Mon, 17 Sep 2018

Package variables updated to version 1.0-1 with previous version 1.0-0 dated 2018-03-08

Title: Variable Descriptions
Description: Abstract descriptions of (yet) unobserved variables.
Author: Torsten Hothorn [aut, cre] (<https://orcid.org/0000-0001-8301-0471>)
Maintainer: Torsten Hothorn <Torsten.Hothorn@R-project.org>

Diff between variables versions 1.0-0 dated 2018-03-08 and 1.0-1 dated 2018-09-17

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 MD5          |    4 ++--
 inst/NEWS.Rd |    7 +++++++
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Package mlt updated to version 1.0-3 with previous version 1.0-2 dated 2018-06-22

Title: Most Likely Transformations
Description: Likelihood-based estimation of conditional transformation models via the most likely transformation approach described in Hothorn et al. (2018) <DOI:10.1111/sjos.12291>.
Author: Torsten Hothorn [aut, cre] (<https://orcid.org/0000-0001-8301-0471>)
Maintainer: Torsten Hothorn <Torsten.Hothorn@R-project.org>

Diff between mlt versions 1.0-2 dated 2018-06-22 and 1.0-3 dated 2018-09-17

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Package sigr updated to version 1.0.0 with previous version 0.2.8 dated 2018-07-19

Title: Succinct and Correct Statistical Summaries for Reports
Description: Succinctly and correctly format statistical summaries of various models and tests (F-test, Chi-Sq-test, Fisher-test, T-test, and rank-significance). The main purpose is unified reporting 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 0.2.8 dated 2018-07-19 and 1.0.0 dated 2018-09-17

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Package processanimateR updated to version 0.2.0 with previous version 0.1.1 dated 2018-04-20

Title: Process Map Token Replay Animation
Description: Token replay animation for process maps created with 'processmapR' by using SVG animations ('SMIL') and the 'htmlwidget' package.
Author: Felix Mannhardt [aut, cre], Gert Janssenswillen [ctb]
Maintainer: Felix Mannhardt <felix.mannhardt@sintef.no>

Diff between processanimateR versions 0.1.1 dated 2018-04-20 and 0.2.0 dated 2018-09-17

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Package spatsoc updated to version 0.1.1 with previous version 0.1.0 dated 2018-07-20

Title: Group Animal Relocation Data by Spatial and Temporal Relationship
Description: Detects spatial and temporal groups in GPS relocations. It can be used to convert GPS relocations to gambit-of-the-group format to build proximity-based social networks. In addition, the randomizations function provides data-stream randomization methods suitable for GPS data.
Author: Alec L. Robitaille [aut, cre], Quinn Webber [aut], Eric Vander Wal [aut]
Maintainer: Alec L. Robitaille <robit.alec@gmail.com>

Diff between spatsoc versions 0.1.0 dated 2018-07-20 and 0.1.1 dated 2018-09-17

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New package echarts4r with initial version 0.1.1
Package: echarts4r
Title: Create Interactive Graphs with 'Echarts JavaScript' Version 4
Date: 2018-09-12
Version: 0.1.1
Authors@R: person("John", "Coene", email = "jcoenep@gmail.com", role = c("aut", "cre"))
Description: Easily create interactive charts by leveraging the 'Echarts Javascript' library which includes 33 chart types, themes, 'Shiny' proxies and animations.
License: Apache License (>= 2.0)
Encoding: UTF-8
LazyData: true
Imports: htmlwidgets, magrittr, dplyr, purrr, data.tree, crosstalk, base64enc, countrycode, d3r, broom
RoxygenNote: 6.1.0
Suggests: jsonlite, shiny, quantmod, png, tibble, htmltools
URL: http://echarts4r.john-coene.com/
BugReports: https://github.com/JohnCoene/echarts4r/issues
NeedsCompilation: no
Packaged: 2018-09-12 12:06:38 UTC; JCOE
Author: John Coene [aut, cre]
Maintainer: John Coene <jcoenep@gmail.com>
Repository: CRAN
Date/Publication: 2018-09-17 16:40:03 UTC

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Package WVPlots updated to version 1.0.3 with previous version 1.0.2 dated 2018-07-20

Title: Common Plots for Analysis
Description: Select data analysis plots, under a standardized calling interface implemented on top of 'ggplot2' and 'plotly'. Plots of interest include: 'ROC', gain curve, scatter plot with marginal distributions, conditioned scatter plot with marginal densities, box and stem with matching theoretical distribution, and density with matching theoretical distribution.
Author: John Mount [aut, cre], Nina Zumel [aut], Win-Vector LLC [cph]
Maintainer: John Mount <jmount@win-vector.com>

Diff between WVPlots versions 1.0.2 dated 2018-07-20 and 1.0.3 dated 2018-09-17

 DESCRIPTION                           |   16 +++----
 MD5                                   |   60 ++++++++++++++--------------
 NEWS.md                               |    6 ++
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 31 files changed, 299 insertions(+), 261 deletions(-)

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New package UKgrid with initial version 0.1.0
Package: UKgrid
Type: Package
Title: The UK National Electricity Transmission System Dataset
Version: 0.1.0
Author: Rami Krispin
Maintainer: Rami Krispin <rami.krispin@gmail.com>
Description: A time series of the national grid demand (high-voltage electric power transmission network) in the UK since 2011.
License: MIT + file LICENSE
Encoding: UTF-8
LazyData: true
Depends: R (>= 3.0.2)
Imports: data.table(>= 1.11.2), dplyr(>= 0.7.5), lubridate (>= 1.6.0), magrittr (>= 1.5), rlang (>= 0.2.1), xts (>= 0.10-1), zoo (>= 1.8-0)
Suggests: knitr, rmarkdown, devtools, TSstudio
VignetteBuilder: knitr
RoxygenNote: 6.0.1
NeedsCompilation: no
Packaged: 2018-09-11 05:23:33 UTC; rami
Repository: CRAN
Date/Publication: 2018-09-17 15:10:07 UTC

