Sat, 22 Oct 2016

Package rnoaa updated to version 0.6.5 with previous version 0.6.4 dated 2016-10-07

Title: 'NOAA' Weather Data from R
Description: Client for many 'NOAA' data sources including the 'NCDC' climate 'API' at <http://www.ncdc.noaa.gov/cdo-web/webservices/v2>, with functions for each of the 'API' 'endpoints': data, data categories, data sets, data types, locations, location categories, and stations. In addition, we have an interface for 'NOAA' sea ice data, the 'NOAA' severe weather inventory, 'NOAA' Historical Observing 'Metadata' Repository ('HOMR') data, 'NOAA' storm data via 'IBTrACS', tornado data via the 'NOAA' storm prediction center, and more.
Author: Scott Chamberlain [aut, cre], Brooke Anderson [ctb], Maƫlle Salmon [ctb], Adam Erickson [ctb], Nicholas Potter [ctb], Joseph Stachelek [ctb], Alex Simmons [ctb], Karthik Ram [ctb], Hart Edmund [ctb]
Maintainer: Scott Chamberlain <myrmecocystus@gmail.com>

Diff between rnoaa versions 0.6.4 dated 2016-10-07 and 0.6.5 dated 2016-10-22

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More information about rnoaa at CRAN
Permanent link

Package ClickClust updated to version 1.1.5 with previous version 1.1.4 dated 2015-04-08

Title: Model-Based Clustering of Categorical Sequences
Description: Clustering categorical sequences by means of finite mixtures with Markov model components is the main utility of ClickClust. The package also allows detecting blocks of equivalent states by forward and backward state selection procedures.
Author: Volodymyr Melnykov [aut, cre], Rouben Rostamian [ctb, cph] (memory allocation in c)
Maintainer: Volodymyr Melnykov <vmelnykov@cba.ua.edu>

Diff between ClickClust versions 1.1.4 dated 2015-04-08 and 1.1.5 dated 2016-10-22

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More information about ClickClust at CRAN
Permanent link

Package photobiologyInOut updated to version 0.4.12 with previous version 0.4.11 dated 2016-09-25

Title: Read Spectral and Logged Data from Foreign Files
Description: Functions for reading and writing foreign files containing spectral data from spectrometers and their associated software, and output from simulation models in common use. As well as functions for exchange of spectral data with other R packages.
Author: Pedro J. Aphalo [aut, cre], Titta K. Kotilainen [ctb]
Maintainer: Pedro J. Aphalo <pedro.aphalo@helsinki.fi>

Diff between photobiologyInOut versions 0.4.11 dated 2016-09-25 and 0.4.12 dated 2016-10-22

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Permanent link

Package semTools updated to version 0.4-14 with previous version 0.4-13 dated 2016-09-06

Title: Useful Tools for Structural Equation Modeling
Description: Provides useful tools for structural equation modeling packages.
Author: Terrence D. Jorgensen [aut, cre], Sunthud Pornprasertmanit [aut], Patrick Miller [aut], Alexander Schoemann [aut], Yves Rosseel [aut], Corbin Quick [ctb], Mauricio Garnier-Villarreal [ctb], James Selig [ctb], Aaron Boulton [ctb], Kristopher Preacher [ctb], Donna Coffman [ctb], Mijke Rhemtulla [ctb], Alexander Robitzsch [ctb], Craig Enders [ctb], Ruber Arslan [ctb], Bell Clinton [ctb], Pavel Panko [ctb], Edgar Merkle [ctb], Steven Chesnut [ctb], Jarrett Byrnes [ctb], Jason Rights [ctb], Ylenio Longo [ctb]
Maintainer: Terrence D. Jorgensen <TJorgensen314@gmail.com>

Diff between semTools versions 0.4-13 dated 2016-09-06 and 0.4-14 dated 2016-10-22

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Package rEDM updated to version 0.5.3 with previous version 0.4.7 dated 2016-03-10

Title: Applications of Empirical Dynamic Modeling from Time Series
Description: A new implementation of EDM algorithms and is based on research software previously developed for internal use in the Sugihara Lab (UCSD/SIO). Contains C++ compiled objects that use time delay embedding to perform state-space reconstruction and nonlinear forecasting and an R interface to those objects using 'Rcpp'. It supports both the simplex projection method from Sugihara & May (1990) <DOI:10.1038/344734a0> and the S-map algorithm in Sugihara (1994) <DOI:10.1098/rsta.1994.0106>. In addition, this package implements convergent cross mapping as described in Sugihara et al. (2012) <DOI:10.1126/science.1227079> and multiview embedding as described in Ye & Sugihara (2016) <DOI:10.1126/science.aag0863>.
Author: Hao Ye [aut, cre], Adam Clark [aut], Ethan Deyle [aut], Oliver Keyes [ctb], George Sugihara [ctb, ccp]
Maintainer: Hao Ye <hye@ucsd.edu>

