Wed, 05 Jun 2019

Package IRISSeismic updated to version 1.5.0 with previous version 1.4.9 dated 2018-09-19

Title: Classes and Methods for Seismic Data Analysis
Description: Provides classes and methods for seismic data analysis. The base classes and methods are inspired by the python code found in the 'ObsPy' python toolbox <https://github.com/obsypy/obspy>. Additional classes and methods support data returned by web services provided by the 'IRIS DMC' <http://service.iris.edu/>.
Author: Jonathan Callahan [aut], Rob Casey [aut], Gillian Sharer [aut, cre], Mary Templeton [aut], Chad Trabant [ctb]
Maintainer: Gillian Sharer <gillian@iris.washington.edu>

Diff between IRISSeismic versions 1.4.9 dated 2018-09-19 and 1.5.0 dated 2019-06-05

 DESCRIPTION                     |    6 -
 MD5                             |   38 ++++----
 NAMESPACE                       |    1 
 R/Class-IrisClient.R            |  175 ++++++++++++++++++++++++++++++++++++++--
 build/vignette.rds              |binary
 inst/doc/IRISSeismic-intro.html |   37 +++++++-
 man/IRISSeismic-package.Rd      |   10 ++
 man/butterworth.Rd              |    4 
 man/envelope.Rd                 |    4 
 man/getDataAvailability.Rd      |only
 man/getDataselect.Rd            |    5 -
 man/getEvalresp.Rd              |    4 
 man/getEvent.Rd                 |   15 +--
 man/getSNCL.Rd                  |    4 
 man/getTraveltime.Rd            |    4 
 man/hilbert.Rd                  |    4 
 man/hilbertFFT.Rd               |    4 
 src/Makevars                    |    2 
 src/libmseed/libmseed.map       |only
 src/libmseed/temp.sh            |    7 -
 src/parseMiniSEED.c             |    6 -
 21 files changed, 262 insertions(+), 68 deletions(-)

More information about IRISSeismic at CRAN
Permanent link

Package tsmp updated to version 0.3.5 with previous version 0.3.4 dated 2019-02-24

Title: Time Series with Matrix Profile
Description: A toolkit implementing the Matrix Profile concept that was created by CS-UCR <http://www.cs.ucr.edu/~eamonn/MatrixProfile.html>.
Author: Francisco Bischoff [aut, cre] (<https://orcid.org/0000-0002-5301-8672>), Michael Yeh [res, ccp, ctb] (<https://orcid.org/0000-0002-9807-2963>), Diego Silva [res, ccp, ctb] (<https://orcid.org/0000-0002-5184-9413>), Yan Zhu [res, ccp, ctb] (<https://orcid.org/0000-0002-5952-2108>), Hoang Dau [res, ccp, ctb] (<https://orcid.org/0000-0003-2439-5185>), Michele Linardi [res, ccp, ctb] (<https://orcid.org/0000-0002-3249-2068>)
Maintainer: Francisco Bischoff <fbischoff@med.up.pt>

Diff between tsmp versions 0.3.4 dated 2019-02-24 and 0.3.5 dated 2019-06-05

 tsmp-0.3.4/tsmp/man/mass.Rd                                             |only
 tsmp-0.3.5/tsmp/DESCRIPTION                                             |   19 
 tsmp-0.3.5/tsmp/MD5                                                     |  150 
 tsmp-0.3.5/tsmp/NAMESPACE                                               |   21 
 tsmp-0.3.5/tsmp/NEWS                                                    |   25 
 tsmp-0.3.5/tsmp/NEWS.md                                                 |   21 
 tsmp-0.3.5/tsmp/R/annotations.R                                         |  654 +--
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 tsmp-0.3.5/tsmp/R/find-motifs.R                                         |  143 
 tsmp-0.3.5/tsmp/R/fluss.R                                               |  676 ++-
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 tsmp-0.3.5/tsmp/R/mstomp.R                                              |  638 +--
 tsmp-0.3.5/tsmp/R/plot.R                                                |  448 +-
 tsmp-0.3.5/tsmp/R/print.R                                               |  652 +--
 tsmp-0.3.5/tsmp/R/salient.R                                             |  940 ++--
 tsmp-0.3.5/tsmp/R/scrimp.R                                              |  649 +--
 tsmp-0.3.5/tsmp/R/sdts-predict.R                                        |  380 -
 tsmp-0.3.5/tsmp/R/sdts-train.R                                          |  712 +--
 tsmp-0.3.5/tsmp/R/simple.R                                              |  635 +-
 tsmp-0.3.5/tsmp/R/stamp-par.R                                           |  440 +-
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 tsmp-0.3.5/tsmp/tests/figs/testing-plots/plot-motif.svg                 |    6 
 tsmp-0.3.5/tsmp/tests/figs/testing-plots/plot-multi-matrix-profile.svg  |  198 
 tsmp-0.3.5/tsmp/tests/figs/testing-plots/plot-multimotif.svg            |   66 
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 tsmp-0.3.5/tsmp/tests/spelling.R                                        |   13 
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 tsmp-0.3.5/tsmp/tests/testthat/test-fluss.R                             |   66 
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 tsmp-0.3.5/tsmp/tests/testthat/test-plot-print.R                        |  146 
 tsmp-0.3.5/tsmp/tests/testthat/test-salient.R                           |   77 
 tsmp-0.3.5/tsmp/tests/testthat/test-stamps.R                            |  357 -
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 91 files changed, 8589 insertions(+), 7633 deletions(-)

