Wed, 18 Oct 2017

Package HSAR updated to version 0.4.2 with previous version 0.4.0 dated 2016-05-24

Title: Hierarchical Spatial Autoregressive Model
Description: A Hierarchical Spatial Autoregressive Model (HSAR), based on a Bayesian Markov Chain Monte Carlo (MCMC) algorithm ( Dong and Harris (2014) <doi:10.1111/gean.12049> ). The creation of this package was supported by the Economic and Social Research Council (ESRC) through the Applied Quantitative Methods Network: Phase II, grant number ES/K006460/1.
Author: Guanpeng Dong, Richard Harris, Angelos Mimis
Maintainer: Angelos Mimis <mimis@panteion.gr>

Diff between HSAR versions 0.4.0 dated 2016-05-24 and 0.4.2 dated 2017-10-18

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Package satellite updated to version 1.0.1 with previous version 1.0.0 dated 2017-08-03

Title: Handling and Manipulating Remote Sensing Data
Description: Herein, we provide a broad variety of functions which are useful for handling, manipulating, and visualizing satellite-based remote sensing data. These operations range from mere data import and layer handling (eg subsetting), over Raster* typical data wrangling (eg crop, extend), to more sophisticated (pre-)processing tasks typically applied to satellite imagery (eg atmospheric and topographic correction). This functionality is complemented by a full access to the satellite layers' metadata at any stage and the documentation of performed actions in a separate log file. Currently available sensors include Landsat 4-5 (TM), 7 (ETM+), and 8 (OLI/TIRS Combined), and additional compatibility is ensured for the Landsat Global Land Survey data set. Moreover, support for Terra and Aqua-MODIS as well as PROBA-V is expected to arrive shortly.
Author: Thomas Nauss, Hanna Meyer, Tim Appelhans, Florian Detsch
Maintainer: Florian Detsch <fdetsch@web.de>

Diff between satellite versions 1.0.0 dated 2017-08-03 and 1.0.1 dated 2017-10-18

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Package mathpix updated to version 0.2.0 with previous version 0.1.0 dated 2017-09-27

Title: Support for the 'Mathpix' API (Image to 'LaTeX')
Description: Given an image of a formula (typeset or handwritten) this package provides calls to the 'Mathpix' service to produce the 'LaTeX' code which should generate that image, and pastes it into a (e.g. an 'rmarkdown') document. See <https://docs.mathpix.com/> for full details. 'Mathpix' is an external service and use of the API is subject to their terms and conditions.
Author: Jonathan Carroll [aut, cre] (0000-0002-1404-5264)
Maintainer: Jonathan Carroll <rpkg@jcarroll.com.au>

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Package FlowRegEnvCost updated to version 0.1.1 with previous version 0.1.0 dated 2017-10-09

Title: The Environmental Costs of Flow Regulation
Description: An application to calculate the daily environmental costs of river flow regulation by dams based on García de Jalon et al. 2017 <doi:10.1007/s11269-017-1663-0>.
Author: Silvestre Garcia de Jalon; Javier Martinez-Lopez; Marta Gonzalez del Tanago; Carlos Alonso; Diego Garcia de Jalon
Maintainer: Javier Martinez-Lopez <javi.martinez.lopez@gmail.com>

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Package SimInf updated to version 5.1.0 with previous version 5.0.0 dated 2017-06-13

Title: A Framework for Data-Driven Stochastic Disease Spread Simulations
Description: Livestock movements are important for the spread of many infectious diseases between herds. The package provides an efficient and flexible framework for stochastic disease spread modelling that integrates within-herd disease dynamics as continuous-time Markov chains and livestock movements between herds as scheduled events. The core simulation solver is implemented in C and uses 'OpenMP' (if available) to divide work over multiple processors. The package contains template models and can be extended with user defined models.
Author: Stefan Widgren (National Veterinary Institute, Sweden and Uppsala University, Sweden), Pavol Bauer (Uppsala University, Sweden), Stefan Engblom (Uppsala University, Sweden)
Maintainer: Stefan Widgren <stefan.widgren@gmail.com>

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Package ctsem updated to version 2.5.0 with previous version 2.4.0 dated 2017-05-17

Title: Continuous Time Structural Equation Modelling
Description: A multivariate continuous (and discrete) time dynamic modelling package for panel and time series data, using linear stochastic differential equations. Contains a faster frequentist set of functions using OpenMx for single subject and mixed-effects (random intercepts only) structural equation models, or a hierarchical Bayesian implementation using Stan that allows for random effects over all model parameters. Allows for modelling of multiple noisy measurements of multiple stochastic processes, time varying input / event covariates, and time invariant covariates used to predict the parameters.
Author: Charles Driver [aut, cre, cph], Manuel Voelkle [aut, cph], Han Oud [aut, cph]
Maintainer: Charles Driver <driver@mpib-berlin.mpg.de>

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Package areaplot updated to version 1.2-0 with previous version 1.1-0 dated 2017-10-10

Title: Plot Stacked Areas and Confidence Bands as Filled Polygons
Description: Plot stacked areas and confidence bands as filled polygons, or add polygons to existing plots. A variety of input formats are supported, including vectors, matrices, data frames, formulas, etc.
Author: Arni Magnusson [aut, cre]
Maintainer: Arni Magnusson <arni.magnusson@ices.dk>

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Package JMbayes updated to version 0.8-69 with previous version 0.8-68 dated 2017-10-02

Title: Joint Modeling of Longitudinal and Time-to-Event Data under a Bayesian Approach
Description: Shared parameter models for the joint modeling of longitudinal and time-to-event data using MCMC; Dimitris Rizopoulos (2016) <doi:10.18637/jss.v072.i07>.
Author: Dimitris Rizopoulos <d.rizopoulos@erasmusmc.nl>
Maintainer: Dimitris Rizopoulos <d.rizopoulos@erasmusmc.nl>

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Package geoRglm updated to version 0.9-11 with previous version 0.9-8 dated 2015-04-27

Title: A Package for Generalised Linear Spatial Models
Description: Functions for inference in generalised linear spatial models. The posterior and predictive inference is based on Markov chain Monte Carlo methods. Package geoRglm is an extension to the package geoR, which must be installed first.
Author: Ole F. Christensen [aut, cre], Paulo J. Ribeiro Jr [aut]
Maintainer: Ole F. Christensen <OleF.Christensen@mbg.au.dk>

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Package gcerisk updated to version 17.10.17 with previous version 17.8.7 dated 2017-08-08

Title: Generalized Competing Event Model
Description: Generalized competing event model based on Cox PH model and Fine-Gray model. This function is designed to develop optimized risk-stratification methods for competing risks data, such as described in: 1. Carmona R, Gulaya S, Murphy JD, Rose BS, Wu J, Noticewala S,McHale MT, Yashar CM, Vaida F, and Mell LK (2014) <DOI:10.1016/j.ijrobp.2014.03.047>. 2. Carmona R, Zakeri K, Green G, Hwang L, Gulaya S, Xu B, Verma R, Williamson CW, Triplett DP, Rose BS, Shen H, Vaida F, Murphy JD, and Mell LK (2016) <DOI:10.1200/JCO.2015.65.0739>. 3. Lunn, Mary, and Don McNeil (1995) <DOI:10.2307/2532940>.
Author: Hanjie Shen <has072@ucsd.edu>, Ruben Carmona <ruben.carmona13@gmail.com>, Loren Mell <lmell@ucsd.edu>
Maintainer: Hanjie Shen <shenhanjie0418@gmail.com>

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Tue, 17 Oct 2017

Package tempR updated to version 0.9.9.12 with previous version 0.9.9.10 dated 2017-03-08

Title: Temporal Sensory Data Analysis
Description: Analysis and visualization of data from temporal sensory methods, including for temporal check-all-that-apply (TCATA) and temporal dominance of sensations (TDS).
Author: J. C. Castura [aut, cre]
Maintainer: J. C. Castura <jcastura@compusense.com>

Diff between tempR versions 0.9.9.10 dated 2017-03-08 and 0.9.9.12 dated 2017-10-17

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Package rarhsmm updated to version 1.0.5 with previous version 1.0.4 dated 2017-05-07

Title: Regularized Autoregressive Hidden Semi Markov Model
Description: Fit Gaussian hidden Markov (or semi-Markov) models with / without autoregressive coefficients and with / without regularization. The fitting algorithm for the hidden Markov model is illustrated by Rabiner (1989) <doi:10.1109/5.18626>. The shrinkage estimation on the covariance matrices is based on the method by Ledoit et al. (2004) <doi:10.1016/S0047-259X(03)00096-4>. The shrinkage estimation on the autoregressive coefficients uses the elastic net shrinkage detailed in Zou et al. (2005) <doi:10.1111/j.1467-9868.2005.00503.x>.
Author: Zekun (Jack) Xu, Ye Liu
Maintainer: Zekun Xu <zekunxu@gmail.com>

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Package MRS updated to version 1.2.2 with previous version 1.2.1 dated 2016-07-21

Title: Multi-Resolution Scanning for Cross-Sample Differences
Description: An implementation of the MRS algorithm for comparison across distributions. The model is based on a nonparametric process taking the form of a Markov model that transitions between a "null" and an "alternative" state on a multi-resolution partition tree of the sample space. MRS effectively detects and characterizes a variety of underlying differences. These differences can be visualized using several plotting functions.
Author: Jacopo Soriano and Li Ma
Maintainer: Jacopo Soriano <jsoriano.stat@gmail.com>

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Package LZeroSpikeInference updated to version 1.0.3 with previous version 1.0.1 dated 2017-05-18

Title: Exact Spike Train Inference via L0 Optimization
Description: An implementation of algorithms described in Jewell and Witten (2017) <arXiv:1703.08644>.
Author: Sean Jewell [aut, cre]
Maintainer: Sean Jewell <swjewell@uw.edu>

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Package gamRR updated to version 0.2.0 with previous version 0.1.0 dated 2017-05-13

Title: Calculate the RR for the GAM
Description: To calculate the relative risk (RR) for the generalized additive model.
Author: Zhicheng Du, Yuantao Hao
Maintainer: Zhicheng Du<dgdzc@hotmail.com>

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Package drake updated to version 4.3.0 with previous version 4.2.0 dated 2017-09-29

Title: Data Frames in R for Make
Description: A solution for reproducible code and high-performance computing.
Author: William Michael Landau [aut, cre], Alex Axthelm [ctb], Jasper Clarkberg [ctb], Eli Lilly and Company [cph]
Maintainer: William Michael Landau <will.landau@lilly.com>

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Package divo updated to version 1.0.0 with previous version 0.1.2 dated 2016-01-07

Title: Tools for Analysis of Diversity and Similarity in Biological Systems
Description: A set of tools for empirical analysis of diversity (a number and frequency of different types in population) and similarity (a number and frequency of shared types in two populations) in biological or ecological systems.
Author: Christoph Sadee, Maciej Pietrzak, Michal Seweryn, Grzegorz Rempala
Maintainer: Maciej Pietrzak <pietrzak.20@osu.edu>

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Package knockoff updated to version 0.3.0 with previous version 0.2.1 dated 2015-04-15

Title: The Knockoff Filter for Controlled Variable Selection
Description: The knockoff filter is a general procedure for controlling the false discovery rate (FDR) when performing variable selection. For more information, see the website below and the accompanying paper: Candes et al., "Panning for Gold: Model-free Knockoffs for High-dimensional Controlled Variable Selection", 2016, <arXiv:1610.02351>.
Author: Rina Foygel Barber [ctb] (Development of the original fixed-design Knockoffs), Emmanuel Candes [ctb] (Development of Model-Free Knockoffs and original fixed-design Knockoffs), Lucas Janson [ctb] (Development of Model-Free Knockoffs), Evan Patterson [aut] (Original R package for the original fixed-design Knockoffs), Matteo Sesia [aut, cre] (R package for Model-Free Knockoffs)
Maintainer: Matteo Sesia <msesia@stanford.edu>

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Package fbar updated to version 0.3.3 with previous version 0.1.23 dated 2017-01-14

