Wed, 05 Dec 2018

Package profr updated to version 0.3.3 with previous version 0.3.1 dated 2014-04-22

Title: An Alternative Display for Profiling Information
Description: An alternative data structure and visual rendering for the profiling information generated by Rprof.
Author: Hadley Wickham [aut, cre]
Maintainer: Hadley Wickham <hadley@rstudio.com>

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Package fsdaR updated to version 0.4-4 with previous version 0.2-21 dated 2017-12-12

Title: Robust Data Analysis Through Monitoring and Dynamic Visualization
Description: Provides interface to the 'MATLAB' toolbox 'Flexible Statistical Data Analysis (FSDA)' which is a comprehensive and computationally efficient software package for robust statistics in regression, multivariate and categorical data analysis. The current R version implements tools for regression: (forward search, S- and MM-estimation, least trimmed squares (LTS) and least median of squares (LMS)). The distinctive feature of our regression package relies in the possibility of monitoring the statistics of interest as function of breakdown point, efficiency or subset size, depending on the estimator. This is accompanied by a rich set of graphical features, such as dynamic brushing, linking, particularly useful for exploratory data analysis.
Author: Valentin Todorov [aut, cre], Emmanuele Sordini [aut], Aldo Corbellini [ctb], Francesca Torti [ctb], Marco Riani [ctb], Domenico Perrotta [ctb], Andrea Cerioli [ctb]
Maintainer: Valentin Todorov <valentin.todorov@chello.at>

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Package rpql updated to version 0.7 with previous version 0.6 dated 2018-04-23

Title: Regularized PQL for Joint Selection in GLMMs
Description: Performs joint selection in Generalized Linear Mixed Models (GLMMs) using penalized likelihood methods. Specifically, the Penalized Quasi-Likelihood (PQL) is used as a loss function, and penalties are then augmented to perform simultaneous fixed and random effects selection. Regularized PQL avoids the need for integration (or approximations such as the Laplace's method) during the estimation process, and so the full solution path for model selection can be constructed relatively quickly.
Author: Francis K.C. Hui <fhui28@gmail.com>, with contributions from Samuel Mueller <samuel.mueller@sydney.edu.au> and A.H. Welsh <Alan.Welsh@anu.edu.au>
Maintainer: Francis Hui <fhui28@gmail.com>

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Package KnowBR updated to version 1.9 with previous version 1.8 dated 2018-06-22

Title: Discriminating Well Surveyed Spatial Units from Exhaustive Biodiversity Databases
Description: It uses species accumulation curves and diverse estimators to assess, at the same time, the levels of survey coverage in multiple geographic cells of a size defined by the user or polygons. It also enables the geographical depiction of observed species richness, survey effort and completeness values including a background with administrative areas.
Author: Cástor Guisande González and Jorge M. Lobo
Maintainer: Cástor Guisande González <castor@uvigo.es>

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Package echo.find updated to version 2.0 with previous version 1.3.1 dated 2018-08-15

Title: Finding Rhythms Using Extended Circadian Harmonic Oscillators (ECHO)
Description: Provides a function (echo_find()) designed to find rhythms from data using extended harmonic oscillators. For more information, see H. De los Santos et al. (2017) <doi:10.1145/3107411.3107420> .
Author: Hannah De los Santos [aut, cre], Emily Collins [aut], Jonathan Shewchuk [ctb], E.F. Harding [ctb], Kristin Bennett [aut], Jennifer Hurley [aut]
Maintainer: Hannah De los Santos <delosh@rpi.edu>

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Package brranching updated to version 0.4.0 with previous version 0.3.0 dated 2018-06-19

Title: Fetch 'Phylogenies' from Many Sources
Description: Includes methods for fetching 'phylogenies' from a variety of sources, including the 'Phylomatic' web service (<http://phylodiversity.net/phylomatic>), and 'Phylocom' (<https://github.com/phylocom/phylocom/>).
Author: Scott Chamberlain [aut, cre] (<https://orcid.org/0000-0003-1444-9135>)
Maintainer: Scott Chamberlain <myrmecocystus@gmail.com>

