Tue, 26 Jul 2016

New package StableEstim with initial version 2.1
Package: StableEstim
Type: Package
Title: Estimate the Four Parameters of Stable Laws using Different Methods
Version: 2.1
Date: 2016-07-26
Depends: R(>= 2.10.0),methods,Matrix,stats,utils,stabledist,testthat
Imports: numDeriv, xtable, fBasics, MASS
Author: Tarak Kharrat, Georgi N. Boshnakov
Maintainer: Georgi N. Boshnakov <georgi.boshnakov@manchester.ac.uk>
Description: Estimate the four parameters of stable laws using maximum likelihood method, generalised method of moments with finite and continuum number of points, iterative Koutrouvelis regression and Kogon-McCulloch method. The asymptotic properties of the estimators (covariance matrix, confidence intervals) are also provided.
License: GPL (>= 2)
Collate: cte.R ExternalPackageInterface.R ToolsFct.R Interpolation.R RegularInverse.R stableCF.R CFbasedMoment.R WeightingMatrix.R eCFfirstZero.R tSchemes.R MultiDimIntegral.R InitialGuess.R KoutParamsEstim.R MLParamsEstim.R GMMParamsEstim.R CgmmParamsEstim.R OutputFileManip.R CheckPoint.R BestT_Class.R Estim_Class.R Estim.R Simulation.R BestT.R
NeedsCompilation: no
Packaged: 2016-07-26 18:19:43 UTC; mcbssgb2
Repository: CRAN
Date/Publication: 2016-07-27 03:50:56

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New package RcppHoney with initial version 0.1.0
Package: RcppHoney
Type: Package
Title: Iterator Based Expression Template Expansion of Standard Operators
Version: 0.1.0
Author: Daniel C. Dillon
Maintainer: Daniel C. Dillon <dcdillon@gmail.com>
Description: Creates an easy way to use expression templates with R semantics on any iterator based structure.
License: GPL (>= 2)
LazyData: TRUE
Imports: Rcpp (>= 0.12.5)
LinkingTo: Rcpp
NeedsCompilation: yes
Packaged: 2016-07-26 20:06:27 UTC; dcdillon
Repository: CRAN
Date/Publication: 2016-07-27 03:40:51

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New package microseq with initial version 1.0
Package: microseq
Type: Package
Title: Basic Biological Sequence Analysis
Version: 1.0
Date: 2016-07-26
Author: Lars Snipen, Kristian Hovde Liland
Maintainer: Lars Snipen <lars.snipen@nmbu.no>
Description: Basic functions for microbial sequence data analysis. In some cases the functions use the corresponding functions in the 'Biostrings' package from Bioconductor <http://www.bioconductor.org/>, but provide an easier interface.
License: GPL-2
RoxygenNote: 5.0.1
Depends: R (>= 3.2.1)
Imports: Biostrings
NeedsCompilation: no
Packaged: 2016-07-26 07:33:56 UTC; larssn
Repository: CRAN
Date/Publication: 2016-07-27 03:49:42

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New package measurements with initial version 1.0.0
Package: measurements
Type: Package
Title: Tools for Units of Measurement
Version: 1.0.0
Date: 2016-07-26
Author: Matthew A. Birk
Maintainer: Matthew A. Birk <matthewabirk@gmail.com>
Description: Collection of tools to make working with physical measurements easier. Convert between metric and imperial units, or calculate a dimension's unknown value from other dimensions' measurements.
License: GPL-3
Encoding: UTF-8
RoxygenNote: 5.0.1
NeedsCompilation: no
Packaged: 2016-07-26 20:15:48 UTC; matthewbirk
Repository: CRAN
Date/Publication: 2016-07-27 03:38:30

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New package l0ara with initial version 0.1.2
Package: l0ara
Type: Package
Title: Sparse Generalized Linear Model with L0 Approximation for Feature Selection
Version: 0.1.2
Date: 2016-06-28
Author: Wenchuan Guo, Zhenqiu Liu, Fengzhu Sun, Dermot P McGovern, Sandra Orsulic
Maintainer: Wenchuan Guo <wguo007@ucr.edu>
Description: An efficient procedure for feature selection for generalized linear models with L0 penalty, including linear, logistic, Poisson, gamma, inverse Gaussian regression. Adaptive ridge algorithms are used to fit the models.
License: GPL-2
Imports: Rcpp (>= 0.12.6)
LinkingTo: Rcpp, RcppArmadillo
LazyData: TRUE
RoxygenNote: 5.0.1
NeedsCompilation: yes
Packaged: 2016-07-26 23:42:59 UTC; Wenchuan
Repository: CRAN
Date/Publication: 2016-07-27 03:45:52

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New package GEEaSPU with initial version 1.0.1
Package: GEEaSPU
Type: Package
Title: Adaptive Association Tests for Multiple Phenotypes using Generalized Estimating Equations (GEE)
Version: 1.0.1
Date: 2016-07-26
Author: Junghi Kim and Wei Pan
Maintainer: Junghi Kim <junghikim0@gmail.com>
Description: Provides adaptive association tests for SNP level, gene level and pathway level analyses.
License: GNU General Public License (>= 3)
Depends: R (>= 2.10), gee, stats
Imports: Rcpp (>= 0.12.6)
LinkingTo: Rcpp, RcppArmadillo
RoxygenNote: 5.0.1
NeedsCompilation: yes
Packaged: 2016-07-26 16:53:50 UTC; junghikim
Repository: CRAN
Date/Publication: 2016-07-27 03:39:48

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New package FIT with initial version 0.0.1
Package: FIT
Title: Transcriptomic Dynamics Models in Field Conditions
Version: 0.0.1
Authors@R: c(person("Koji", "Iwayama", email = "fieldtranscriptome@gmail.com", role = c("cre")), person("Yuri", "Aisaka", email = "aisaka@lpixel.net", role = c("aut")))
Description: Provides functionality for constructing statistical models of transcriptomic dynamics in field conditions. It further offers the function to predict expression of a gene given the attributes of samples and meteorological data.
Depends: R (>= 3.2.2)
Imports: methods, Rcpp (>= 0.11.2), XML, gglasso, MASS
License: MPL (>= 2) | file LICENSE
LazyData: true
LinkingTo: Rcpp, RcppEigen (>= 0.3.2.1.2)
SystemRequirements: C++11
NeedsCompilation: yes
RoxygenNote: 5.0.1
Packaged: 2016-07-25 02:07:37 UTC; ec2-user
Author: Koji Iwayama [cre], Yuri Aisaka [aut]
Maintainer: Koji Iwayama <fieldtranscriptome@gmail.com>
Suggests: knitr, rmarkdown
VignetteBuilder: knitr
Repository: CRAN
Date/Publication: 2016-07-27 03:44:52

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New package oec with initial version 1.0
Package: oec
Type: Package
Title: The Observatory of Economic Complexity
Version: 1.0
Date: 2016-07-25
Author: Mauricio Vargas S. <mauriciovargas@ug.uchile.cl>
Maintainer: Mauricio Vargas S. <mauriciovargas@ug.uchile.cl>
URL: http://atlas.media.mit.edu/en/, https://github.com/pachamaltese/oec/
Description: Use The Observatory of Economic Complexity's API from R console to obtain international trade data to create spreadsheets (csv format) and D3Plus visualizations.
License: MIT + file LICENSE
LazyData: TRUE
Depends: curl, data.table, jsonlite, plyr, servr
RoxygenNote: 5.0.1
NeedsCompilation: no
Packaged: 2016-07-26 02:01:58 UTC; pacha
Repository: CRAN
Date/Publication: 2016-07-26 12:12:18

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New package MethyBayes with initial version 0.1.0
Package: MethyBayes
Title: Full Bayesian Partition Model for Identifying Differentially Methylated Loci
Version: 0.1.0
Authors@R: c( person("Henan", "Wang", email = "hwg58@mail.missouri.edu", role = c("cre", "aut")), person("Yuchen", "Wang", email = "ycwang0712@gmail.com", role = "aut") )
Description: A full Bayesian partition model is implemented to identify differentially methylated loci from single-nucleotide resolution sequencing data.
Depends: R (>= 3.2)
License: GPL-2
RoxygenNote: 5.0.1
NeedsCompilation: yes
Packaged: 2016-07-26 03:29:26 UTC; yuchen
Author: Henan Wang [cre, aut], Yuchen Wang [aut]
Maintainer: Henan Wang <hwg58@mail.missouri.edu>
Repository: CRAN
Date/Publication: 2016-07-26 12:30:19

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New package intubate with initial version 0.99.1
Package: intubate
Type: Package
Title: Interface to Popular R Functions for Data Science Pipelines
Version: 0.99.1
Date: 2016-07-26
Author: Roberto Bertolusso
Maintainer: Roberto Bertolusso <rbertolusso@rice.edu>
Description: Interface to popular R functions with formulas, such as 'lm', so they can be included painlessly in data science pipelines implemented by 'magrittr' with the operator %>%.
License: GPL (>= 2)
Imports: graphics, magrittr, MASS, stats
NeedsCompilation: no
Packaged: 2016-07-26 05:48:07 UTC; mame
Repository: CRAN
Date/Publication: 2016-07-26 12:34:36

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New package denoiseR with initial version 1.0
Package: denoiseR
Version: 1.0
Date: 2016-07-09
Type: Package
Title: Regularized Low Rank Matrix Estimation
Author: Julie Josse, Sylvain Sardy, Stefan Wager
Maintainer: Julie Josse <julie.josserennes@gmail.com>
Imports: irlba, Matrix, FactoMineR, stats
Suggests: missMDA
Description: Estimate a low rank matrix from noisy data using singular values thresholding and shrinking functions. Impute missing values with matrix completion.
License: GPL (>= 2)
RoxygenNote: 5.0.1
Depends: R(>= 2.10)
NeedsCompilation: no
Packaged: 2016-07-10 10:39:33 UTC; josse
Repository: CRAN
Date/Publication: 2016-07-26 12:40:37

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Mon, 25 Jul 2016

New package jacpop with initial version 0.5
Package: jacpop
Type: Package
Title: Jaccard Index for Population Structure Identification
Description: Uses the Jaccard similarity index to account for population structure in sequencing studies. This method was specifically designed to detect population stratification based on rare variants, hence it will be especially useful in rare variant analysis.
Version: 0.5
Author: Dmitry Prokopenko
Maintainer: Dmitry Prokopenko <dmitry.prokopenko@uni-bonn.de>
License: GPL-3
LazyData: TRUE
RoxygenNote: 5.0.1
NeedsCompilation: no
Packaged: 2016-07-25 22:22:57 UTC; Dmitry
Repository: CRAN
Date/Publication: 2016-07-26 02:11:59

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New package Infusion with initial version 1.0.0
Package: Infusion
Type: Package
Title: Inference Using Simulation
Description: Implements functions for simulation-based inference. In particular, implements functions to perform likelihood inference from data summaries whose distributions are simulated.
Encoding: UTF-8
Version: 1.0.0
Date: 2016-07-26
Imports: spaMM (>= 1.9.14), proxy, geometry, Matrix, rcdd, blackbox, mvtnorm, Rmixmod (>= 2.0.4), methods, numDeriv, viridis
Suggests: ks, mclust, caret, testthat
Depends: R (>= 3.1.0)
Authors@R: c(person("François", "Rousset", role = c("aut", "cre", "cph"), email = "francois.rousset@umontpellier.fr"))
Maintainer: François Rousset <francois.rousset@umontpellier.fr>
License: CeCILL-2
URL: http://www.r-project.org, http://kimura.univ-montp2.fr/~rousset/Infusion.htm
NeedsCompilation: no
Packaged: 2016-07-25 22:29:40 UTC; rousset
Author: François Rousset [aut, cre, cph]
Repository: CRAN
Date/Publication: 2016-07-26 02:19:40

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New package timevis with initial version 0.1
Package: timevis
Title: Create Interactive Timeline Visualizations in R
Version: 0.1
Authors@R: c( person("Dean", "Attali", email = "daattali@gmail.com", role = c("aut", "cre"), comment = "R interface"), person(family = "Almende B.V.", role = c("aut", "cph"), comment = "vis.js library, http://visjs.org, http://www.almende.com/home") )
Description: Create rich and fully interactive timeline visualizations. Timelines can be included in Shiny apps and R markdown documents, or viewed from the R console and RStudio Viewer. 'timevis' includes an extensive API to manipulate a timeline after creation, and supports getting data out of the visualization into R. Based on the 'vis.js' Timeline module and the 'htmlwidgets' R package.
URL: https://github.com/daattali/timevis, http://daattali.com/shiny/timevis-demo/
BugReports: https://github.com/daattali/timevis/issues
Depends: R (>= 3.1.0)
Imports: htmltools (>= 0.2.6), htmlwidgets (>= 0.6), jsonlite, rmarkdown, shiny
Suggests: knitr (>= 1.7), testthat (>= 0.9.1),
License: MIT + file LICENSE
Encoding: UTF-8
LazyData: true
RoxygenNote: 5.0.1
NeedsCompilation: no
Packaged: 2016-07-25 17:14:09 UTC; Dean
Author: Dean Attali [aut, cre] (R interface), Almende B.V. [aut, cph] (vis.js library, http://visjs.org, http://www.almende.com/home)
Maintainer: Dean Attali <daattali@gmail.com>
Repository: CRAN
Date/Publication: 2016-07-25 22:49:33

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New package ph2bye with initial version 0.1.1
Package: ph2bye
Type: Package
Title: Phase II Clinical Trial Design Using Bayesian Methods
Version: 0.1.1
Author: Yalin Zhu
Maintainer: Yalin Zhu <yalin.zhu@outlook.com><yalin.zhu@regeneron.com>
Description: Calculate the Bayesian posterior/predictive probability and determine the sample size and stopping boundaries for single-arm Phase II design.
License: GPL (>= 2)
LazyData: TRUE
Depends: stats, graphics, animation
Imports: base, ph2bayes, VGAM
Suggests: clinfun, gsDesign, survival
RoxygenNote: 5.0.1
NeedsCompilation: no
Packaged: 2016-07-25 14:25:37 UTC; yalin.zhu
Repository: CRAN
Date/Publication: 2016-07-25 22:44:05