Title: An Extensible Approach to Flux Balance Analysis
Description: A simple package for Flux Balance Analysis and related metabolic modeling techniques. Functions are provided for: parsing models in tabular format, converting parsed metabolic models to input formats for common linear programming solvers, and evaluating and applying gene-protein-reaction mappings. In addition, there are wrappers to parse a model, select a solver, find the metabolic fluxes, and return the results applied to the original model. Compared to other packages in this field, this package puts a much heavier focus on providing reusable components that can be used in the design of new implementation of new techniques, in particular those that involve large parameter sweeps.
Author: Max Conway [aut, cre]
Maintainer: Max Conway <conway.max1@gmail.com>

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Package EasyMx updated to version 0.2 with previous version 0.1-3 dated 2017-05-02

Title: Easy Model-Builder Functions for 'OpenMx'
Description: Utilities for building certain kinds of common matrices and models in the extended structural equation modeling package, 'OpenMx'.
Author: Michael D. Hunter [aut, cre], Joshua N. Pritikin [ctb]
Maintainer: Michael D. Hunter <mhunter.ou@gmail.com>

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Package vennplot updated to version 1.0 with previous version 0.9.02 dated 2017-04-21

Title: Venn Diagrams in 2D and 3D
Description: Calculate and plot Venn diagrams in 2D and 3D.
Author: Zehao Xu [aut, cre], R. Wayne Oldford [aut], Martin Lysy [ctb]
Maintainer: Zehao Xu <z267xu@uwaterloo.ca>

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Package vcrpart updated to version 1.0-1 with previous version 1.0-0 dated 2017-08-22

Title: Tree-Based Varying Coefficient Regression for Generalized Linear and Ordinal Mixed Models
Description: Recursive partitioning for varying coefficient generalized linear models and ordinal linear mixed models. Special features are coefficient-wise partitioning, non-varying coefficients and partitioning of time-varying variables in longitudinal regression.
Author: Reto Buergin [aut, cre, cph], Gilbert Ritschard [ctb, ths]
Maintainer: Reto Buergin <rbuergin@gmx.ch>

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Package randomForestSRC updated to version 2.5.1 with previous version 2.5.0 dated 2017-08-07

Title: Random Forests for Survival, Regression, and Classification (RF-SRC)
Description: A unified treatment of Breiman's random forests for survival, regression and classification problems based on Ishwaran and Kogalur's random survival forests (RSF) package. Now extended to include multivariate and unsupervised forests. Also includes quantile regression forests for univariate and multivariate training/testing settings. The package runs in both serial and parallel (OpenMP) modes.
Author: Hemant Ishwaran <hemant.ishwaran@gmail.com>, Udaya B. Kogalur <ubk@kogalur.com>
Maintainer: Udaya B. Kogalur <ubk@kogalur.com>

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Package NAM updated to version 1.5.4 with previous version 1.5.3 dated 2017-08-15

Title: Nested Association Mapping
Description: Designed for association studies in nested association mapping (NAM) panels, experimental and random panels. It includes tools for genome-wide associations of multiple populations, marker quality control, population genetics analysis, genome-wide prediction, solving mixed models and finding variance components through likelihood and Bayesian methods.
Author: Alencar Xavier, William Muir, Katy Rainey, Shizhong Xu.
Maintainer: Alencar Xavier <alenxav@gmail.com>

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Package mregions updated to version 0.1.6 with previous version 0.1.4 dated 2016-12-07

Title: Marine Regions Data from 'Marineregions.org'
Description: Tools to get marine regions data from <http://www.marineregions.org/>. Includes tools to get region metadata, as well as data in 'GeoJSON' format, as well as Shape files. Use cases include using data downstream to visualize 'geospatial' data by marine region, mapping variation among different regions, and more.
Author: Scott Chamberlain [aut, cre], Francois Michonneau [ctb], Pieter Provoost [ctb], Michael Sumner [ctb]
Maintainer: Scott Chamberlain <myrmecocystus@gmail.com>

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Package httpcache updated to version 1.1.0 with previous version 1.0.2 dated 2017-08-28

Title: Query Cache for HTTP Clients
Description: In order to improve performance for HTTP API clients, 'httpcache' provides simple tools for caching and invalidating cache. It includes the HTTP verb functions GET, PUT, PATCH, POST, and DELETE, which are drop-in replacements for those in the 'httr' package. These functions are cache-aware and provide default settings for cache invalidation suitable for RESTful APIs; the package also enables custom cache-management strategies. Finally, 'httpcache' includes a basic logging framework to facilitate the measurement of HTTP request time and cache performance.
Author: Neal Richardson [aut, cre]
Maintainer: Neal Richardson <neal.p.richardson@gmail.com>

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Package ggimage updated to version 0.0.6 with previous version 0.0.4 dated 2017-03-29

Title: Use Image in 'ggplot2'
Description: Supports image files and graphic objects to be visualized in 'ggplot2' graphic system.
Author: Guangchuang Yu [aut, cre] (0000-0002-6485-8781)
Maintainer: Guangchuang Yu <guangchuangyu@gmail.com>

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Package geoops updated to version 0.1.2 with previous version 0.1.0 dated 2017-10-14

Title: 'GeoJSON' Topology Calculations and Operations
Description: Tools for doing calculations and manipulations on 'GeoJSON', a 'geospatial' data interchange format (<https://tools.ietf.org/html/rfc7946>). 'GeoJSON' is also valid 'JSON'.
Author: Scott Chamberlain [aut, cre], Niels Lohmann [cph]
Maintainer: Scott Chamberlain <myrmecocystus+r@gmail.com>

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Package snht updated to version 1.0.5 with previous version 1.0.4 dated 2016-04-03

Title: Standard Normal Homogeneity Test
Description: Implementation of robust and non-robust Standard Normal Homogeneity Test (SNHT) for changepoint detection. This test statistic is equal sided, as proposed in "Homogenization of Radiosonde Temperature Time Series Using Innovation Statistics" by Haimberger, L., 2007. However, the statistic contains an estimate of sigma^2 in the denominator instead of sigma, which seems to be a more appropriate value (based on the paper "Homogenization of Swedish temperature data. Part I: Homogeneity test for linear trends." by Alexandersson, H., and A. Moberg, 1997).
Author: Josh Browning [aut, cre], Carina Schneider [aut]
Maintainer: Josh Browning <rockclimber112358@gmail.com>

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Package tidycensus updated to version 0.3 with previous version 0.2 dated 2017-08-09

Title: Load US Census Boundary and Attribute Data as 'tidyverse' and 'sf'-Ready Data Frames
Description: An integrated R interface to the decennial US Census and American Community Survey APIs and the US Census Bureau's geographic boundary files. Allows R users to return Census and ACS data as tidyverse-ready data frames, and optionally returns a list-column with feature geometry for many geographies.
Author: Kyle Walker [aut, cre], Kris Eberwein [ctb]
Maintainer: Kyle Walker <kyle.walker@tcu.edu>

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Package ivmodel updated to version 1.7.1 with previous version 1.7 dated 2017-08-18

Title: Statistical Inference and Sensitivity Analysis for Instrumental Variables Model
Description: Contains functions for carrying out instrumental variable estimation of causal effects, including power analysis, sensitivity analysis, and diagnostics.
Author: Yang Jiang, Hyunseung Kang, Dylan Small, and Qingyuan Zhao
Maintainer: Hyunseung Kang <hyunseung@stat.wisc.edu>

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Package OpenML updated to version 1.7 with previous version 1.6 dated 2017-08-14

Title: Open Machine Learning and Open Data Platform
Description: We provide an R interface to 'OpenML.org' which is an online machine learning platform where researchers can access open data, download and upload data sets, share their machine learning tasks and experiments and organize them online to work and collaborate with other researchers. The R interface allows to query for data sets with specific properties, and allows the downloading and uploading of data sets, tasks, flows and runs. See <https://www.openml.org/guide/api> for more information.
Author: Giuseppe Casalicchio <giuseppe.casalicchio@stat.uni-muenchen.de>, Bernd Bischl <bernd_bischl@gmx.net>, Dominik Kirchhoff <dom.kirchhoff@gmail.com>, Michel Lang <michellang@gmail.com>, Benjamin Hofner <benjamin.hofner@fau.de>, Jakob Bossek <j.bossek@gmail.com>, Pascal Kerschke <kerschke@uni-muenster.de>, Joaquin Vanschoren <joaquin.vanschoren@gmail.com>
Maintainer: Giuseppe Casalicchio <giuseppe.casalicchio@stat.uni-muenchen.de>

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Package mvord updated to version 0.1.0 with previous version 0.0.1 dated 2017-09-07

Title: Multivariate Ordinal Regression Models
Description: A flexible framework for fitting multivariate ordinal regression models with composite likelihood methods.
Author: Rainer Hirk [aut, cre], Kurt Hornik [aut], Laura Vana [aut], Alan Genz [ctb] (Fortran Code)
Maintainer: Rainer Hirk <rhirk@wu.ac.at>

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Package dbstats updated to version 1.0.5 with previous version 1.0.4 dated 2014-12-10

Title: Distance-Based Statistics
Description: Prediction methods where explanatory information is coded as a matrix of distances between individuals. Distances can either be directly input as a distances matrix, a squared distances matrix, an inner-products matrix or computed from observed predictors.
Author: Boj, Eva <evaboj@ub.edu>, Caballe, Adria <adria.caballe@upc.edu>, Delicado, Pedro <pedro.delicado@upc.edu> and Fortiana, Josep <fortiana@ub.edu>.
Maintainer: Josep Fortiana <fortiana@ub.edu>

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Package devRate updated to version 0.1.4 with previous version 0.1.3 dated 2017-08-07

Title: Quantify the Relationship Between Development Rate and Temperature in Ectotherms
Description: A set of functions to quantify the relationship between development rate and temperature. The package comprises a set of models and estimated parameters borrowed from a literature review in ectotherms (mostly arthropods).
Author: Francois Rebaudo [aut, cre], Quentin Struelens [aut]
Maintainer: Francois Rebaudo <francois.rebaudo@ird.fr>

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Package RegularizedSCA updated to version 0.5.0 with previous version 0.4.2 dated 2017-06-25

Title: Regularized Simultaneous Component Based Data Integration
Description: It performs regularized simultaneous component based data integration for multiblock data.
Author: Zhengguo Gu [aut, cre], Katrijn Van Deun [aut]
Maintainer: Zhengguo Gu <z.gu@uvt.nl>

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Package clustMixType updated to version 0.1-29 with previous version 0.1-28 dated 2017-09-04

Title: k-Prototypes Clustering for Mixed Variable-Type Data
Description: Functions to perform k-prototypes partitioning clustering for mixed variable-type data according to Z.Huang (1998): Extensions to the k-Means Algorithm for Clustering Large Data Sets with Categorical Variables, Data Mining and Knowledge Discovery 2, 283-304, <DOI:10.1023/A:1009769707641>.
Author: Gero Szepannek
Maintainer: Gero Szepannek <gero.szepannek@web.de>

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Package scorecard updated to version 0.1.1 with previous version 0.1.0 dated 2017-09-16

Title: Credit Risk Scorecard
Description: Makes the development of credit risk scorecard easily and efficiently by providing functions such as information value, variable filter, optimal woe binning, scorecard scaling and performance evaluation etc. The references including: 1. Refaat, M. (2011, ISBN: 9781447511199). Credit Risk Scorecard: Development and Implementation Using SAS. 2. Siddiqi, N. (2006, ISBN: 9780471754510). Credit risk scorecards. Developing and Implementing Intelligent Credit Scoring.
Author: Shichen Xie
Maintainer: Shichen Xie <xie@shichen.name>

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Package red updated to version 1.3.0 with previous version 1.2.1 dated 2017-10-06

Title: IUCN Redlisting Tools
Description: Includes algorithms to facilitate the assessment of extinction risk of species according to the IUCN (International Union for Conservation of Nature, see <http://www.iucn.org> for more information) red list criteria.
Author: Pedro Cardoso
Maintainer: Pedro Cardoso <pedro.cardoso@helsinki.fi>

