elastic Net algorithms are variable selection and estimation methods that outperform other state-of-the-art methods such as Lasso and Elastic Net methods.
License: GPL
Packaged: 2014-11-10 00:32:11 UTC; Anhui
Depends: R (>= 2.10)
NeedsCompilation: yes
Repository: CRAN
Date/Publication: 2014-11-10 01:36:41

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New package ips with initial version 0.0-7
Package: ips
Version: 0.0-7
Date: 2014-11-09
Title: Interfaces to Phylogenetic Software in R
Author: Christoph Heibl
Maintainer: Christoph Heibl
Depends: ape, colorspace, XML
Description: This package provides functions that wrap popular phylogenetic software for sequence alignment, masking of sequence alignments, and estimation of phylogenies and ancestral character states.
License: GPL (>= 2)
Packaged: 2014-11-09 21:46:41 UTC; stoffi
NeedsCompilation: no
Repository: CRAN
Date/Publication: 2014-11-10 00:38:44

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New package basicspace with initial version 0.13
Package: basicspace
Version: 0.13
Date: 2014-11-08
Title: Recovering a Basic Space from Issue Scales
Author: Keith Poole , Howard Rosenthal , Jeffrey Lewis , James Lo and Royce Carroll
Maintainer: James Lo
Depends: R (>= 3.0.0), tools (>= 2.0.0)
Description: Conducts Aldrich-McKelvey and Blackbox Scaling to Recover Latent Dimensions of Judgment
License: GPL-2
Repository: CRAN
Date/Publication: 2014-11-09 13:21:07
Packaged: 2014-11-09 01:21:42 UTC; jameslo
NeedsCompilation: yes

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New package riskSimul with initial version 0.1
Package: riskSimul
Type: Package
Title: Risk Quantification for Stock Portfolios under the T-Copula Model
Version: 0.1
Date: 2014-07-11
Author: Wolfgang Hormann, Ismail Basoglu
Maintainer: Wolfgang Hormann
Description: Implements efficient simulation procedures to estimate tail loss probabilities and conditional excess for a stock portfolio. The log-returns are assumed to follow a t-copula model with generalized hyperbolic or t marginals.
Depends: Runuran
License: GPL-2 | GPL-3
Copyright: Wolfgang Hormann
Packaged: 2014-11-09 08:18:36 UTC; Wolfgang
NeedsCompilation: no
Repository: CRAN
Date/Publication: 2014-11-09 13:06:05

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New package DOvalidation with initial version 0.1.0
Package: DOvalidation
Type: Package
Title: Local Linear Hazard Estimation with Do-Validated and Cross-Validated Bandwidths
Version: 0.1.0
Date: 2014-11-09
Author: M.L. Gamiz, E. Mammen, M.D. Martinez-Miranda and J.P. Nielsen
Maintainer: Maria Dolores Martinez-Miranda
Description: Local linear estimator for the univariate hazard (hazard rate) and bandwidth parameter selection using the do-validation method and the standard least squares cross-validation method.
License: GPL-2
Packaged: 2014-11-09 09:21:17 UTC; Usuario
NeedsCompilation: no
Repository: CRAN
Date/Publication: 2014-11-09 13:07:14

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New package MetaLandSim with initial version 0.1
Package: MetaLandSim
Type: Package
Title: Metapopulation and Landscape Simulation
Version: 0.1
Date: 2014-10-08
Depends: R (>= 2.10), tcltk, spatstat, stats, sp
Imports: Biobase, e1071, fgui, grDevices, graphics, googleVis, maptools, rgeos, spgrass6, raster
Suggests: rasterVis
Author: Frederico Mestre, Fernando Canovas, Ricardo Pita, Antonio Mira, Pedro Beja.
Maintainer: Frederico Mestre
Description: Tools to generate random landscape graphs, evaluate species occurrence in dynamic landscapes, simulate future landscape occupation and evaluate range expansion when new empty patches are available (e.g. as a result of climate change).
License: GPL (>= 2)
Repository: CRAN
Packaged: 2014-11-09 00:19:18 UTC; Frederico
NeedsCompilation: no
Date/Publication: 2014-11-09 09:35:48