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New package bigReg with initial version 0.1.2
Package: bigReg
Type: Package
Title: Generalized Linear Models (GLM) for Large Data Sets
Version: 0.1.2
Date: 2016-07-23
Author: Chibisi Chima-Okereke <chibisi@active-analytics.com>
Maintainer: Chibisi Chima-Okereke <chibisi@active-analytics.com>
Description: Allows the user to carry out GLM on very large data sets. Data can be created using the data_frame() function and appended to the object with object$append(data); data_frame and data_matrix objects are available that allow the user to store large data on disk. The data is stored as doubles in binary format and any character columns are transformed to factors and then stored as numeric (binary) data while a look-up table is stored in a separate .meta_data file in the same folder. The data is stored in blocks and GLM regression algorithm is modified and carries out a MapReduce- like algorithm to fit the model. The functions bglm(), and summary() and bglm_predict() are available for creating and post-processing of models. The library requires Armadillo installed on your system. It probably won't function on windows since multi-core processing is done using mclapply() which forks R on Unix/Linux type operating systems.
License: GPL (>= 2)
Depends: R (>= 3.2.0), Rcpp (>= 0.12.3), parallel, methods, stats, uuid (>= 0.1-2), MASS (>= 7.3-39)
LinkingTo: Rcpp, RcppArmadillo (>= 0.5.200.1.0)
OS_type: unix
Collate: 'RcppExports.R' 'data_frame.r' 'data_matrix.r' 'family.r' 'map_reg.r'
RoxygenNote: 5.0.1
NeedsCompilation: yes
Packaged: 2016-07-25 09:31:12 UTC; chib
Repository: CRAN
Date/Publication: 2016-07-25 19:16:58

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New package MSCMT with initial version 1.0.0
Package: MSCMT
Type: Package
Version: 1.0.0
Date: 2016-07-25
Title: Multivariate Synthetic Control Method Using Time Series
Authors@R: c(person("Martin","Becker", role = c("aut","cre"), email = "martin.becker@mx.uni-saarland.de"), person("Stefan","Kloessner", role = c("aut"), email = "S.Kloessner@mx.uni-saarland.de"), person("Karline","Soetaert", role = c("com"), email = "karline.soetaert@nioz.nl"), person("LAPACK authors", role = "cph"))
Depends: R (>= 3.0.0)
Imports: stats, utils, optimx, lpSolve, parallel, DEoptim, rgenoud, ggplot2
Suggests: Synth, knitr, rmarkdown
Description: Multivariate Synthetic Control Method Using Time Series. Two generalizations of the synthetic control method (which has already an implementation in package 'Synth') are implemented: first, 'MSCMT' allows for using multiple outcome variables, second, time series can be supplied as economic predictors. Much effort has been taken to make the implementation as stable as possible (including edge cases) without losing computational efficiency.
License: GPL
Copyright: inst/COPYRIGHTS
LazyData: yes
RoxygenNote: 5.0.1
VignetteBuilder: knitr
BuildVignettes: yes
NeedsCompilation: yes
Packaged: 2016-07-25 06:20:22 UTC; mabe003
Author: Martin Becker [aut, cre], Stefan Kloessner [aut], Karline Soetaert [com], LAPACK authors [cph]
Maintainer: Martin Becker <martin.becker@mx.uni-saarland.de>
Repository: CRAN
Date/Publication: 2016-07-25 15:15:12

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New package wordcloud2 with initial version 0.2.0
Package: wordcloud2
Type: Package
Title: Create Word Cloud by htmlWidget
Version: 0.2.0
Author: Dawei Lang
Description: A fast visualization tool for creating wordcloud by using wordcloud2.js.
License: GPL-2
Depends: R (>= 3.1.0)
LazyData: TRUE
VignetteBuilder: knitr
Imports: htmlwidgets, base64enc, grDevices, graphics
Suggests: knitr
Enhances: shiny (>= 0.12)
URL: https://github.com/lchiffon/wordcloud2
BugReports: https://github.com/lchiffon/wordcloud2/issues
Maintainer: Dawei Lang <chiffonlang@icloud.com>
RoxygenNote: 5.0.1
NeedsCompilation: no
Packaged: 2016-07-25 02:03:03 UTC; dawei_lang
Repository: CRAN
Date/Publication: 2016-07-25 09:56:48

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Sun, 24 Jul 2016

New package ungeneanno with initial version 0.1.4
Package: ungeneanno
Type: Package
Title: Collate Gene Annotation Data from Uniprot and NIH Gene Databases
Version: 0.1.4
Authors@R: person(c("I.","Richard"),"Thompson",email="ithompson@qf.org.qa",role=c("aut","cre"))
Description: Taking a list of genes, the package collates together the summary information about those genes from the publicly available resources at Uniprot and NCBI. Additionally, the package is able to collate publication information from a search of the NCBI Pubmed database.
License: GPL-3
Depends: R (>= 2.10), httr, methods, XML
LazyData: TRUE
RoxygenNote: 5.0.1.9000
Suggests: knitr, rmarkdown
VignetteBuilder: knitr
NeedsCompilation: no
Packaged: 2016-07-24 08:22:37 UTC; drbiscuit
Author: I. Richard Thompson [aut, cre]
Maintainer: I. Richard Thompson <ithompson@qf.org.qa>
Repository: CRAN
Date/Publication: 2016-07-24 17:33:34

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New package GameTheoryAllocation with initial version 1.0
Package: GameTheoryAllocation
Type: Package
Title: Tools for Calculating Allocations in Game Theory
Version: 1.0
Date: 2016-07-20
Author: Alejandro Saavedra-Nieves
Maintainer: Alejandro Saavedra-Nieves <alejandro.saavedra.nieves@gmail.com>
Depends: R(>= 2.15.0),e1071, lpSolveAPI
Description: Many situations can be modeled as game theoretic situations. Some procedures are included in this package to calculate the most important allocations rules in Game Theory: Shapley value, Owen value or nucleolus, among other. First, we must define as an argument the value of the unions of the envolved agents with the characteristic function.
License: GPL-2
LazyLoad: yes
NeedsCompilation: no
Packaged: 2016-07-24 14:32:56 UTC; Alejandro
Repository: CRAN
Date/Publication: 2016-07-24 17:25:09

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New package energyr with initial version 0.1.0
Package: energyr
Version: 0.1.0
Title: Data Published by the United States Federal Energy Regulatory Commission
Description: Data published by the United States Federal Energy Regulatory Commission including electric company financial data, natural gas company financial data, hydropower plant data, liquified natural gas plant data, oil company financial data natural gas company financial data, and natural gas storage field data.
URL: https://github.com/paulgovan/energyr
BugReports: https://github.com/paulgovan/energyr/issues
Authors@R: person("Paul", "Govan", email = "pgovan1@aggienetwork.com", role = c("aut", "cre"))
Depends: R (>= 2.10.0)
Imports: RgoogleMaps
License: Apache License
LazyData: TRUE
RoxygenNote: 5.0.1
NeedsCompilation: no
Packaged: 2016-07-24 14:35:27 UTC; paulgovan
Author: Paul Govan [aut, cre]
Maintainer: Paul Govan <pgovan1@aggienetwork.com>
Repository: CRAN
Date/Publication: 2016-07-24 17:25:11

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New package blscrapeR with initial version 0.4.1
Package: blscrapeR
Type: Package
Title: An API Wrapper for the Bureau of Labor Statistics (BLS)
Version: 0.4.1
Authors@R: person("Kris", "Eberwein", email = "eberwein@knights.ucf.edu", role = c("aut", "cre"))
Description: Scrapes various data from the Bureau of Labor Statistics, which is the statistical branch of the United States Department of Labor. The package has additional functions to help parse, analyze and visualize the data.
Depends: R (>= 3.2.4)
Imports: httr, jsonlite, ggplot2, magrittr, utils, stats, grDevices, data.table, xts, zoo
Suggests: testthat, leaflet, tigris, knitr, rmarkdown, tidyr, dplyr
License: MIT + file LICENSE
URL: https://github.com/keberwein/blscrapeR
BugReports: https://github.com/keberwein/blscrapeR/issues
LazyData: true
RoxygenNote: 5.0.1
VignetteBuilder: knitr
NeedsCompilation: no
Packaged: 2016-07-24 11:20:52 UTC; kriseberwein
Author: Kris Eberwein [aut, cre]
Maintainer: Kris Eberwein <eberwein@knights.ucf.edu>
Repository: CRAN
Date/Publication: 2016-07-24 17:31:25

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New package mod09nrt with initial version 0.14
Package: mod09nrt
Type: Package
Title: Extraction of Bands from MODIS Surface Reflectance Product MOD09 NRT
Version: 0.14
Author: Rishabh Gupta <rishabh.uk@gmail.com>, Nicholas J. Matzke, Dept. of Integrative Biology, U.C. Berkeley
Maintainer: Rishabh Gupta <rishabh.uk@gmail.com>
Description: Package for processing downloaded MODIS Surface reflectance Product HDF files. Specifically, MOD09 surface reflectance product files, and the associated MOD03 geolocation files (for MODIS-TERRA). The package will be most effective if the user installs MRTSwath (MODIS Reprojection Tool for swath products; <https://lpdaac.usgs.gov/tools/modis_reprojection_tool_swath>, and adds the directory with the MRTSwath executable to the default R PATH by editing ~/.Rprofile.
SystemRequirements: MRTSwath
License: GPL (>= 2)
LazyData: TRUE
RoxygenNote: 5.0.1
NeedsCompilation: no
Packaged: 2016-07-24 11:48:00 UTC; 500028930
Repository: CRAN
Date/Publication: 2016-07-24 13:55:50

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Sat, 23 Jul 2016

New package RobustGaSP with initial version 0.5
Package: RobustGaSP
Type: Package
Title: Robust Gaussian Stochastic Process Emulation
Version: 0.5
Date/Publication: 2016-07-24 01:23:33
Authors@R: c(person(given="Mengyang",family="Gu",role=c("aut","cre"),email="mg211@stat.duke.edu"), person(given="Jesus",family="Palomo", role=c("aut")), person(given="James",family="Berger", role="aut"))
Maintainer: Mengyang Gu <mg211@stat.duke.edu>
Author: Mengyang Gu [aut, cre], Jesus Palomo [aut], James Berger [aut]
Description: Robust parameter estimation and prediction of Gaussian stochastic process emulators. Important functions : rgasp(), predict.rgasp().
License: GPL (>= 2)
Depends: methods
Imports: Rcpp (>= 0.12.3)
Suggests: nloptr (>= 1.0.4)
LinkingTo: Rcpp, RcppEigen
NeedsCompilation: yes
Repository: CRAN
Packaged: 2016-07-22 21:48:32 UTC; gumengyang
RoxygenNote: 5.0.1

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New package qat with initial version 0.74
Package: qat
Type: Package
Title: Quality Assurance Toolkit
Version: 0.74
Date: 2016-07-21
Author: Andre Duesterhus
Maintainer: Andre Duesterhus <andre.duesterhus@uni-hamburg.de>
Encoding: latin1
Description: Functions for a scientific quality assurance of meteorological data.
Depends: R (>= 2.6.1)
Imports: ncdf4, gplots, XML, gdata, moments, boot, fields
License: GPL-2
URL: http://www.aduesterhus.net/qat
NeedsCompilation: no
Packaged: 2016-07-22 17:03:50 UTC; andue
X-CRAN-Comment: Archived on 2016-01-26 as check problems were not corrected despite reminders.
Repository: CRAN
Date/Publication: 2016-07-24 01:26:59

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New package magick with initial version 0.1
Package: magick
Type: Package
Title: Advanced Image-Processing in R
Version: 0.1
Author: Jeroen Ooms
Maintainer: Jeroen Ooms <jeroen.ooms@stat.ucla.edu>
Description: Bindings to ImageMagick: the most comprehensive open-source image processing library available. Supports many common formats (png, jpeg, tiff, pdf, etc) and manipulations (rotate, scale, crop, trim, flip, blur, etc). All operations are vectorized via the Magick++ STL meaning they operate either on a single frame or a series of frames for working with layers, collages, or animation. In RStudio images are automatically previewed when printed to the console, resulting in an interactive editing environment.
License: MIT + file LICENSE
URL: https://github.com/jeroenooms/magick#readme
BugReports: https://github.com/jeroenooms/magick/issues
SystemRequirements: ImageMagick++: ImageMagick-c++-devel (rpm) or libmagick++-dev (deb)
Imports: Rcpp (>= 0.12), curl
LinkingTo: Rcpp
Suggests: rsvg, webp
RoxygenNote: 5.0.1
NeedsCompilation: yes
Packaged: 2016-07-22 22:53:02 UTC; jeroen
Repository: CRAN
Date/Publication: 2016-07-24 01:24:35

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New package clubSandwich with initial version 0.2.1
Package: clubSandwich
Title: Cluster-Robust (Sandwich) Variance Estimators with Small-Sample Corrections
Version: 0.2.1
Authors@R: person("James", "Pustejovsky", email = "jepusto@gmail.com", role = c("aut", "cre"))
Description: Provides several cluster-robust variance estimators (i.e., sandwich estimators) for ordinary and weighted least squares linear regression models. Several adjustments are incorporated to improve small- sample performance. The package includes functions for estimating the variance- covariance matrix and for testing single- and multiple-contrast hypotheses based on Wald test statistics. Tests of single regression coefficients use Satterthwaite or saddle-point corrections. Tests of multiple-contrast hypotheses use an approximation to Hotelling's T-squared distribution. Methods are provided for a variety of fitted models, including lm(), plm() (from package 'plm'), gls() and lme() (from 'nlme'), robu() (from 'robumeta'), and rma.uni() and rma.mv() (from 'metafor').
Depends: R (>= 3.0.0)
License: GPL-3
VignetteBuilder: knitr
LazyData: true
Imports: stats
Suggests: Formula, knitr, car, metafor, robumeta, nlme, mlmRev, AER, plm, testthat, rmarkdown
RoxygenNote: 5.0.1
NeedsCompilation: no
Packaged: 2016-07-23 12:57:42 UTC; jep2963
Author: James Pustejovsky [aut, cre]
Maintainer: James Pustejovsky <jepusto@gmail.com>
Repository: CRAN
Date/Publication: 2016-07-23 21:07:09