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Package testit updated to version 0.9 with previous version 0.8 dated 2018-06-14

Title: A Simple Package for Testing R Packages
Description: Provides two convenience functions assert() and test_pkg() to facilitate testing R packages.
Author: Yihui Xie [aut, cre] (<https://orcid.org/0000-0003-0645-5666>), Steven Mortimer [ctb]
Maintainer: Yihui Xie <xie@yihui.name>

Diff between testit versions 0.8 dated 2018-06-14 and 0.9 dated 2018-12-05

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Package tsibble updated to version 0.6.1 with previous version 0.6.0 dated 2018-11-27

Title: Tidy Temporal Data Frames and Tools
Description: Provides a 'tbl_ts' class (the 'tsibble') to store and manage temporal data in a data-centric format, which is built on top of the 'tibble'. The 'tsibble' aims at easily manipulating and analysing temporal data, including counting and filling time gaps, aggregate over calendar periods, performing rolling window calculations, and etc.
Author: Earo Wang [aut, cre] (<https://orcid.org/0000-0001-6448-5260>), Di Cook [aut, ths] (<https://orcid.org/0000-0002-3813-7155>), Rob Hyndman [aut, ths] (<https://orcid.org/0000-0002-2140-5352>), Mitchell O'Hara-Wild [ctb]
Maintainer: Earo Wang <earo.wang@gmail.com>

Diff between tsibble versions 0.6.0 dated 2018-11-27 and 0.6.1 dated 2018-12-05

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Package serial updated to version 2.0 with previous version 1.3 dated 2017-09-11

Title: The Serial Interface Package
Description: Enables reading and writing binary and ASCII data to RS232/RS422/RS485 or any other virtual serial interfaces of the computer.
Author: Martin Seilmayer
Maintainer: Martin Seilmayer <m.seilmayer@hzdr.de>

Diff between serial versions 1.3 dated 2017-09-11 and 2.0 dated 2018-12-05

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Package humanleague updated to version 2.1.0 with previous version 2.0.2 dated 2017-12-14

Title: Synthetic Population Generator
Description: Generates high-entropy integer synthetic populations from marginal and (optionally) seed data using quasirandom sampling, in arbitrary dimensionality (Smith, Lovelace and Birkin (2017) <doi:10.18564/jasss.3550>). The package also provides an implementation of the Iterative Proportional Fitting (IPF) algorithm (Zaloznik (2011) <doi:10.13140/2.1.2480.9923>).
Author: Andrew Smith [aut, cre], Steven Johnson [ctb] (Sobol sequence generator implementation), Massachusetts Institute of Technology [cph] (Sobol sequence generator implementation), John Burkhardt [ctb, cph] (C++ implementation of incomplete gamma function), G Bhattacharjee [ctb] (Original FORTRAN implementation of incomplete gamma function)
Maintainer: Andrew Smith <a.p.smith@leeds.ac.uk>

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Package fuzzyreg updated to version 0.4.1 with previous version 0.4 dated 2018-10-14

Title: Fuzzy Linear Regression
Description: Estimators for fuzzy linear regression. The functions estimate parameters of fuzzy linear regression models with crisp or fuzzy independent variables (triangular fuzzy numbers are supported). Implements multiple methods for parameter estimation and algebraic operations with triangular fuzzy numbers. Includes functions for summarising, printing and plotting the model fit. Calculates predictions from the model and total error of fit. Diamond (1988) <doi:10.1016/0020-0255(88)90047-3>, Hung & Yang (2006) <doi:10.1016/j.fss.2006.08.004>, Lee & Tanaka (1999) <doi:10.15807/jorsj.42.98>, Nasrabadi, Nasrabadi & Nasrabady (2005) <doi:10.1016/j.amc.2004.02.008>, Tanaka, Hayashi & Watada (1989) <doi:10.1016/0377-2217(89)90431-1>.
Author: Pavel Skrabanek [aut, cph], Natalia Martinkova [aut, cre, cph]
Maintainer: Natalia Martinkova <martinkova@ivb.cz>