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Sat, 08 Nov 2014

New package sudokuAlt with initial version 0.1-2
Package: sudokuAlt
Type: Package
Title: Tools for Making, Displaying and Spoiling Sudoku Games
Version: 0.1-2
Date: 2014-11-08
Suggests: sudoku
Imports: graphics
Author: Bill Venables
Maintainer: Bill Venables
Description: Tools for making, retrieving, displaying and solving sudoku games. This package is an alternative to the earlier sudoku-solver package, 'sudoku'. The present package uses a slightly different algorithm, has a simpler coding and presents a few more sugar tools, such as plot and print methods.
License: GPL (>= 2)
Packaged: 2014-11-08 02:04:16 UTC; bill
NeedsCompilation: no
Repository: CRAN
Date/Publication: 2014-11-08 17:10:19

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New package OptionPricing with initial version 0.1
Package: OptionPricing
Type: Package
Title: Option Pricing with Efficient Simulation Algorithms
Version: 0.1
Date: 2014-11-07
Author: Kemal Dingec, Wolfgang Hormann
Maintainer: Wolfgang Hormann
Description: Efficient Monte Carlo Algorithms for the price and the sensitivities of Asian and European Options under Geometric Brownian Motion.
License: GPL-2 | GPL-3
Copyright: Wolfgang Hormann
Packaged: 2014-11-08 07:35:25 UTC; Wolfgang
NeedsCompilation: no
Repository: CRAN
Date/Publication: 2014-11-08 17:10:10

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Fri, 07 Nov 2014

New package pez with initial version 0.9-0
Package: pez
Type: Package
Title: Phylogenetics for the Environmental Sciences
Version: 0.9-0
Date: 2014-09-16
Author: William D. Pearse, Marc W. Cadotte, Jeannine Cavender-Bares, Caroline Tucker, Steve C. Walker, Matthew R. Helmus
Maintainer: William D. Pearse
Description: Eco-phylogenetic and community phylogenetic analyses. Keeps community ecological and phylogenetic data matched up and comparable using 'comparative.comm' objects. Wrappers for common community phylogenetic indices ('shape', 'evenness', 'dispersion', and 'dissimilarity' metrics). Implementation of Cavender-Bares (2004) correlation of phylogenetic and ecological matrices ('fingerprint.regression'). Simulation of null assemblages, traits, and phylogenies ('scape', 'sim.meta.comm').
License: GPL-3
VignetteBuilder: knitr
Suggests: knitr (>= 1.6), plotrix (>= 3.5-7), methods (>= 3.1.1)
Imports: caper (>= 0.5-2), picante (>= 1.6-2), quantreg (>= 5.05), mvtnorm (>= 1.0-0), vegan (>= 2.0-10), PVR (>= 0.2.1), ade4 (>= 1.6-2), apTreeshape (>= 1.4-5), FD (>= 1.0-12)
Depends: ape (>= 3.1-4)
Packaged: 2014-11-07 17:22:53 UTC; will
NeedsCompilation: no
Repository: CRAN
Date/Publication: 2014-11-08 01:44:04

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New package LinCal with initial version 1.0
Package: LinCal
Title: Static Univariate Frequentist and Bayesian Linear Calibration
Version: 1.0
Author: Derick L. Rivers and Edward L. Boone
Maintainer: Derick L. Rivers
Description: Estimate and confidence/credible intervals for an unknown regressor x0 given an observed y0.
Depends: R (>= 3.0.2)
License: GPL-2
LazyData: yes
NeedsCompilation: no
Repository: CRAN
Packaged: 2014-11-07 18:06:26 UTC; derickrivers
Date/Publication: 2014-11-08 02:12:12

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New package dummy with initial version 0.1.0
Package: dummy
Type: Package
Title: Automatic Creation of Dummies with Support for Predictive Modeling
Version: 0.1.0
Date: 2014-11-05
Author: Michel Ballings and Dirk Van den Poel
Maintainer: Michel Ballings
Description: Efficiently create dummies of all factors and character vectors in a data frame. Support is included for learning the categories on one data set (e.g., a training set) and deploying them on another (e.g., a test set).
License: GPL (>= 2)
Packaged: 2014-11-06 19:07:03 UTC; michelballings
NeedsCompilation: no
Repository: CRAN
Date/Publication: 2014-11-08 02:11:28