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Fri, 22 Jul 2016

New package EmiStatR with initial version 1.2.0
Package: EmiStatR
Type: Package
Title: Estimation of Wastewater Emissions in Combined Sewer Systems
Version: 1.2.0
Date: 2016-07-22
Author: J.A. Torres-Matallana [aut, cre] K. Klepiszewski [aut, cre] U. Leopold [ctb] G.B.M. Heuvelink [ctb]
Maintainer: J.A. Torres-Matallana <arturo.torres@list.lu>
Description: The EmiStatR provides a fast and parallelised calculator to estimate combined wastewater emissions. It supports the planning and design of urban drainage systems, without the requirement of extensive simulation tools. The EmiStatR package implements modular R methods. This enables to add new functionalities through the R framework. Furthermore, EmiStatR was implemented with an interactive user interface with sliders and input data exploration.
License: GPL (>= 3)
Depends: methods, foreach, parallel, doParallel, lattice, shiny
NeedsCompilation: yes
Packaged: 2016-07-22 18:50:12 UTC; torres
Repository: CRAN
Date/Publication: 2016-07-22 23:52:03

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New package sizeMat with initial version 0.1.0
Package: sizeMat
Type: Package
Title: Estimate Size at Sexual Maturity
Version: 0.1.0
Date: 2016-07-19
Authors@R: c(person("Josymar", "Torrejon-Magallanes", email = "ejosymart@gmail.com", role = c("cre", "aut")), person("Wencheng", "Lau-Medrano", role = "ctb"))
Maintainer: Josymar Torrejon-Magallanes <ejosymart@gmail.com>
Description: Contains functions to estimate morphometric and gonadal size at sexual maturity for organisms, usually fish and invertebrates. It includes methods for classification based on relative growth (using principal components analysis, hierarchical clustering, discriminant analysis), logistic regression (Frequentist or Bayes), parameters estimation and some basic plots.
Depends: R (>= 2.15)
Imports: MCMCpack, matrixStats, MASS, grDevices, graphics, stats, utils
Suggests: knitr, rmarkdown
VignetteBuilder: knitr
License: GPL-2
LazyData: TRUE
RoxygenNote: 5.0.1
NeedsCompilation: no
Packaged: 2016-07-22 16:16:10 UTC; Josymar
Author: Josymar Torrejon-Magallanes [cre, aut], Wencheng Lau-Medrano [ctb]
Repository: CRAN
Date/Publication: 2016-07-22 19:36:07

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New package rbgm with initial version 0.0.4
Package: rbgm
Type: Package
Title: Tools for 'Box Geometry Model' (BGM) Files and Topology for the Atlantis Ecosystem Model
Version: 0.0.4
Authors@R: c( person("Michael D.", "Sumner", , "mdsumner@gmail.com", c("aut", "cre")) )
Depends: R (>= 3.2.2), raster, sp
Imports: dplyr, geosphere, tibble (>= 1.1)
Suggests: bgmfiles, covr, graticule, knitr, rgdal, rmarkdown, roxygen2, scales, testthat
Description: Facilities for working with Atlantis box-geometry model (BGM) files. Atlantis is a deterministic, biogeochemical, whole-of-ecosystem model. Functions are provided to read from BGM files directly, preserving their internal topology, as well as helper functions to generate 'Spatial' objects. This functionality aims to simplify the creation and modification of box and geometry as well as the ability to integrate with other data sources.
NeedsCompilation: no
ByteCompile: yes
License: GPL-3
RoxygenNote: 5.0.1
URL: https://github.com/AustralianAntarcticDivision/rbgm/, http://atlantis.cmar.csiro.au/
BugReports: https://github.com/AustralianAntarcticDivision/rbgm/issues/
VignetteBuilder: knitr
Packaged: 2016-07-22 06:31:34 UTC; mdsumner
Author: Michael D. Sumner [aut, cre]
Maintainer: Michael D. Sumner <mdsumner@gmail.com>
Repository: CRAN
Date/Publication: 2016-07-22 19:29:23

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New package MFPCA with initial version 1.0
Package: MFPCA
Type: Package
Title: Multivariate Functional Principal Component Analysis for Data Observed on Different Dimensional Domains
Version: 1.0
Date: 2016-07-18
Authors@R: person("Clara", "Happ", email = "clara.happ@stat.uni-muenchen.de", role = c("aut", "cre"))
Author: Clara Happ [aut, cre]
Maintainer: Clara Happ <clara.happ@stat.uni-muenchen.de>
Description: Calculate a multivariate functional principal component analysis for data observed on different dimensional domains. The estimation algorithm relies on univariate basis expansions for each element of the multivariate functional data. Multivariate and univariate functional data objects are represented by S4 classes for this type of data implemented in the package 'funData'.
License: GPL-2
Imports: abind, foreach, irlba, Matrix, methods, mgcv, plyr, stats
Depends: R (>= 3.1.0), funData
Suggests: testthat
NeedsCompilation: yes
SystemRequirements: libfftw3 (>= 3.3.4)
RoxygenNote: 5.0.1
Packaged: 2016-07-22 16:02:31 UTC; happ
Repository: CRAN
Date/Publication: 2016-07-22 19:29:25

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New package CorrectOverloadedPeaks with initial version 1.2.13
Package: CorrectOverloadedPeaks
Type: Package
Title: Correct Overloaded Peaks from GC-APCI-MS Data
Version: 1.2.13
Date: 2016-07-22
Authors@R: person("Jan", "Lisec", role = c("aut", "cre"), email = "jan.lisec@charite.de")
Author: Jan Lisec [aut, cre]
Description: Analyzes and modifies metabolomics raw data (generated using GC-APCI-MS, Gas Chromatography-Atmospheric Pressure Chemical Ionization-Mass Spectrometry) to correct overloaded signals, i.e. ion intensities exceeding detector saturation leading to a cut-off peak. Data in xcmsRaw format are accepted as input and mzXML files can be processed alternatively. Overloaded signals are detected automatically and modified using an Gaussian or Isotopic-Ratio approach, QC plots are generated and corrected data are stored within the original xcmsRaw or mzXML respectively to allow further processing.
License: GPL-3
URL: http://dx.doi.org/10.1021/acs.analchem.6b02515
Depends: R(>= 2.10.0)
Imports: xcms, XML, digest, caTools
RoxygenNote: 5.0.1
NeedsCompilation: no
Packaged: 2016-07-22 07:20:23 UTC; lisecj
Maintainer: Jan Lisec <jan.lisec@charite.de>
Repository: CRAN
Date/Publication: 2016-07-22 19:32:08

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New package humidity with initial version 0.1.0
Package: humidity
Type: Package
Title: An R Package for Calculating Water Vapor Measures from Temperature and Relative Humidity
Version: 0.1.0
Author: Jun Cai <cai-j12@mails.tsinghua.edu.cn>
Maintainer: Jun Cai <cai-j12@mails.tsinghua.edu.cn>
Description: Vapor pressure, absolute humidity, specific humidity, and mixing ratio are commonly used water vapor measures in meteorology. This R package provides functions for calculating saturation vapor pressure (hPa), partial water vapor pressure (Pa), absolute humidity (kg/m^3), specific humidity (kg/kg), and mixing ratio (kg/kg) from temperature (K) and relative humidity (%).
Depends: R (>= 2.10)
License: GPL-3
URL: https://github.com/caijun/humidity
BugReports: https://github.com/caijun/humidity/issues
Encoding: UTF-8
LazyData: true
RoxygenNote: 5.0.1
Suggests: knitr, rmarkdown
VignetteBuilder: knitr
NeedsCompilation: no
Packaged: 2016-07-22 06:01:33 UTC; tonytsai
Repository: CRAN
Date/Publication: 2016-07-22 14:51:43

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Thu, 21 Jul 2016

New package IPtoCountry with initial version 0.0.1
Package: IPtoCountry
Title: Convert IP Addresses to Country Names or Full Location with Geoplotting
Version: 0.0.1
Date: 2016-07-21
Authors@R: c( person(c("Ronald", "E."), "Robertson", email = "robertson.ron@husky.neu.edu", role = c("cre", "aut")), person(c("Felix", "W."), "Tran", email = "felix.2930@gmail.com", role = "aut"), person("Jonathan", "Mejia", email = "mejiajon@yahoo.com", role = "aut"), person("Christine", "Mourani", email = "cmourani12@yahoo.com", role = "aut") )
Description: Tools for identifying the origins of IP addresses. Includes functions for converting IP addresses to country names, location details (region, city, zip, latitude, longitude), IP codes, binary values, as well as a function for plotting IP locations on a world map. This product includes IP2Location LITE data available from <http://www.ip2location.com> and is is available by Creative Commons Attribution-ShareAlike 4.0 Interational license (CC-BY-SA 4.0).
Depends: R (>= 3.2.3)
Imports: data.table, ggplot2, dtables, maps, scales, devtools, install.load
License: GPL-3
LazyData: true
RoxygenNote: 5.0.1
NeedsCompilation: no
Packaged: 2016-07-21 22:58:57 UTC; rer
Author: Ronald E. Robertson [cre, aut], Felix W. Tran [aut], Jonathan Mejia [aut], Christine Mourani [aut]
Maintainer: Ronald E. Robertson <robertson.ron@husky.neu.edu>
Repository: CRAN
Date/Publication: 2016-07-22 01:31:05

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New package ie2misc with initial version 0.8.0
Package: ie2misc
Title: Irucka Embry's Miscellaneous USGS Functions
Version: 0.8.0
Author: Irucka Embry [aut, cre] and Anne Hoos [ctb]
Maintainer: Irucka Embry <iembry@usgs.gov>
Depends: R (>= 3.0.0), tcltk, data.table (>= 1.9.4), stats, utils, tools
Imports: readxl, openxlsx, gWidgets2, gWidgets2tcltk, stringi, qdap, reader, lubridate
Suggests: ie2miscdata, iemisc, iemiscdata, Rcpp (>= 0.11.5), pracma
Description: A collection of Irucka Embry's miscellaneous USGS functions (processing .exp and .psf files, statistical error functions, "+" dyadic operator for use with NA, creating ADAPS and QW spreadsheet files, calculating saturated enthalpy). Irucka created these functions while a Cherokee Nation Technology Solutions (CNTS) United States Geological Survey (USGS) Contractor and/or USGS employee.
URL: https://github.com/iembry-USGS/ie2misc
BugReports: https://github.com/iembry-USGS/ie2misc/issues
License: CC0
Copyright: This software is in the public domain because it contains materials that originally came from the United States Geological Survey, an agency of the United States Department of Interior. For more information, see the official USGS copyright policy at http://www.usgs.gov/visual-id/credit_usgs.html#copyright
LazyData: true
Encoding: UTF-8
RoxygenNote: 5.0.1
NeedsCompilation: no
Packaged: 2016-07-20 01:28:41 UTC; uoxyh
Repository: CRAN
Date/Publication: 2016-07-22 01:33:35

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New package icdGLM with initial version 1.0.0
Package: icdGLM
Type: Package
Title: EM by the Method of Weights for Incomplete Categorical Data in Generlized Linear Models
Version: 1.0.0
Date: 2016-07-21
Author: Lorenz Brachtendorf <Lorenz.Brachtendorf@gmx.de>, Stephan Dlugosz <stephan.dlugosz@googlemail.com>
Maintainer: Stephan Dlugosz <stephan.dlugosz@googlemail.com>
Description: Provides an estimator for generalized linear models with incomplete data for discrete covariates. The estimation is based on the EM algorithm by the method of weights by Ibrahim (1990) <DOI:10.2307/2290013>.
License: GPL (>= 2)
Depends: R (>= 3.3.0)
Imports: stats, Matrix
RoxygenNote: 5.0.1
NeedsCompilation: no
Packaged: 2016-07-21 18:26:34 UTC; sdlugosz
Repository: CRAN
Date/Publication: 2016-07-22 01:26:44

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New package GetHFData with initial version 1.0.0
Package: GetHFData
Title: Download and Aggregate High Frequency Trading Data from Bovespa
Version: 1.0.0
Authors@R: person("Marcelo", "Perlin", email = "marceloperlin@gmail.com", role = c("aut", "cre"))
Description: Downloads and aggregates high frequency trading data for Brazilian instruments directly from Bovespa ftp site <ftp://ftp.bmf.com.br/MarketData/>.
Depends: R (>= 3.3.0)
Imports: stringr,stats,RCurl, lubridate, readr, utils, curl,dplyr
License: GPL-2
LazyData: true
RoxygenNote: 5.0.1
Suggests: knitr, rmarkdown, testthat, ggplot2
VignetteBuilder: knitr
NeedsCompilation: no
Packaged: 2016-07-21 20:44:30 UTC; 00141390
Author: Marcelo Perlin [aut, cre]
Maintainer: Marcelo Perlin <marceloperlin@gmail.com>
Repository: CRAN
Date/Publication: 2016-07-22 01:25:01

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New package validann with initial version 1.0.0
Package: validann
Type: Package
Title: Validation Tools for Artificial Neural Networks
Version: 1.0.0
Date: 2016-07-21
Authors@R: person("Greer B.", "Humphrey", email = "greer.humphrey@adelaide.edu.au", role = c("aut", "cre"))
Description: Methods and tools for analysing and validating the outputs and modelled functions of artificial neural networks (ANNs) in terms of predictive, replicative and structural validity. Also provides a method for fitting feed-forward ANNs with a single hidden layer.
Depends: R (>= 3.1.0)
Imports: moments
Suggests: nnet, knitr, rmarkdown
License: GPL (>= 2)
URL: http://github.com/gbhumphrey1/validann
BugReports: http://github.com/gbhumphrey1/validann/issues
NeedsCompilation: no
Packaged: 2016-07-21 13:11:35 UTC; ghumphrey
Author: Greer B. Humphrey [aut, cre]
Maintainer: Greer B. Humphrey <greer.humphrey@adelaide.edu.au>
Repository: CRAN
Date/Publication: 2016-07-21 19:09:23

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New package fasteraster with initial version 1.0
Package: fasteraster
Type: Package
Title: Raster Images Processing and Vector Recognition
Version: 1.0
Date: 2016-07-09
Author: Andy Bosyi
Maintainer: Andy Bosyi <andy@bosyi.com>
Description: If there is a need to recognise edges on a raster image or a bitmap or any kind of a matrix, one can find packages that does only 90 degrees vectorization. Typically the nature of artefact images is linear and can be vectorized in much more efficient way than draw a series of 90 degrees lines. The fasteraster package does recognition of lines using only one pass.
License: GPL (>= 2)
Imports: Rcpp (>= 0.12.5)
LinkingTo: Rcpp
RoxygenNote: 5.0.1
NeedsCompilation: yes
Packaged: 2016-07-21 09:11:52 UTC; andy
Repository: CRAN
Date/Publication: 2016-07-21 14:14:56