Diff between rEDM versions 0.4.7 dated 2016-03-10 and 0.5.3 dated 2016-10-22

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More information about rEDM at CRAN
Permanent link

Package joint.Cox updated to version 2.9 with previous version 2.8 dated 2016-09-30

Title: Penalized Likelihood Estimation and Dynamic Prediction under the Joint Frailty-Copula Models Between Tumour Progression and Death for Meta-Analysis
Description: Perform the Cox regression and dynamic prediction under the joint frailty-copula model between tumour progression and death for meta-analysis. The method is applicable for meta-analytic data combining several studies. The data should have information on both terminal event time (e.g., time-to-death) and non-terminal event time (e.g., time-to-tumour progression).
Author: Takeshi Emura
Maintainer: Takeshi Emura <takeshiemura@gmail.com>

Diff between joint.Cox versions 2.8 dated 2016-09-30 and 2.9 dated 2016-10-22

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More information about joint.Cox at CRAN
Permanent link

Package ggpmisc updated to version 0.2.12 with previous version 0.2.10 dated 2016-07-30

Title: Miscellaneous Extensions to 'ggplot2'
Description: Extensions to 'ggplot2' respecting the grammar of graphics paradigm. Provides new statistics to locate and tag peaks and valleys in 2D plots, a statistics to add a label with the equation of a polynomial fitted with lm(), or R^2 or adjusted R^2 or information criteria for any model fitted with function lm(). Additional statistics give access to functions in package 'broom'. Provides a function for flexibly converting time series to data frames suitable for plotting with ggplot(). In addition provides two statistics and two geometries useful for diagnosing what data are passed to compute_group() and compute_panel() functions and to geometries.
Author: Pedro J. Aphalo [aut, cre], Kamil Slowikowski [ctb]
Maintainer: Pedro J. Aphalo <pedro.aphalo@helsinki.fi>

Diff between ggpmisc versions 0.2.10 dated 2016-07-30 and 0.2.12 dated 2016-10-22

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New package ubeR with initial version 0.1.3
Package: ubeR
Type: Package
Title: Interface to the Uber API
Version: 0.1.3
Authors@R: c( person("Andrew", "Collier", email = "andrew@exegetic.biz", role = c("aut", "cre")), person("Arthur", "Wu", email = "arthurwu1@gmail.com", role = c("aut")), person("Jonathan","Carroll", email = "rpkg@jcarroll.com.au", role = c("ctb")) )
Maintainer: Andrew Collier <andrew@exegetic.biz>
Description: The Uber API provides a programmatic way to interact with the Uber international online transportation network. This package enables access to the Uber API from within R. Specifically it is possible to: extract information about a user's account, find out about nearby Uber vehicles, get estimates for rides, book or cancel a ride. See <https://developer.uber.com/> for more information.
License: GPL-3
LazyData: TRUE
URL: http://github.com/DataWookie/ubeR
BugReports: https://github.com/DataWookie/ubeR/issues
Depends: R (>= 3.1.2)
Imports: httr, httpuv, jsonlite, ggmap, dplyr, googleway, ggplot2, ggthemes
Suggests: testthat
RoxygenNote: 5.0.1
NeedsCompilation: no
Packaged: 2016-10-22 03:18:18 UTC; colliera
Author: Andrew Collier [aut, cre], Arthur Wu [aut], Jonathan Carroll [ctb]
Repository: CRAN
Date/Publication: 2016-10-22 12:17:44

More information about ubeR at CRAN
Permanent link

Package ssizeRNA updated to version 1.2.8 with previous version 1.2.6 dated 2016-07-15

Title: Sample Size Calculation for RNA-Seq Experimental Design
Description: We propose a procedure for sample size calculation while controlling false discovery rate for RNA-seq experimental design. Our procedure depends on the Voom method proposed for RNA-seq data analysis by Law et al. (2014) <DOI:10.1186/gb-2014-15-2-r29> and the sample size calculation method proposed for microarray experiments by Liu and Hwang (2007) <DOI:10.1093/bioinformatics/btl664>. We develop a set of functions that calculates appropriate sample sizes for two-sample t-test for RNA-seq experiments with fixed or varied set of parameters. The outputs also contain a plot of power versus sample size, a table of power at different sample sizes, and a table of critical test values at different sample sizes. To install this package, please use 'source("http://bioconductor.org/biocLite.R"); biocLite("ssizeRNA")'.
Author: Ran Bi [aut, cre], Peng Liu [aut], Tim Triche [ctb]
Maintainer: Ran Bi <biran@iastate.edu>