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New package wikipediatrend with initial version 0.2.0
Package: wikipediatrend
Title: Public Subject Attention via Wikipedia Page Access Statistics
Date: 2014-11-06
Version: 0.2.0
Maintainer: Peter Meissner
Authors@R: as.person(c( "Peter Meissner [aut, cre]", "R Core team [ctb] (wp_date derived from base package as.Date)" ))
Description: Public attention is an interesting field of study. The internet not only allows to access information in no time on virtually any subject but via page access statistics gathered by website authors the subject of attention as well can be studied. For the omnipresent Wikipedia those access statistics are made available via stats.grok.se a server providing the information as file dumps as well as as web API. This package provides an easy to use, consistent and traffic minimizing approach to make those data accessible within R.
Depends: R (>= 3.0.0)
Imports: jsonlite (>= 0.9.13), stringr (>= 0.6.2), RCurl (>= 1.95-4.3)
License: GPL (>= 2)
LazyData: true
URL: https://github.com/petermeissner/wikipediatrend
Packaged: 2014-11-07 10:18:22 UTC; Peter
Author: Peter Meissner [aut, cre], R Core team [ctb] (wp_date derived from base package as.Date)
NeedsCompilation: no
Repository: CRAN
Date/Publication: 2014-11-07 12:15:55

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New package PANDA with initial version 0.9.9
Package: PANDA
Type: Package
Title: Preferential Attachment Based Common Neighbor Distribution Derived Functional Associations
Version: 0.9.9
Date: 2014-11-07
Author: Hua Li and Pan Tong
Maintainer: Hua Li
Description: PANDA (Preferential Attachment based common Neighbor Distribution derived Associations) is designed to perform the following tasks in PPI networks: (1) identify significantly functionally associated protein pairs, (2) predict GO terms and KEGG pathways for proteins, (3) make a cluster of proteins based on the significant protein pairs, (4) identify subclusters whose members are enriched in KEGG pathways. For other types of biological networks, (1) and (3) can still be performed.
License: Artistic-2.0
LazyData: true
Imports: GO.db, cluster
Packaged: 2014-11-07 09:43:18 UTC; kaixinsjtu
NeedsCompilation: no
Repository: CRAN
Date/Publication: 2014-11-07 11:17:28

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New package heritability with initial version 1.0
Package: heritability
Type: Package
Title: Marker-based Estimation of Heritability Using Individual Plant or Plot Data
Version: 1.0
Date: 2014-10-30
Author: Willem Kruijer, with a contribution from Ian White (the internal function pin). Contains data collected by Padraic Flood and Rik Kooke.
Maintainer: Willem Kruijer
Suggests: synbreed
Description: implements marker-based estimation of heritability when observations on genetically identical replicates are available. These can be either observations on individual plants or plot-level data in a field trial. Heritability can then be estimated using a mixed model for the individual plant or plot data. For comparison, also mixed-model based estimation using genotypic means and estimation of repeatability with ANOVA are implemented. For illustration the package contains several datasets for the model species Arabidopsis thaliana.
License: GPL-3
URL: https://sites.google.com/site/wkruijer/
Packaged: 2014-11-07 09:13:07 UTC; kruij025
Depends: R (>= 2.10)
NeedsCompilation: no
Repository: CRAN
Date/Publication: 2014-11-07 11:17:32

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New package ggswissmaps with initial version 0.0.2
Package: ggswissmaps
Title: Offers Various Swiss Maps as ggplot2 Objects
Description: Offers various swiss maps as ggplot2 objects and gives the possibility to add layers of data on the maps. Data are publicly available from the swiss federal statistical office.
Version: 0.0.2
License: GPL-2
Author: Sandro Petrillo Burri
Maintainer: Sandro Petrillo Burri
Depends: R (>= 2.10), ggplot2
Suggests: plyr, reshape2, testthat
Packaged: 2014-11-06 23:47:28 UTC; gibo
NeedsCompilation: no
Repository: CRAN
Date/Publication: 2014-11-07 10:03:02

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Thu, 06 Nov 2014

New package dfcomb with initial version 1.0
Package: dfcomb
Type: Package
Title: Phase I/II Adaptive Dose-Finding Design for Combination Studies
Version: 1.0
Date: 2014-11-03
Author: Marie-Karelle Riviere and Jacques-Henri Jourdan
Maintainer: Marie-Karelle Riviere
Copyright: src/arms.c and src/arms.h are copyright Wally Gilks. All other files are copyright Institut de Recherches Internationales Servier and Institut national de la sante et de la recherche medicale.
Description: Phase I/II adaptive dose-finding design for combination studies. Several methods are proposed depending on the type of combinations: (1) the combination of two cytotoxic agents, and (2) combination of a molecularly targeted agent with a cytotoxic agent.
License: GPL-3
Depends: R (>= 3.1.0)
LinkingTo: BH (>= 1.54), RcppProgress (>= 0.1), Rcpp
Packaged: 2014-11-05 14:51:24 UTC; jjourdan
NeedsCompilation: yes
Repository: CRAN
Date/Publication: 2014-11-06 12:22:55