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New package stuart with initial version 0.7.3
Package: stuart
Type: Package
Title: Subtests Using Algorithmic Rummaging Techniques
Version: 0.7.3
Date: 2018-09-11
Authors@R: person("Martin", "Schultze", email="martin.schultze@fu-berlin.de", role=c('aut','cre'))
Description: Construct subtests from a pool of items by using ant-colony-optimization, genetic algorithms, brute force, or random sampling. Schultze (2017) <doi:10.17169/refubium-622>.
License: GPL-3
Depends: R (>= 3.5.0)
Imports: stats, utils
Suggests: parallel, lavaan (>= 0.5.18), MplusAutomation (>= 0.7-2), graphics
RoxygenNote: 6.0.1
Encoding: UTF-8
NeedsCompilation: no
Packaged: 2018-09-11 20:00:37 UTC; martin
Author: Martin Schultze [aut, cre]
Maintainer: Martin Schultze <martin.schultze@fu-berlin.de>
Repository: CRAN
Date/Publication: 2018-09-17 15:30:03 UTC

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New package rlmDataDriven with initial version 0.1.0
Package: rlmDataDriven
Type: Package
Title: Robust Regression with Data Driven Tuning Parameter
Version: 0.1.0
Author: You-Gan Wang
Maintainer: The package maintainer <you-gan.wang@qut.edu.au>
Imports: stats, MASS
Description: Data driven approach for robust regression estimation. See Wang et al. (2007), <doi:10.1198/106186007X180156>.
License: GPL (>= 2.0)
Encoding: UTF-8
LazyData: true
RoxygenNote: 6.1.0
NeedsCompilation: no
Packaged: 2018-08-10 04:37:08 UTC; wangy
Repository: CRAN
Date/Publication: 2018-09-17 15:10:03 UTC

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New package radix with initial version 0.5
Type: Package
Package: radix
Title: 'R Markdown' Format for Scientific and Technical Writing
Version: 0.5
Authors@R: c( person("JJ", "Allaire", role = c("aut", "cre"), email = "jj@rstudio.com"), person("Rich", "Iannone", role = c("aut")), person("Yihui", "Xie", role = c("aut")), person(family = "RStudio, Inc.", role = "cph"), person(family = "Google LLC", role = c("ctb", "cph"), comment = "https://distill.pub/guide/"), person("Nick", "Williams", role = c("ctb", "cph"), comment = "https://wicky.nillia.ms/headroom.js/"), person("Denis", "Demchenko", role = c("ctb", "cph"), comment = "https://github.com/lancedikson/bowser"), person(family = "The Polymer Authors", role = c("ctb", "cph"), comment = "https://www.webcomponents.org/polyfills/"), person("Gábor", "Csárdi", role = c("ctb", "cph"), comment = "whoami") )
Description: Scientific and technical article format for the web. 'Radix' articles feature attractive, reader-friendly typography, flexible layout options for visualizations, and full support for footnotes and citations.
License: Apache License 2.0
URL: https://github.com/rstudio/radix
BugReports: https://github.com/rstudio/radix/issues
Encoding: UTF-8
LazyData: true
RoxygenNote: 6.1.0
Imports: utils, stats, tools, rmarkdown (>= 1.10), htmltools, jsonlite (>= 1.3), lubridate, png, mime, rstudioapi, rprojroot, xml2, base64enc, whisker, downloader, progress, stringr, knitr (>= 1.15.6), digest, yaml
Suggests: htmlwidgets, r2d3, DiagrammeR, shiny, rsconnect, testthat
Language: en-US
NeedsCompilation: no
Packaged: 2018-09-17 13:54:10 UTC; jjallaire
Author: JJ Allaire [aut, cre], Rich Iannone [aut], Yihui Xie [aut], RStudio, Inc. [cph], Google LLC [ctb, cph] (https://distill.pub/guide/), Nick Williams [ctb, cph] (https://wicky.nillia.ms/headroom.js/), Denis Demchenko [ctb, cph] (https://github.com/lancedikson/bowser), The Polymer Authors [ctb, cph] (https://www.webcomponents.org/polyfills/), Gábor Csárdi [ctb, cph] (whoami)
Maintainer: JJ Allaire <jj@rstudio.com>
Repository: CRAN
Date/Publication: 2018-09-17 15:40:02 UTC