Diff between red versions 1.2.1 dated 2017-10-06 and 1.3.0 dated 2017-10-17

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Package reddPrec updated to version 0.4.0 with previous version 0.3 dated 2017-01-30

Title: Reconstruction of Daily Data - Precipitation
Description: Computes quality control for daily precipitation datasets, reconstructs the original series by estimating precipitation in missing values, creates new series in a specified pair of coordinates and creates grids.
Author: Roberto Serrano-Notivoli
Maintainer: Roberto Serrano-Notivoli <rs@unizar.es>

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Mon, 16 Oct 2017

Package vtreat updated to version 1.0.1 with previous version 1.0.0 dated 2017-10-04

Title: A Statistically Sound 'data.frame' Processor/Conditioner
Description: A 'data.frame' processor/conditioner that prepares real-world data for predictive modeling in a statistically sound manner. 'vtreat' prepares variables so that data has fewer exceptional cases, making it easier to safely use models in production. Common problems 'vtreat' defends against: 'Inf', 'NA', too many categorical levels, rare categorical levels, and new categorical levels (levels seen during application, but not during training). 'vtreat::prepare' should be used as you would use 'model.matrix'.
Author: John Mount [aut, cre], Nina Zumel [aut], Win-Vector LLC [cph]
Maintainer: John Mount <jmount@win-vector.com>

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Package TSclust updated to version 1.2.4 with previous version 1.2.3 dated 2014-11-18

Title: Time Series Clustering Utilities
Description: A set of measures of dissimilarity between time series to perform time series clustering. Metrics based on raw data, on generating models and on the forecast behavior are implemented. Some additional utilities related to time series clustering are also provided, such as clustering algorithms and cluster evaluation metrics.
Author: Pablo Montero Manso, José Antonio Vilar
Maintainer: Pablo Montero <pmontm@gmail.com>

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Package sjstats updated to version 0.12.0 with previous version 0.11.2 dated 2017-09-28

Title: Collection of Convenient Functions for Common Statistical Computations
Description: Collection of convenient functions for common statistical computations, which are not directly provided by R's base or stats packages. This package aims at providing, first, shortcuts for statistical measures, which otherwise could only be calculated with additional effort (like standard errors or root mean squared errors). Second, these shortcut functions are generic (if appropriate), and can be applied not only to vectors, but also to other objects as well (e.g., the Coefficient of Variation can be computed for vectors, linear models, or linear mixed models; the r2()-function returns the r-squared value for 'lm', 'glm', 'merMod' or 'lme' objects). The focus of most functions lies on summary statistics or fit measures for regression models, including generalized linear models and mixed effects models. However, some of the functions also deal with other statistical measures, like Cronbach's Alpha, Cramer's V, Phi etc.
Author: Daniel Lüdecke <d.luedecke@uke.de>
Maintainer: Daniel Lüdecke <d.luedecke@uke.de>

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Package sicegar updated to version 0.2.2 with previous version 0.2 dated 2017-07-11

Title: Analysis of Single-Cell Viral Growth Curves
Description: Aims to quantify time intensity data by using sigmoidal and double sigmoidal curves. It fits straight lines, sigmoidal, and double sigmoidal curves on to time vs intensity data. Then all the fits are used to make decision on which model (sigmoidal, double sigmoidal, no signal or ambiguous) best describes the data. No signal means the intensity does not reach a high enough point or does not change at all over time. Sigmoidal means intensity starts from a small number than climbs to a maximum. Double sigmoidal means intensity starts from a small number, climbs to a maximum then starts to decay. After the decision between those four options, the algorithm gives the sigmoidal (or double sigmoidal) associated parameter values that quantifies the time intensity curve. The origin of the package name came from "SIngle CEll Growth Analysis in R".
Author: M. Umut Caglar [aut, cre], Claus O. Wilke [aut]
Maintainer: M. Umut Caglar <umut.caglar@gmail.com>

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Package geomedb updated to version 0.2 with previous version 0.1 dated 2017-05-03

Title: Fetch 'GeOMe-db' FIMS Data
Description: The Genomic Observatory Metadatabase (GeOMe Database) is an open access repository for geographic and ecological metadata associated with sequenced samples. This package is used to retrieve GeOMe data for analysis. See <http://www.geome-db.org> for more information regarding GeOMe.
Author: RJ Ewing
Maintainer: RJ Ewing<ewing.rj@gmail.com>

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Package bayeslm updated to version 0.3.1 with previous version 0.3.0 dated 2017-09-26

Title: Efficient Sampling for Gaussian Linear Regression with Arbitrary Priors
Description: Efficient sampling for Gaussian linear regression with arbitrary priors.
Author: P. Richard Hahn, Jingyu He and Hedibert Lopes
Maintainer: Jingyu He <jingyu.he@chicagobooth.edu>

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Package tidyr updated to version 0.7.2 with previous version 0.7.1 dated 2017-09-01

Title: Easily Tidy Data with 'spread()' and 'gather()' Functions
Description: An evolution of 'reshape2'. It's designed specifically for data tidying (not general reshaping or aggregating) and works well with 'dplyr' data pipelines.
Author: Hadley Wickham [aut, cre], Lionel Henry [aut], RStudio [cph]
Maintainer: Hadley Wickham <hadley@rstudio.com>

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Package future updated to version 1.6.2 with previous version 1.6.1 dated 2017-09-09

Title: Unified Parallel and Distributed Processing in R for Everyone
Description: The purpose of this package is to provide a lightweight and unified Future API for sequential and parallel processing of R expression via futures. The simplest way to evaluate an expression in parallel is to use `x %<-% { expression }` with `plan(multiprocess)`. This package implements sequential, multicore, multisession, and cluster futures. With these, R expressions can be evaluated on the local machine, on in parallel a set of local machines, or distributed on a mix of local and remote machines. Extensions to this package implements additional backends for processing futures via compute cluster schedulers etc. Because of its unified API, there is no need to modify code in order switch from sequential on the local machine to, say, distributed processing on a remote compute cluster. Another strength of this package is that global variables and functions are automatically identified and exported as needed, making it straightforward to tweak existing code to make use of futures.
Author: Henrik Bengtsson [aut, cre, cph]
Maintainer: Henrik Bengtsson <henrikb@braju.com>

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Package Directional updated to version 2.9 with previous version 2.8 dated 2017-07-25

Title: Directional Statistics
Description: A collection of functions for directional data analysis. Hypothesis testing, discriminant and regression analysis, MLE of distributions and more are included. The standard textbook for such data is the "Directional Statistics" by Mardia, K. V. and Jupp, P. E. (2000).
Author: Michail Tsagris, Giorgos Athineou, Anamul Sajib
Maintainer: Michail Tsagris <mtsagris@yahoo.gr>

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Package Deriv updated to version 3.8.2 with previous version 3.8.1 dated 2017-06-14

Title: Symbolic Differentiation
Description: R-based solution for symbolic differentiation. It admits user-defined function as well as function substitution in arguments of functions to be differentiated. Some symbolic simplification is part of the work.
Author: Andrew Clausen [aut], Serguei Sokol [aut, cre]
Maintainer: Serguei Sokol <sokol@insa-toulouse.fr>

Diff between Deriv versions 3.8.1 dated 2017-06-14 and 3.8.2 dated 2017-10-16

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Package corrplot updated to version 0.84 with previous version 0.77 dated 2016-04-21

Title: Visualization of a Correlation Matrix
Description: A graphical display of a correlation matrix or general matrix. It also contains some algorithms to do matrix reordering. In addition, corrplot is good at details, including choosing color, text labels, color labels, layout, etc.
Author: Taiyun Wei [cre, aut], Viliam Simko [aut], Michael Levy [ctb], Yihui Xie [ctb], Yan Jin [ctb], Jeff Zemla [ctb]
Maintainer: Taiyun Wei <weitaiyun@gmail.com>

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Package BDgraph updated to version 2.41 with previous version 2.40 dated 2017-08-14

Title: Bayesian Structure Learning in Graphical Models using Birth-Death MCMC
Description: Provides statistical tools for Bayesian structure learning in undirected graphical models for continuous, discrete, and mixed data. The package is implemented the recent improvements in the Bayesian graphical models literature, including Mohammadi and Wit (2015) <doi:10.1214/14-BA889> and Mohammadi et al. (2017) <doi:10.1111/rssc.12171>. To speed up the computations, the BDMCMC sampling algorithms are implemented in parallel using OpenMP in C++.
Author: Abdolreza Mohammadi and Ernst Wit
Maintainer: Abdolreza Mohammadi <a.mohammadi@rug.nl>

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Package sperrorest updated to version 2.1.1 with previous version 2.1.0 dated 2017-09-26

Title: Perform Spatial Error Estimation and Variable Importance in Parallel
Description: Implements spatial error estimation and permutation-based variable importance measures for predictive models using spatial cross-validation and spatial block bootstrap.
Author: Alexander Brenning [aut, cre], Patrick Schratz [aut], Tobias Herrmann [aut]
Maintainer: Alexander Brenning <alexander.brenning@uni-jena.de>

Diff between sperrorest versions 2.1.0 dated 2017-09-26 and 2.1.1 dated 2017-10-16

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Package neatmaps updated to version 1.0.6 with previous version 1.0.5 dated 2017-08-28

Title: Heatmaps for Multiple Network Data
Description: Simplify the exploratory data analysis process for multiple network data sets with the help of hierarchical clustering and heatmaps. Multiple network data consists of multiple disjoint networks that share common graph, node and edge variables. Contains the tools necessary to convert this raw data into a single dynamic report, summarizing the relationships of the graph, node and structural characteristics of the networks.
Author: Phil Boileau [aut, cre]
Maintainer: Phil Boileau <philippe.boileau@mail.concordia.ca>

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Package gsynth updated to version 1.0.6 with previous version 1.0.5 dated 2017-10-12

Title: Generalized Synthetic Control Method
Description: Provides causal inference with interactive fixed-effect models. It imputes counterfactuals for each treated unit using control group information based on a linear interactive fixed effects model that incorporates unit-specific intercepts interacted with time-varying coefficients. This method generalizes the synthetic control method to the case of multiple treated units and variable treatment periods, and improves efficiency and interpretability. This version supports unbalanced panels. Reference: Yiqing Xu (2017) <doi:10.1017/pan.2016.2>.
Author: Yiqing Xu, Licheng Liu
Maintainer: Yiqing Xu <yiqingxu@ucsd.edu>

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Package fishmethods updated to version 1.10-4 with previous version 1.10-3 dated 2017-07-13

Title: Fishery Science Methods and Models in R
Description: Fishery science methods and models from published literature and contributions from colleagues.
Author: Gary A. Nelson <gary.nelson@state.ma.us>
Maintainer: Gary A. Nelson <gary.nelson@state.ma.us>

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Package uGMAR updated to version 1.0.2 with previous version 1.0.1 dated 2017-08-29

Title: Estimate Univariate Gaussian or Student's t Mixture Autoregressive Model
Description: Maximum likelihood estimation of univariate Gaussian Mixture Autoregressive (GMAR) and Student's t Mixture Autoregressive (StMAR) models, quantile residual tests, graphical diagnostics, forecast and simulate from GMAR and StMAR processes. Also general linear constraints and restricting autoregressive parameters to be the same for all regimes are supported. Leena Kalliovirta, Mika Meitz, Pentti Saikkonen (2015) <doi:10.1111/jtsa.12108>, Leena Kalliovirta (2012) <doi:10.1111/j.1368-423X.2011.00364.x>.
Author: Savi Virolainen [aut, cre]
Maintainer: Savi Virolainen <savi.virolainen@helsinki.fi>

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Package SelvarMix updated to version 1.2.1 with previous version 1.2 dated 2016-11-07