Diff between ssizeRNA versions 1.2.6 dated 2016-07-15 and 1.2.8 dated 2016-10-22

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More information about ssizeRNA at CRAN
Permanent link

Package spMC updated to version 0.3.8 with previous version 0.3.6 dated 2014-12-30

Title: Continuous-Lag Spatial Markov Chains
Description: A set of functions is provided for 1) the stratum lengths analysis along a chosen direction, 2) fast estimation of continuous lag spatial Markov chains model parameters and probability computing (also for large data sets), 3) transition probability maps and transiograms drawing, 4) simulation methods for categorical random fields.
Author: Luca Sartore
Maintainer: Luca Sartore <drwolf85@gmail.com>

Diff between spMC versions 0.3.6 dated 2014-12-30 and 0.3.8 dated 2016-10-22

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More information about spMC at CRAN
Permanent link

Package reshape2 updated to version 1.4.2 with previous version 1.4.1 dated 2014-12-06

Title: Flexibly Reshape Data: A Reboot of the Reshape Package
Description: Flexibly restructure and aggregate data using just two functions: melt and 'dcast' (or 'acast').
Author: Hadley Wickham <h.wickham@gmail.com>
Maintainer: Hadley Wickham <h.wickham@gmail.com>

Diff between reshape2 versions 1.4.1 dated 2014-12-06 and 1.4.2 dated 2016-10-22

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More information about reshape2 at CRAN
Permanent link

Package RcppArmadillo updated to version 0.7.500.0.0 with previous version 0.7.400.2.0 dated 2016-08-25

Title: 'Rcpp' Integration for the 'Armadillo' Templated Linear Algebra Library
Description: 'Armadillo' is a templated C++ linear algebra library (by Conrad Sanderson) that aims towards a good balance between speed and ease of use. Integer, floating point and complex numbers are supported, as well as a subset of trigonometric and statistics functions. Various matrix decompositions are provided through optional integration with LAPACK and ATLAS libraries. The 'RcppArmadillo' package includes the header files from the templated 'Armadillo' library. Thus users do not need to install 'Armadillo' itself in order to use 'RcppArmadillo'. 'Armadillo' is licensed under the MPL 2.0, while 'RcppArmadillo' (the 'Rcpp' bindings/bridge to Armadillo) is licensed under the GNU GPL version 2 or later, as is the rest of 'Rcpp'. Note that Armadillo requires a fairly recent compiler; for the g++ family at least version 4.6.* is required.
Author: Dirk Eddelbuettel, Romain Francois and Doug Bates
Maintainer: Dirk Eddelbuettel <edd@debian.org>

Diff between RcppArmadillo versions 0.7.400.2.0 dated 2016-08-25 and 0.7.500.0.0 dated 2016-10-22

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More information about RcppArmadillo at CRAN
Permanent link

Package PivotalR updated to version 0.1.18.2 with previous version 0.1.17.45 dated 2015-01-03

Title: A Fast, Easy-to-Use Tool for Manipulating Tables in Databases and a Wrapper of MADlib
Description: Provides an R interface for the Pivotal Data stack running on 'PostgreSQL', 'Greenplum' or 'Apache HAWQ (incubating)' databases with parallel and distributed computation ability for big data processing. 'PivotalR' provides an R interface to various database operations on tables or views. These operations are almost the same as the corresponding native R operations. Thus users of R do not need to learn 'SQL' when they operate on objects in the database. It also provides a wrapper for 'Apache MADlib (incubating)', which is an open- source library for parallel and scalable in-database analytics.
Author: Predictive Analytics Team at Pivotal Inc. <user@madlb.incubator.apache.org>, with contributions from Data Science Team at Pivotal Inc.
Maintainer: Rahul Iyer <riyer@pivotal.io>