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New package HMMextra0s with initial version 1.0.0
Package: HMMextra0s
Type: Package
Title: Hidden Markov Models with Extra Zeros
Version: 1.0.0
Imports: mvtnorm, ellipse
Suggests: HiddenMarkov
Depends: methods
Date: 2018-09-12
Author: Ting Wang - I am grateful to Jiancang Zhuang for some helpful suggestions and contributions
Maintainer: Ting Wang <ting.wang@otago.ac.nz>
Description: Contains functions for hidden Markov models with observations having extra zeros as defined in the following two publications, Wang, T., Zhuang, J., Obara, K. and Tsuruoka, H. (2016) <doi:10.1111/rssc.12194>; Wang, T., Zhuang, J., Buckby, J., Obara, K. and Tsuruoka, H. (2018) <doi:10.1029/2017JB015360>. The observed response variable is either univariate or bivariate Gaussian conditioning on presence of events, and extra zeros mean that the response variable takes on the value zero if nothing is happening. Hence the response is modelled as a mixture distribution of a Bernoulli variable and a continuous variable. That is, if the Bernoulli variable takes on the value 1, then the response variable is Gaussian, and if the Bernoulli variable takes on the value 0, then the response is zero too. This package includes functions for simulation, parameter estimation, goodness-of-fit, the Viterbi algorithm, and plotting the classified 2-D data. Some of the functions in the package are based on those of the R package 'HiddenMarkov' by David Harte.
License: GPL (>= 2)
URL: http://www.stats.otago.ac.nz/?people=ting_wang
Packaged: 2018-09-11 20:49:19 UTC; twang
NeedsCompilation: yes
Repository: CRAN
Date/Publication: 2018-09-17 15:30:07 UTC

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New package farver with initial version 1.0
Package: farver
Type: Package
Title: Vectorised Colour Conversion and Comparison
Version: 1.0
Date: 2018-09-17
Authors@R: c(person(given = "Thomas Lin", family = "Pedersen", role = c("cre", "aut"), email = "thomasp85@gmail.com"), person(given = "Berendea", family = "Nicolae", role = "aut", comment = "Author of the ColorSpace C++ library"), person(given = "Romain", family = "François", role = "aut", email = "romain@purrple.cat", comment = c(ORCID = "0000-0002-2444-4226")) )
Maintainer: Thomas Lin Pedersen <thomasp85@gmail.com>
Description: The encoding of colour can be handled in many different ways, using different colour spaces. As different colour spaces have different uses, efficient conversion between these representations are important. The 'farver' package provides a set of functions that gives access to very fast colour space conversion and comparisons implemented in C++, and offers 100-fold speed improvements over the 'convertColor' function in the 'grDevices' package.
License: MIT + file LICENSE
Encoding: UTF-8
SystemRequirements: C++11
Imports: Rcpp (>= 0.12.15)
LinkingTo: Rcpp
RoxygenNote: 6.1.0
URL: https://github.com/thomasp85/farver
BugReports: https://github.com/thomasp85/farver/issues
Suggests: testthat, covr
NeedsCompilation: yes
Packaged: 2018-09-17 09:12:47 UTC; thomas
Author: Thomas Lin Pedersen [cre, aut], Berendea Nicolae [aut] (Author of the ColorSpace C++ library), Romain François [aut] (<https://orcid.org/0000-0002-2444-4226>)
Repository: CRAN
Date/Publication: 2018-09-17 15:20:02 UTC

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Package basefun updated to version 1.0-2 with previous version 1.0-1 dated 2018-03-29

Title: Infrastructure for Computing with Basis Functions
Description: Some very simple infrastructure for basis functions.
Author: Torsten Hothorn [aut, cre] (<https://orcid.org/0000-0001-8301-0471>)
Maintainer: Torsten Hothorn <Torsten.Hothorn@R-project.org>

Diff between basefun versions 1.0-1 dated 2018-03-29 and 1.0-2 dated 2018-09-17

 DESCRIPTION            |    8 ++++----
 MD5                    |    8 ++++----
 R/bernstein.R          |   31 ++++++++++++++++++++++++++++---
 inst/NEWS.Rd           |    9 +++++++++
 man/Bernstein_basis.Rd |    7 ++++++-
 5 files changed, 51 insertions(+), 12 deletions(-)

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New package VICmodel with initial version 0.1.0
Package: VICmodel
Type: Package
Title: The Variable Infiltration Capacity (VIC) Model
Version: 0.1.0
Authors@R: c(person("Ruida", "Zhong", email = "zrd2017@163.com", role = c("aut", "cre")), person("Xiaohong", "Chen", role = c("aut", "ctb")), person("Joseph J", "Hamman", role = c("ctb"), comment = "Contributor and maintainer of VIC source code"), person("Keith", "Cherkauer", role = c("ctb"), comment = "Contributer of codes of src/vic/vic_run/src/write_vegvar.c and src/vic/drivers/shared_all/src/cmd_proc.c") )
Description: The Variable Infiltration Capacity (VIC) model is a macroscale hydrologic model that solves full water and energy balances, originally developed by Xu Liang at the University of Washington (UW). The version of VIC source code used is of 5.0.1 on <https://github.com/UW-Hydro/VIC/>, see Hamman et al. (2018). Development and maintenance of the current official version of the VIC model at present is led by the UW Hydro (Computational Hydrology group) in the Department of Civil and Environmental Engineering at UW. VIC is a research model and in its various forms it has been applied to most of the major river basins around the world, as well as globally. If you make use of this model, please acknowledge the appropriate references listed in the help page of this package or on the references page <http://vic.readthedocs.io/en/master/Documentation/References/> of the VIC official documentation website. These should include Liang et al. (1994) plus any references relevant to the features you are using Reference: Liang, X., D. P. Lettenmaier, E. F. Wood, and S. J. Burges (1994), A simple hydrologically based model of land surface water and energy fluxes for general circulation models, J. Geophys. Res., 99(D7), 14415-14428, <doi:10.1029/94JD00483>. Hamman et al. (2018) about VIC 5.0.1 also can be considered: Hamman, J. J., Nijssen, B., Bohn, T. J., Gergel, D. R., and Mao, Y. (2018), The Variable Infiltration Capacity model version 5 (VIC-5): infrastructure improvements for new applications and reproducibility, Geosci. Model Dev., 11, 3481-3496, <doi:10.5194/gmd-11-3481-2018>.
License: GPL-3
Copyright: file inst/COPYRIGHTS
URL: https://github.com/Sibada/VICmodel
Encoding: UTF-8
LazyData: true
Depends: R (>= 3.0.0)
Imports: stats, utils, Rcpp (>= 0.12.0), foreach
Suggests: doParallel
LinkingTo: Rcpp
RoxygenNote: 5.0.1
NeedsCompilation: yes
Packaged: 2018-09-11 05:22:49 UTC; Da
Author: Ruida Zhong [aut, cre], Xiaohong Chen [aut, ctb], Joseph J Hamman [ctb] (Contributor and maintainer of VIC source code), Keith Cherkauer [ctb] (Contributer of codes of src/vic/vic_run/src/write_vegvar.c and src/vic/drivers/shared_all/src/cmd_proc.c)
Maintainer: Ruida Zhong <zrd2017@163.com>
Repository: CRAN
Date/Publication: 2018-09-17 14:20:06 UTC