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New package PLSbiplot1 with initial version 0.1
Package: PLSbiplot1
Title: The Partial Least Squares (PLS) Biplot
Description: Principal Component Analysis (PCA) biplots, Covariance monoplots and biplots, Partial Least Squares (PLS) biplots, Partial Least Squares for Generalized Linear Model (PLS-GLM) biplots, Sparse Partial Least Squares (SPLS) biplots and Sparse Partial Least Squares for Generalized Linear Model (SPLS-GLM) biplots.
URL: https://www.dropbox.com/sh/wr66u07t1vjm9da/AACg_E4h8MvgOHuCXk69yDIya
Version: 0.1
Authors@R: c(person("Opeoluwa F.","Oyedele", role = c("aut", "cre"), email = "OpeoluwaOyedele@gmail.com"), person("Sugnet", "Gardner-Lubbe", role = "aut"))
Maintainer: Opeoluwa F. Oyedele
Depends: R (>= 3.0.0)
Suggests: chemometrics, MASS, mixOmics, mvabund, pls, plsgenomics, robustbase, SensoMineR
License: GPL-2
LazyData: NA
Packaged: 2014-11-05 18:50:20 UTC; User
Author: Opeoluwa F. Oyedele [aut, cre], Sugnet Gardner-Lubbe [aut]
NeedsCompilation: no
Repository: CRAN
Date/Publication: 2014-11-06 01:34:43

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Wed, 05 Nov 2014

New package poplite with initial version 0.99.5
Package: poplite
Version: 0.99.5
Date: 2014-6-17
Title: Tools for simplifying the population and querying of SQLite databases
Author: Daniel Bottomly
Maintainer: Daniel Bottomly
Depends: R (>= 3.1), methods, dplyr (>= 0.3.0.2)
Imports: DBI, igraph, lazyeval, RSQLite (>= 1.0.0)
Suggests: testthat, Lahman, VariantAnnotation
Description: Provides objects and accompanying methods which facilitates populating and querying SQLite databases.
License: GPL-3
Collate: tableSchemaList.R Database.R external_funcs.R
Packaged: 2014-11-05 22:58:20 UTC; bottomly
NeedsCompilation: no
Repository: CRAN
Date/Publication: 2014-11-06 01:25:06

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New package CpGFilter with initial version 1.0
Package: CpGFilter
Type: Package
Title: CpG Filtering Method Based on Intra-class Correlation Coefficients
Version: 1.0
Date: 2014-10-31
Author: Jun Chen
Maintainer: Jun Chen
Description: Filter CpGs based on Intra-class Correlation Coefficients (ICCs) when replicates are available. ICCs are calculated by fitting linear mixed effects models to all samples including the un-replicated samples. Including the large number of un-replicated samples improves ICC estimates dramatically. The method accommodates any replicate design.
License: GPL-2
Packaged: 2014-11-05 22:37:14 UTC; m123485
NeedsCompilation: no
Repository: CRAN
Date/Publication: 2014-11-06 01:21:42

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New package xtal with initial version 1.0
Package: xtal
Type: Package
Title: Crystallization Toolset
Version: 1.0
Date: 2014-10-31
Author: Qingan Sun, Xiaojun Li
Maintainer: Qingan Sun
Description: Tool set for crystallographer to design and analyze crystallization experiments of ribosome from Mycobacterium tuberculosis
License: GPL-2 | GPL-3
Depends: methods,graphics, grDevices, stats, utils
LazyLoad: yes
Packaged: 2014-11-05 22:05:33 UTC; Home
NeedsCompilation: no
Repository: CRAN
Date/Publication: 2014-11-06 00:42:08