Diff between fuzzyreg versions 0.4 dated 2018-10-14 and 0.4.1 dated 2018-12-05

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Package acopula updated to version 0.9.3 with previous version 0.9.2 dated 2013-07-31

Title: Modelling Dependence with Multivariate Archimax (or any User-Defined Continuous) Copulas
Description: Archimax copulas are mixture of Archimedean and EV copulas. The package provides definitions of several parametric families of generator and dependence function, computes CDF and PDF, estimates parameters, tests for goodness of fit, generates random sample and checks copula properties for custom constructs. In 2-dimensional case explicit formulas for density are used, in the contrary to higher dimensions when all derivatives are linearly approximated. Several non-archimax families (normal, FGM, Plackett) are provided as well.
Author: Tomas Bacigal
Maintainer: Tomas Bacigal <bacigal@math.sk>

Diff between acopula versions 0.9.2 dated 2013-07-31 and 0.9.3 dated 2018-12-05

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Package errors updated to version 0.3.1 with previous version 0.3.0 dated 2018-07-26

Title: Uncertainty Propagation for R Vectors
Description: Support for measurement errors in R vectors, matrices and arrays: automatic uncertainty propagation and reporting.
Author: Iñaki Ucar [aut, cph, cre] (<https://orcid.org/0000-0001-6403-5550>)
Maintainer: Iñaki Ucar <iucar@fedoraproject.org>

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Package EMD updated to version 1.5.8 with previous version 1.5.7 dated 2014-01-31

Title: Empirical Mode Decomposition and Hilbert Spectral Analysis
Description: For multiscale analysis, this package carries out empirical mode decomposition and Hilbert spectral analysis. For usage of EMD, see Kim and Oh, 2009 (Kim, D and Oh, H.-S. (2009) EMD: A Package for Empirical Mode Decomposition and Hilbert Spectrum, The R Journal, 1, 40-46).
Author: Donghoh Kim [aut, cre], Hee-Seok Oh [aut]
Maintainer: Donghoh Kim <donghoh.kim@gmail.com>

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Package broom updated to version 0.5.1 with previous version 0.5.0 dated 2018-07-17

Title: Convert Statistical Analysis Objects into Tidy Tibbles
Description: Summarizes key information about statistical objects in tidy tibbles. This makes it easy to report results, create plots and consistently work with large numbers of models at once. Broom provides three verbs that each provide different types of information about a model. tidy() summarizes information about model components such as coefficients of a regression. glance() reports information about an entire model, such as goodness of fit measures like AIC and BIC. augment() adds information about individual observations to a dataset, such as fitted values or influence measures.
Author: David Robinson [aut], Alex Hayes [aut, cre] (<https://orcid.org/0000-0002-4985-5160>), Matthieu Gomez [ctb], Boris Demeshev [ctb], Dieter Menne [ctb], Benjamin Nutter [ctb], Luke Johnston [ctb], Ben Bolker [ctb], Francois Briatte [ctb], Jeffrey Arnold [ctb], Jonah Gabry [ctb], Luciano Selzer [ctb], Gavin Simpson [ctb], Jens Preussner [ctb], Jay Hesselberth [ctb], Hadley Wickham [ctb], Matthew Lincoln [ctb], Alessandro Gasparini [ctb], Lukasz Komsta [ctb], Frederick Novometsky [ctb], Wilson Freitas [ctb], Michelle Evans [ctb], Jason Cory Brunson [ctb], Simon Jackson [ctb], Ben Whalley [ctb], Michael Kuehn [ctb], Jorge Cimentada [ctb], Erle Holgersen [ctb], Karl Dunkle Werner [ctb]
Maintainer: Alex Hayes <alexpghayes@gmail.com>

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Package units updated to version 0.6-2 with previous version 0.6-1 dated 2018-09-21