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Wed, 20 Jul 2016

New package BayesianNetwork with initial version 0.1.0
Package: BayesianNetwork
Version: 0.1.0
Title: Bayesian Network Modeling and Analysis
Description: A Shiny web application for creating interactive Bayesian Network models, learning the structure and parameters of Bayesian networks, and utilities for classical network analysis.
URL: https://github.com/paulgovan/bayesiannetwork
BugReports: https://github.com/paulgovan/bayesiannetwork/issues
Authors@R: person("Paul", "Govan", email = "pgovan1@aggienetwork.com", role = c("aut", "cre"))
Depends: R (>= 2.10.0)
License: Apache License | file LICENSE
LazyData: TRUE
Imports: bnlearn, d3heatmap, lattice, networkD3, rhandsontable, shiny, shinydashboard
RoxygenNote: 5.0.1
NeedsCompilation: no
Packaged: 2016-07-20 23:37:57 UTC; paulgovan
Author: Paul Govan [aut, cre]
Maintainer: Paul Govan <pgovan1@aggienetwork.com>
Repository: CRAN
Date/Publication: 2016-07-21 02:10:34

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New package USGSstates2k with initial version 1.0.0
Package: USGSstates2k
Title: United States of America Map with the NAD 1983 Albers Projection
Version: 1.0.0
Author: Irucka Embry [aut]
Maintainer: Irucka Embry <iembry@usgs.gov>
Depends: R (>= 2.14.0), sp (>= 1.1-0)
Suggests: rgdal
Description: A map of the USA from the United States Geological Survey (USGS). Irucka worked with this data set while a Cherokee Nation Technology Solutions (CNTS) USGS Contractor and/or USGS employee.
URL: https://github.com/iembry-USGS/USGSstates2k
BugReports: https://github.com/iembry-USGS/USGSstates2k/issues
License: CC0
Copyright: This software is in the public domain because it contains materials that originally came from the United States Geological Survey, an agency of the United States Department of Interior. For more information, see the official USGS copyright policy at http://www.usgs.gov/visual-id/credit_usgs.html#copyright
LazyData: true
Encoding: UTF-8
RoxygenNote: 5.0.1
NeedsCompilation: no
Packaged: 2016-07-20 01:39:32 UTC; uoxyh
Repository: CRAN
Date/Publication: 2016-07-20 23:52:47

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New package scientoText with initial version 0.1
Package: scientoText
Type: Package
Title: Text & Scientometric Analytics
Version: 0.1
Date: 2016-07-20
Author: Ashraf Uddin
Maintainer: Ashraf Uddin <mdaakib18@gmail.com>
Description: It involves bibliometric indicators calculation from bibliometric data.It also deals pattern analysis using the text part of bibliometric data.The bibliometric data are obtained from mainly Web of Science and Scopus.
License: GPL-3
LazyData: TRUE
Imports: stringr, tm, utils
RoxygenNote: 5.0.1
NeedsCompilation: no
Packaged: 2016-07-20 16:52:06 UTC; rajesh
Repository: CRAN
Date/Publication: 2016-07-20 23:55:39

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New package largeList with initial version 0.1.0
Package: largeList
Type: Package
Title: Serialization Interface for Large List Objects
Version: 0.1.0
Date: 2016-07-19
Author: Yuchun Zhang
Maintainer: Yuchun Zhang <yczhangvrc@gmail.com>
Depends: R (>= 3.2.0)
Description: Functions to write or append a R list to a file, read or remove elements from it without restoring the whole list.
License: GPL (>= 2)
RoxygenNote: 5.0.1
NeedsCompilation: yes
Packaged: 2016-07-20 19:51:58 UTC; yuchun
Repository: CRAN
Date/Publication: 2016-07-20 23:49:47

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New package ie2miscdata with initial version 1.0.0
Package: ie2miscdata
Title: Irucka Embry's Miscellaneous USGS Data Collection
Version: 1.0.0
Author: Irucka Embry [aut, cre]
Maintainer: Irucka Embry <iembry@usgs.gov>
Depends: R (>= 2.14.1)
Suggests: install.load, ie2misc, iemisc, iemiscdata, data.table (>= 1.9.4), USGSstates2k, spatstat, maptools, ggplot2, stringi, qdap, lubridate, knitr, rmarkdown
Description: A collection of Irucka Embry's miscellaneous USGS data sets (Environmental/Water Resources Engineering). Irucka created these data sets while a Cherokee Nation Technology Solutions (CNTS) United States Geological Survey (USGS) Contractor and/or USGS employee.
URL: https://github.com/iembry-USGS/ie2miscdata
BugReports: https://github.com/iembry-USGS/ie2miscdata/issues
License: CC0
Copyright: This software is in the public domain because it contains materials that originally came from the United States Geological Survey, an agency of the United States Department of Interior. For more information, see the official USGS copyright policy at http://www.usgs.gov/visual-id/credit_usgs.html#copyright
LazyData: true
Encoding: UTF-8
RoxygenNote: 5.0.1
VignetteBuilder: knitr
NeedsCompilation: no
Packaged: 2016-07-20 01:13:24 UTC; uoxyh
Repository: CRAN
Date/Publication: 2016-07-21 00:50:34

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New package ggpubr with initial version 0.1.0
Package: ggpubr
Type: Package
Title: 'ggplot2' Based Publication Ready Plots
Version: 0.1.0
Date: 2016-07-28
Authors@R: c( person("Alboukadel", "Kassambara", role = c("aut", "cre"), email = "alboukadel.kassambara@gmail.com"))
Description: 'ggplot2' is an excellent and flexible package for elegant data visualization in R. However the default generated plots requires some formatting before we can send them for publication. Furthermore, to customize a 'ggplot', the syntax is opaque and this raises the level of difficulty for researchers with no advanced R programming skills. 'ggpubr' provides some easy-to-use functions for creating and customizing 'ggplot2'- based publication ready plots.
License: GPL-2
LazyData: TRUE
Depends: R (>= 3.1.0), ggplot2
Imports: ggrepel, grid, ggsci, plyr, stats, utils
Suggests: knitr, scales
URL: http://www.sthda.com/english/rpkgs/ggpubr
BugReports: https://github.com/kassambara/ggpubr/issues
RoxygenNote: 5.0.1
Collate: 'desc_statby.R' 'diff_express.R' 'utilities.R' 'ggpar.R' 'ggbarplot.R' 'ggboxplot.R' 'ggdensity.R' 'stat_conf_ellipse.R' 'stat_chull.R' 'ggdotchart.R' 'ggdotplot.R' 'ggecdf.R' 'ggerrorplot.R' 'gghistogram.R' 'ggline.R' 'ggmaplot.R' 'ggpie.R' 'ggqqplot.R' 'ggscatter.R' 'ggstripchart.R' 'ggviolin.R' 'show_line_types.R' 'show_point_shapes.R' 'stat_mean.R' 'theme_pubr.R'
NeedsCompilation: no
Packaged: 2016-07-20 16:37:41 UTC; alboukadel
Author: Alboukadel Kassambara [aut, cre]
Maintainer: Alboukadel Kassambara <alboukadel.kassambara@gmail.com>
Repository: CRAN
Date/Publication: 2016-07-20 20:09:54

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New package udapi with initial version 0.1.0
Package: udapi
Type: Package
Title: Urban Dictionary API Client
Version: 0.1.0
Date: 2016-07-19
Author: Oliver Keyes [aut, cre]
Maintainer: Oliver Keyes <ironholds@gmail.com>
Description: A client for the Urban Dictionary <http://www.urbandictionary.com/> API.
License: MIT + file LICENSE
LazyData: TRUE
RoxygenNote: 5.0.1
Imports: httr, curl
BugReports: https://github.com/Ironholds/udapi/issues
URL: https://github.com/Ironholds/udapi/
Suggests: testthat
NeedsCompilation: no
Packaged: 2016-07-20 15:38:24 UTC; ironholds
Repository: CRAN
Date/Publication: 2016-07-20 18:03:28

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New package mvst with initial version 1.0
Package: mvst
Type: Package
Title: Bayesian Inference for the Multivariate Skew-t Model
Version: 1.0
Date: 2016-07-20
Author: Brunero Liseo, Antonio Parisi
Maintainer: Antonio Parisi <antonio.parisi@uniroma2.it>
Description: Estimates the multivariate skew-t and nested models, as described in the articles Liseo, B., Parisi, A. (2013). Bayesian inference for the multivariate skew-normal model: a population Monte Carlo approach. Comput. Statist. Data Anal. <doi:10.1016/j.csda.2013.02.007> and in Parisi, A., Liseo, B. Objective Bayesian analysis for the multivariate skew-t model (to appear).
License: GPL-3
Imports: MCMCpack, mvtnorm, mnormt
Packaged: 2016-07-20 14:14:58 UTC; antonio
NeedsCompilation: yes
Repository: CRAN
Date/Publication: 2016-07-20 18:02:56

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New package ChIPtest with initial version 1.0
Package: ChIPtest
Type: Package
Title: Nonparametric Methods for Identifying Differential Enrichment Regions with ChIP-Seq Data
Version: 1.0
Date: 2017-07-07
Author: Vicky Qian Wu ; Kyoung-Jae Won ; Hongzhe Li <hongzhe@upenn.edu>
Maintainer: Vicky Qian Wu <wuqian7@gmail.com>
Description: Nonparametric Tests to identify the differential enrichment region for two conditions or time-course ChIP-seq data. It includes: data preprocessing function, estimation of a small constant used in hypothesis testing, a kernel-based two sample nonparametric test, two assumption-free two sample nonparametric test.
License: GPL (>= 2.15.1)
Packaged: 2016-07-20 13:27:43 UTC; Lin Chai
NeedsCompilation: yes
Repository: CRAN
Date/Publication: 2016-07-20 17:59:16

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New package dggridR with initial version 0.1.5
Package: dggridR
Type: Package
Title: Discrete Global Grids for R
Version: 0.1.5
Date: 2016-07-19
Author: Richard Barnes [aut, cre], Kevin Sahr [ctb], Gerald Evenden [ctb], Angus Johnson [ctb], Frank Warmerdam [ctb]
Maintainer: Richard Barnes <rbarnes@umn.edu>
NeedsCompilation: yes
Depends: R (>= 3.0.0), rgdal (>= 1.1), ggplot2 (>= 2.1), dplyr (>= 0.4)
Suggests: knitr, rmarkdown, maps, mapproj, R.rsp
License: MIT + file LICENCE
Authors@R: c(person("Richard", "Barnes", role = c("aut", "cre"), email = "rbarnes@umn.edu"), person("Kevin", "Sahr", role = "ctb", email = "sahrk@sou.edu"), person("Gerald", "Evenden", role = "ctb"), person("Angus", "Johnson", role = "ctb"), person("Frank", "Warmerdam", role = "ctb"))
Description: Spatial analyses involving binning require that every bin have the same area, but this is impossible using a rectangular grid laid over the Earth or over any projection of the Earth. Discrete global grids use hexagons, triangles, and diamonds to overcome this issue, overlaying the Earth with equally-sized bins. This package provides utilities for working with discrete global grids, along with utilities to aid in plotting such data.
URL: https://github.com/r-barnes/dggridR/
BugReports: https://github.com/r-barnes/dggridR/
RoxygenNote: 5.0.1
VignetteBuilder: knitr, R.rsp
Packaged: 2016-07-19 23:15:34 UTC; rick
Repository: CRAN
Date/Publication: 2016-07-20 09:54:02

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New package AntAngiCool with initial version 1.1
Package: AntAngiCool
Type: Package
Title: AntiAngiogenic
Version: 1.1
Date: 2016-07-19
Author: Babak Khorsand
Maintainer: Babak Khorsand <khorsand80@yahoo.com>
Description: Machine learning based package to predict anti-angiogenic peptides using heterogeneous sequence descriptors.
License: GPL-2
RoxygenNote: 5.0.1
Depends: caret,rJava,RWeka,rpart, R(>= 2.10.0)
NeedsCompilation: no
Packaged: 2016-07-20 05:53:48 UTC; Challenger1980
Repository: CRAN
Date/Publication: 2016-07-20 09:46:12

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Tue, 19 Jul 2016

New package CorrToolBox with initial version 1.0
Package: CorrToolBox
Type: Package
Title: Modeling Correlational Magnitude Transformations in Discretization Contexts
Version: 1.0
Date: 2016-07-19
Author: Rawan Allozi, Hakan Demirtas
Maintainer: Rawan Allozi <ralloz2@uic.edu>
Description: Modeling the correlation transitions under specified distributional assumptions within the realm of discretization in the context of the latency and threshold concepts.
License: GPL-2 | GPL-3
Imports: BinNonNor, BinOrdNonNor, GenOrd, moments, mvtnorm, psych
NeedsCompilation: no
Repository: CRAN
Packaged: 2016-07-19 21:33:05 UTC; rawanallozi
Date/Publication: 2016-07-20 00:58:34

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New package bmlm with initial version 1.0.0
Package: bmlm
Title: Bayesian Multilevel Mediation
Version: 1.0.0
Date: 2016-07-18
Authors@R: person("Matti", "Vuorre", email = "mv2521@columbia.edu", role = c("aut", "cre"))
Description: Easy estimation of Bayesian multilevel mediation models with Stan.
URL: https://github.com/mvuorre/bmlm/
BugReports: http://github.com/mvuorre/bmlm/issues/
License: GPL (>= 3)
LazyData: true
Depends: R (>= 3.1.2), rstan
Imports: ggplot2 (>= 2.1.0)
Suggests: qgraph, knitr, rmarkdown, reshape2, dplyr, ReporteRs
RoxygenNote: 5.0.1
NeedsCompilation: no
Packaged: 2016-07-19 18:22:24 UTC; Matti
Author: Matti Vuorre [aut, cre]
Maintainer: Matti Vuorre <mv2521@columbia.edu>
Repository: CRAN
Date/Publication: 2016-07-20 01:07:36