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New package lpme with initial version 1.0.0
Package: lpme
Type: Package
Title: Local Polynomial Estimator in Measurement Error Models
Version: 1.0.0
Date: 2014-11-4
Author: Haiming Zhou and Xianzheng Huang
Maintainer: Haiming Zhou
Description: Two local polynomial estimators for solving the errors-in-variables problem: one is in Delaigle, Fan, and Carroll (2009), and one is in Huang and Zhou (2014+). The SIMEX bandwidth selection method is also provided for both estimators.
License: GPL (>= 2)
Depends: R (>= 3.0.2)
Imports: Rcpp (>= 0.11.1)
LinkingTo: Rcpp, RcppArmadillo (>= 0.4.300.0)
Packaged: 2014-11-05 01:14:57 UTC; Haiming
NeedsCompilation: yes
Repository: CRAN
Date/Publication: 2014-11-06 01:03:45

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New package anim.plots with initial version 0.1
Package: anim.plots
Type: Package
Title: Simple Animated Plots For R
Version: 0.1
Date: 2014-10-27
Author: David Hugh-Jones
Maintainer: David Hugh-Jones
Description: Simple animated versions of basic R plots, using the 'animation' package. Includes animated versions of plot, barplot, persp, contour, filled.contour, hist, curve, points, lines, text, symbols, segments, and arrows.
License: GPL-2
LazyData: TRUE
VignetteBuilder: knitr
Imports: animation
Suggests: maps, knitr
Packaged: 2014-11-05 18:25:43 UTC; david
NeedsCompilation: no
Repository: CRAN
Date/Publication: 2014-11-06 00:46:21

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New package Watersheds with initial version 1.0
Package: Watersheds
Type: Package
Title: Spatial Watershed Aggregation and Spatial Drainage Network Analysis
Version: 1.0
Date: 2013-08-10
Author: J.A. Torres
Maintainer: J. A. Torres
Description: Methods for watersheds aggregation and spatial drainage network analysis.
License: GPL (>= 2)
Depends: R (>= 2.10), methods, sp, maptools, rgeos, lattice, splancs
Packaged: 2014-11-05 14:03:40 UTC; j_mata01
NeedsCompilation: no
Repository: CRAN
Date/Publication: 2014-11-05 20:25:43

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New package ionflows with initial version 1.0
Package: ionflows
Type: Package
Title: Calculate the Number of Required Flows for Semiconductor Sequencing
Version: 1.0
Date: 2014-10-21
Author: Michael Bockmayr and Jan Budczies
Depends: Biostrings, BSgenome.Hsapiens.UCSC.hg19
Maintainer: Michael Bockmayr
Description: Two methods for calculation of the number of required flows for semiconductor sequencing: 1. Using a simulation, the number of flows can be calculated for a concrete list of amplicons. 2. An exact combinatorial model is evaluated to calculate the number of flows for a random ensemble of sequences.
License: GPL-3
Encoding: UTF-8
Packaged: 2014-11-05 14:10:54 UTC; mlb47
NeedsCompilation: no
Repository: CRAN
Date/Publication: 2014-11-05 20:32:17

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New package geocodeHERE with initial version 0.1
Package: geocodeHERE
Title: Wrapper for Nokia's HERE Geocoding API
Version: 0.1
Author: "Cory Nissen [aut, cre]"
Maintainer: Cory Nissen
Description: Wrapper for Nokia's HERE geocoding API. See http://here.com/ for more information on HERE and https://developer.here.com/geocoder for more information on the HERE geocoding API.
Depends: R (>= 3.1.1)
License: MIT + file LICENSE
LazyData: true
Imports: httr
URL: https://github.com/corynissen/geocodeHERE
Packaged: 2014-11-05 14:19:01 UTC; c
NeedsCompilation: no
Repository: CRAN
Date/Publication: 2014-11-05 20:32:15

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New package hcp with initial version 0.1
Package: hcp
Type: Package
Title: Change Point Estimation for Regression with Heteroscedastic Data
Description: Estimation of parameters in 3-segment (i.e. 2 change-point) regression models with heteroscedastic variances is provided based on both likelihood and hybrid Bayesian approaches, with and without continuity constraints at the change points.
Version: 0.1
Author: Stephen J.Ganocy, Jiayang Sun, and Yulei Wang
Maintainer: Yulei Wang
License: GPL-2 | GPL-3
LazyData: true
Packaged: 2014-11-05 01:46:40 UTC; Yulei
NeedsCompilation: no
Repository: CRAN
Date/Publication: 2014-11-05 14:14:28