More information about tsmp at CRAN
Permanent link

Package rdfp updated to version 0.1.4 with previous version 0.1.3 dated 2019-01-07

Title: An Implementation of the 'DoubleClick for Publishers' API
Description: Functions to interact with the 'Google DoubleClick for Publishers (DFP)' API <https://developers.google.com/ad-manager/api/start> (recently renamed to 'Google Ad Manager'). This package is automatically compiled from the API WSDL (Web Service Description Language) files to dictate how the API is structured. Theoretically, all API actions are possible using this package; however, care must be taken to format the inputs correctly and parse the outputs correctly. Please see the 'Google Ad Manager' API reference <https://developers.google.com/ad-manager/api/rel_notes> and this package's website <https://stevenmmortimer.github.io/rdfp/> for more information, documentation, and examples.
Author: Steven M. Mortimer [aut, cre], Jennifer Bryan [ctb], Joanna Zhao [ctb]
Maintainer: Steven M. Mortimer <reportmort@gmail.com>

Diff between rdfp versions 0.1.3 dated 2019-01-07 and 0.1.4 dated 2019-06-05

 rdfp-0.1.3/rdfp/R/ContentMetadataKeyHierarchyService.R                   |only
 rdfp-0.1.3/rdfp/man/dfp_createContentMetadataKeyHierarchies.Rd           |only
 rdfp-0.1.3/rdfp/man/dfp_getContentMetadataKeyHierarchiesByStatement.Rd   |only
 rdfp-0.1.3/rdfp/man/dfp_performContentMetadataKeyHierarchyAction.Rd      |only
 rdfp-0.1.3/rdfp/man/dfp_updateContentMetadataKeyHierarchies.Rd           |only
 rdfp-0.1.3/rdfp/tests/testthat/test-ContentMetadataKeyHierarchyService.R |only
 rdfp-0.1.4/rdfp/DESCRIPTION                                              |   56 
 rdfp-0.1.4/rdfp/MD5                                                      |  565 ++++----
 rdfp-0.1.4/rdfp/NAMESPACE                                                |   12 
 rdfp-0.1.4/rdfp/NEWS.md                                                  |   25 
 rdfp-0.1.4/rdfp/R/ActivityGroupService.R                                 |    9 
 rdfp-0.1.4/rdfp/R/ActivityService.R                                      |    9 
 rdfp-0.1.4/rdfp/R/AdExclusionRuleService.R                               |   12 
 rdfp-0.1.4/rdfp/R/AdRuleService.R                                        |   39 
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 rdfp-0.1.4/rdfp/R/AudienceSegmentService.R                               |   12 
 rdfp-0.1.4/rdfp/R/BaseRateService.R                                      |   16 
 rdfp-0.1.4/rdfp/R/CdnConfigurationService.R                              |   12 
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 rdfp-0.1.4/rdfp/R/CompanyService.R                                       |    9 
 rdfp-0.1.4/rdfp/R/ContactService.R                                       |    9 
 rdfp-0.1.4/rdfp/R/ContentBundleService.R                                 |   12 
 rdfp-0.1.4/rdfp/R/ContentService.R                                       |    6 
 rdfp-0.1.4/rdfp/R/CreativeService.R                                      |    9 
 rdfp-0.1.4/rdfp/R/CreativeSetService.R                                   |    9 
 rdfp-0.1.4/rdfp/R/CreativeTemplateService.R                              |    3 
 rdfp-0.1.4/rdfp/R/CreativeWrapperService.R                               |   12 
 rdfp-0.1.4/rdfp/R/CustomFieldService.R                                   |   21 
 rdfp-0.1.4/rdfp/R/CustomTargetingService.R                               |   24 
 rdfp-0.1.4/rdfp/R/DaiAuthenticationKeyService.R                          |   12 
 rdfp-0.1.4/rdfp/R/ExchangeRateService.R                                  |   12 
 rdfp-0.1.4/rdfp/R/ForecastService.R                                      |   12 
 rdfp-0.1.4/rdfp/R/InventoryService.R                                     |   15 