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New package bgmfiles with initial version 0.0.5
Package: bgmfiles
Title: Example BGM Files for the Atlantis Ecosystem Model
Version: 0.0.5
Authors@R: c( person("Michael D.", "Sumner", , "mdsumner@gmail.com", c("aut", "cre")) )
Description: A collection of box-geometry model (BGM) files for the Atlantis ecosystem model. Atlantis is a deterministic, biogeochemical, whole-of-ecosystem model.
License: CC0
RoxygenNote: 5.0.1
Suggests: testthat, covr
BugReports: https://github.com/AustralianAntarcticDivision/bgmfiles/issues/
URL: https://github.com/AustralianAntarcticDivision/bgmfiles/, http://atlantis.cmar.csiro.au/
NeedsCompilation: no
Packaged: 2016-07-19 22:09:07 UTC; mdsumner
Author: Michael D. Sumner [aut, cre]
Maintainer: Michael D. Sumner <mdsumner@gmail.com>
Repository: CRAN
Date/Publication: 2016-07-20 01:08:47

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New package rslp with initial version 0.0.1
Package: rslp
Type: Package
Title: A Stemming Algorithm for the Portuguese Language
Version: 0.0.1
Author: Daniel Falbel
Maintainer: Daniel Falbel <dfalbel@gmail.com>
Description: Implements the "Stemming Algorithm for the Portuguese Language" <DOI:10.1109/SPIRE.2001.10024>.
URL: https://github.com/dfalbel/rslp
License: MIT + file LICENSE
LazyData: TRUE
Encoding: UTF-8
RoxygenNote: 5.0.1
Imports: stringr, stringi, plyr, rvest, magrittr, Rcpp, xml2
Suggests: dplyr, testthat, covr
NeedsCompilation: no
Packaged: 2016-07-19 14:17:39 UTC; dfalbel
Repository: CRAN
Date/Publication: 2016-07-19 19:11:58

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New package QRegVCM with initial version 1.0
Package: QRegVCM
Type: Package
Title: Quantile Regression in Varying-Coefficient Models
Version: 1.0
Date: 2016-07-19
Author: Andriyana, Y. with contribution from Gijbels, I.
Maintainer: "Andriyana.Y" <y.andriyana@unpad.ac.id>
Description: Quantile regression in varying-coefficient models (VCM) using one particular nonparametric technique called P-splines. The functions can be applied on three types of VCM; (1) Homoscedastic VCM, (2) Simple heteroscedastic VCM, and (3) General heteroscedastic VCM.
Depends: R (>= 3.1.3), quantreg, SparseM, truncSP
License: GPL-2
NeedsCompilation: no
Packaged: 2016-07-19 14:54:37 UTC; unpd
Repository: CRAN
Date/Publication: 2016-07-19 18:57:11

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New package VariableScreening with initial version 0.1.0
Package: VariableScreening
Type: Package
Title: High-Dimensional Screening for Semiparametric Longitudinal Regression
Version: 0.1.0
Authors@R: c( person("Runze","Li", email = "runzelipsu@gmail.com", role = "aut"), person("Wanghuan","Chu", email = "dqchuwh@gmail.com", role = "aut"), person("Liying","Huang", email = "lxh37@PSU.EDU", role = c("aut","cre")), person("John","Dziak", email = "jjd264@psu.edu", role ="aut"))
Depends: R (>= 3.2.1)
Description: Implements a screening procedure proposed by Chu, Li, and Reimherr (2016) for varying coefficient longitudinal models with ultra- high dimensional predictors <http://imstat.org/aoas/next_issue.html>. The effect of each predictor is allowed to vary over time, approximated by a low-dimensional B-spline. Within-subject correlation is handled using a generalized estimation equation approach with structure specified by the user. Variance is allowed to change over time, also approximated by a B-spline.
Copyright: The Pennsylvania State University
Imports: gee, expm, splines, MASS
License: GPL (>= 2)
LazyData: TRUE
RoxygenNote: 5.0.1
NeedsCompilation: no
Packaged: 2016-07-18 18:18:00 UTC; admin_lxh37
Author: Runze Li [aut], Wanghuan Chu [aut], Liying Huang [aut, cre], John Dziak [aut]
Maintainer: Liying Huang <lxh37@PSU.EDU>
Repository: CRAN
Date/Publication: 2016-07-19 11:21:33

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New package BarcodingR with initial version 1.0-1
Package: BarcodingR
Title: Species Identification using DNA Barcodes
Version: 1.0-1
Authors@R: c(person("Ai-bing", "ZHANG", role = c("aut", "cre"),email = "Zhangab2008@mail.cnu.edu.cn"),person("Meng-di", "HAO", role = c("aut"),email = "dreamdy521@163.com"),person("Cai-qing", "YANG", role = c("aut"),email = "279226090@qq.com"),person("Zhi-yong", "SHI", role = c("aut"),email = "zhiyong-shi@163.com"))
Description: To perform species identification using DNA barcodes.
Depends: R (>= 3.2.1),ape,nnet,class,stats,sp
Suggests: pegas,cluster,compiler,cclust,utils
License: GPL-2
LazyData: true
ByteCompile: true
RoxygenNote: 5.0.1
NeedsCompilation: no
Packaged: 2016-07-19 03:03:54 UTC; root
Author: Ai-bing ZHANG [aut, cre], Meng-di HAO [aut], Cai-qing YANG [aut], Zhi-yong SHI [aut]
Maintainer: Ai-bing ZHANG <Zhangab2008@mail.cnu.edu.cn>
Repository: CRAN
Date/Publication: 2016-07-19 10:06:11

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Mon, 18 Jul 2016

New package tranSurv with initial version 1.0-0
Package: tranSurv
Type: Package
Title: Estimating a Survival Distribution in the Presence of Dependent Left Truncation and Right Censoring
Version: 1.0-0
Date: 2016-07-18
Author: Sy Han (Steven) Chiou
Maintainer: Sy Han (Steven) Chiou <schiou@hsph.harvard.edu>
Description: A structural transformation model for a latent, quasi-independent truncation time as a function of the observed dependent truncation time and the event time, and an unknown dependence parameter. The dependence parameter is chosen to minimize the conditional Kendall's tau. The marginal distribution for the truncation time and the event time are completely left unspecified.
License: GPL (>= 3)
LazyLoad: yes
Imports: survival, SQUAREM
Packaged: 2016-07-18 22:01:39 UTC; steven
NeedsCompilation: yes
Repository: CRAN
Date/Publication: 2016-07-19 02:33:36

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New package SuperRanker with initial version 1.0.1
Package: SuperRanker
Type: Package
Title: Sequential Rank Agreement
Version: 1.0.1
Date: 2016-07-19
Author: Claus Thorn Ekstrøm and Thomas Alexander Gerds
Maintainer: Claus Thorn Ekstrøm <ekstrom@sund.ku.dk>
Description: Tools for analysing the aggreement of two or more rankings of the same items. Examples are importance rankings of predictor variables and risk predictions of subjects. Benchmarks for agreement are computed based on random permutation and bootstrap.
License: GPL (>= 2)
Imports: stats, graphics, Rcpp (>= 0.11.5), prodlim (>= 1.5.7)
LinkingTo: Rcpp
RoxygenNote: 5.0.1
Encoding: UTF-8
NeedsCompilation: yes
Packaged: 2016-07-19 00:02:06 UTC; cld189
Repository: CRAN
Date/Publication: 2016-07-19 02:45:01

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New package simPATHy with initial version 0.1
Package: simPATHy
Type: Package
Title: Simulation Model of Expression Data for Pathway Analysis
Version: 0.1
Date: 2016-07-18
Authors@R: c(person("Elisa", "Salviato", email = "elisa.salviato.88@gmail.com", role = c("aut", "cre")), person("Vera", "Djordjilovic", email = "djordjilovic@stat.unipd.it", role = "aut"), person("Chiara","Romualdi",email="chiara.romualdi@unipd.it",role="aut"), person("Monica","Chiogna",email="monica@stat.unipd.it",role="aut"))
Description: Simulate data from a Gaussian graphical model or a Gaussian Bayesian network in two conditions. Given a covariance matrix of a reference condition simulate plausible dysregulations.
Depends: R (>= 2.10)
Imports: mvtnorm, gRbase, graph, igraph, ggm, qpgraph, R.utils, htmlwidgets, shiny, shinydashboard ,grDevices, graphics, stats
License: AGPL-3
LazyData: TRUE
RoxygenNote: 5.0.1
Suggests: knitr, rmarkdown
VignetteBuilder: knitr
NeedsCompilation: no
Packaged: 2016-07-18 16:10:47 UTC; Elisetta
Author: Elisa Salviato [aut, cre], Vera Djordjilovic [aut], Chiara Romualdi [aut], Monica Chiogna [aut]
Maintainer: Elisa Salviato <elisa.salviato.88@gmail.com>
Repository: CRAN
Date/Publication: 2016-07-18 20:08:47

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New package sensiPhy with initial version 0.5.0
Package: sensiPhy
Title: Sensitivity Analysis for Comparative Methods
Version: 0.5.0
Date: 2016-07-18
Authors@R: c( person("Gustavo","Paterno", email = "paternogbc@gmail.com", role = c("cre","aut")), person("Gijsbert", "Werner", email = "gijsbert.werner@zoo.ox.ac.uk", role = "aut"), person("Caterina", "Penone", email = "caterina.penone@gmail.com", role = "aut"))
Maintainer: Gustavo Paterno <paternogbc@gmail.com>
Description: An implementation of sensitivity analysis in phylogenetic regression models, for both linear and logistic phylogenetic regressions. The package is an umbrella of statistical and graphical methods that estimate and report different types of uncertainty in PGLS models: (i) Sampling uncertainty (sample size; influential species and clades). (ii) Phylogenetic uncertainty. (iii) Data uncertainty (intraspecific variation and measurement error).
Depends: R (>= 3.1.0), ape (>= 3.3), phylolm (>= 2.4), ggplot2 (>= 2.1.0)
License: GPL-2
URL: https://github.com/paternogbc/sensiPhy
BugReports: https://github.com/paternogbc/sensiPhy/issues
LazyData: true
RoxygenNote: 5.0.1
NeedsCompilation: no
Packaged: 2016-07-18 16:10:15 UTC; gugab
Author: Gustavo Paterno [cre, aut], Gijsbert Werner [aut], Caterina Penone [aut]
Repository: CRAN
Date/Publication: 2016-07-18 20:37:24

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New package Chaos01 with initial version 1.0.0
Package: Chaos01
Title: 0-1 Test for Chaos
Version: 1.0.0
Authors@R: person("Tomas", "Martinovic", email = "tomas.martinovic@vsb.cz", role = c("aut", "cre"))
Description: Computes and plot the results of the 0-1 test for chaos proposed by Gottwald and Melbourne (2004) <DOI:10.1137/080718851>. The algorithm is available in parallel for the independent values of parameter c.
Depends: R (>= 3.1.0)
License: GPL-3
Encoding: UTF-8
LazyData: true
NeedsCompilation: yes
Imports: graphics, stats
Suggests: parallel, Rmpi
RoxygenNote: 5.0.1.9000
Packaged: 2016-07-18 15:43:34 UTC; martinovic
Author: Tomas Martinovic [aut, cre]
Maintainer: Tomas Martinovic <tomas.martinovic@vsb.cz>
Repository: CRAN
Date/Publication: 2016-07-18 20:33:42

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New package BoardGames with initial version 1.0.0
Package: BoardGames
Type: Package
Title: Board Games and Tools for Building Board Games
Version: 1.0.0
Authors@R: c(person("Derek", "Qiu", role = c("aut", "cre"), email = "qiu.derek.d@gmail.com"))
Description: Tools for constructing board/grid based games, as well as readily available game(s) for your entertainment.
Depends: R (>= 3.0.2)
License: GPL (>= 2)
LazyData: TRUE
RoxygenNote: 5.0.1
NeedsCompilation: no
Packaged: 2016-07-18 18:25:23 UTC; admin123
Author: Derek Qiu [aut, cre]
Maintainer: Derek Qiu <qiu.derek.d@gmail.com>
Repository: CRAN
Date/Publication: 2016-07-18 20:37:26

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New package statTarget with initial version 1.2.0
Package: statTarget
Type: Package
Title: Statistical Analysis of Metabolite Profile
Version: 1.2.0
Date: 2016-07-014
Author: Hemi Luan
Maintainer: Hemi Luan <hemi.luan@gmail.com>
Depends: R (>= 3.3.0),gWidgets2
Imports: randomForest,plyr,LMGene,pracma,pROC,robustbase,utils, grDevices,graphics,stats,rrcov, RGtk2,pls
Suggests: car, pdist, testthat, impute, gWidgetsRGtk2
Description: A easy to use tool provides a graphical user interface for quality control based signal correction, integration of metabolomic data from multiple batches, and the comprehensive statistic analysis for non-targeted and targeted approaches.
License: GPL (>= 2)
URL: https://github.com/13479776
biocViews: Metabolomics, MassSpectrometry
RoxygenNote: 5.0.1
LazyData: true
NeedsCompilation: no
Packaged: 2016-07-18 00:32:38 UTC; Hees
Repository: CRAN
Date/Publication: 2016-07-18 16:15:52

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New package shinyTime with initial version 0.1.0
Package: shinyTime
Type: Package
Title: A Time Input Widget for Shiny
Version: 0.1.0
Authors@R: person("Gerhard", "Burger", email = "burger.ga@gmail.com", role = c("aut", "cre"))
Description: Provides a time input widget for Shiny. This widget allows intuitive time input in the '[hh]:[mm]:[ss]' (24H) format by using a separate numeric input for each part of the time. The interface with R uses 'DateTimeClasses' objects. See the project page for more information and examples.
License: GPL-3 | file LICENSE
LazyData: TRUE
Imports: htmltools, shiny
URL: https://github.com/burgerga/shinyTime
BugReports: https://github.com/burgerga/shinyTime/issues
RoxygenNote: 5.0.1
NeedsCompilation: no
Packaged: 2016-07-18 13:46:10 UTC; gerhard
Author: Gerhard Burger [aut, cre]
Maintainer: Gerhard Burger <burger.ga@gmail.com>
Repository: CRAN
Date/Publication: 2016-07-18 16:05:11