Title: Regularization for Variable Selection in Model-Based Clustering and Discriminant Analysis
Description: Performs a regularization approach to variable selection in the model-based clustering and classification frameworks. First, the variables are arranged in order with a lasso-like procedure. Second, the method of Maugis, Celeux, and Martin-Magniette (2009, 2011) <doi:10.1016/j.csda.2009.04.013>, <doi:10.1016/j.jmva.2011.05.004> is adapted to define the role of variables in the two frameworks.
Author: Mohammed Sedki, Gilles Celeux, Cathy Maugis-Rabusseau
Maintainer: Mohammed Sedki <mohammed.sedki@u-psud.fr>

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Package mvdalab updated to version 1.4 with previous version 1.3 dated 2017-10-04

Title: Multivariate Data Analysis Laboratory
Description: An open-source implementation of latent variable methods and multivariate modeling tools. The focus is on exploratory analyses using dimensionality reduction methods including low dimensional embedding, classical multivariate statistical tools, and tools for enhanced interpretation of machine learning methods (i.e. intelligible models to provide important information for end-users). Target domains include extension to dedicated applications e.g. for manufacturing process modeling, spectroscopic analyses, and data mining.
Author: Nelson Lee Afanador, Thanh Tran, Lionel Blanchet, and Richard Baumgartner
Maintainer: Nelson Lee Afanador <nelson.afanador@mvdalab.com>

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Package rmsfuns updated to version 0.0.0.2 with previous version 0.0.0.1 dated 2017-10-14

Title: Quickly View Data Frames in 'Excel', Build Folder Paths and Create Date Vectors
Description: Contains several useful navigation helper functions, including easily building folder paths, quick viewing dataframes in 'Excel', creating date vectors and changing the console prompt to reflect time.
Author: Nico Katzke [aut, cre]
Maintainer: Nico Katzke <nfkatzke@gmail.com>

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Package timetools updated to version 1.12.3 with previous version 1.12.2 dated 2017-09-15

Title: Seasonal/Sequential (Instants/Durations, Even or not) Time Series
Description: Objects to manipulate sequential and seasonal time series. Sequential time series based on time instants and time durations are handled. Both can be regularly or unevenly spaced (overlapping durations are allowed). Only POSIX* format are used for dates and times. The following classes are provided : 'POSIXcti', 'POSIXctp', 'TimeIntervalDataFrame', 'TimeInstantDataFrame', 'SubtimeDataFrame' ; methods to switch from a class to another and to modify the time support of series (hourly time series to daily time series for instance) are also defined. Tools provided can be used for instance to handle environmental monitoring data (not always produced on a regular time base).
Author: Vladislav Navel
Maintainer: Vladislav Navel <vnavel@yahoo.fr>

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Package Rlabkey updated to version 2.1.136 with previous version 2.1.135 dated 2017-06-19

Title: Data Exchange Between R and LabKey Server
Description: The LabKey client library for R makes it easy for R users to load live data from a LabKey Server, <http://www.labkey.com/>, into the R environment for analysis, provided users have permissions to read the data. It also enables R users to insert, update, and delete records stored on a LabKey Server, provided they have appropriate permissions to do so.
Author: Peter Hussey
Maintainer: Cory Nathe <cnathe@labkey.com>

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Package HEMDAG updated to version 1.1.1 with previous version 1.0.0 dated 2017-08-11

Title: Hierarchical Ensemble Methods for Directed Acyclic Graphs
Description: An implementation of Hierarchical Ensemble Methods for Directed Acyclic Graphs (DAGs). The 'HEMDAG' package can be used to enhance the predictions of virtually any flat learning method, by taking into account the hierarchical nature of the classes of a bio-ontology. 'HEMDAG' is specifically designed for exploiting the hierarchical relationships of DAG-structured taxonomies, such as the Human Phenotype Ontology (HPO) or the Gene Ontology (GO), but it can be also safely applied to tree-structured taxonomies (as FunCat), since trees are DAGs. 'HEMDAG' scale nicely both in terms of the complexity of the taxonomy and in the cardinality of the examples. (Marco Notaro, Max Schubach, Peter N. Robinson and Giorgio Valentini (2017) <doi:10.1186/s12859-017-1854-y>).
Author: Marco Notaro [aut, cre] and Giorgio Valentini [aut] (AnacletoLab, Dipartimento di Informatica, Universita' degli Studi di Milano)
Maintainer: Marco Notaro <marco.notaro@unimi.it>

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Package forestinventory updated to version 0.3.1 with previous version 0.3.0 dated 2017-10-03

Title: Design-Based Global and Small-Area Estimations for Multiphase Forest Inventories
Description: Extensive global and small-area estimation procedures for multiphase forest inventories under the design-based Monte-Carlo approach are provided. The implementation includes estimators for simple and cluster sampling published by Daniel Mandallaz in 2007 (<DOI:10.1201/9781584889779>), 2013 (<DOI:10.1139/cjfr-2012-0381>, <DOI:10.1139/cjfr-2013-0181>, <DOI:10.1139/cjfr-2013-0449>, <DOI:10.3929/ethz-a-009990020>) and 2016 (<DOI:10.3929/ethz-a-010579388>). It provides point estimates, their external- and design-based variances as well as confidence intervals. The procedures have also been optimized for the use of remote sensing data as auxiliary information.
Author: Andreas Hill [aut, cre], Alexander Massey [aut], Daniel Mandallaz [ctb]
Maintainer: Andreas Hill <andreas.hill@usys.ethz.ch>

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Package sarima updated to version 0.5-2 with previous version 0.4-5 dated 2017-05-22

Title: Simulation and Prediction with Seasonal ARIMA Models
Description: Functions, classes and methods for time series modelling with ARIMA and related models. The aim of the package is to provide consistent interface for the user. For example, a single function autocorrelations() computes various kinds of theoretical and sample autocorrelations. This is work in progress, see the documentation and vignettes for the current functionality.
Author: Georgi N. Boshnakov
Maintainer: Georgi N. Boshnakov <georgi.boshnakov@manchester.ac.uk>

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Package LMest updated to version 2.4.1 with previous version 2.4 dated 2017-06-06

Title: Latent Markov Models with and without Covariates
Description: Fit certain versions of the Latent Markov model for longitudinal categorical data.
Author: Francesco Bartolucci, Silvia Pandolfi - University of Perugia (IT)
Maintainer: Francesco Bartolucci <bart@stat.unipg.it>

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Package bWGR updated to version 1.5 with previous version 1.4 dated 2017-03-22

Title: Bayesian Whole-Genome Regression
Description: Whole-genome regression methods on Bayesian framework fitted via EM or Gibbs sampling, with optional sampling techniques and kernel term.
Author: Alencar Xavier, William Muir, Shizhong Xu, Katy Rainey.
Maintainer: Alencar Xavier <alenxav@gmail.com>

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Package VarSelLCM updated to version 2.0.1 with previous version 2.0 dated 2017-09-22

Title: Variable Selection for Model-Based Clustering of Continuous, Count, Categorical or Mixed-Type Data Set with Missing Values
Description: Variable Selection for model-based clustering managed by the Latent Class Model. This model analyses mixed-type data (data with continuous and/ or count and/or categorical variables) with missing values (missing at random) by assuming independence between classes. The one-dimensional marginals of the components follow standard distributions for facilitating both the model interpretation and the model selection. The variable selection is led by an alternated optimization procedure for maximizing the Maximum Integrated Complete-data Likelihood criterion. The maximum likelihood inference is done by an EM algorithm for the selected model. This package also performs the imputation of missing values by taking the expectation of the missing values conditionally on the model, its parameters and on the observed variables.
Author: Matthieu Marbac and Mohammed Sedki
Maintainer: Mohammed Sedki <mohammed.sedki@u-psud.fr>

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Package GSODR updated to version 1.0.7 with previous version 1.0.6 dated 2017-09-19

Title: Global Summary Daily Weather Data in R
Description: Provides automated downloading, parsing, cleaning, unit conversion and formatting of Global Surface Summary of the Day (GSOD) weather data from the from the USA National Centers for Environmental Information (NCEI) for use in R. Units are converted from from United States Customary System (USCS) units to International System of Units (SI). Stations may be individually checked for number of missing days defined by the user, where stations with too many missing observations are omitted. Only stations with valid reported latitude and longitude values are permitted in the final data. Additional useful elements, saturation vapour pressure (es), actual vapour pressure (ea) and relative humidity are calculated from the original data and included in the final data set. The resulting data include station identification information, state, country, latitude, longitude, elevation, weather observations and associated flags. Data may be automatically saved to disk. File output may be returned as a comma-separated values (CSV) or GeoPackage (GPKG) file. Additional data are included with this R package: a list of elevation values for stations between -60 and 60 degrees latitude derived from the Shuttle Radar Topography Measuring Mission (SRTM). For information on the GSOD data from NCEI, please see the GSOD readme.txt file available from, <http://www1.ncdc.noaa.gov/pub/data/gsod/readme.txt>.
Author: Adam Sparks [aut, cre] (http://orcid.org/0000-0002-0061-8359), Tomislav Hengl [aut] (http://orcid.org/0000-0002-9921-5129), Andrew Nelson [aut] (http://orcid.org/0000-0002-7249-3778)
Maintainer: Adam Sparks <adamhsparks@gmail.com>

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Package GSMX updated to version 1.3 with previous version 1.2 dated 2017-09-19

Title: Multivariate Genomic Selection
Description: Estimating trait heritability and handling overfitting. This package includes a collection of functions for (1) estimating genetic variance-covariances and calculate trait heritability; and (2) handling overfitting by calculating the variance components and the heritability through cross validation.
Author: Zhenyu Jia
Maintainer: Zhenyu Jia <ajia.ucr@gmail.com>

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Sun, 15 Oct 2017

Package cobalt updated to version 3.0.0 with previous version 2.2.0 dated 2017-09-05

Title: Covariate Balance Tables and Plots
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', 'optmatch', 'CBPS', 'ebal', and 'WeightIt' for assessing balance on the output of their preprocessing functions. Users can also specify data for balance assessment not generated through the above packages. Also included are methods for assessing balance in clustered or multiply imputed data sets.
Author: Noah Greifer [aut, cre]
Maintainer: Noah Greifer <noah@unc.edu>

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Package skpr updated to version 0.39.0 with previous version 0.35.1 dated 2017-08-17

Title: Design of Experiments Suite: Generate and Evaluate Optimal Designs
Description: Generates and evaluates D, I, A, Alias, E, T, and G optimal designs. Supports generation and evaluation of split/split-split/.../N-split plot designs. Includes parametric and Monte Carlo power evaluation functions, and supports calculating power for censored responses. Provides a framework to evaluate power using functions provided in other packages or written by the user. Includes a Shiny graphical user interface that displays the underlying code used to create and evaluate the design to improve ease-of-use and make analyses more reproducible.
Author: Tyler Morgan-Wall [aut, cre], George Khoury [aut]
Maintainer: Tyler Morgan-Wall <tylermw@gmail.com>