Title: Measurement Units for R Vectors
Description: Support for measurement units in R vectors, matrices and arrays: automatic propagation, conversion, derivation and simplification of units; raising errors in case of unit incompatibility. Compatible with the POSIXct, Date and difftime classes. Uses the UNIDATA udunits library and unit database for unit compatibility checking and conversion.
Author: Edzer Pebesma [aut, cre] (<https://orcid.org/0000-0001-8049-7069>), Thomas Mailund [aut], Tomasz Kalinowski [aut], James Hiebert [ctb], Iñaki Ucar [ctb] (<https://orcid.org/0000-0001-6403-5550>)
Maintainer: Edzer Pebesma <edzer.pebesma@uni-muenster.de>

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Package ddsPLS updated to version 1.0.5 with previous version 1.0.4 dated 2018-11-29

Title: Multi-Data-Driven Sparse PLS Robust to Missing Samples
Description: Allows to build Multi-Data-Driven Sparse PLS models. Multi-blocks with high-dimensional settings are particularly sensible to this.
Author: Hadrien Lorenzo [aut, cre]
Maintainer: Hadrien Lorenzo <hadrien.lorenzo.2015@gmail.com>

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Package visNetwork updated to version 2.0.5 with previous version 2.0.4 dated 2018-06-14

Title: Network Visualization using 'vis.js' Library
Description: Provides an R interface to the 'vis.js' JavaScript charting library. It allows an interactive visualization of networks.
Author: Almende B.V. [aut, cph] (vis.js library in htmlwidgets/lib, http://visjs.org, http://www.almende.com/home), Benoit Thieurmel [aut, cre] (R interface), Titouan Robert [aut, ctb]
Maintainer: Benoit Thieurmel <benoit.thieurmel@datastorm.fr>

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Package eplusr updated to version 0.9.4 with previous version 0.9.3 dated 2018-10-11

Title: A Toolkit for Using Whole Building Simulation Program 'EnergyPlus'
Description: A rich toolkit of using the whole building simulation program 'EnergyPlus'(<https://energyplus.net>), which enables programmatic navigation, modification of 'EnergyPlus' models and makes it less painful to do parametric simulations and analysis.
Author: Hongyuan Jia [aut, cre] (<https://orcid.org/0000-0002-0075-8183>)
Maintainer: Hongyuan Jia <hongyuanjia@cqu.edu.cn>

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Package spCP updated to version 1.2 with previous version 1.1 dated 2018-11-28

Title: Spatially Varying Change Points
Description: Implements a spatially varying change point model with unique intercepts, slopes, variance intercepts and slopes, and change points at each location. Inference is within the Bayesian setting using Markov chain Monte Carlo (MCMC). The response variable can be modeled as Gaussian (no nugget), probit or Tobit link and the five spatially varying parameter are modeled jointly using a multivariate conditional autoregressive (MCAR) prior. The MCAR is a unique process that allows for a dissimilarity metric to dictate the local spatial dependencies. Full details of the package can be found in the accompanying vignette. Furthermore, the details of the package can be found in the corresponding paper on arXiv by Berchuck et al (2018): "A spatially varying change points model for monitoring glaucoma progression using visual field data", <arXiv:1811.11038>.
Author: Samuel I. Berchuck [aut, cre]
Maintainer: Samuel I. Berchuck <sib2@duke.edu>

Diff between spCP versions 1.1 dated 2018-11-28 and 1.2 dated 2018-12-05

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Package ruler updated to version 0.1.4 with previous version 0.1.3 dated 2018-05-20

Title: Tidy Data Validation Reports
Description: Tools for creating data validation pipelines and tidy reports. This package offers a framework for exploring and validating data frame like objects using 'dplyr' grammar of data manipulation.
Author: Evgeni Chasnovski [aut, cre]
Maintainer: Evgeni Chasnovski <evgeni.chasnovski@gmail.com>

Diff between ruler versions 0.1.3 dated 2018-05-20 and 0.1.4 dated 2018-12-05

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Package rsconnect updated to version 0.8.12 with previous version 0.8.11 dated 2018-11-12