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New package phuassess with initial version 1.0
Package: phuassess
Type: Package
Title: Proportional Habitat Use Assessment
Version: 1.0
Date: 2016-10-22
Author: Caterina Pisani [aut, cre] Lorenzo Fattorini [aut] Francesco Riga [aut] Marco Zaccaroni [aut]
Maintainer: Caterina Pisani <caterina.pisani@unisi.it>
Depends: R (>= 3.1.0), stats
Description: Assessment of habitat selection by means of the permutation-based combination of sign tests (Fattorini et al., 2014 <DOI:10.1007/s10651-013-0250-7>). To exemplify the application of this procedure, habitat selection is assessed for a population of European Brown Hares settled in central Italy.
License: GPL (>= 2)
NeedsCompilation: no
Packaged: 2016-10-22 08:47:08 UTC; caterina
Repository: CRAN
Date/Publication: 2016-10-22 11:44:56

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Package hdnom updated to version 4.2 with previous version 4.1 dated 2016-08-05

Title: Nomograms for High-Dimensional Cox Models
Description: Build nomograms for high-dimensional Cox models, with support for reproducible model validation, calibration, and comparison.
Author: Miaozhu Li <miaozhu.li@duke.edu>, Nan Xiao <me@nanx.me>
Maintainer: Nan Xiao <me@nanx.me>

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Package Grace updated to version 0.5 with previous version 0.4.3 dated 2016-10-15

Title: Graph-Constrained Estimation and Hypothesis Tests
Description: Use the graph-constrained estimation (Grace) procedure to estimate graph-guided linear regression coefficients and use the Grace/GraceI/GraceR tests to perform graph-guided hypothesis tests on the association between the response and the predictors.
Author: Sen Zhao
Maintainer: Sen Zhao <sen-zhao@sen-zhao.com>

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Package gitgadget updated to version 0.2.1 with previous version 0.2.0 dated 2016-09-14

Title: Rstudio Addin for Version Control and Assignment Management using Git
Description: An Rstudio addin for version control that allows users to clone repositories, create and delete branches, and sync forks on GitHub, GitLab, etc. Furthermore, the addin uses the GitLab API to allow instructors to create forks and merge requests for all students/teams with one click of a button.
Author: Vincent Nijs [aut, cre], Sanjiv Erat [aut]
Maintainer: Vincent Nijs <vnijs@ucsd.edu>

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Package Exact updated to version 1.7 with previous version 1.6 dated 2015-05-25

Title: Unconditional Exact Test
Description: Performs unconditional exact tests and power calculations for 2x2 contingency tables. Unconditional exact tests are often more powerful than conditional exact tests and asymptotic tests.
Author: Peter Calhoun [aut, cre]
Maintainer: Peter Calhoun <calhoun.peter@gmail.com>

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Package endorse updated to version 1.5.0 with previous version 1.4.1 dated 2014-05-04

Title: R Package for Analyzing Endorsement Experiments
Description: This R package implements the statistical model proposed by Bullock, Imai, and Shapiro (2011; Political Analysis) to analyze endorsement experiments. Endorsement experiments are a survey methodology for eliciting truthful responses to sensitive questions. This methodology is helpful when measuring support for socially sensitive political actors such as militant groups. The model is fitted with the Markov chain Monte Carlo algorithm and produces the output containing draws from the posterior distribution.
Author: Yuki Shiraito [aut, cre], Kosuke Imai [aut], Bryn Rosenfeld [ctb]
Maintainer: Yuki Shiraito <shiraito@princeton.edu>

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Package countytimezones updated to version 1.0.0 with previous version 0.1.0 dated 2016-06-13

Title: Convert from UTC to Local Time for United States Counties
Description: Inputs date-times in Coordinated Universal Time (UTC) and converts to a local date-time and local date for US counties, based on each county's Federal Information Processing Standard (FIPS) code. This work was supported in part by grants from the National Institute of Environmental Health Sciences (R00ES022631) and the National Science Foundation (1331399).
Author: Brooke Anderson [aut, cre], Zhiming Guo [ctb]
Maintainer: Brooke Anderson <brooke.anderson@colostate.edu>

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Package Ckmeans.1d.dp updated to version 3.4.6-4 with previous version 3.4.6-3 dated 2016-10-05

Title: Optimal and Fast Univariate k-Means Clustering
Description: A dynamic programming algorithm for optimal univariate k-means clustering. Minimizing the sum of squares of within-cluster distances, the algorithm guarantees optimality and reproducibility. Its advantage over heuristic k-means algorithms in efficiency and accuracy is increasingly pronounced as the number of clusters k increases. It provides an alternative to heuristic k-means algorithms for univariate clustering.
Author: Joe Song [aut, cre], Haizhou Wang [aut]
Maintainer: Joe Song <joemsong@cs.nmsu.edu>

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