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Package sabre updated to version 0.2.1 with previous version 0.2.0 dated 2018-04-23

Title: Spatial Association Between Regionalizations
Description: Calculates a degree of spatial association between regionalizations or categorical maps using the information-theoretical V-measure (Nowosad and Stepinski (2018) <doi:10.1080/13658816.2018.1511794>). It also offers an R implementation of the MapCurve method (Hargrove et al. (2006) <doi:10.1007/s10109-006-0025-x>).
Author: Jakub Nowosad [aut, cre] (<https://orcid.org/0000-0002-1057-3721>), Tomasz Stepinski [aut], Space Informatics Lab [cph]
Maintainer: Jakub Nowosad <nowosad.jakub@gmail.com>

Diff between sabre versions 0.2.0 dated 2018-04-23 and 0.2.1 dated 2018-09-17

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New package MSPRT with initial version 1.0
Package: MSPRT
Type: Package
Title: Modified Sequential Probability Ratio Test (MSPRT)
Version: 1.0
Date: 2018-09-11
Authors@R: c(person("Sandipan", "Pramanik", email = "sandy@stat.tamu.edu", role = c("aut", "cre")), person("Valen E.", "Johnson", role = "aut"), person("Anirban", "Bhattacharya", role = "aut") )
Author: Sandipan Pramanik [aut, cre], Valen E. Johnson [aut], Anirban Bhattacharya [aut]
Maintainer: Sandipan Pramanik <sandy@stat.tamu.edu>
Description: A modified SPRT (MSPRT) can be designed and implemented with the help of this package. In a MSPRT design, the maximum sample size of an experiment is fixed prior to the start of an experiment, the alternative hypothesis used to define the rejection region of the test is derived from the size of the test (Type I error), the maximum available sample size (N), and the targeted Type 2 error (equal to 1 minus the power) is also prespecified. Given these values, the MSPRT is defined in a manner very similar to Wald's initial proposal. This test can reduce the average sample size required to perform statistical hypothesis tests at the specified levels of significance and power. This package facilitates the carrying out of one sample Z tests, T Tests and tests of binomial success probabilities. A user guidance for this software package is provided here and also in the supplemental information.
Imports: nleqslv, ggplot2, foreach, iterators, parallel, doParallel, datasets, graphics, grDevices, methods, stats, utils
License: GPL (>= 2)
NeedsCompilation: no
Packaged: 2018-09-11 16:56:52 UTC; sandipanpramanik
Repository: CRAN
Date/Publication: 2018-09-17 14:50:03 UTC

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Permanent link

Package gdns updated to version 0.3.1 with previous version 0.2.1 dated 2017-07-02

Title: Tools to Work with Google's 'DNS-over-HTTPS' ('DoH') 'API'
Description: To address the problem of insecurity of 'UDP'-based 'DNS' requests, 'Google Public DNS' offers 'DNS' resolution over an encrypted 'HTTPS' connection. 'DNS-over-HTTPS' greatly enhances privacy and security between a client and a recursive resolver, and complements 'DNSSEC' to provide end-to-end authenticated 'DNS' lookups. Functions that enable querying individual requests that bulk requests that return detailed responses and bulk requests are both provided. Support for reverse lookups is also provided. See <https://developers.google.com/speed/public-dns/docs/dns-over-https> for more information.
Author: Bob Rudis [aut, cre] (<https://orcid.org/0000-0001-5670-2640>)
Maintainer: Bob Rudis <bob@rud.is>

Diff between gdns versions 0.2.1 dated 2017-07-02 and 0.3.1 dated 2018-09-17

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Package frailtypack updated to version 2.13.1 with previous version 2.12.7 dated 2018-07-30