Title: Deployment Interface for R Markdown Documents and Shiny Applications
Description: Programmatic deployment interface for 'RPubs', 'shinyapps.io', and 'RStudio Connect'. Supported content types include R Markdown documents, Shiny applications, Plumber APIs, plots, and static web content.
Author: JJ Allaire
Maintainer: Jonathan McPherson <jonathan@rstudio.com>

Diff between rsconnect versions 0.8.11 dated 2018-11-12 and 0.8.12 dated 2018-12-05

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Package quantities updated to version 0.1.2 with previous version 0.1.1 dated 2018-09-30

Title: Quantity Calculus for R Vectors
Description: Integration of the 'units' and 'errors' packages for a complete quantity calculus system for R vectors, matrices and arrays, with automatic propagation, conversion, derivation and simplification of magnitudes and uncertainties.
Author: Iñaki Ucar [aut, cph, cre] (<https://orcid.org/0000-0001-6403-5550>)
Maintainer: Iñaki Ucar <iucar@fedoraproject.org>

Diff between quantities versions 0.1.1 dated 2018-09-30 and 0.1.2 dated 2018-12-05

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Package processx updated to version 3.2.1 with previous version 3.2.0 dated 2018-08-16

Title: Execute and Control System Processes
Description: Tools to run system processes in the background. It can check if a background process is running; wait on a background process to finish; get the exit status of finished processes; kill background processes. It can read the standard output and error of the processes, using non-blocking connections. 'processx' can poll a process for standard output or error, with a timeout. It can also poll several processes at once.
Author: Gábor Csárdi [aut, cre, cph] (<https://orcid.org/0000-0001-7098-9676>), Winston Chang [aut], RStudio [cph, fnd], Mango Solutions [cph, fnd]
Maintainer: Gábor Csárdi <csardi.gabor@gmail.com>

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Package csvread updated to version 1.2.1 with previous version 1.2 dated 2015-03-08

Title: Fast Specialized CSV File Loader
Description: Functions for loading large (10M+ lines) CSV and other delimited files, similar to read.csv, but typically faster and using less memory than the standard R loader. While not entirely general, it covers many common use cases when the types of columns in the CSV file are known in advance. In addition, the package provides a class 'int64', which represents 64-bit integers exactly when reading from a file. The latter is useful when working with 64-bit integer identifiers exported from databases. The CSV file loader supports common column types including 'integer', 'double', 'string', and 'int64', leaving further type transformations to the user.
Author: Sergei Izrailev
Maintainer: Sergei Izrailev <sizrailev@jabiruventures.com>

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Package arulesViz updated to version 1.3-2 with previous version 1.3-1 dated 2018-04-24

Title: Visualizing Association Rules and Frequent Itemsets
Description: Extends package 'arules' with various visualization techniques for association rules and itemsets. The package also includes several interactive visualizations for rule exploration.
Author: Michael Hahsler [aut, cre, cph], Giallanza Tyler [ctb], Sudheer Chelluboina [ctb]
Maintainer: Michael Hahsler <mhahsler@lyle.smu.edu>

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Package pkgsearch updated to version 2.0.1 with previous version 2.0.0 dated 2018-11-16

Title: Search CRAN R Packages
Description: Search CRAN R packages. Uses the 'METACRAN' search server, see <https://r-pkg.org>.
Author: Gábor Csárdi [aut, cre]
Maintainer: Gábor Csárdi <csardi.gabor@gmail.com>

Diff between pkgsearch versions 2.0.0 dated 2018-11-16 and 2.0.1 dated 2018-12-05

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Package glmmboot updated to version 0.3.0 with previous version 0.2.0 dated 2018-09-10

Title: Bootstrap Resampling for Mixed Effects and Plain Models
Description: Performs bootstrap resampling for most models that update() works for. There are two main functions: BootGlmm() performs block resampling if random effects are present, and case resampling if not; BootCI() converts output from bootstrap model runs into confidence intervals and p-values. By default, BootGlmm() calls BootCI(). Package motivated by Humphrey and Swingley (2018) <arXiv:1805.08670>.
Author: Colman Humphrey [aut, cre]
Maintainer: Colman Humphrey <humphrc@tcd.ie>