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 skpr-0.39.0/skpr/man/calculatepower.Rd                |   48 
 skpr-0.39.0/skpr/man/constructRunMatrix.Rd            |   38 
 skpr-0.39.0/skpr/man/contr.simplex.Rd                 |   44 
 skpr-0.39.0/skpr/man/disallowed_combinations.Rd       |   36 
 skpr-0.39.0/skpr/man/effectpower.Rd                   |   52 
 skpr-0.39.0/skpr/man/eval_design.Rd                   |  316 -
 skpr-0.39.0/skpr/man/eval_design_custom_mc.Rd         |  213 
 skpr-0.39.0/skpr/man/eval_design_mc.Rd                |  429 +
 skpr-0.39.0/skpr/man/eval_design_survival_mc.Rd       |  256 -
 skpr-0.39.0/skpr/man/extractPvalues.Rd                |   42 
 skpr-0.39.0/skpr/man/figures/skprlogo.png             |only
 skpr-0.39.0/skpr/man/gen_anticoef.Rd                  |   36 
 skpr-0.39.0/skpr/man/gen_binomial_anticoef.Rd         |   62 
 skpr-0.39.0/skpr/man/gen_design.Rd                    |  401 -
 skpr-0.39.0/skpr/man/gen_exponential_anticoef.Rd      |only
 skpr-0.39.0/skpr/man/gen_momentsmatrix.Rd             |   38 
 skpr-0.39.0/skpr/man/gen_poisson_anticoef.Rd          |only
 skpr-0.39.0/skpr/man/genhypmatrix.Rd                  |   44 
 skpr-0.39.0/skpr/man/genparammatrix.Rd                |   46 
 skpr-0.39.0/skpr/man/parameterpower.Rd                |   48 
 skpr-0.39.0/skpr/man/plot_correlations.Rd             |   86 
 skpr-0.39.0/skpr/man/plot_fds.Rd                      |   68 
 skpr-0.39.0/skpr/man/priorlevels.Rd                   |   38 
 skpr-0.39.0/skpr/man/quad.Rd                          |   36 
 skpr-0.39.0/skpr/man/reduceRunMatrix.Rd               |   40 
 skpr-0.39.0/skpr/man/skprGUI.Rd                       |   42 
 skpr-0.39.0/skpr/man/skprGUIbrowser.Rd                |   32 
 skpr-0.39.0/skpr/src/genOptimalDesign.cpp             |   13 
 skpr-0.39.0/skpr/tests/testthat.R                     |    6 
 skpr-0.39.0/skpr/tests/testthat/testDeltaProcessing.R |only
 skpr-0.39.0/skpr/tests/testthat/testExampleCode.R     |  633 +-
 skpr-0.39.0/skpr/tests/testthat/testExtractPvalues.R  |   64 
 80 files changed, 9328 insertions(+), 8822 deletions(-)

More information about skpr at CRAN
Permanent link

Package RViennaCL updated to version 1.7.1.7 with previous version 1.7.1.4 dated 2016-11-24

Title: 'ViennaCL' C++ Header Files
Description: 'ViennaCL' is a free open-source linear algebra library for computations on many-core architectures (GPUs, MIC) and multi-core CPUs. The library is written in C++ and supports 'CUDA', 'OpenCL', and 'OpenMP' (including switches at runtime). I have placed these libraries in this package as a more efficient distribution system for CRAN. The idea is that you can write a package that depends on the 'ViennaCL' library and yet you do not need to distribute a copy of this code with your package.
Author: Charles Determan Jr.
Maintainer: Charles Determan Jr <cdetermanjr@gmail.com>

Diff between RViennaCL versions 1.7.1.4 dated 2016-11-24 and 1.7.1.7 dated 2017-10-15