Title: General Frailty Models: Shared, Joint and Nested Frailty Models with Prediction
Description: The following several classes of frailty models using a penalized likelihood estimation on the hazard function but also a parametric estimation can be fit using this R package: 1) A shared frailty model (with gamma or log-normal frailty distribution) and Cox proportional hazard model. Clustered and recurrent survival times can be studied. 2) Additive frailty models for proportional hazard models with two correlated random effects (intercept random effect with random slope). 3) Nested frailty models for hierarchically clustered data (with 2 levels of clustering) by including two iid gamma random effects. 4) Joint frailty models in the context of the joint modelling for recurrent events with terminal event for clustered data or not. A joint frailty model for two semi-competing risks and clustered data is also proposed. 5) Joint general frailty models in the context of the joint modelling for recurrent events with terminal event data with two independent frailty terms. 6) Joint Nested frailty models in the context of the joint modelling for recurrent events with terminal event, for hierarchically clustered data (with two levels of clustering) by including two iid gamma random effects. 7) Multivariate joint frailty models for two types of recurrent events and a terminal event. 8) Joint models for longitudinal data and a terminal event. 9) Trivariate joint models for longitudinal data, recurrent events and a terminal event. Prediction values are available (for a terminal event or for a new recurrent event). Left-truncated (not for Joint model), right-censored data, interval-censored data (only for Cox proportional hazard and shared frailty model) and strata are allowed. In each model, the random effects have the gamma or normal distribution. Now, you can also consider time-varying covariates effects in Cox, shared and joint frailty models (1-5). The package includes concordance measures for Cox proportional hazards models and for shared frailty models.
Author: Virginie Rondeau, Juan R. Gonzalez, Yassin Mazroui, Audrey Mauguen, Agnieszka Krol, Amadou Diakite, Alexandre Laurent and Myriam Lopez
Maintainer: Virginie Rondeau <Virginie.Rondeau@inserm.fr>

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New package emhawkes with initial version 0.9.0
Package: emhawkes
Title: Exponential Multivariate Hawkes Model
Version: 0.9.0
Authors@R: person("Kyungsub", "Lee", email = "kyungsub@gmail.com", role = c("aut", "cre"))
Maintainer: Kyungsub Lee <kyungsub@gmail.com>
Description: Simulate and fitting exponential multivariate Hawkes model. This package simulates a multivariate Hawkes model, introduced by Hawkes (1971) <doi:10.1093/biomet/58.1.83>, with an exponential kernel and fits the parameters from the data. Models with the constant parameters, as well as complex dependent structures, can also be simulated and estimated. The estimation is based on the maximum likelihood method, introduced by introduced by Ozaki (1979) <doi:10.1007/BF02480272>, with 'maxLik' package.
Depends: R (>= 3.4.0)
License: GPL (>= 2)
Encoding: UTF-8
LazyData: true
RoxygenNote: 6.0.1
Imports: maxLik, methods
Collate: 'harrival.R' 'hspec.R' 'hmoment.R' 'hllf.R' 'hfit.R' 'utilities.R' 'hreal.R' 'hsim.R' 'script.R'
Suggests: knitr, rmarkdown
VignetteBuilder: knitr
NeedsCompilation: no
Packaged: 2018-09-03 01:25:13 UTC; user
Author: Kyungsub Lee [aut, cre]
Repository: CRAN
Date/Publication: 2018-09-17 14:20:02 UTC

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Package bamdit updated to version 3.2.1 with previous version 3.2.0 dated 2018-08-24

Title: Bayesian Meta-Analysis of Diagnostic Test Data
Description: Functions for Bayesian meta-analysis of diagnostic test data which are based on a scale mixtures bivariate random-effects model.
Author: Pablo Emilio Verde [aut, cre]
Maintainer: Pablo Emilio Verde <pabloemilio.verde@hhu.de>

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New package xopen with initial version 1.0.0
Package: xopen
Title: Open System Files, 'URLs', Anything
Version: 1.0.0
Authors@R: c( person("Gábor", "Csárdi",, "csardi.gabor@gmail.com", c("aut", "cre")), person("Fathi", "Boudra", role = "aut"), person("Rex", "Dieter", role = "aut"), person("Kevin", "Krammer", role = "aut"), person("Jeremy", "White", role = "aut"))
Description: Cross platform solution to open files, directories or 'URLs' with their associated programs.
License: MIT + file LICENSE
LazyData: true
URL: https://github.com/r-lib/xopen#readme
BugReports: https://github.com/r-lib/xopen/issues
RoxygenNote: 6.1.0
Imports: processx
Suggests: ps, testthat
Encoding: UTF-8
Depends: R (>= 3.1)
NeedsCompilation: no
Packaged: 2018-09-10 20:47:53 UTC; gaborcsardi
Author: Gábor Csárdi [aut, cre], Fathi Boudra [aut], Rex Dieter [aut], Kevin Krammer [aut], Jeremy White [aut]
Maintainer: Gábor Csárdi <csardi.gabor@gmail.com>
Repository: CRAN
Date/Publication: 2018-09-17 13:10:03 UTC

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Package PythonInR updated to version 0.1-6 with previous version 0.1-4 dated 2018-01-17

Title: Use 'Python' from Within 'R'
Description: Interact with 'Python' <https://www.python.org/> from within 'R'.
Author: Florian Schwendinger [aut, cre], Kimyen Truong [ctb]
Maintainer: Florian Schwendinger <FlorianSchwendinger@gmx.at>

Diff between PythonInR versions 0.1-4 dated 2018-01-17 and 0.1-6 dated 2018-09-17

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Package kergp updated to version 0.4.0 with previous version 0.2.0 dated 2015-12-23

Title: Gaussian Process Laboratory
Description: Gaussian Process models with customised covariance kernels.
Author: Yves Deville, David Ginsbourger, Olivier Roustant. Contributors: Nicolas Durrande.
Maintainer: Olivier Roustant <roustant@emse.fr>

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 kergp-0.4.0/kergp/tests/testthat/test-covMat.R               |    8 
 kergp-0.4.0/kergp/tests/testthat/test-covTSGrad.R            |    7 
 kergp-0.4.0/kergp/tests/testthat/test-interp.R               |    4 
 kergp-0.4.0/kergp/tests/testthat/test-loo.R                  |    2 
 106 files changed, 2280 insertions(+), 1245 deletions(-)