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New package funData with initial version 1.0
Package: funData
Type: Package
Title: An S4 Class for Functional Data
Version: 1.0
Date: 2016-07-18
Authors@R: person("Clara", "Happ", email = "clara.happ@stat.uni-muenchen.de", role = c("aut", "cre"))
Author: Clara Happ [aut, cre]
Maintainer: Clara Happ <clara.happ@stat.uni-muenchen.de>
Description: S4 classes for univariate and multivariate functional data with utility functions.
License: GPL-2
Depends: methods
Imports: abind, fields, foreach, graphics, grDevices, stats
Suggests: zoo, testthat
RoxygenNote: 5.0.1
NeedsCompilation: no
Packaged: 2016-07-18 09:03:34 UTC; happ
Repository: CRAN
Date/Publication: 2016-07-18 13:59:36

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Sun, 17 Jul 2016

New package SinIW with initial version 0.1
Package: SinIW
Type: Package
Title: The SinIW Distribution
Version: 0.1
Date: 2016-07-14
Author: Luciano Souza <lcnsza@gmail.com>, Lucas Gallindo <lgallindo@gmail.com>, Luciano Serafim de Souza <lucianoserafimdesouza@gmail.com>
Maintainer: Lucas Gallindo <lgallindo@gmail.com>
Description: Density, distribution function, quantile function, random generation and survival function for the Sine Inverse Weibull Distribution as defined by SOUZA, L. New Trigonometric Class of Probabilistic Distributions. 219 p. Thesis (Doctorate in Biometry and Applied Statistics) - Department of Statistics and Information, Federal Rural University of Pernambuco, Recife, Pernambuco, 2015 (available at <http://www.openthesis.org/documents/New-trigonometric-classes-probabilistic-distributions-602633.html>) and BRITO, C. C. R. Method Distributions generator and Probability Distributions Classes. 241 p. Thesis (Doctorate in Biometry and Applied Statistics) - Department of Statistics and Information, Federal Rural University of Pernambuco, Recife, Pernambuco, 2014 (available upon request).
Depends: R (>= 3.0.1)
Imports: pracma, fdrtool
License: MIT + file LICENSE
LazyData: TRUE
URL: https://github.com/TrigonometricDistribution
BugReports: https://github.com/TrigonometricDistribution/SinIW/issues
RoxygenNote: 5.0.1
NeedsCompilation: no
Packaged: 2016-07-17 17:16:23 UTC; Robson
Repository: CRAN
Date/Publication: 2016-07-17 22:12:28

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New package SecKW with initial version 0.1
Package: SecKW
Type: Package
Title: The SecKW Distribution
Version: 0.1
Date: 2016-07-14
Author: Luciano Souza <lcnsza@gmail.com>, Lucas Gallindo <lgallindo@gmail.com>, Luciano Serafim de Souza <lucianoserafimdesouza@gmail.com>
Maintainer: Lucas Gallindo <lgallindo@gmail.com>
Description: Density, distribution function, quantile function, random generation and survival function for the Secant Kumaraswamy Weibull Distribution as defined by SOUZA, L. New Trigonometric Class of Probabilistic Distributions. 219 p. Thesis (Doctorate in Biometry and Applied Statistics) - Department of Statistics and Information, Federal Rural University of Pernambuco, Recife, Pernambuco, 2015 (available at <http://www.openthesis.org/documents/New-trigonometric-classes-probabilistic-distributions-602633.html>) and BRITO, C. C. R. Method Distributions generator and Probability Distributions Classes. 241 p. Thesis (Doctorate in Biometry and Applied Statistics) - Department of Statistics and Information, Federal Rural University of Pernambuco, Recife, Pernambuco, 2014 (available upon request).
Depends: R (>= 3.0.1)
Imports: pracma, fdrtool
License: MIT + file LICENSE
LazyData: TRUE
URL: https://github.com/TrigonometricDistribution
BugReports: https://github.com/TrigonometricDistribution/SecKW/issues
RoxygenNote: 5.0.1
NeedsCompilation: no
Packaged: 2016-07-17 17:24:27 UTC; Robson
Repository: CRAN
Date/Publication: 2016-07-17 22:12:30

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New package CosW with initial version 0.1
Package: CosW
Type: Package
Title: The CosW Distribution
Version: 0.1
Date: 2016-07-14
Author: Luciano Souza <lcnsza@gmail.com>, Lucas Gallindo <lgallindo@gmail.com>, Luciano Serafim de Souza <lucianoserafimdesouza@gmail.com>
Maintainer: Lucas Gallindo <lgallindo@gmail.com>
Description: Density, distribution function, quantile function, random generation and survival function for the Cosine Weibull Distribution as defined by SOUZA, L. New Trigonometric Class of Probabilistic Distributions. 219 p. Thesis (Doctorate in Biometry and Applied Statistics) - Department of Statistics and Information, Federal Rural University of Pernambuco, Recife, Pernambuco, 2015 (available at <http://www.openthesis.org/documents/New-trigonometric-classes-probabilistic-distributions-602633.html>) and BRITO, C. C. R. Method Distributions generator and Probability Distributions Classes. 241 p. Thesis (Doctorate in Biometry and Applied Statistics) - Department of Statistics and Information, Federal Rural University of Pernambuco, Recife, Pernambuco, 2014 (available upon request).
Depends: R (>= 3.0.1)
Imports: pracma, fdrtool
License: MIT + file LICENSE
LazyData: TRUE
URL: https://github.com/TrigonometricDistribution
BugReports: https://github.com/TrigonometricDistribution/CosW/issues
RoxygenNote: 5.0.1
NeedsCompilation: no
Packaged: 2016-07-17 17:21:36 UTC; Robson
Repository: CRAN
Date/Publication: 2016-07-17 22:12:26

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Sat, 16 Jul 2016

New package LaplacesDemon with initial version 16.0.1
Package: LaplacesDemon
Version: 16.0.1
Date: 2016-07-04
Title: Complete Environment for Bayesian Inference
Authors@R: c(person("Byron", "Hall", role = "aut"), person("Martina", "Hall", role = "aut"), person(family="Statisticat, LLC", role = "aut"), person(given="Eric", family="Brown", role = "ctb"), person(given="Richard", family="Hermanson", role = "ctb"), person(given="Emmanuel", family="Charpentier", role = "ctb"), person(given="Henrik", family="Singmann", email="singmann+LaplacesDemon@gmail.com", role="cre"))
Depends: R (>= 3.0.0)
Imports: parallel, grDevices, graphics, stats, utils
Suggests: KernSmooth
ByteCompile: TRUE
Description: Provides a complete environment for Bayesian inference using a variety of different samplers (see ?LaplacesDemon for an overview). The README describes the history of the package development process.
License: MIT + file LICENSE
URL: https://github.com/LaplacesDemonR/LaplacesDemon
BugReports: https://github.com/LaplacesDemonR/LaplacesDemon/issues
NeedsCompilation: no
Packaged: 2016-07-16 19:24:34 UTC; henrik
Author: Byron Hall [aut], Martina Hall [aut], Statisticat, LLC [aut], Eric Brown [ctb], Richard Hermanson [ctb], Emmanuel Charpentier [ctb], Henrik Singmann [cre]
Maintainer: Henrik Singmann <singmann+LaplacesDemon@gmail.com>
X-CRAN-Comment: The package has been archived on maintainer request on 2013-07-16.
Repository: CRAN
Date/Publication: 2016-07-17 02:10:04

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Fri, 15 Jul 2016

New package sbfc with initial version 1.0
Package: sbfc
Type: Package
Title: Selective Bayesian Forest Classifier
Version: 1.0
Date: 2016-07-14
Author: Viktoriya Krakovna
Maintainer: Viktoriya Krakovna <vkrakovna@gmail.com>
URL: http://github.com/vkrakovna/sbfc
BugReports: http://github.com/vkrakovna/sbfc/issues
Description: An MCMC algorithm for simultaneous feature selection and classification, and visualization of the selected features and feature interactions. An implementation of SBFC by Krakovna, Du and Liu (2015), <http://arxiv.org/abs/1506.02371>.
License: GPL (>= 2)
Depends: R (>= 2.10)
Imports: Rcpp (>= 0.12.2), DiagrammeR, Matrix, discretization
LinkingTo: Rcpp, RcppArmadillo
RoxygenNote: 5.0.1
LazyData: true
NeedsCompilation: yes
Packaged: 2016-07-15 18:33:14 UTC; Vika
Repository: CRAN
Date/Publication: 2016-07-16 00:01:12

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New package mason with initial version 0.2.4
Package: mason
Type: Package
Title: Build Data Structures for Common Statistical Analysis
Version: 0.2.4
Authors@R: person("Luke", "Johnston", email = "lwjohnst@gmail.com", role = c("aut", "cre"))
Description: Use a consistent syntax to create data structures of common statistical techniques that can be continued in a pipe chain. Design the analysis, add settings and variables, construct the results, and polish the final structure. Rinse and repeat for any number of statistical techniques.
License: MIT + file LICENSE
LazyData: TRUE
Depends: R (>= 3.1.0)
Imports: dplyr, tidyr, broom, assertive, magrittr, stats, utils, lazyeval, MASS
RoxygenNote: 5.0.1
Suggests: knitr, geepack, rmarkdown, testthat
VignetteBuilder: knitr
BugReports: https://github.com/lwjohnst86/mason/issues
URL: https://github.com/lwjohnst86/mason
NeedsCompilation: no
Packaged: 2016-07-15 21:40:30 UTC; luke
Author: Luke Johnston [aut, cre]
Maintainer: Luke Johnston <lwjohnst@gmail.com>
Repository: CRAN
Date/Publication: 2016-07-15 23:46:18

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New package EconDemand with initial version 1.0
Package: EconDemand
Title: General Analysis of Various Economics Demand Systems
Version: 1.0
Authors@R: person("Tianhao", "Wu", email = "tianhao.wu@yale.edu", role = c("aut", "cre"))
Imports: stats, graphics
Description: Tools for general properties including price, quantity, elasticity, convexity, marginal revenue and manifold of various economics demand systems including Linear, Translog, CES, LES and CREMR.
Depends: R (>= 3.2.2)
License: GNU General Public License version 2
Encoding: UTF-8
LazyData: true
RoxygenNote: 5.0.1
NeedsCompilation: no
Packaged: 2016-07-15 18:13:29 UTC; tianhaowu
Author: Tianhao Wu [aut, cre]
Maintainer: Tianhao Wu <tianhao.wu@yale.edu>
Repository: CRAN
Date/Publication: 2016-07-16 00:01:13

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New package funrar with initial version 1.0.0
Package: funrar
Title: Functional Rarity Indices Computation
Version: 1.0.0
Authors@R: c( person("Matthias", "Grenié", email = "matthias.grenie@gmail.com", role = c("aut", "cre")), person("Pierre", "Denelle", email = "pierre.denelle@cefe.cnrs.fr", role = "aut"), person("Caroline", "Tucker", email = "carolinemtucker@gmail.com", role = "aut") )
Description: Computes functional rarity indices as proposed by Violle et al (in revision). Various indices can be computed using both regional and local information. Functional Rarity combines both the functional aspect of rarity as well as the extent aspect of rarity.
Depends: R (>= 3.2.2)
License: GPL (>= 2)
LazyData: true
Imports: cluster, dplyr (>= 0.4.3), methods, stats
URL: https://github.com/Rekyt/funrar
BugReports: https://github.com/Rekyt/funrar/issues
RoxygenNote: 5.0.1
Suggests: ade4, ggplot2, knitr, Matrix, microbenchmark, reshape2, rmarkdown, StatMatch, testthat
VignetteBuilder: knitr
Encoding: UTF-8
NeedsCompilation: no
Packaged: 2016-07-15 14:44:09 UTC; grenie
Author: Matthias Grenié [aut, cre], Pierre Denelle [aut], Caroline Tucker [aut]
Maintainer: Matthias Grenié <matthias.grenie@gmail.com>
Repository: CRAN
Date/Publication: 2016-07-15 17:34:08

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New package cobalt with initial version 1.0.0
Package: cobalt
Title: Covariate Balance Tables and Plots
Version: 1.0.0
Author: Noah Greifer [aut, cre]
Maintainer: Noah Greifer <noah@unc.edu>
Description: Generate balance tables and plots for covariates of groups preprocessed through matching, weighting or subclassification, for example, using propensity scores. Includes integration with 'MatchIt', 'twang', 'Matching', and 'CBPS' for assessing balance on the output of their preprocessing functions. Users can also specify their data not generated through the above packages.
Depends: R (>= 3.2.0)
Imports: ggplot2
Suggests: MatchIt, twang, Matching, CBPS
License: GPL (>= 2)
Encoding: UTF-8
LazyData: true
Date: 2016-07-14
NeedsCompilation: no
Packaged: 2016-07-15 14:36:23 UTC; NoahGreifer
Repository: CRAN
Date/Publication: 2016-07-15 17:34:06

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New package pMineR with initial version 0.27
Package: pMineR
Type: Package
Title: Processes Mining in Medicine
Version: 0.27
Date: 2016-07-14
Authors@R: c(person("Roberto", "Gatta", role = c("aut", "cre"), email = "roberto.gatta.bs@gmail.com"), person("Jacopo", "Lenkowicz", role = "aut"), person("Mauro", "Vallati", role = "aut"), person("Alessandro", "Stefanini", role = "aut"), person("Nicola", "Dinapoli", role = "ctb"), person("Berardino", "De Bari", role = "ctb"), person("Lucia", "Sacchi", role = "ctb"))
Author: Roberto Gatta [aut, cre], Jacopo Lenkowicz [aut], Mauro Vallati [aut], Alessandro Stefanini [aut], Nicola Dinapoli [ctb], Berardino De Bari [ctb], Lucia Sacchi [ctb]
Maintainer: Roberto Gatta <roberto.gatta.bs@gmail.com>
Description: Allows to build and train simple Process Mining (PM) models (at the moment only AlphaAlgorithm and First Order Markov Model). The aim is to support PM specifically for the clinical domain from both administrative and clinical data.
License: GPL-2
Depends: DiagrammeR (>= 0.8.2), stringr (>= 1.0.0), XML (>= 3.98-1.3)
NeedsCompilation: yes
RoxygenNote: 5.0.1
Packaged: 2016-07-15 12:51:15 UTC; roberto
Repository: CRAN
Date/Publication: 2016-07-15 15:25:23