 DESCRIPTION                                                                                |   11 
 MD5                                                                                        |  500 +++---
 build/partial.rdb                                                                          |binary
 inst/NEWS.Rd                                                                               |    8 
 inst/include/viennacl/backend/cpu_ram.hpp                                                  |    2 
 inst/include/viennacl/backend/cuda.hpp                                                     |    2 
 inst/include/viennacl/backend/mem_handle.hpp                                               |    2 
 inst/include/viennacl/backend/memory.hpp                                                   |    6 
 inst/include/viennacl/backend/opencl.hpp                                                   |    2 
 inst/include/viennacl/backend/util.hpp                                                     |    2 
 inst/include/viennacl/circulant_matrix.hpp                                                 |    2 
 inst/include/viennacl/compressed_compressed_matrix.hpp                                     |    2 
 inst/include/viennacl/compressed_matrix.hpp                                                |  104 +
 inst/include/viennacl/context.hpp                                                          |    2 
 inst/include/viennacl/coordinate_matrix.hpp                                                |    2 
 inst/include/viennacl/detail/matrix_def.hpp                                                |    2 
 inst/include/viennacl/device_specific/builtin_database/common.hpp                          |    2 
 inst/include/viennacl/device_specific/builtin_database/devices/accelerator/fallback.hpp    |    2 
 inst/include/viennacl/device_specific/builtin_database/devices/cpu/fallback.hpp            |    2 
 inst/include/viennacl/device_specific/builtin_database/devices/gpu/amd/ev/cedar.hpp        |    2 
 inst/include/viennacl/device_specific/builtin_database/devices/gpu/amd/ev/cypress.hpp      |    2 
 inst/include/viennacl/device_specific/builtin_database/devices/gpu/amd/ni/barts.hpp        |    2 
 inst/include/viennacl/device_specific/builtin_database/devices/gpu/amd/ni/devastator.hpp   |    2 
 inst/include/viennacl/device_specific/builtin_database/devices/gpu/amd/ni/scrapper.hpp     |    2 
 inst/include/viennacl/device_specific/builtin_database/devices/gpu/amd/si/tahiti.hpp       |    2 
 inst/include/viennacl/device_specific/builtin_database/devices/gpu/amd/vi/hawaii.hpp       |    2 
 inst/include/viennacl/device_specific/builtin_database/devices/gpu/fallback.hpp            |    2 
 inst/include/viennacl/device_specific/builtin_database/devices/gpu/nv/f/ge_gt_540m.hpp     |    2 
 inst/include/viennacl/device_specific/builtin_database/devices/gpu/nv/f/ge_gtx_470.hpp     |    2 
 inst/include/viennacl/device_specific/builtin_database/devices/gpu/nv/f/ge_gtx_580.hpp     |    2 
 inst/include/viennacl/device_specific/builtin_database/devices/gpu/nv/f/tesla_c2050.hpp    |    2 
 inst/include/viennacl/device_specific/builtin_database/devices/gpu/nv/k/tesla_k20m.hpp     |    2 
 inst/include/viennacl/device_specific/builtin_database/devices/gpu/nv/m/ge_gtx_750_ti.hpp  |    2 
 inst/include/viennacl/device_specific/builtin_database/devices/gpu/nv/tesla/ge_gtx_260.hpp |    2 
 inst/include/viennacl/device_specific/builtin_database/matrix_product.hpp                  |    2 
 inst/include/viennacl/device_specific/execute.hpp                                          |    2 
 inst/include/viennacl/device_specific/execution_handler.hpp                                |    2 
 inst/include/viennacl/device_specific/forwards.h                                           |    6 
 inst/include/viennacl/device_specific/lazy_program_compiler.hpp                            |    2 
 inst/include/viennacl/device_specific/mapped_objects.hpp                                   |    2 
 inst/include/viennacl/device_specific/templates/matrix_product_template.hpp                |    2 
 inst/include/viennacl/device_specific/templates/template_base.hpp                          |    2 
 inst/include/viennacl/device_specific/templates/utils.hpp                                  |    2 
 inst/include/viennacl/device_specific/tree_parsing.hpp                                     |   14 
 inst/include/viennacl/device_specific/utils.hpp                                            |   13 
 inst/include/viennacl/ell_matrix.hpp                                                       |    2 
 inst/include/viennacl/fft.hpp                                                              |    2 
 inst/include/viennacl/forwards.h                                                           |   26 
 inst/include/viennacl/hankel_matrix.hpp                                                    |    2 
 inst/include/viennacl/hyb_matrix.hpp                                                       |    2 
 inst/include/viennacl/io/matrix_market.hpp                                                 |    2 
 inst/include/viennacl/linalg/amg.hpp                                                       |    2 
 inst/include/viennacl/linalg/amg_operations.hpp                                            |    2 
 inst/include/viennacl/linalg/bicgstab.hpp                                                  |    2 
 inst/include/viennacl/linalg/bisect.hpp                                                    |    2 
 inst/include/viennacl/linalg/bisect_gpu.hpp                                                |    2 
 inst/include/viennacl/linalg/cg.hpp                                                        |    4 
 inst/include/viennacl/linalg/circulant_matrix_operations.hpp                               |    2 
 inst/include/viennacl/linalg/cuda/amg_operations.hpp                                       |    2 
 inst/include/viennacl/linalg/cuda/bisect_kernel_calls.hpp                                  |    2 
 inst/include/viennacl/linalg/cuda/bisect_kernel_large.hpp                                  |    2 
 inst/include/viennacl/linalg/cuda/bisect_kernel_large_multi.hpp                            |    2 
 inst/include/viennacl/linalg/cuda/bisect_kernel_large_onei.hpp                             |    2 
 inst/include/viennacl/linalg/cuda/bisect_kernel_small.hpp                                  |    2 
 inst/include/viennacl/linalg/cuda/bisect_util.hpp                                          |    2 
 inst/include/viennacl/linalg/cuda/common.hpp                                               |   53 
 inst/include/viennacl/linalg/cuda/direct_solve.hpp                                         |    2 
 inst/include/viennacl/linalg/cuda/fft_operations.hpp                                       |    2 
 inst/include/viennacl/linalg/cuda/ilu_operations.hpp                                       |    2 
 inst/include/viennacl/linalg/cuda/iterative_operations.hpp                                 |    2 
 inst/include/viennacl/linalg/cuda/matrix_operations.hpp                                    |  801 ++--------
 inst/include/viennacl/linalg/cuda/matrix_operations_col.hpp                                |  453 +----
 inst/include/viennacl/linalg/cuda/matrix_operations_prod.hpp                               |    2 
 inst/include/viennacl/linalg/cuda/matrix_operations_row.hpp                                |  428 -----
 inst/include/viennacl/linalg/cuda/misc_operations.hpp                                      |    2 
 inst/include/viennacl/linalg/cuda/nmf_operations.hpp                                       |    2 
 inst/include/viennacl/linalg/cuda/scalar_operations.hpp                                    |    2 
 inst/include/viennacl/linalg/cuda/sparse_matrix_operations.hpp                             |    2 
 inst/include/viennacl/linalg/cuda/sparse_matrix_operations_solve.hpp                       |    2 
 inst/include/viennacl/linalg/cuda/spgemm.hpp                                               |    2 
 inst/include/viennacl/linalg/cuda/spgemm_rmerge.hpp                                        |    6 
 inst/include/viennacl/linalg/cuda/vector_operations.hpp                                    |  610 ++-----
 inst/include/viennacl/linalg/detail/amg/amg_base.hpp                                       |    2 
 inst/include/viennacl/linalg/detail/bisect/bisect_kernel_calls.hpp                         |    2 
 inst/include/viennacl/linalg/detail/bisect/bisect_large.hpp                                |    2 
 inst/include/viennacl/linalg/detail/bisect/bisect_small.hpp                                |    2 
 inst/include/viennacl/linalg/detail/bisect/gerschgorin.hpp                                 |    2 
 inst/include/viennacl/linalg/detail/bisect/structs.hpp                                     |    2 
 inst/include/viennacl/linalg/detail/bisect/util.hpp                                        |    2 
 inst/include/viennacl/linalg/detail/ilu/block_ilu.hpp                                      |    2 
 inst/include/viennacl/linalg/detail/ilu/chow_patel_ilu.hpp                                 |    2 
 inst/include/viennacl/linalg/detail/ilu/common.hpp                                         |    2 
 inst/include/viennacl/linalg/detail/ilu/ilu0.hpp                                           |    2 
 inst/include/viennacl/linalg/detail/ilu/ilut.hpp                                           |  117 +
 inst/include/viennacl/linalg/detail/op_applier.hpp                                         |   35 
 inst/include/viennacl/linalg/detail/op_executor.hpp                                        |    2 
 inst/include/viennacl/linalg/detail/spai/block_matrix.hpp                                  |    2 
 inst/include/viennacl/linalg/detail/spai/block_vector.hpp                                  |    2 
 inst/include/viennacl/linalg/detail/spai/fspai.hpp                                         |    2 
 inst/include/viennacl/linalg/detail/spai/qr.hpp                                            |    2 
 inst/include/viennacl/linalg/detail/spai/small_matrix.hpp                                  |    2 
 inst/include/viennacl/linalg/detail/spai/spai-dynamic.hpp                                  |    2 
 inst/include/viennacl/linalg/detail/spai/spai-static.hpp                                   |    2 
 inst/include/viennacl/linalg/detail/spai/spai.hpp                                          |    2 
 inst/include/viennacl/linalg/detail/spai/spai_tag.hpp                                      |    2 
 inst/include/viennacl/linalg/detail/spai/sparse_vector.hpp                                 |    2 
 inst/include/viennacl/linalg/direct_solve.hpp                                              |    2 
 inst/include/viennacl/linalg/fft_operations.hpp                                            |    2 
 inst/include/viennacl/linalg/gmres.hpp                                                     |    2 
 inst/include/viennacl/linalg/hankel_matrix_operations.hpp                                  |    2 
 inst/include/viennacl/linalg/host_based/amg_operations.hpp                                 |    8 
 inst/include/viennacl/linalg/host_based/common.hpp                                         |    2 
 inst/include/viennacl/linalg/host_based/direct_solve.hpp                                   |    2 
 inst/include/viennacl/linalg/host_based/fft_operations.hpp                                 |    2 
 inst/include/viennacl/linalg/host_based/ilu_operations.hpp                                 |    2 
 inst/include/viennacl/linalg/host_based/iterative_operations.hpp                           |    2 
 inst/include/viennacl/linalg/host_based/matrix_operations.hpp                              |  133 +
 inst/include/viennacl/linalg/host_based/misc_operations.hpp                                |    2 
 inst/include/viennacl/linalg/host_based/nmf_operations.hpp                                 |    2 
 inst/include/viennacl/linalg/host_based/scalar_operations.hpp                              |    2 
 inst/include/viennacl/linalg/host_based/sparse_matrix_operations.hpp                       |    2 
 inst/include/viennacl/linalg/host_based/spgemm_vector.hpp                                  |    2 
 inst/include/viennacl/linalg/host_based/vector_operations.hpp                              |   66 
 inst/include/viennacl/linalg/ichol.hpp                                                     |    2 
 inst/include/viennacl/linalg/ilu_operations.hpp                                            |    2 
 inst/include/viennacl/linalg/inner_prod.hpp                                                |    2 
 inst/include/viennacl/linalg/iterative_operations.hpp                                      |    2 
 inst/include/viennacl/linalg/jacobi_precond.hpp                                            |    2 
 inst/include/viennacl/linalg/lanczos.hpp                                                   |    2 
 inst/include/viennacl/linalg/lu.hpp                                                        |    2 
 inst/include/viennacl/linalg/matrix_operations.hpp                                         |  123 +
 inst/include/viennacl/linalg/maxmin.hpp                                                    |    2 
 inst/include/viennacl/linalg/misc_operations.hpp                                           |    2 
 inst/include/viennacl/linalg/mixed_precision_cg.hpp                                        |    2 
 inst/include/viennacl/linalg/nmf.hpp                                                       |    2 
 inst/include/viennacl/linalg/norm_1.hpp                                                    |    2 
 inst/include/viennacl/linalg/norm_2.hpp                                                    |    2 
 inst/include/viennacl/linalg/norm_frobenius.hpp                                            |    2 
 inst/include/viennacl/linalg/norm_inf.hpp                                                  |    2 
 inst/include/viennacl/linalg/opencl/amg_operations.hpp                                     |    2 
 inst/include/viennacl/linalg/opencl/bisect_kernel_calls.hpp                                |    2 
 inst/include/viennacl/linalg/opencl/common.hpp                                             |   14 
 inst/include/viennacl/linalg/opencl/direct_solve.hpp                                       |    2 
 inst/include/viennacl/linalg/opencl/fft_operations.hpp                                     |    2 
 inst/include/viennacl/linalg/opencl/ilu_operations.hpp                                     |    2 
 inst/include/viennacl/linalg/opencl/iterative_operations.hpp                               |    2 
 inst/include/viennacl/linalg/opencl/kernels/amg.hpp                                        |    2 
 inst/include/viennacl/linalg/opencl/kernels/bisect.hpp                                     |    2 
 inst/include/viennacl/linalg/opencl/kernels/compressed_compressed_matrix.hpp               |    2 
 inst/include/viennacl/linalg/opencl/kernels/compressed_matrix.hpp                          |    2 
 inst/include/viennacl/linalg/opencl/kernels/coordinate_matrix.hpp                          |    2 
 inst/include/viennacl/linalg/opencl/kernels/ell_matrix.hpp                                 |    2 
 inst/include/viennacl/linalg/opencl/kernels/fft.hpp                                        |    2 
 inst/include/viennacl/linalg/opencl/kernels/hyb_matrix.hpp                                 |    2 
 inst/include/viennacl/linalg/opencl/kernels/ilu.hpp                                        |    2 
 inst/include/viennacl/linalg/opencl/kernels/iterative.hpp                                  |    2 
 inst/include/viennacl/linalg/opencl/kernels/matrix.hpp                                     |  164 ++
 inst/include/viennacl/linalg/opencl/kernels/matrix_element.hpp                             |   14 
 inst/include/viennacl/linalg/opencl/kernels/matrix_solve.hpp                               |    2 
 inst/include/viennacl/linalg/opencl/kernels/nmf.hpp                                        |    2 
 inst/include/viennacl/linalg/opencl/kernels/scalar.hpp                                     |    2 
 inst/include/viennacl/linalg/opencl/kernels/scan.hpp                                       |    2 
 inst/include/viennacl/linalg/opencl/kernels/sliced_ell_matrix.hpp                          |    2 
 inst/include/viennacl/linalg/opencl/kernels/spai.hpp                                       |    2 
 inst/include/viennacl/linalg/opencl/kernels/svd.hpp                                        |    2 
 inst/include/viennacl/linalg/opencl/kernels/vector.hpp                                     |    2 
 inst/include/viennacl/linalg/opencl/kernels/vector_element.hpp                             |   64 
 inst/include/viennacl/linalg/opencl/matrix_operations.hpp                                  |   96 +
 inst/include/viennacl/linalg/opencl/misc_operations.hpp                                    |    2 
 inst/include/viennacl/linalg/opencl/nmf_operations.hpp                                     |    2 
 inst/include/viennacl/linalg/opencl/scalar_operations.hpp                                  |    2 
 inst/include/viennacl/linalg/opencl/sparse_matrix_operations.hpp                           |    2 
 inst/include/viennacl/linalg/opencl/vandermonde_matrix_operations.hpp                      |    2 
 inst/include/viennacl/linalg/opencl/vector_operations.hpp                                  |   91 +
 inst/include/viennacl/linalg/power_iter.hpp                                                |    2 
 inst/include/viennacl/linalg/prod.hpp                                                      |    2 
 inst/include/viennacl/linalg/qr-method-common.hpp                                          |    2 
 inst/include/viennacl/linalg/qr-method.hpp                                                 |    2 
 inst/include/viennacl/linalg/qr.hpp                                                        |    2 
 inst/include/viennacl/linalg/row_scaling.hpp                                               |    2 
 inst/include/viennacl/linalg/scalar_operations.hpp                                         |    2 
 inst/include/viennacl/linalg/spai.hpp                                                      |    2 
 inst/include/viennacl/linalg/sparse_matrix_operations.hpp                                  |    2 
 inst/include/viennacl/linalg/sum.hpp                                                       |    2 
 inst/include/viennacl/linalg/svd.hpp                                                       |   22 
 inst/include/viennacl/linalg/toeplitz_matrix_operations.hpp                                |    2 
 inst/include/viennacl/linalg/tql2.hpp                                                      |    2 
 inst/include/viennacl/linalg/vandermonde_matrix_operations.hpp                             |    2 
 inst/include/viennacl/linalg/vector_operations.hpp                                         |  111 +
 inst/include/viennacl/matrix.hpp                                                           |   99 +
 inst/include/viennacl/matrix_proxy.hpp                                                     |    2 
 inst/include/viennacl/meta/enable_if.hpp                                                   |    2 
 inst/include/viennacl/meta/predicate.hpp                                                   |    2 
 inst/include/viennacl/meta/result_of.hpp                                                   |    2 
 inst/include/viennacl/meta/tag_of.hpp                                                      |    2 
 inst/include/viennacl/misc/bandwidth_reduction.hpp                                         |    2 
 inst/include/viennacl/misc/cuthill_mckee.hpp                                               |    2 
 inst/include/viennacl/misc/gibbs_poole_stockmeyer.hpp                                      |    2 
 inst/include/viennacl/ocl/backend.hpp                                                      |    2 
 inst/include/viennacl/ocl/command_queue.hpp                                                |    2 
 inst/include/viennacl/ocl/context.hpp                                                      |   56 
 inst/include/viennacl/ocl/device.hpp                                                       |    2 
 inst/include/viennacl/ocl/device_utils.hpp                                                 |    2 
 inst/include/viennacl/ocl/enqueue.hpp                                                      |    2 
 inst/include/viennacl/ocl/error.hpp                                                        |    2 
 inst/include/viennacl/ocl/forwards.h                                                       |    2 
 inst/include/viennacl/ocl/handle.hpp                                                       |    1 
 inst/include/viennacl/ocl/kernel.hpp                                                       |    2 
 inst/include/viennacl/ocl/local_mem.hpp                                                    |    2 
 inst/include/viennacl/ocl/platform.hpp                                                     |    2 
 inst/include/viennacl/ocl/program.hpp                                                      |    2 
 inst/include/viennacl/ocl/utils.hpp                                                        |    2 
 inst/include/viennacl/range.hpp                                                            |    2 
 inst/include/viennacl/scalar.hpp                                                           |    2 
 inst/include/viennacl/scheduler/execute.hpp                                                |    2 
 inst/include/viennacl/scheduler/execute_axbx.hpp                                           |    2 
 inst/include/viennacl/scheduler/execute_elementwise.hpp                                    |   44 
 inst/include/viennacl/scheduler/execute_generic_dispatcher.hpp                             |    2 
 inst/include/viennacl/scheduler/execute_matrix_dispatcher.hpp                              |    2 
 inst/include/viennacl/scheduler/execute_matrix_prod.hpp                                    |    2 
 inst/include/viennacl/scheduler/execute_scalar_assign.hpp                                  |    2 
 inst/include/viennacl/scheduler/execute_scalar_dispatcher.hpp                              |    2 
 inst/include/viennacl/scheduler/execute_util.hpp                                           |    2 
 inst/include/viennacl/scheduler/execute_vector_dispatcher.hpp                              |    2 
 inst/include/viennacl/scheduler/forwards.h                                                 |   26 
 inst/include/viennacl/scheduler/io.hpp                                                     |   14 
 inst/include/viennacl/scheduler/preset.hpp                                                 |    2 
 inst/include/viennacl/slice.hpp                                                            |    2 
 inst/include/viennacl/sliced_ell_matrix.hpp                                                |    2 
 inst/include/viennacl/toeplitz_matrix.hpp                                                  |    2 
 inst/include/viennacl/tools/adapter.hpp                                                    |    2 
 inst/include/viennacl/tools/entry_proxy.hpp                                                |    2 
 inst/include/viennacl/tools/matrix_generation.hpp                                          |    2 
 inst/include/viennacl/tools/matrix_size_deducer.hpp                                        |   64 
 inst/include/viennacl/tools/random.hpp                                                     |    2 
 inst/include/viennacl/tools/sha1.hpp                                                       |    2 
 inst/include/viennacl/tools/shared_ptr.hpp                                                 |    2 
 inst/include/viennacl/tools/timer.hpp                                                      |    4 
 inst/include/viennacl/tools/tools.hpp                                                      |    2 
 inst/include/viennacl/traits/clear.hpp                                                     |    2 
 inst/include/viennacl/traits/context.hpp                                                   |    2 
 inst/include/viennacl/traits/fill.hpp                                                      |    2 
 inst/include/viennacl/traits/handle.hpp                                                    |   51 
 inst/include/viennacl/traits/row_major.hpp                                                 |    8 
 inst/include/viennacl/traits/size.hpp                                                      |   15 
 inst/include/viennacl/traits/start.hpp                                                     |    2 
 inst/include/viennacl/traits/stride.hpp                                                    |    2 
 inst/include/viennacl/vandermonde_matrix.hpp                                               |    2 
 inst/include/viennacl/vector.hpp                                                           |   98 +
 inst/include/viennacl/vector_proxy.hpp                                                     |    2 
 inst/include/viennacl/version.hpp                                                          |    2 
 251 files changed, 2662 insertions(+), 2335 deletions(-)