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New package ipc with initial version 0.1.0
Package: ipc
Type: Package
Title: Tools for Message Passing Between Processes
Version: 0.1.0
Author: Ian E. Fellows
Maintainer: Ian E. Fellows <ian@fellstat.com>
Description: Provides tools for passing messages between R processes. Shiny Examples are provided showing how to perform useful tasks such as: updating reactive values from within a future, progress bars for long running async tasks, and interrupting async tasks based on user input.
Imports: R6, shiny, txtq, redux
License: MIT + file LICENSE
Encoding: UTF-8
LazyData: true
Suggests: testthat, knitr, rmarkdown, future, promises
VignetteBuilder: knitr
RoxygenNote: 6.1.0
NeedsCompilation: no
Packaged: 2018-09-11 00:29:27 UTC; ianfellows
Repository: CRAN
Date/Publication: 2018-09-17 13:20:03 UTC

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New package empirical with initial version 0.1.0
Package: empirical
Title: Empirical Probability Density Functions and Empirical Cumulative Distribution Functions
Version: 0.1.0
Date: 2018-09-11
Author: Abby Spurdle
Maintainer: Abby Spurdle <spurdle.a@gmail.com>
Description: Implements empirical probability density functions (continuous functions) and empirical cumulative distribution functions (step functions or continuous). Currently, univariate only.
License: GPL (>= 2)
NeedsCompilation: no
Packaged: 2018-09-11 01:13:54 UTC; Student9
Repository: CRAN
Date/Publication: 2018-09-17 13:20:06 UTC

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New package CorDiff with initial version 1.0
Package: CorDiff
Type: Package
Imports: mcc
Title: Set-Based Differential Covariance Testing for Genomics
Version: 1.0
Date: 2018-09-05
Author: Yi-Hui Zhou
Maintainer: Yi-Hui Zhou <yihui_zhou@ncsu.edu>
Description: We describe four different summary statistics, to ensure power and flexibility under various settings, including a new connectivity statistic that is sensitive to changes in overall covariance magnitude.
License: GPL-2
LazyLoad: yes
NeedsCompilation: no
Packaged: 2018-09-05 14:16:01 UTC; yzhou19
Repository: CRAN
Date/Publication: 2018-09-17 13:10:10 UTC

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Package xmlparsedata updated to version 1.0.2 with previous version 1.0.1 dated 2016-06-18

Title: Parse Data of 'R' Code as an 'XML' Tree
Description: Convert the output of 'utils::getParseData()' to an 'XML' tree, that one can search via 'XPath', and easier to manipulate in general.
Author: Gábor Csárdi
Maintainer: Gábor Csárdi <csardi.gabor@gmail.com>

Diff between xmlparsedata versions 1.0.1 dated 2016-06-18 and 1.0.2 dated 2018-09-17

 DESCRIPTION                |   17 +++++++++--------
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Package spikeSlabGAM updated to version 1.1-14 with previous version 1.1-11 dated 2016-02-29

Title: Bayesian Variable Selection and Model Choice for Generalized Additive Mixed Models
Description: Bayesian variable selection, model choice, and regularized estimation for (spatial) generalized additive mixed regression models via stochastic search variable selection with spike-and-slab priors.
Author: Fabian Scheipl [aut, cre], Bettina Gruen [ctb]
Maintainer: Fabian Scheipl <fabian.scheipl@stat.uni-muenchen.de>

Diff between spikeSlabGAM versions 1.1-11 dated 2016-02-29 and 1.1-14 dated 2018-09-17

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 spikeSlabGAM-1.1-14/spikeSlabGAM/MD5                               |   68 
 spikeSlabGAM-1.1-14/spikeSlabGAM/NAMESPACE                         |    2 
 spikeSlabGAM-1.1-14/spikeSlabGAM/NEWS                              |    9 
 spikeSlabGAM-1.1-14/spikeSlabGAM/R/bugs.R                          |   43 
 spikeSlabGAM-1.1-14/spikeSlabGAM/R/plot.R                          |  973 ++++++----
 spikeSlabGAM-1.1-14/spikeSlabGAM/R/predict.R                       |  172 +
 spikeSlabGAM-1.1-14/spikeSlabGAM/R/spikeAndSlab.R                  |  684 ++++---
 spikeSlabGAM-1.1-14/spikeSlabGAM/R/spikeSlabGAM.R                  |   38 
 spikeSlabGAM-1.1-14/spikeSlabGAM/R/ssGAMDesign.R                   |  224 +-
 spikeSlabGAM-1.1-14/spikeSlabGAM/R/summary.R                       |  189 +
 spikeSlabGAM-1.1-14/spikeSlabGAM/R/terms.R                         |  257 +-
 spikeSlabGAM-1.1-14/spikeSlabGAM/R/utils.R                         |  466 ++--
 spikeSlabGAM-1.1-14/spikeSlabGAM/build/vignette.rds                |binary
 spikeSlabGAM-1.1-14/spikeSlabGAM/inst/doc/UsingSpikeSlabGAM.pdf    |binary
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 spikeSlabGAM-1.1-14/spikeSlabGAM/man/plotTerm.Rd                   |    6 
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 36 files changed, 1888 insertions(+), 1361 deletions(-)