 rdfp-0.1.4/rdfp/R/LabelService.R                                         |   12 
 rdfp-0.1.4/rdfp/R/LineItemCreativeAssociationService.R                   |   18 
 rdfp-0.1.4/rdfp/R/LineItemService.R                                      |   35 
 rdfp-0.1.4/rdfp/R/LineItemTemplateService.R                              |    3 
 rdfp-0.1.4/rdfp/R/LiveStreamEventService.R                               |   15 
 rdfp-0.1.4/rdfp/R/MobileApplicationService.R                             |   12 
 rdfp-0.1.4/rdfp/R/NativeStyleService.R                                   |   12 
 rdfp-0.1.4/rdfp/R/NetworkService.R                                       |   12 
 rdfp-0.1.4/rdfp/R/OrderService.R                                         |   12 
 rdfp-0.1.4/rdfp/R/PackageService.R                                       |   16 
 rdfp-0.1.4/rdfp/R/PlacementService.R                                     |   13 
 rdfp-0.1.4/rdfp/R/PremiumRateService.R                                   |   13 
 rdfp-0.1.4/rdfp/R/ProductPackageItemService.R                            |   16 
 rdfp-0.1.4/rdfp/R/ProductPackageService.R                                |   16 
 rdfp-0.1.4/rdfp/R/ProductService.R                                       |   13 
 rdfp-0.1.4/rdfp/R/ProductTemplateService.R                               |   16 
 rdfp-0.1.4/rdfp/R/ProposalLineItemService.R                              |   16 
 rdfp-0.1.4/rdfp/R/ProposalService.R                                      |   15 
 rdfp-0.1.4/rdfp/R/PublisherQueryLanguageService.R                        |    6 
 rdfp-0.1.4/rdfp/R/RateCardService.R                                      |   16 
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 rdfp-0.1.4/rdfp/R/ReconciliationReportRowService.R                       |    6 
 rdfp-0.1.4/rdfp/R/ReconciliationReportService.R                          |    6 
 rdfp-0.1.4/rdfp/R/ReportService.R                                        |   29 
 rdfp-0.1.4/rdfp/R/SuggestedAdUnitService.R                               |    6 
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 rdfp-0.1.4/rdfp/R/TeamService.R                                          |   12 
 rdfp-0.1.4/rdfp/R/UserService.R                                          |   18 
 rdfp-0.1.4/rdfp/R/UserTeamAssociationService.R                           |   12 
 rdfp-0.1.4/rdfp/R/WorkflowRequestService.R                               |   10 
 rdfp-0.1.4/rdfp/R/dfp_options_settings.R                                 |    2 
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 rdfp-0.1.4/rdfp/R/dfp_utils.R                                            |   10 
 rdfp-0.1.4/rdfp/R/dfp_utils_xml.R                                        |   22 
 rdfp-0.1.4/rdfp/README.md                                                |  208 ++-
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More information about rdfp at CRAN
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Package mpath updated to version 0.3-15 with previous version 0.3-13 dated 2019-05-19

Title: Regularized Linear Models
Description: Algorithms for fitting model-based penalized coefficient paths. Currently the models include penalized Poisson, negative binomial, zero-inflated Poisson and zero-inflated negative binomial regression models. The penalties include least absolute shrinkage and selection operator (LASSO), smoothly clipped absolute deviation (SCAD) and minimax concave penalty (MCP), and each possibly combining with L_2 penalty. See Wang et al. (2014) <doi:10.1002/sim.6314>, Wang et al. (2015) <doi:10.1002/bimj.201400143>, Wang et al. (2016) <doi:10.1177/0962280214530608>.
Author: Zhu Wang, with contributions from Achim Zeileis, Simon Jackman, Brian Ripley, Trevor Hastie, Rob Tibshirani, Balasubramanian Narasimhan, Gil Chu and Patrick Breheny
Maintainer: Zhu Wang <wangz1@uthscsa.edu>