Diff between glmmboot versions 0.2.0 dated 2018-09-10 and 0.3.0 dated 2018-12-05

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 NEWS.md                                                                                |    4 
 R/BootGlmm.R                                                                           |   19 
 R/bootstrap_methods.R                                                                  |   17 
 inst/doc/quick_use.html                                                                |  426 ++--------
 man/BootGlmm.Rd                                                                        |   12 
 man/GenSample.Rd                                                                       |    2 
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Package fun updated to version 0.2 with previous version 0.1-0 dated 2011-08-12

Title: Use R for Fun
Description: This is a collection of R games and other funny stuff, such as the classic Mine sweeper and sliding puzzles.
Author: Yihui Xie [aut, cre] (<https://orcid.org/0000-0003-0645-5666>), Yixuan Qiu [aut], Taiyun Wei [aut]
Maintainer: Yihui Xie <xie@yihui.name>

Diff between fun versions 0.1-0 dated 2011-08-12 and 0.2 dated 2018-12-05

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Package dst updated to version 1.3.0 with previous version 1.0.0 dated 2018-04-25

Title: Using the Theory of Belief Functions
Description: Using the Theory of Belief Functions for evidence calculus. Basic probability assignments, or mass functions, can be defined on the subsets of a set of possible values and combined. A mass function can be extended to a larger frame. Marginalization, i.e. reduction to a smaller frame can also be done. These features can be combined to analyze small belief networks and take into account situations where information cannot be satisfactorily described by probability distributions.
Author: Claude Boivin, Stat.ASSQ <webapp.cb@gmail.com>
Maintainer: Claude Boivin <webapp.cb@gmail.com>

Diff between dst versions 1.0.0 dated 2018-04-25 and 1.3.0 dated 2018-12-05

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Package LLSR updated to version 0.0.2.4 with previous version 0.0.2.3 dated 2018-11-26

Title: Data Analysis of Liquid-Liquid Systems
Description: Analyses experimental data from liquid-liquid phase diagrams and provide a simple way to obtain its parameters, producing a simplified report. Designed initially to analyse Aqueous Two-Phases Systems, the package will include (every other update) new functions in order to comprise useful tools in liquid-liquid analysis.
Author: Diego F Coelho <diegofcoelho@gmail.com>
Maintainer: Diego F Coelho <diegofcoelho@gmail.com>

Diff between LLSR versions 0.0.2.3 dated 2018-11-26 and 0.0.2.4 dated 2018-12-05

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Package IRISMustangMetrics updated to version 2.1.3 with previous version 2.1.2 dated 2018-10-17

Title: Statistics and Metrics for Seismic Data
Description: Classes and functions for metrics calculation as part of the 'IRIS DMC MUSTANG' project. The functionality in this package builds upon the base classes of the 'IRISSeismic' package. Metrics include basic statistics as well as higher level 'health' metrics that can help identify problematic seismometers.
Author: Jonathan Callahan [aut], Rob Casey [aut], Mary Templeton [aut], Gillian Sharer [aut, cre]
Maintainer: Gillian Sharer <gillian@iris.washington.edu>

Diff between IRISMustangMetrics versions 2.1.2 dated 2018-10-17 and 2.1.3 dated 2018-12-05

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Package AHR updated to version 1.5.0 with previous version 1.4.2 dated 2016-08-28

Title: Estimation and Testing of Average Hazard Ratios
Description: Methods for estimation of multivariate average hazard ratios as defined by Kalbfleisch and Prentice. The underlying survival functions of the event of interest in each group can be estimated using either the (weighted) Kaplan-Meier estimator or the Aalen-Johansen estimator for the transition probabilities in Markov multi-state models. Right-censored and left-truncated data is supported. Moreover, the difference in restricted mean survival can be estimated.
Author: Matthias Brueckner [aut, cre]
Maintainer: Matthias Brueckner <matthias.brueckner@posteo.de>

Diff between AHR versions 1.4.2 dated 2016-08-28 and 1.5.0 dated 2018-12-05

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