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New package salty with initial version 0.1.0
Type: Package
Package: salty
Title: Turn Clean Data into Messy Data
Version: 0.1.0
Authors@R: c( person("Matthew Lincoln", email = "matthew.d.lincoln@gmail.com", role = c("aut", "cre"), comment = c(ORCID = "0000-0002-4387-3384")))
Description: Take real or simulated data and salt it with errors commonly found in the wild, such as pseudo-OCR errors, Unicode problems, numeric fields with nonsensical punctuation, bad dates, etc.
License: MIT + file LICENSE
Depends: R (>= 2.10)
Imports: assertthat, purrr, stringr
Suggests: charlatan, testthat (>= 2.0.0), tibble, covr
Encoding: UTF-8
LazyData: true
RoxygenNote: 6.1.0
URL: https://github.com/mdlincoln/salty
BugReports: https://github.com/mdlincoln/salty/issues
NeedsCompilation: no
Packaged: 2018-09-10 11:49:31 UTC; mlincoln
Author: Matthew Lincoln [aut, cre] (<https://orcid.org/0000-0002-4387-3384>)
Maintainer: Matthew Lincoln <matthew.d.lincoln@gmail.com>
Repository: CRAN
Date/Publication: 2018-09-17 11:40:03 UTC

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Package googleway updated to version 2.7.1 with previous version 2.7.0 dated 2018-05-25

Title: Accesses Google Maps APIs to Retrieve Data and Plot Maps
Description: Provides a mechanism to plot a 'Google Map' from 'R' and overlay it with shapes and markers. Also provides access to 'Google Maps' APIs, including places, directions, roads, distances, geocoding, elevation and timezone.
Author: David Cooley [aut, cre], Paulo Barcelos [ctb] (Author of c++ decode_pl), Rstudio [ctb] (Functions written for the Leaflet pacakge)
Maintainer: David Cooley <dcooley@symbolix.com.au>

Diff between googleway versions 2.7.0 dated 2018-05-25 and 2.7.1 dated 2018-09-17

 DESCRIPTION                               |   10 
 MD5                                       |   87 ++--
 NAMESPACE                                 |    2 
 R/google_directions.R                     |   24 -
 R/google_distance.R                       |   24 -
 R/google_keys.R                           |    3 
 R/google_map.R                            |    6 
 R/google_map_layer_marker.R               |    1 
 R/google_map_layer_polyline.R             |    7 
 R/google_places.R                         |  242 +++++++++---
 R/google_utilities.R                      |    1 
 R/googleway-package.R                     |   12 
 R/legend.R                                |    2 
 R/onLoad.R                                |    1 
 R/parameter_checks.R                      |  140 +++++--
 inst/doc/googleway-vignette.Rmd           |    5 
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 tests/manual_tests.R                      |   44 ++
 tests/testthat/test-google_directions.R   |    3 
 tests/testthat/test-google_distances.R    |   17 
 tests/testthat/test-google_keys.R         |   63 ---
 tests/testthat/test-google_map.R          |    3 
 tests/testthat/test-google_places.R       |   38 +
 tests/testthat/test-onLoad.R              |    2 
 tests/testthat/test-parameter_checks.R    |   25 +
 vignettes/googleway-vignette.Rmd          |    5 
 46 files changed, 970 insertions(+), 747 deletions(-)

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New package EloOptimized with initial version 0.3.0
Package: EloOptimized
Title: Optimized Elo Rating Method for Obtaining Dominance Ranks
Version: 0.3.0
Date: 2018-09-05
Authors@R: c( person("Joseph", "Feldblum", email = "feldblum@umich.edu", role = c("aut", "cre")), person("Steffen", "Foerster", email = "sf2041@gmail.com", role = c("aut")), person("Mathias", "Franz", email = "m.franz@izw-berlin.de", role = c("aut")))
Description: Provides an implementation of the maximum likelihood methods for deriving Elo scores as published in Foerster, Franz et al. (2016) <DOI:10.1038/srep35404>.
Depends: R (>= 3.3.0)
License: GPL-3
Encoding: UTF-8
LazyData: true
RoxygenNote: 6.1.0
Imports: dplyr, reshape2, BAMMtools, tcltk, rlist, magrittr, lubridate, rlang
URL: https://github.com/jtfeld/EloOptimized
BugReports: https://github.com/jtfeld/EloOptimized/issues
NeedsCompilation: no
Packaged: 2018-09-10 21:35:33 UTC; Joseph Feldblum
Author: Joseph Feldblum [aut, cre], Steffen Foerster [aut], Mathias Franz [aut]
Maintainer: Joseph Feldblum <feldblum@umich.edu>
Repository: CRAN
Date/Publication: 2018-09-17 11:50:08 UTC

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Package treeman updated to version 1.1.3 with previous version 1.1.2 dated 2018-04-06

Title: Phylogenetic Tree Manipulation Class and Methods
Description: S4 class and methods for intuitive and efficient phylogenetic tree manipulation.
Author: D.J. Bennett
Maintainer: D.J. Bennett <dominic.john.bennett@gmail.com>

Diff between treeman versions 1.1.2 dated 2018-04-06 and 1.1.3 dated 2018-09-17

 DESCRIPTION                            |    6 +--
 MD5                                    |   21 +++++++------
 NAMESPACE                              |    1 
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Package n1qn1 updated to version 6.0.1-3 with previous version 6.0.0-1 dated 2017-10-30