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New package RM.weights with initial version 1.0
Package: RM.weights
Type: Package
Title: Weighted Rasch Modeling and Extensions using Conditional Maximum Likelihood
Version: 1.0
Date: 2016-07-14
Author: Carlo Cafiero, Mark Nord, Sara Viviani
Maintainer: Sara Viviani <sara.viviani@fao.org>
Description: Rasch model and extensions for survey data, using Conditional Maximum likelihood (CML).
License: GPL (>= 3.0.0)
Depends: R (>= 3.0.0), psychotools, Hmisc
Packaged: 2016-07-15 08:30:04 UTC; viviani
NeedsCompilation: no
Repository: CRAN
Date/Publication: 2016-07-15 14:07:10

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New package sophisthse with initial version 0.7.0
Package: sophisthse
Type: Package
Title: Load Russian Economic Indicators from the Archive of Economic and Social Data
Version: 0.7.0
Date: 2016-06-27
Author: Boris Demeshev
Maintainer: Boris Demeshev <boris.demeshev@gmail.com>
Depends: R (>= 2.10)
Imports: XML, RCurl, zoo, dplyr (>= 0.2), stringr
Description: Load Russian economic indicators from the Archive of Economic and Social Data <http://sophist.hse.ru/>.
License: GPL-3
LazyData: true
RoxygenNote: 5.0.1
Suggests: knitr, rmarkdown, forecast (>= 7.0)
VignetteBuilder: knitr
NeedsCompilation: no
Packaged: 2016-07-14 23:14:14 UTC; boris
Repository: CRAN
Date/Publication: 2016-07-15 10:31:40

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New package modEvA with initial version 1.3.2
Package: modEvA
Type: Package
Title: Model Evaluation and Analysis
Version: 1.3.2
Date: 2016-07-12
Author: Barbosa A.M., Brown J.A., Jimenez-Valverde A., Real R.
Maintainer: A. Marcia Barbosa <barbosa@uevora.pt>
Imports: graphics, stats
Description: Analyses species distribution models and evaluates their performance. It includes functions for performing variation partitioning, calculating several measures of model discrimination and calibration, optimizing prediction thresholds based on a number of criteria, performing multivariate environmental similarity surface (MESS) analysis, and displaying various analytical plots.
LazyLoad: yes
LazyData: yes
License: GPL-3
URL: http://modeva.r-forge.r-project.org/
Repository: CRAN
Repository/R-Forge/Project: modeva
Repository/R-Forge/Revision: 106
Repository/R-Forge/DateTimeStamp: 2016-07-14 16:37:50
Date/Publication: 2016-07-15 10:38:46
NeedsCompilation: no
Packaged: 2016-07-14 16:45:21 UTC; rforge
Depends: R (>= 2.10)

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Thu, 14 Jul 2016

New package RStripe with initial version 0.1
Package: RStripe
Title: A Convenience Interface for the Stripe Payment API
Version: 0.1
Author: Evan Farrell <evandev@gastrograph.com>
Maintainer: Evan Farrell <evandev@gastrograph.com>
Description: A convenience interface for communicating with the Stripe payment processor to accept payments online. See <https://stripe.com> for more information.
Depends: R (>= 3.1.1)
Imports: jsonlite, RCurl, httr
License: MIT + file LICENSE
LazyData: true
RoxygenNote: 5.0.1
NeedsCompilation: no
Packaged: 2016-07-14 21:42:22 UTC; evan
Repository: CRAN
Date/Publication: 2016-07-15 00:28:26

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New package lmeresampler with initial version 0.1.0
Package: lmeresampler
Title: Bootstrap Methods for Nested Linear Mixed-Effects Models
Version: 0.1.0
Authors@R: c(person("Adam", "Loy", email = "loyad01@gmail.com", role = c("aut", "cre")), person("Spenser", "steele", role = "aut"))
Description: Bootstrap routines for nested linear mixed effects models fit using either 'lme4' or 'nlme'. The provided 'bootstrap()' function implements the parametric, semi-parametric (i.e., CGR), residual, cases, and random effect block (REB) bootstrap procedures.
Depends: R (>= 3.1.2)
Imports: boot, plyr, dplyr, Matrix, nlmeU, RLRsim
Suggests: lme4 (>= 1.1-7), nlme, testthat, mlmRev
License: GPL-3
LazyData: true
URL: https://github.com/aloy/lmeresampler
BugReports: https://github.com/aloy/lmeresampler/issues
RoxygenNote: 5.0.1
NeedsCompilation: no
Packaged: 2016-07-14 20:29:26 UTC; loya
Author: Adam Loy [aut, cre], Spenser steele [aut]
Maintainer: Adam Loy <loyad01@gmail.com>
Repository: CRAN
Date/Publication: 2016-07-15 00:31:07

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New package Peacock.test with initial version 1.0
Package: Peacock.test
Type: Package
Title: Two and Three Dimensional Kolmogorov-Smirnov Two-Sample Tests
Version: 1.0
Date: 2016-07-13
Author: Yuanhui Xiao
Maintainer: Yuanhui Xiao <xiao_yuanhui@hotmail.com>
Description: The original definition of the two and three dimensional Kolmogorov-Smirnov two-sample test statistics given by Peacock (1983) is implemented. Two R-functions: peacock2 and peacock3, are provided to compute the test statistics in two and three dimensional spaces, respectively. Note the Peacock test is different from the Fasano and Franceschini test (1987). The latter is a variant of the Peacock test.
License: GPL-2
Packaged: 2016-07-14 16:59:45 UTC; Y Xiao
NeedsCompilation: no
Repository: CRAN
Date/Publication: 2016-07-14 20:33:50

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New package milr with initial version 0.1.0
Package: milr
Type: Package
Title: Multiple-Instance Logistic Regression with LASSO Penalty
Version: 0.1.0
Date: 2016-07-14
Description: The multiple instance data set consists of many independent subjects (called bags) and each subject is composed of several components (called instances). The outcomes of such data set are binary or multinomial, and, we can only observe the subject-level outcomes. For example, in manufactory processes, a subject is labeled as "defective" if at least one of its own components is defective, and otherwise, is labeled as "non-defective". The milr package focuses on the predictive model for the multiple instance data set with binary outcomes and performs the maximum likelihood estimation with the Expectation-Maximization algorithm under the framework of logistic regression. Moreover, the LASSO penalty is attached to the likelihood function for simultaneous parameter estimation and variable selection.
Authors@R: c(person("Ping-Yang", "Chen", , "pychen.ping@gmail.com", c("aut", "cre")), person("ChingChuan", "Chen", , "celestial0230@stat.sinica.edu.tw", "aut"), person("Chun-Hao", "Yang", , "chunhaoyang@ufl.edu", "aut"), person("Sheng-Mao", "Chang", , "smchang@mail.ncku.edu.tw", "aut"))
Author: Ping-Yang Chen [aut, cre], ChingChuan Chen [aut], Chun-Hao Yang [aut], Sheng-Mao Chang [aut]
URL: https://github.com/PingYangChen/milr
BugReports: https://github.com/PingYangChen/milr/issues
Maintainer: Ping-Yang Chen <pychen.ping@gmail.com>
Depends: R (>= 3.2.3)
Imports: assertthat, pipeR (>= 0.5), numDeriv, purrr (>= 0.2.0), Rcpp (>= 0.12.0), utils
LinkingTo: Rcpp, RcppArmadillo
Suggests: testthat
LazyData: yes
License: MIT + file LICENSE
Collate: 'RcppExports.R' 'milr-package.R' 'DGP.R' 'softmax.R' 'milr.R'
RoxygenNote: 5.0.1
NeedsCompilation: yes
Packaged: 2016-07-14 15:46:29 UTC; stat
Repository: CRAN
Date/Publication: 2016-07-14 20:15:18

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New package imfr with initial version 0.1.0
Package: imfr
Type: Package
Title: Download Data from the International Monetary Fund's Data API
Version: 0.1.0
Description: Explore and download data from the International Monetary Fund's data API <http://data.imf.org/>.
Date: 2016-07-14
Authors@R: c( person("Christopher", "Gandrud", email = "christopher.gandrud@gmail.com", role = c("aut", "cre")) )
BugReports: https://github.com/christophergandrud/imfr/issues
License: GPL (>= 3)
Imports: dplyr, httr (>= 1.2.0), jsonlite
LazyData: TRUE
RoxygenNote: 5.0.1
NeedsCompilation: no
Packaged: 2016-07-14 17:54:52 UTC; christophergandrud
Author: Christopher Gandrud [aut, cre]
Maintainer: Christopher Gandrud <christopher.gandrud@gmail.com>
Repository: CRAN
Date/Publication: 2016-07-14 20:16:44

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New package matrixLaplacian with initial version 1.0
Package: matrixLaplacian
Title: Normalized Laplacian Matrix and Laplacian Map
Version: 1.0
Authors@R: person("Tianhao", "Wu", email = "tianhao.wu@yale.edu", role = c("aut", "cre"))
Imports: scatterplot3d, graphics
Description: Constructs the normalized Laplacian matrix of a square matrix, returns the eigenvectors (singular vectors) and visualization of normalized Laplacian map.
Depends: R (>= 3.2.2)
License: GNU General Public License version 2
Encoding: UTF-8
LazyData: true
RoxygenNote: 5.0.1
NeedsCompilation: no
Packaged: 2016-07-14 13:44:09 UTC; tianhaowu
Author: Tianhao Wu [aut, cre]
Maintainer: Tianhao Wu <tianhao.wu@yale.edu>
Repository: CRAN
Date/Publication: 2016-07-14 15:57:37

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New package rDNAse with initial version 1.1-1
Package: rDNAse
Type: Package
Version: 1.1-1
Date: 2016-6-24
Title: Generating Various Numerical Representation Schemes of DNA Sequences
Description: Comprehensive toolkit for generating various numerical representation schemes of DNA sequence. The descriptors and similarity scores included are extensively used in bioinformatics and chemogenomics.
Author: Min-feng Zhu <wind2zhu@163.com>, Jie Dong <biomed@csu.edu.cn>, Dong-sheng Cao <oriental-cds@163.com>
Maintainer: Min-feng Zhu <wind2zhu@163.com>
License: GPL (>= 2)
URL: https://github.com/wind22zhu/rDNAse
BugReports: https://github.com/wind22zhu/rDNAse/issues
LazyData: yes
Suggests: Biostrings, GOSemSim, foreach, doParallel, RCurl, org.Hs.eg.db
RoxygenNote: 5.0.1
NeedsCompilation: no
Packaged: 2016-07-14 00:59:48 UTC; root
Repository: CRAN
Date/Publication: 2016-07-14 07:18:52

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New package givitiR with initial version 1.2
Package: givitiR
Type: Package
Title: The GiViTI Calibration Test and Belt
Version: 1.2
Date: 2016-06-28
Authors@R: c(person("Giovanni", "Nattino", email = "giovanni.nattino@marionegri.it", role = c("cre","aut")), person("Stefano", "Finazzi", role = "aut"), person("Guido", "Bertolini", role = "aut"), person("Carlotta", "Rossi", role = "aut"), person("Greta", "Carrara", role = "aut"))
Description: Functions to assess the calibration of logistic regression models with the GiViTI (Gruppo Italiano per la Valutazione degli interventi in Terapia Intensiva, Italian Group for the Evaluation of the Interventions in Intensive Care Units - see <http://www.giviti.marionegri.it/>) approach. The approach consists in a graphical tool, namely the GiViTI calibration belt, and in the associated statistical test. These tools can be used both to evaluate the internal calibration (i.e. the goodness of fit) and to assess the validity of an externally developed model.
License: GPL-3
LazyData: TRUE
Imports: alabama, rootSolve, grDevices, graphics, stats
Suggests: testthat, knitr, rmarkdown
VignetteBuilder: knitr
NeedsCompilation: no
Packaged: 2016-07-13 19:30:28 UTC; Giovanni
Author: Giovanni Nattino [cre, aut], Stefano Finazzi [aut], Guido Bertolini [aut], Carlotta Rossi [aut], Greta Carrara [aut]
Maintainer: Giovanni Nattino <giovanni.nattino@marionegri.it>
Repository: CRAN
Date/Publication: 2016-07-14 07:21:13

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Wed, 13 Jul 2016

New package TCGAretriever with initial version 1.1
Package: TCGAretriever
Type: Package
Title: Retrieve Genomic and Clinical Data from TCGA
Version: 1.1
Date: 2016-07-11
Author: Damiano Fantini
Maintainer: Damiano Fantini <damiano.fantini@gmail.com>
Depends: R (>= 3.0.0)
Imports: httr, graphics
Suggests: XML, stats, Hmisc
Description: The Cancer Genome Atlas (TCGA) is a program aimed at improving our understanding of Cancer Biology. Several TCGA Datasets are available online. 'TCGAretriever' helps accessing and downloading TCGA data via the 'cBioPortal' Web Interface (see <http://www.cbioportal.org/web_api.jsp> for more information). Features of 'TCGAretriever' include: 1) it is very simple to use (get all the TCGA data you need with a few lines of code); 2) performance (smooth and reliable data download via 'httr'); 3) it is tailored for downloading large volumes of data.
License: GPL-2
NeedsCompilation: no
Packaged: 2016-07-13 17:20:13 UTC; dami
Repository: CRAN
Date/Publication: 2016-07-13 19:42:25

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New package SizeEstimation with initial version 1.1.0
Package: SizeEstimation
Type: Package
Title: Estimating the Sizes of Populations at Risk of HIV Infection from Multiple Data Sources Using a Bayesian Hierarchical Model
Version: 1.1.0
Author: Le Bao, Kyongwon Kim
Maintainer: Kyongwon Kim<kbk5206@psu.edu>
Description: This function develops an algorithm for presenting a Bayesian hierarchical model for estimating the sizes of local and national drug injected populations in Bangladesh. The model incorporates multiple commonly used data sources including mapping data, surveys, interventions, capture-recapture data, estimates or guesstimates from organizations, and expert opinion.
Imports: MCMCpack, msm
License: GPL-3
LazyData: TRUE
RoxygenNote: 5.0.1
NeedsCompilation: no
Packaged: 2016-07-13 16:11:04 UTC; Kyongwon
Repository: CRAN
Date/Publication: 2016-07-13 18:28:28