More information about RViennaCL at CRAN
Permanent link

Package sigr updated to version 0.2.1 with previous version 0.2.0 dated 2017-10-07

Title: Format Significance Summaries for Reports
Description: Succinctly format significance summaries of various models and tests (F-test, Chi-Sq-test, Fisher-test, T-test, and rank-significance). The main purpose is unified reporting and planning of experimental results, working around issue such as the difficulty of extracting model summary facts (such as with 'lm'/'glm'). This package also includes empirical tests, such as bootstrap estimates.
Author: John Mount [aut, cre], Nina Zumel [aut], Win-Vector LLC [cph]
Maintainer: John Mount <jmount@win-vector.com>

Diff between sigr versions 0.2.0 dated 2017-10-07 and 0.2.1 dated 2017-10-15

 sigr-0.2.0/sigr/man/wrapCohenD.effsize.Rd        |only
 sigr-0.2.1/sigr/DESCRIPTION                      |   10 -
 sigr-0.2.1/sigr/MD5                              |   67 +++++++------
 sigr-0.2.1/sigr/NAMESPACE                        |    9 +
 sigr-0.2.1/sigr/NEWS.md                          |    6 +
 sigr-0.2.1/sigr/R/ChiSqTest.R                    |   44 ++++++++
 sigr-0.2.1/sigr/R/CohenD.R                       |  118 +++++++++++++----------
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Package OpenMx updated to version 2.7.18 with previous version 2.7.17 dated 2017-09-08

Title: Extended Structural Equation Modelling
Description: Facilitates treatment of statistical model specifications as things that can be generated and manipulated programmatically. Structural equation models may be specified with reticular action model matrices or paths, linear structural relations matrices or paths, or directly in matrix algebra. Fit functions include full information maximum likelihood, maximum likelihood, and weighted least squares. Example models include confirmatory factor, multiple group, mixture distribution, categorical threshold, modern test theory, differential equations, state space, and many others.
Author: Steven M. Boker [aut], Michael C. Neale [aut], Hermine H. Maes [aut], Michael J. Wilde [ctb], Michael Spiegel [aut], Timothy R. Brick [aut], Ryne Estabrook [aut], Timothy C. Bates [aut], Paras Mehta [ctb], Timo von Oertzen [ctb], Ross J. Gore [aut], Michael D. Hunter [aut], Daniel C. Hackett [ctb], Julian Karch [ctb], Andreas M. Brandmaier [ctb], Joshua N. Pritikin [aut, cre], Mahsa Zahery [aut], Robert M. Kirkpatrick [aut], Yang Wang [ctb], Charles Driver [ctb], Massachusetts Institute of Technology [cph], S. G. Johnson [cph], Association for Computing Machinery [cph], Dieter Kraft [cph], Stefan Wilhelm [cph], Manjunath B G [cph]
Maintainer: Joshua N. Pritikin <jpritikin@pobox.com>

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Package metaplot updated to version 0.2.1 with previous version 0.1.6 dated 2017-08-14

Title: Formalized Plots for Self-Describing Data
Description: Creates fully-annotated plots with minimum guidance. Since the data is self-describing, less effort is needed for creating the plot. Generally expects data of class folded (see 'fold' package). If attributes GUIDE and LABEL are present, they will be used to create formal axis labels. Several aesthetics are supported, such as reference lines, unity lines, smooths, and log transformations.
Author: Tim Bergsma
Maintainer: Tim Bergsma <bergsmat@gmail.com>

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Package lagged updated to version 0.1-1 with previous version 0.1-0 dated 2017-05-21

Title: Classes and Methods for Lagged Objects
Description: Provides classes and methods for lagged objects.
Author: Georgi N. Boshnakov
Maintainer: Georgi N. Boshnakov <georgi.boshnakov@manchester.ac.uk>

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Package water updated to version 0.7 with previous version 0.6 dated 2017-03-31

Title: Actual Evapotranspiration with Energy Balance Models
Description: Tools and functions to calculate actual Evapotranspiration using surface energy balance models.
Author: Guillermo Federico Olmedo [aut, cre], Samuel Ortega-Farías [aut], David Fonseca-Luengo [aut], Daniel de la Fuente-Sáiz [aut], Fernando Fuentes Peñailillo [aut], María Victoria Munafó [ctb]
Maintainer: Guillermo Federico Olmedo <guillermo.olmedo@gmail.com>

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Package RSentiment updated to version 2.2.1 with previous version 2.2 dated 2017-07-24

Title: Analyse Sentiment of English Sentences
Description: Analyses sentiment of a sentence in English and assigns score to it. It can classify sentences to the following categories of sentiments:- Positive, Negative, very Positive, very negative, Neutral. For a vector of sentences, it counts the number of sentences in each category of sentiment.In calculating the score, negation and various degrees of adjectives are taken into consideration. It deals only with English sentences.
Author: Subhasree Bose <subhasree10.7@gmail.com> with contributons from Saptarsi Goswami.
Maintainer: Subhasree Bose <subhasree10.7@gmail.com>

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Package GetLattesData updated to version 0.6 with previous version 0.5 dated 2017-09-05

Title: Reading Bibliometric Data from Lattes Platform
Description: A simple API for downloading and reading xml data directly from Lattes <http://lattes.cnpq.br/>.
Author: Marcelo Perlin [aut, cre]
Maintainer: Marcelo Perlin <marceloperlin@gmail.com>

Diff between GetLattesData versions 0.5 dated 2017-09-05 and 0.6 dated 2017-10-15

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Package spTimer updated to version 3.0-0 with previous version 2.0-1 dated 2015-08-18

Title: Spatio-Temporal Bayesian Modelling Using R
Description: Fits, spatially predicts and temporally forecasts large amounts of space-time data using [1] Bayesian Gaussian Process (GP) Models, [2] Bayesian Auto-Regressive (AR) Models, and [3] Bayesian Gaussian Predictive Processes (GPP) based AR Models for spatio-temporal big-n problems. Version 3.0-0 provides truncated models for [1] and [3].
Author: K. Shuvo Bakar & Sujit K. Sahu
Maintainer: Shuvo Bakar <shuvo.bakar@gmail.com>

Diff between spTimer versions 2.0-1 dated 2015-08-18 and 3.0-0 dated 2017-10-15

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Package pdfetch updated to version 0.2.3 with previous version 0.2.2 dated 2017-07-23

Title: Fetch Economic and Financial Time Series Data from Public Sources
Description: Download economic and financial time series from public sources, including the St Louis Fed's FRED system, Yahoo Finance, the US Bureau of Labor Statistics, the US Energy Information Administration, the World Bank, Eurostat, the European Central Bank, the Bank of England, the UK's Office of National Statistics, Deutsche Bundesbank, and INSEE.
Author: Abiel Reinhart <abielr@gmail.com>
Maintainer: Abiel Reinhart <abielr@gmail.com>

Diff between pdfetch versions 0.2.2 dated 2017-07-23 and 0.2.3 dated 2017-10-15

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Sat, 14 Oct 2017

Package rglobi updated to version 0.2.11 with previous version 0.2.10 dated 2017-09-19

Title: R Interface to Global Biotic Interactions
Description: A programmatic interface to the web service methods provided by Global Biotic Interactions (GloBI). GloBI provides access to spatial-temporal species interaction records from sources all over the world. rglobi provides methods to search species interactions by location, interaction type, and taxonomic name. In addition, it supports Cypher, a graph query language, to allow for executing custom queries on the GloBI aggregate species interaction data set.
Author: Jorrit Poelen [aut, cre], Stephen Gosnell [aut], Sergey Slyusarev [aut]
Maintainer: Jorrit Poelen <jhpoelen@xs4all.nl>

Diff between rglobi versions 0.2.10 dated 2017-09-19 and 0.2.11 dated 2017-10-14

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Package regnet updated to version 0.2.0 with previous version 0.1.1 dated 2017-05-23

Title: Network-Based Regularization for Generalized Linear Models
Description: Network-based regularization has achieved success in variable selection for high-dimensional biological data due to its ability to incorporate correlations between genomic features. This package provides procedures for fitting network-based regularization, minimax concave penalty (MCP) and lasso penalty for generalized linear models. This current version, regnet0.2.0, focuses on binary outcomes. Functions for continuous, survival outcomes and other regularization methods will be included in the forthcoming upgraded versions.
Author: Jie Ren, Luann C. Jung, Yinhao Du, Cen Wu, Yu Jiang, Junhao Liu
Maintainer: Jie Ren <jieren@ksu.edu>

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Package SEMID updated to version 0.3.1 with previous version 0.3.0 dated 2017-07-15

Title: Identifiability of Linear Structural Equation Models
Description: Provides routines to check identifiability or non-identifiability of linear structural equation models as described in Drton, Foygel, and Sullivant (2011) <DOI:10.1214/10-AOS859>, Foygel, Draisma, and Drton (2012) <DOI:10.1214/12-AOS1012>, and other works. The routines are based on the graphical representation of structural equation models by a path diagram/mixed graph.
Author: Rina Foygel Barber [aut], Mathias Drton [aut], Luca Weihs [cre, aut]
Maintainer: Luca Weihs <lucaw@uw.edu>

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Package htm2txt updated to version 2.0.0 with previous version 1.0.0 dated 2017-09-04

Title: Convert Html into Text
Description: Convert a html document to a simple plain text by removing all html tags.
Author: Sangchul Park [aut, cre]
Maintainer: Sangchul Park <mail@sangchul.com>

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Package welchADF updated to version 0.2 with previous version 0.1 dated 2017-04-23

Title: Welch-James Statistic for Robust Hypothesis Testing under Heterocedasticity and Non-Normality
Description: Implementation of Johansen's general formulation of Welch-James's statistic with Approximate Degrees of Freedom, which makes it suitable for testing any linear hypothesis concerning cell means in univariate and multivariate mixed model designs when the data pose non-normality and non-homogeneous variance. Some improvements, namely trimmed means and Winsorized variances, and bootstrapping for calculating an empirical critical value, have been added to the classical formulation. The code departs from a previous SAS implementation by L.M. Lix and H.J. Keselman, available at <http://homepage.usask.ca/~lml321/Program.pdf> and published in Keselman, H.J., Wilcox, R.R., and Lix, L.M. (2003) <DOI:10.1111/1469-8986.00060>.
Author: Pablo J. Villacorta <pjvi@decsai.ugr.es>
Maintainer: Pablo J. Villacorta <pjvi@decsai.ugr.es>

Diff between welchADF versions 0.1 dated 2017-04-23 and 0.2 dated 2017-10-14

 welchADF-0.1/welchADF/R/print-summary.R          |only
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Package RcmdrPlugin.UCA updated to version 4.1-2 with previous version 4.1-1 dated 2017-05-22

Title: UCA Rcmdr Plug-in
Description: Some extensions to Rcmdr (R Commander), randomness test, variance test for one normal sample and predictions using active model, made by R-UCA project and used in teaching statistics at University of Cadiz (UCA).
Author: Manuel Munoz-Marquez <manuel.munoz@uca.es>
Maintainer: Manuel Munoz-Marquez <manuel.munoz@uca.es>

Diff between RcmdrPlugin.UCA versions 4.1-1 dated 2017-05-22 and 4.1-2 dated 2017-10-14

 ChangeLog                                   |    6 ++++-
 DESCRIPTION                                 |   16 ++++++++------
 MD5                                         |   30 ++++++++++++++--------------
 R/RcmdrPlugin.UCA.R                         |   12 +++++------
 demo/aleatoriedad_factor_dos_niveles.R      |    5 ++++
 demo/aleatoriedad_variable_numerica.R       |    4 +++
 demo/randomness_numeric_variable.R          |    4 +++
 demo/randomness_two_level_factor.R          |    5 ++++
 demo/sigma_test.R                           |   10 +++++++++
 demo/test_sigma.R                           |   10 +++++++++
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Package psycho updated to version 0.0.2 with previous version 0.0.1 dated 2017-10-06