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Tue, 04 Nov 2014

New package prc with initial version 2014.11-4
Package: prc
LazyLoad: yes
LazyData: yes
Version: 2014.11-4
Title: Paired Response Curve
Author: Youyi Fong
Maintainer: Youyi Fong
Depends: R (>= 3.0.0), kyotil, nlme
Suggests: RUnit, Rmosek, Matrix
Imports:
Additional_repositories: http://download.mosek.com/R/7
Description: Estimation, prediction and testing for analyzing serial dilution assay data using paired response curve.
License: GPL (>= 2)
Packaged: 2014-11-04 22:17:50 UTC; yfong
NeedsCompilation: yes
Repository: CRAN
Date/Publication: 2014-11-05 01:16:53

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New package dfmta with initial version 1.0
Package: dfmta
Type: Package
Title: Phase I/II Adaptive Dose-Finding Design For MTA
Version: 1.0
Date: 2014-11-03
Author: Marie-Karelle Riviere and Jacques-Henri Jourdan
Maintainer: Marie-Karelle Riviere
Copyright: All files in src/CppBugs are copyright Whit Armstrong. All other files are copyright Institut de Recherches Internationales Servier and Institut national de la sante et de la recherche medicale.
Description: Phase I/II adaptive dose-finding design for single-agent Molecularly Targeted Agent (MTA), according to the paper "Phase I/II Dose-Finding Design for Molecularly Targeted Agent: Plateau Determination using Adaptive Randomization", Statistics in Medicine, 2014.
License: GPL-3
Depends: R (>= 3.1.0)
LinkingTo: RcppArmadillo (>= 0.3.910), BH (>= 1.54), RcppProgress (>= 0.1), Rcpp
Packaged: 2014-11-04 23:30:49 UTC; jjourdan
NeedsCompilation: yes
Repository: CRAN
Date/Publication: 2014-11-05 01:20:37

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New package geesmv with initial version 1.0
Package: geesmv
Type: Package
Title: Modified Variance Estimators for Generalized Estimating Equations
Version: 1.0
Date: 2014-10-29
Author: Ming Wang
Maintainer: Zheng Li
Depends: R (>= 3.0.2)
Imports: nlme, gee, matrixcalc, MASS
Description: Generalized estimating equations with the original sandwich variance estimator proposed by Liang and Zeger (1986), and eight types of more recent modified variance estimators for improving the finite small-sample performance.
License: GPL (>= 3)
Packaged: 2014-11-04 16:49:42 UTC; Joe
NeedsCompilation: no
Repository: CRAN
Date/Publication: 2014-11-05 00:28:48

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New package aoos with initial version 0.0.1
Package: aoos
Type: Package
Title: Another Object Orientation System
Version: 0.0.1
Date: 2014-11-03
Author: Sebastian Warnholz
Maintainer: Sebastian Warnholz
BugReports: https://github.com/wahani/aoos/issues
Description: Another implementation of object-orientation in R. Private and public methods are part of the class-definition. Allows to write a lot of small methods as part of the class definition without cluttering the object.
Depends: methods
License: GPL-3 | file LICENSE
Suggests: testthat
Packaged: 2014-11-04 16:35:49 UTC; sebastian
NeedsCompilation: no
Repository: CRAN
Date/Publication: 2014-11-05 00:23:26

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New package WhiteStripe with initial version 1.0
Package: WhiteStripe
Type: Package
Title: Whitestripe White Matter Normalization for Magnetic Resonance Images
Version: 1.0
Date: 2014-04-28
Author: Taki Shinohara, John Muschelli
Maintainer: John Muschelli
Description: Whitestripe normalization from Shinohara et. al does For intensity-based normalization of T1 and T2 images, where normal appearing white matter performs well, but requires segmentation. This method performs white matter mean and standard deviation estimates on data that has been rigidly-registered to the MNI template and uses histogram-based methods.
License: GPL-2
Depends: R (>= 2.10)
Imports: oro.nifti, mgcv, fslr
BugReports: https://github.com/muschellij2/WhiteStripe/issues
Packaged: 2014-11-04 02:13:59 UTC; johnmuschelli
NeedsCompilation: no
Repository: CRAN
Date/Publication: 2014-11-04 22:31:43

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New package FAMILY with initial version 0.1.18
Package: FAMILY
Type: Package
Title: A Convex Formulation for Modeling Interactions with Strong Heredity
Version: 0.1.18
Date: 2014-09-23
Author: Asad Haris
Maintainer: Asad Haris
Description: Fits penalized linear and logistic regression models with pairwise interaction terms.
License: GPL (>= 2)
Imports: pheatmap, pROC
Packaged: 2014-11-04 02:43:22 UTC; Asad
NeedsCompilation: no
Repository: CRAN
Date/Publication: 2014-11-04 22:29:52