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New package rootWishart with initial version 0.3.0
Package: rootWishart
Title: Distribution of Largest Root for Single and Double Wishart Settings
Version: 0.3.0
Authors@R: person("Maxime", "Turgeon", email = "maxime.turgeon@mail.mcgill.ca", role = c("aut", "cre"))
Description: Functions for hypothesis testing in single and double Wishart settings, based on Roy's largest root. This test statistic is especially useful in multivariate analysis. The computations are based on results by Chiani (2014) <DOI:10.1016/j.jmva.2014.04.002> and Chiani (2016) <DOI:10.1016/j.jmva.2015.10.007>. They use the fact that the CDF is related to the Pfaffian of a matrix that can be computed in a finite number of iterations. This package takes advantage of the Boost and Eigen C++ libraries to perform multi-precision linear algebra.
Depends: R (>= 3.1.0)
License: GPL (>= 2)
Encoding: UTF-8
LazyData: true
NeedsCompilation: yes
RoxygenNote: 5.0.1
LinkingTo: Rcpp, RcppEigen, BH
Imports: Rcpp
URL: http://github.com/turgeonmaxime/rootWishart
BugReports: http://github.com/turgeonmaxime/rootWishart/issues
Packaged: 2016-07-13 13:24:05 UTC; mturgeon
Author: Maxime Turgeon [aut, cre]
Maintainer: Maxime Turgeon <maxime.turgeon@mail.mcgill.ca>
Repository: CRAN
Date/Publication: 2016-07-13 16:17:16

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New package QGglmm with initial version 0.4
Package: QGglmm
Type: Package
Title: Estimate Quantitative Genetics Parameters from Generalised Linear Mixed Models
Version: 0.4
Date: 2016-07-13
Author: Pierre de Villemereuil <bonamy@horus.ens.fr>
Maintainer: Pierre de Villemereuil <bonamy@horus.ens.fr>
BugReports: https://github.com/devillemereuil/qgglmm/issues
Description: Compute various quantitative genetics parameters from a Generalised Linear Mixed Model (GLMM) estimates. Especially, it yields the observed phenotypic mean, phenotypic variance and additive genetic variance.
Depends: mvtnorm, R2Cuba
License: GPL-2
NeedsCompilation: no
Packaged: 2016-07-13 10:23:12 UTC; flyos
Repository: CRAN
Date/Publication: 2016-07-13 14:52:24

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New package SDEFSR with initial version 0.7.1.0
Package: SDEFSR
Type: Package
Title: Subgroup Discovery with Evolutionary Fuzzy Systems in R
Version: 0.7.1.0
Date: 2016-07-27
Authors@R: c(person("Angel M.", "Garcia", email = "amgv0009@red.ujaen.es", role = c("aut", "cre")), person("Pedro", "Gonzalez", email = "pglez@ujaen.es", role = c("aut", "cph")), person("Cristobal J.", "Carmona", email = "ccarmona@ujaen.es", role = c("aut", "cph")), person("Francisco", "Charte", email = "francisco@fcharte.com", role = "ctb"), person("Maria J.", "del Jesus", email = "mjjesus@ujaen.es", role = c("aut", "cph")) )
Maintainer: Angel M. Garcia <amgv0009@red.ujaen.es>
Description: Implementation of evolutionary fuzzy systems for the data mining task called "subgroup discovery". It also provide a Shiny App for make the analysis easier. The algorithms works with data sets provided in KEEL, ARFF and CSV format and also with data.frame objects.
URL: https://github.com/aklxao2/SDR
Depends: R (>= 3.0.0)
License: LGPL (>= 3) | file LICENSE
LazyData: TRUE
Imports: grDevices, methods, parallel, stats, utils
Suggests: ggplot2, knitr, shiny (>= 0.11)
VignetteBuilder: knitr
RoxygenNote: 5.0.1
NeedsCompilation: no
Packaged: 2016-07-12 16:54:11 UTC; angel
Author: Angel M. Garcia [aut, cre], Pedro Gonzalez [aut, cph], Cristobal J. Carmona [aut, cph], Francisco Charte [ctb], Maria J. del Jesus [aut, cph]
Repository: CRAN
Date/Publication: 2016-07-13 10:19:14

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New package europepmc with initial version 0.1.0
Package: europepmc
Title: R Interface to the Europe PubMed Central RESTful Web Service
Version: 0.1.0
Authors@R: c( person("Najko", "Jahn", email = "najko.jahn@gmail.com", role = c("aut", "cre", "cph")))
License: GPL-3
URL: http://github.com/ropensci/europepmc/
BugReports: http://github.com/ropensci/europepmc/issues
Description: An R Client for the Europe PubMed Central RESTful Web Service. It gives access to both metadata on life science literature and open access full texts. Europe PMC indexes all PubMed content and other literature sources including Agricola, a bibliographic database of citations to the agricultural literature, or Biological Patents. In addition to bibliographic metadata, the client allows users to fetch citations and reference lists. Links between life-science literature and other EBI databases, including ENA, PDB or ChEMBL are also accessible. No registration or API key is required. See the vignettes for usage examples.
LazyLoad: yes
LazyData: yes
VignetteBuilder: knitr
Depends: R (>= 3.00)
Imports: httr, jsonlite, plyr, xml2
RoxygenNote: 5.0.1
Suggests: testthat, knitr, rmarkdown
NeedsCompilation: no
Packaged: 2016-07-12 16:32:11 UTC; najko
Author: Najko Jahn [aut, cre, cph]
Maintainer: Najko Jahn <najko.jahn@gmail.com>
Repository: CRAN
Date/Publication: 2016-07-13 10:19:21

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New package bookdown with initial version 0.1
Package: bookdown
Type: Package
Title: Authoring Books with R Markdown
Version: 0.1
Authors@R: c( person("Yihui", "Xie", role = c("aut", "cre"), email = "xie@yihui.name"), person("JJ", "Allaire", role = "ctb"), person(family = "RStudio Inc", role = "cph"), person("Bartek", "Szopka", role = "ctb", comment = "The jQuery Highlight plugin"), person(family = "jQuery Foundation", role = "cph", comment = "jQuery library"), person(family = "jQuery contributors", role = c("ctb", "cph"), comment = "jQuery library; authors listed in inst/resources/AUTHORS"), person(family = "MathQuill contributors", role = "ctb", comment = "The MathQuill library; authors listed in inst/resources/AUTHORS"), person(family = "FriendCode Inc", role = c("cph", "ctb"), comment = "The gitbook style, with modifications") )
Maintainer: Yihui Xie <xie@yihui.name>
Description: Output formats and utilities for authoring books with R Markdown.
License: GPL-3
Imports: htmltools (>= 0.3.5), knitr (>= 1.13), miniUI, rmarkdown (>= 0.9.6), yaml, rsconnect (>= 0.4.3)
Suggests: htmlwidgets, rstudioapi, servr (>= 0.3), shiny, testit (>= 0.5), tufte, webshot
URL: https://github.com/rstudio/bookdown
BugReports: https://github.com/rstudio/bookdown/issues
LazyData: TRUE
RoxygenNote: 5.0.1
NeedsCompilation: no
Packaged: 2016-07-12 11:42:24 UTC; yihui
Author: Yihui Xie [aut, cre], JJ Allaire [ctb], RStudio Inc [cph], Bartek Szopka [ctb] (The jQuery Highlight plugin), jQuery Foundation [cph] (jQuery library), jQuery contributors [ctb, cph] (jQuery library; authors listed in inst/resources/AUTHORS), MathQuill contributors [ctb] (The MathQuill library; authors listed in inst/resources/AUTHORS), FriendCode Inc [cph, ctb] (The gitbook style, with modifications)
Repository: CRAN
Date/Publication: 2016-07-13 10:19:19

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Tue, 12 Jul 2016

New package SiMRiv with initial version 0.9
Package: SiMRiv
Version: 0.9
Date: 2016-07-12
Title: Individual-Based, Spatially-Explicit Simulation and Analysis of Multi-State Movements in River Networks and Heterogeneous Landscapes
Authors@R: c(person("Lorenzo", "Quaglietta", role = c("aut"), email = "lontrenzo@gmail.com") ,person("Miguel", "Porto", role = c("aut", "cre"), email = "mpbertolo@gmail.com") ,person("Erida", "Gjini", role = c("ctb"), email = "egjini@igc.gulbenkian.pt") ,person("Bob", "Harris", role = c("ctb")) )
Depends: R (>= 1.8.0), raster
Imports: methods, stats
Suggests: adehabitatLT, maptools
Description: Provides functions to generate and analyze individual-based spatially-explicit simulations of multi-state movements in heterogeneous landscapes, based on "resistance" rasters. Although originally conceived and designed to fill the gap of softwares simulating spatially-explicit trajectories of species constrained to linear, dendritic habitats (e.g., river networks), the simulation algorithm is built to be highly flexible and can be applied to any (aquatic, semi-aquatic or terrestrial) organism. Thus, the user will be able to use the package to simulate movements either in homogeneous landscapes, heterogeneous landscapes (e.g. semi-aquatic animal in a riverscape), or even in highly contrasted landscapes (e.g. fish in a river network). The algorithm and its input parameters are the same for all cases, so that results are comparable. Simulated trajectories can then be used as null models to test e.g. for species site fidelity and other movement ecology hypotheses, or to build predictive, mechanistic movement models, among other things. The package should thus be relevant to explore a broad spectrum of ecological phenomena, such as those at the interface of animal behaviour, landscape, spatial and movement ecology, disease and invasive species spread, and population dynamics. This is the first released experimental version; do test before using in production.
License: GPL (>= 2)
URL: http://www.r-project.org, https://github.com/miguel-porto/SiMRiv
BugReports: https://github.com/miguel-porto/SiMRiv
NeedsCompilation: yes
Packaged: 2016-07-12 09:27:07 UTC; miguel
Author: Lorenzo Quaglietta [aut], Miguel Porto [aut, cre], Erida Gjini [ctb], Bob Harris [ctb]
Maintainer: Miguel Porto <mpbertolo@gmail.com>
Repository: CRAN
Date/Publication: 2016-07-12 13:36:28

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New package FFTrees with initial version 1.0.1
Package: FFTrees
Type: Package
Title: Generate, Visualise, and Compare Fast and Frugal Decision Trees (FFTs)
Version: 1.0.1
Date: 2016-07-11
Authors@R: person("Nathaniel", "Phillips", email = "Nathaniel.D.Phillips.is@gmail.com", role = c("aut", "cre"))
Maintainer: Nathaniel Phillips <Nathaniel.D.Phillips.is@gmail.com>
Description: Fast and Frugal Trees (FFTs) are very simply decision trees for classifying cases (i.e.; breast cancer patients) into one of two classes (e.g.; no cancer vs. true cancer). FFTs can be preferable to more complex algorithms (such as logistic regression) because they are easy to communicate and implement, and are robust against noisy data. This package contains several functions that allow users to input their own data, set model criteria and visualize the best tree(s) for their data.
LazyData: TRUE
Depends: R(>= 2.10)
Imports: rpart, snowfall, MASS, circlize, graphics
License: CC0
BugReports: https://github.com/ndphillips/FFTrees/issues
RoxygenNote: 5.0.1
Suggests: knitr, rmarkdown
VignetteBuilder: knitr
NeedsCompilation: no
Packaged: 2016-07-12 09:03:30 UTC; nphillips
Author: Nathaniel Phillips [aut, cre]
Repository: CRAN
Date/Publication: 2016-07-12 13:36:23

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New package simulator with initial version 0.2.0
Package: simulator
Title: An Engine for Running Simulations
Version: 0.2.0
Date: 2016-07-11
Authors@R: person("Jacob", "Bien", email = "jbien@cornell.edu", role = c("aut", "cre"))
Description: A framework for performing simulations such as those common in methodological statistics papers. The design principles of this package are described in greater depth in Bien, J. (2016) "The simulator: An Engine to Streamline Simulations," which is available at <http://faculty.bscb.cornell.edu/~bien/simulator.pdf>.
Depends: R (>= 3.2.0)
Imports: methods, graphics, grDevices, stats, utils, magrittr
Suggests: digest, ggplot2, knitr, rmarkdown, testthat, glmnet, mvtnorm
License: GPL-3
LazyData: true
VignetteBuilder: knitr
URL: http://github.com/jacobbien/simulator
BugReports: http://github.com/jacobbien/simulator/issues
Collate: 'evals-class.R' 'output-class.R' 'component-class.R' 'model-class.R' 'draws-class.R' 'reference-classes.R' 'simulation-class.R' 'add-to-simulation.R' 'aggregator-class.R' 'utils.R' 'create.R' 'draws.R' 'evaluate.R' 'metric-class.R' 'method-class.R' 'examples.R' 'extended-method-class.R' 'get-from-simulation.R' 'import_from.R' 'load.R' 'manage.R' 'method-extension-class.R' 'methods.R' 'models.R' 'parallel-draws.R' 'parallel-methods.R' 'parallel.R' 'plot_eval.R' 'plot_eval_by.R' 'plot_evals.R' 'tables.R' 'zzz.R'
RoxygenNote: 5.0.1
NeedsCompilation: no
Packaged: 2016-07-12 05:25:30 UTC; jbien
Author: Jacob Bien [aut, cre]
Maintainer: Jacob Bien <jbien@cornell.edu>
Repository: CRAN
Date/Publication: 2016-07-12 10:55:18

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New package nzelect with initial version 0.2.0
Package: nzelect
Title: New Zealand Election Results
Version: 0.2.0
Authors@R: person("Peter", "Ellis", email = "peter.ellis2013nz@gmail.com", role = c("aut", "cre"))
Description: Convenient access to New Zealand election results by voting place. Voting places have been matched to Regional Council, Territorial Authority, and Area Unit, to facilitate matching with additional data.
Depends: R (>= 3.1.2)
License: GPL-3
LazyData: true
Suggests: testthat, dplyr, tidyr, knitr, rmarkdown, ggplot2, scales, ggthemes, GGally
RoxygenNote: 5.0.1
VignetteBuilder: knitr
NeedsCompilation: no
Packaged: 2016-07-12 02:06:10 UTC; Peter
Author: Peter Ellis [aut, cre]
Maintainer: Peter Ellis <peter.ellis2013nz@gmail.com>
Repository: CRAN
Date/Publication: 2016-07-12 07:49:45

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Mon, 11 Jul 2016

New package MGL with initial version 1.1
Package: MGL
Type: Package
Title: Module Graphical Lasso
Version: 1.1
Date: 2014-11-01
Author: Safiye Celik
Maintainer: Safiye Celik <safiye@cs.washington.edu>
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: 2014-11-05 08:31:11 UTC; Administrator
NeedsCompilation: yes
Repository: CRAN
Date/Publication: 2014-11-05 13:33:01

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