Title: Port of the 'Scilab' 'n1qn1' and 'qnbd' Modules for (Un)constrained BFGS Optimization
Description: Provides 'Scilab' 'n1qn1', or Quasi-Newton BFGS "qn" without constraints and 'qnbd' or Quasi-Newton BFGS with constraints. This takes more memory than traditional L-BFGS. The n1qn1 routine is useful since it allows prespecification of a Hessian. If the Hessian is near enough the truth in optimization it can speed up the optimization problem. Both algorithms are described in the 'Scilab' optimization documentation located at <http://www.scilab.org/content/download/250/1714/file/optimization_in_scilab.pdf>.
Author: Matthew Fidler [aut, cre], Wenping Wang [aut], Claude Lemarechal [aut, ctb], Joseph Bonnans [ctb], Jean-Charles Gilbert [ctb], Claudia Sagastizabal [ctb], Stephen L. Campbell, [ctb], Jean-Philippe Chancelier [ctb], Ramine Nikoukhah [ctb], Dirk Eddelbuettel [ctb], Bruno Jofret [ctb], INRIA [cph]
Maintainer: Matthew Fidler <matthew.fidler@gmail.com>

Diff between n1qn1 versions 6.0.0-1 dated 2017-10-30 and 6.0.1-3 dated 2018-09-17

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 MD5                |   24 ++-
 NAMESPACE          |    1 
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Package magic updated to version 1.5-9 with previous version 1.5-8 dated 2018-01-26

Title: Create and Investigate Magic Squares
Description: A collection of efficient, vectorized algorithms for the creation and investigation of magic squares and hypercubes, including a variety of functions for the manipulation and analysis of arbitrarily dimensioned arrays. The package includes methods for creating normal magic squares of any order greater than 2. The ultimate intention is for the package to be a computerized embodiment all magic square knowledge, including direct numerical verification of properties of magic squares (such as recent results on the determinant of odd-ordered semimagic squares). Some antimagic functionality is included. The package also serves as a rebuttal to the often-heard comment "I thought R was just for statistics".
Author: Robin K. S. Hankin
Maintainer: "Robin K. S. Hankin" <hankin.robin@gmail.com>

Diff between magic versions 1.5-8 dated 2018-01-26 and 1.5-9 dated 2018-09-17

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New package CA3variants with initial version 1.0
Package: CA3variants
Type: Package
Title: Three-Way Correspondence Analysis Variants
Version: 1.0
Date: 2018-08-20
Author: Rosaria Lombardo and Eric J Beh
Maintainer: Rosaria Lombardo <rosaria.lombardo@unicampania.it>
Description: Provides three variants of three-way correspondence analysis (ca) three-way symmetrical ca, three-way non-symmetrical ca, three-way ordered symmetrical ca.
Depends: R (> 3.0.1), methods, tools, ggplot2, gridExtra, ggrepel
LazyData: true
License: GPL (> 2)
URL: https://www.R-project.org
NeedsCompilation: no
Packaged: 2018-09-10 16:57:56 UTC; Amministratore
Repository: CRAN
Date/Publication: 2018-09-17 09:00:13 UTC

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Package jmvcore updated to version 0.9.4 with previous version 0.9.2.0 dated 2018-08-12

Title: Dependencies for the 'jamovi' Framework
Description: A framework for creating rich interactive analyses for the jamovi platform (see <https://www.jamovi.org> for more information).
Author: Jonathon Love
Maintainer: Jonathon Love <jon@thon.cc>

Diff between jmvcore versions 0.9.2.0 dated 2018-08-12 and 0.9.4 dated 2018-09-17

 DESCRIPTION |    8 ++++----
 MD5         |    6 +++---
 R/group.R   |    5 +++++
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 4 files changed, 14 insertions(+), 11 deletions(-)

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Package mbir updated to version 1.3.4 with previous version 1.3.2 dated 2018-07-06

Title: Magnitude-Based Inferences
Description: Allows practitioners and researchers a wholesale approach for deriving magnitude-based inferences from raw data. A major goal of 'mbir' is to programmatically detect appropriate statistical tests to run in lieu of relying on practitioners to determine correct stepwise procedures independently.
Author: Kyle Peterson [aut, cre], Aaron Caldwell [aut]
Maintainer: Kyle Peterson <petersonkdon@gmail.com>

Diff between mbir versions 1.3.2 dated 2018-07-06 and 1.3.4 dated 2018-09-17

 DESCRIPTION                 |   14 +++++++-------
 MD5                         |   24 ++++++++++++------------
 R/aipe_smd.R                |    5 +++++
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 R/es_convert.R              |    2 ++
 R/prop.R                    |    1 +
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 R/ss_corr.R                 |   11 +++++++++++
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 build/vignette.rds          |binary
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 13 files changed, 98 insertions(+), 42 deletions(-)

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Package globals updated to version 0.12.3 with previous version 0.12.2 dated 2018-08-25

Title: Identify Global Objects in R Expressions
Description: Identifies global ("unknown" or "free") objects in R expressions by code inspection using various strategies, e.g. conservative or liberal. The objective of this package is to make it as simple as possible to identify global objects for the purpose of exporting them in distributed compute environments.
Author: Henrik Bengtsson [aut, cre, cph]
Maintainer: Henrik Bengtsson <henrikb@braju.com>

Diff between globals versions 0.12.2 dated 2018-08-25 and 0.12.3 dated 2018-09-17

 DESCRIPTION       |    6 +--
 MD5               |   20 +++++-----
 NEWS              |  108 ++++++++++++++++++++++++++++++------------------------
 R/Globals-class.R |   20 +++++-----
 R/cleanup.R       |    2 -
 R/findGlobals.R   |   40 +++++++++-----------
 R/globalsOf.R     |   64 +++++++++++++++++---------------
 R/packagesOf.R    |    6 +--
 R/utils.R         |    3 +
 R/where.R         |   19 ++++-----
 tests/globalsOf.R |   29 ++++++++++++++
 11 files changed, 181 insertions(+), 136 deletions(-)

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