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Mon, 03 Nov 2014

New package spareserver with initial version 1.0.0
Package: spareserver
Title: Client side load balancing
Version: 1.0.0
Authors@R: "Gabor Csardi [aut, cre]"
Description: Client size load balancing. Decide which server to connect to, based on previous response times, and configuration.
License: MIT + file LICENSE
LazyData: true
URL: https://github.com/metacran/spareserver
BugReports: https://github.com/metacran/spareserver/issues
Imports: assertthat, pingr, httr
Suggests: testthat
Depends: methods
Packaged: 2014-11-03 22:14:21 UTC; gaborcsardi
Author: "Gabor Csardi" [aut, cre]
Maintainer: "Gabor Csardi"
NeedsCompilation: no
Repository: CRAN
Date/Publication: 2014-11-04 01:41:52

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New package snht with initial version 1.0
Package: snht
Type: Package
Title: Standard Normal Homogeneity Test
Version: 1.0
Date: 2014-09-23
Imports: MASS, zoo, plyr, reshape
Author: Josh Browning
Maintainer: Josh Browning
Description: Robust and non-robust SNHT tests for changepoint detection.
License: GPL-3
Packaged: 2014-11-03 18:00:50 UTC; jbrownin
NeedsCompilation: no
Repository: CRAN
Date/Publication: 2014-11-04 01:13:15

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New package TRSbook with initial version 1.0
Package: TRSbook
Type: Package
Title: Functions and Datasets to Accompany the Book "The R Software: Fundamentals of Programming and Statistical Analysis"
Version: 1.0
Date: 2014-02-04
Author: Lafaye de Micheaux Pierre, Drouilhet Remy, Liquet Benoit
Maintainer: P Lafaye de Micheaux
Description: Functions and datasets for the reader of the book "The R Software: Fundamentals of Programming and Statistical Analysis".
License: GPL (>= 2)
LazyLoad: yes
Depends: xtable, RColorBrewer, gdata, IndependenceTests
Packaged: 2014-11-03 22:16:07 UTC; lafaye
NeedsCompilation: yes
Repository: CRAN
Date/Publication: 2014-11-04 00:12:10

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New package sdcTarget with initial version 0.9-11
Package: sdcTarget
Type: Package
Title: Statistical Disclosure Control Substitution Matrix Calculator
Author: Emmanuel Lazaridis [aut, cre]
Maintainer: Emmanuel Lazaridis
Depends: R (>= 2.10.0), methods, magic, foreach, parallel, doParallel, tuple (>= 0.4-02)
Description: Classes and methods to calculate and evaluate target matrices for statistical disclosure control.
License: CC BY-NC 4.0
Encoding: UTF-8
LazyLoad: no
URL: http://statistics.lazaridis.eu
Authors@R: c(person(given = "Emmanuel", family = "Lazaridis", email="emmanuel@lazaridis.eu", role = c("aut", "cre")))
Version: 0.9-11
Date: 2014-11-03
Packaged: 2014-11-03 11:02:40 UTC; james
NeedsCompilation: no
Repository: CRAN
Date/Publication: 2014-11-03 15:16:24

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New package ScoreGGUM with initial version 1.0
Package: ScoreGGUM
Type: Package
Title: Score Persons Using the Generalized Graded Unfolding Model
Version: 1.0
Date: 2014-10-22
Author: David R. King and James S. Roberts
Maintainer: David R. King
Description: Estimate GGUM Person Parameters Using Pre-Calibrated Item Parameters and Binary or Graded Disagree-Agree Responses
License: GPL (>= 2)
LazyLoad: yes
Repository: CRAN
Packaged: 2014-11-03 09:12:43 UTC; Lab_User
NeedsCompilation: no
Date/Publication: 2014-11-03 14:56:45