Title: Efficient and Publishing-Oriented Workflow for Psychological Science
Description: Toolbox for psychologists, neuropsychologists and neuroscientists. It implements methods to create report-ready outputs for statistical models, as well as various convenient statistical functions used in psychological science, such as correlation matrices and normalization.
Author: Dominique Makowski [aut, cre], Viliam Simko [ctb]
Maintainer: Dominique Makowski <dom.makowski@gmail.com>

Diff between psycho versions 0.0.1 dated 2017-10-06 and 0.0.2 dated 2017-10-14

 DESCRIPTION                                  |   27 +
 LICENSE                                      |    2 
 MD5                                          |   97 ++---
 NAMESPACE                                    |    5 
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 tests/testthat/test-normalize.R              |   10 
 tests/testthat/test-plot.psychobject.R       |   16 
 tests/testthat/test-print.psychobject.R      |   16 
 tests/testthat/test-values.psychobject.R     |   16 
 vignettes/overview.Rmd                       |  202 +++++++++--
 53 files changed, 1094 insertions(+), 397 deletions(-)

More information about psycho at CRAN
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Package ProTrackR updated to version 0.3.5 with previous version 0.3.4 dated 2016-11-25

Title: Manipulate and Play 'ProTracker' Modules
Description: 'ProTracker' is a popular music tracker to sequence music on a Commodore Amiga machine. This package offers the opportunity to import, export, manipulate and play 'ProTracker' module files. Even though the file format could be considered archaic, it still remains popular to this date. This package intends to contribute to this popularity and therewith keeping the legacy of 'ProTracker' and the Commodore Amiga alive.
Author: Pepijn de Vries [aut, cre, dtc]
Maintainer: Pepijn de Vries <pepijn.devries@outlook.com>

Diff between ProTrackR versions 0.3.4 dated 2016-11-25 and 0.3.5 dated 2017-10-14

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 MD5                        |  153 ++++++++++++++++++++++-----------------------
 NAMESPACE                  |    2 
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 R/01supporting_functions.r |   35 +++++-----
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 79 files changed, 541 insertions(+), 551 deletions(-)

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Package exifr updated to version 0.2.1 with previous version 0.2 dated 2017-09-28

Title: EXIF Image Data in R
Description: Reads EXIF data using ExifTool <http://www.sno.phy.queensu.ca/~phil/exiftool/> and returns results as a data frame. ExifTool is a platform-independent Perl library plus a command-line application for reading, writing and editing meta information in a wide variety of files. ExifTool supports many different metadata formats including EXIF, GPS, IPTC, XMP, JFIF, GeoTIFF, ICC Profile, Photoshop IRB, FlashPix, AFCP and ID3, as well as the maker notes of many digital cameras by Canon, Casio, FLIR, FujiFilm, GE, HP, JVC/Victor, Kodak, Leaf, Minolta/Konica-Minolta, Motorola, Nikon, Nintendo, Olympus/Epson, Panasonic/Leica, Pentax/Asahi, Phase One, Reconyx, Ricoh, Samsung, Sanyo, Sigma/Foveon and Sony.
Author: Dewey Dunnington [aut, cre], Phil Harvey [aut]
Maintainer: Dewey Dunnington <dewey@fishandwhistle.net>

Diff between exifr versions 0.2 dated 2017-09-28 and 0.2.1 dated 2017-10-14

 DESCRIPTION                 |    8 ++++----
 MD5                         |    6 +++---
 R/utils.R                   |   35 ++++++++++++++++++++++++++++-------
 tests/testthat/test_utils.R |    8 ++++++++
 4 files changed, 43 insertions(+), 14 deletions(-)

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Package RWekajars updated to version 3.9.1-4 with previous version 3.9.1-3 dated 2017-04-06

Title: R/Weka Interface Jars
Description: External jars required for package 'RWeka'.
Author: Kurt Hornik [aut, cre], University of Waikato [ctb, cph] (Weka Java library)
Maintainer: Kurt Hornik <Kurt.Hornik@R-project.org>

Diff between RWekajars versions 3.9.1-3 dated 2017-04-06 and 3.9.1-4 dated 2017-10-14

 DESCRIPTION |    6 +++---
 MD5         |    4 ++--
 configure   |   19 ++++++++++---------
 3 files changed, 15 insertions(+), 14 deletions(-)

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Package RWeka updated to version 0.4-35 with previous version 0.4-34 dated 2017-05-06

Title: R/Weka Interface
Description: An R interface to Weka (Version 3.9.1). Weka is a collection of machine learning algorithms for data mining tasks written in Java, containing tools for data pre-processing, classification, regression, clustering, association rules, and visualization. Package 'RWeka' contains the interface code, the Weka jar is in a separate package 'RWekajars'. For more information on Weka see <http://www.cs.waikato.ac.nz/ml/weka/>.
Author: Kurt Hornik [aut, cre], Christian Buchta [ctb], Torsten Hothorn [ctb], Alexandros Karatzoglou [ctb], David Meyer [ctb], Achim Zeileis [ctb] (<https://orcid.org/0000-0003-0918-3766>)
Maintainer: Kurt Hornik <Kurt.Hornik@R-project.org>

Diff between RWeka versions 0.4-34 dated 2017-05-06 and 0.4-35 dated 2017-10-14

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 RWeka-0.4-35/RWeka/R/wpm.R                                |    4 +--
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 RWeka-0.4-35/RWeka/inst/po/en@quot/LC_MESSAGES/R-RWeka.mo |binary
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 9 files changed, 27 insertions(+), 30 deletions(-)

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Package npsurv updated to version 0.4-0 with previous version 0.3-4 dated 2015-11-15

Title: Nonparametric Survival Analysis
Description: Contains functions for non-parametric survival analysis of exact and interval-censored observations.
Author: Yong Wang
Maintainer: Yong Wang <yongwang@auckland.ac.nz>

Diff between npsurv versions 0.3-4 dated 2015-11-15 and 0.4-0 dated 2017-10-14

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Package bayesLife updated to version 3.2-0 with previous version 3.1-0 dated 2017-07-28

Title: Bayesian Projection of Life Expectancy
Description: Making probabilistic projections of life expectancy for all countries of the world, using a Bayesian hierarchical model <doi:10.1007/s13524-012-0193-x>.
Author: Hana Sevcikova, Adrian Raftery, Jennifer Chunn
Maintainer: Hana Sevcikova <hanas@uw.edu>

Diff between bayesLife versions 3.1-0 dated 2017-07-28 and 3.2-0 dated 2017-10-14

 ChangeLog                       |   12 ++++++++++++
 DESCRIPTION                     |    8 ++++----
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 R/run_mcmc.R                    |    6 +++---
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Package AssocTests updated to version 0.0-4 with previous version 0.0-3 dated 2015-08-08

Title: Genetic Association Studies
Description: Some procedures including EIGENSTRAT (a procedure for detecting and correcting for population stratification through searching for the eigenvectors in genetic association studies), PCoC (a procedure for correcting for population stratification through calculating the principal coordinates and the clustering of the subjects), Tracy-Widom test (a procedure for detecting the significant eigenvalues of a matrix), distance regression (a procedure for detecting the association between a distance matrix and some independent variants of interest), single-marker test (a procedure for identifying the association between the genotype at a biallelic marker and a trait using the Wald test or the Fisher's exact test), MAX3 (a procedure for testing for the association between a single nucleotide polymorphism and a binary phenotype using the maximum value of the three test statistics derived for the recessive, additive, and dominant models), nonparametric trend test (a procedure for testing for the association between a genetic variant and a non-normal distributed quantitative trait based on the nonparametric risk), and nonparametric MAX3 (a procedure for testing for the association between a biallelic single nucleotide polymorphism and a quantitative trait using the maximum value of the three nonparametric trend tests derived for the recessive, additive, and dominant models), which are commonly used in genetic association studies.
Author: Lin Wang [aut], Wei Zhang [aut], Qizhai Li [aut], Weicheng Zhu [ctb]
Maintainer: Lin Wang <wanglin2009@amss.ac.cn>

Diff between AssocTests versions 0.0-3 dated 2015-08-08 and 0.0-4 dated 2017-10-14

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 21 files changed, 209 insertions(+), 194 deletions(-)

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Package asht updated to version 0.9.3 with previous version 0.9.1 dated 2017-05-02

Title: Applied Statistical Hypothesis Tests
Description: Some hypothesis test functions (sign test, median and other quantile tests, Wilcoxon signed rank test, coefficient of variation test, test of normal variance, test on weighted sums of Poisson, sample size for t-tests with different variances and non-equal n per arm, Behrens-Fisher test, nonparametric ABC intervals, Wilcoxon-Mann-Whitney test) with a focus on non-asymptotic methods that have matching confidence intervals.
Author: Michael P. Fay
Maintainer: Michael P. Fay <mfay@niaid.nih.gov>

Diff between asht versions 0.9.1 dated 2017-05-02 and 0.9.3 dated 2017-10-14

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 NAMESPACE              |   14 +++++++++++++-
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Package wordnet updated to version 0.1-12 with previous version 0.1-11 dated 2016-01-06

Title: WordNet Interface
Description: An interface to WordNet using the Jawbone Java API to WordNet. WordNet (<http://wordnet.princeton.edu/>) is a large lexical database of English. Nouns, verbs, adjectives and adverbs are grouped into sets of cognitive synonyms (synsets), each expressing a distinct concept. Synsets are interlinked by means of conceptual-semantic and lexical relations. Please note that WordNet(R) is a registered tradename. Princeton University makes WordNet available to research and commercial users free of charge provided the terms of their license (<http://wordnet.princeton.edu/wordnet/license/>) are followed, and proper reference is made to the project using an appropriate citation (<http://wordnet.princeton.edu/wordnet/citing-wordnet/>).
Author: Ingo Feinerer [aut], Kurt Hornik [aut, cre], Mike Wallace [ctb, cph] (Jawbone Java WordNet API library)
Maintainer: Kurt Hornik <Kurt.Hornik@R-project.org>

Diff between wordnet versions 0.1-11 dated 2016-01-06 and 0.1-12 dated 2017-10-14

 DESCRIPTION          |    6 +++---
 MD5                  |   10 +++++-----
 R/termfilter.R       |    2 +-
 build/vignette.rds   |binary
 configure            |    3 ++-
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 6 files changed, 11 insertions(+), 10 deletions(-)

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Package RKEAjars updated to version 5.0-2 with previous version 5.0-1 dated 2015-04-03

Title: R/KEA Interface Jars
Description: External jars required for package RKEA.
Author: Kurt Hornik [aut, cre], Eibe Frank [ctb, cph] (KEA Java library), Olena Medelyan [ctb, cph] (KEA Java library), The Apache Software Foundation [ctb, cph] (Apache Commons Logging and Apache Jena Java libraries), International Business Machines Corporation and others [ctb, cph] (International Components for Unicode for Java (ICU4J)), Martin Porter [ctb, cph] (Snowball base), Richard Boulton [ctb, cph] (Snowball Java library), University of Waikato [ctb, cph] (Weka Java library)
Maintainer: Kurt Hornik <Kurt.Hornik@R-project.org>

Diff between RKEAjars versions 5.0-1 dated 2015-04-03 and 5.0-2 dated 2017-10-14

 DESCRIPTION |    8 ++++----
 MD5         |    4 ++--
 configure   |    3 ++-
 3 files changed, 8 insertions(+), 7 deletions(-)

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Package openNLPdata updated to version 1.5.3-3 with previous version 1.5.3-2 dated 2015-06-24

Title: Apache OpenNLP Jars and Basic English Language Models
Description: Apache OpenNLP jars and basic English language models.
Author: Kurt Hornik [aut, cre], The Apache Software Foundation [ctb, cph] (Apache OpenNLP Java libraries), JWNL development team [ctb, cph] (JWNL Java WordNet Library)
Maintainer: Kurt Hornik <Kurt.Hornik@R-project.org>

Diff between openNLPdata versions 1.5.3-2 dated 2015-06-24 and 1.5.3-3 dated 2017-10-14

 DESCRIPTION |    8 ++++----
 MD5         |    4 ++--
 configure   |    3 ++-
 3 files changed, 8 insertions(+), 7 deletions(-)

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