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New package MGL with initial version 1.0
Package: MGL
Type: Package
Title: Module Graphical Lasso
Version: 1.0
Date: 2014-11-01
Author: Safiye Celik
Maintainer: Safiye Celik
Description: An aggressive dimensionality reduction and network estimation technique for a high-dimensional Gaussian graphical model (GGM). Please refer to: Efficient Dimensionality Reduction for High-Dimensional Network Estimation, Safiye Celik, Benjamin A. Logsdon, Su-In Lee, Proceedings of The 31st International Conference on Machine Learning, 2014, p. 1953--1961.
License: GPL (>= 2)
URL: https://sites.google.com/a/cs.washington.edu/mgl/
Packaged: 2014-11-03 08:43:38 UTC; Administrator
NeedsCompilation: yes
Repository: CRAN
Date/Publication: 2014-11-03 13:39:58

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New package BayesTree with initial version 0.3-1.2
Package: BayesTree
Version: 0.3-1.2
Date: 2014-11-2
Title: Bayesian Additive Regression Trees
Author: Hugh Chipman , Robert McCulloch
Maintainer: Robert McCulloch
Imports: nnet
Description: Implementation of BART:Bayesian Additive Regression Trees, Chipman, George, McCulloch (2010)
License: GPL (>= 2)
URL: http://www.r-project.org, http://www.rob-mcculloch.org
Packaged: 2014-11-03 01:47:21 UTC; rem
Repository: CRAN
Date/Publication: 2014-11-03 02:50:56
NeedsCompilation: yes

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Sun, 02 Nov 2014

New package tagcloud with initial version 0.4
Package: tagcloud
Type: Package
Title: Tag Clouds
Version: 0.4
Date: 2014-11-02
Author: January Weiner
Maintainer: January Weiner
Description: Tag and word clouds
License: GPL (>= 2)
LazyLoad: yes
Depends: Rcpp (>= 0.9.4)
Imports: RColorBrewer
Suggests: extrafont
LinkingTo: Rcpp
Packaged: 2014-11-02 13:26:06.596 UTC; january
NeedsCompilation: yes
Repository: CRAN
Date/Publication: 2014-11-03 00:53:28

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New package CombinePValue with initial version 1.0
Package: CombinePValue
Type: Package
Title: Combine a Vector of Correlated p-values
Version: 1.0
Date: 2014-11-02
Author: Hongying Dai
Maintainer: Hongying Dai
Description: We offer two statistical tests to combine p-values: selfcontained.test vs competitive.test. The goal is to test whether a vector of pvalues are jointly significant when we combine them together.
License: GPL-3
Packaged: 2014-11-02 20:59:56 UTC; hongying
NeedsCompilation: no
Repository: CRAN
Date/Publication: 2014-11-03 00:32:55

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Sat, 01 Nov 2014

New package disposables with initial version 1.0.0
Package: disposables
Title: Create Disposable R Packages for Testing
Version: 1.0.0
Authors@R: "Gabor Csardi [aut, cre]"
Description: Create disposable R packages for testing. You can create, install and load multiple R packages with a single function call, and then unload, uninstall and destroy them with another function call. This is handy when testing how some R code or an R package behaves with respect to other packages.
License: MIT + file LICENSE
LazyData: true
URL: https://github.com/gaborcsardi/disposables
BugReports: https://github.com/gaborcsardi/disposables
Suggests: testthat
Depends: methods
Packaged: 2014-11-01 19:51:19 UTC; gaborcsardi
Author: "Gabor Csardi" [aut, cre]
Maintainer: "Gabor Csardi"
NeedsCompilation: no
Repository: CRAN
Date/Publication: 2014-11-02 00:52:00

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New package myTAI with initial version 0.0.1
Package: myTAI
Type: Package
Title: A framework to perform phylotranscriptomics analyses for Evolutionary Developmental Biology research
Version: 0.0.1
Date: 2014-10-25
Author: Hajk-Georg Drost
Maintainer: Hajk-Georg Drost
Description: The present collection of functions can be used to perform phylotranscriptomics analyses to investigate phenomena within the field of Evolutionary Developmental Biology
License: GPL-3
VignetteBuilder: knitr
NeedsCompilation: yes
Depends: R (>= 3.1.1)
Imports: Rcpp (>= 0.11.3), nortest (>= 1.0-2), fitdistrplus (>= 1.0-2), parallel (>= 3.1.1), foreach (>= 1.4.2), iterators (>= 1.0.7)
Suggests: knitr (>= 1.6), rmarkdown (>= 0.3.3), devtools (>= 1.6.1)
LinkingTo: Rcpp
Packaged: 2014-11-01 18:47:49 UTC; Hajk
Repository: CRAN
Date/Publication: 2014-11-01 23:53:07

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