Diff between mpath versions 0.3-13 dated 2019-05-19 and 0.3-15 dated 2019-06-05

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Package dodgr updated to version 0.2.0 with previous version 0.1.4 dated 2019-05-11

Title: Distances on Directed Graphs
Description: Distances on dual-weighted directed graphs using priority-queue shortest paths (Padgham (2019) <doi:10.32866/6945>). Weighted directed graphs have weights from A to B which may differ from those from B to A. Dual-weighted directed graphs have two sets of such weights. A canonical example is a street network to be used for routing in which routes are calculated by weighting distances according to the type of way and mode of transport, yet lengths of routes must be calculated from direct distances.
Author: Mark Padgham [aut, cre], Andreas Petutschnig [aut], Robin Lovelace [ctb], Andrew Smith [ctb], Malcolm Morgan [ctb], Shane Saunders [cph] (Original author of included code for priority heaps)
Maintainer: Mark Padgham <mark.padgham@email.com>

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Permanent link

Package dbplyr updated to version 1.4.1 with previous version 1.4.0 dated 2019-04-23

Title: A 'dplyr' Back End for Databases
Description: A 'dplyr' back end for databases that allows you to work with remote database tables as if they are in-memory data frames. Basic features works with any database that has a 'DBI' back end; more advanced features require 'SQL' translation to be provided by the package author.
Author: Hadley Wickham [aut, cre], Edgar Ruiz [aut], RStudio [cph, fnd]
Maintainer: Hadley Wickham <hadley@rstudio.com>

Diff between dbplyr versions 1.4.0 dated 2019-04-23 and 1.4.1 dated 2019-06-05

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More information about dbplyr at CRAN
Permanent link

New package clustermq with initial version 0.8.8
Package: clustermq
Title: Evaluate Function Calls on HPC Schedulers (LSF, SGE, SLURM, PBS/Torque)
Version: 0.8.8
Authors@R: c( person('Michael', 'Schubert', email='mschu.dev@gmail.com', role = c('aut', 'cre', 'cph'), comment = c(ORCID='0000-0002-6862-5221') ), person('EMBL', role = c('cph', 'fnd')) )
Maintainer: Michael Schubert <mschu.dev@gmail.com>
Description: Evaluate arbitrary function calls using workers on HPC schedulers in single line of code. All processing is done on the network without accessing the file system. Remote schedulers are supported via SSH.
URL: https://github.com/mschubert/clustermq
BugReports: https://github.com/mschubert/clustermq/issues
Depends: R (>= 3.0.2)
Imports: narray, progress, purrr, R6, rzmq (>= 0.9.4), utils
License: Apache License (== 2.0) | file LICENSE
LazyData: true
Encoding: UTF-8
Suggests: devtools, dplyr, foreach, iterators, knitr, parallel, roxygen2 (>= 5.0.0), testthat, tools
VignetteBuilder: knitr
RoxygenNote: 6.1.1
NeedsCompilation: no
Packaged: 2019-06-05 18:19:42 UTC; mschu
Author: Michael Schubert [aut, cre, cph] (<https://orcid.org/0000-0002-6862-5221>), EMBL [cph, fnd]
Repository: CRAN
Date/Publication: 2019-06-05 22:00:39 UTC

More information about clustermq at CRAN
Permanent link

Package dataRetrieval updated to version 2.7.5 with previous version 2.7.4 dated 2019-03-25

Title: Retrieval Functions for USGS and EPA Hydrologic and Water Quality Data
Description: Collection of functions to help retrieve U.S. Geological Survey (USGS) and U.S. Environmental Protection Agency (EPA) water quality and hydrology data from web services. USGS web services are discovered from National Water Information System (NWIS) <https://waterservices.usgs.gov/> and <https://waterdata.usgs.gov/nwis>. Both EPA and USGS water quality data are obtained from the Water Quality Portal <https://www.waterqualitydata.us/>.
Author: Laura DeCicco [aut, cre] (<https://orcid.org/0000-0002-3915-9487>), Robert Hirsch [aut] (<https://orcid.org/0000-0002-4534-075X>), David Lorenz [aut], Jordan Read [ctb], Jordan Walker [ctb], Lindsay Carr [ctb], David Watkins [aut] (<https://orcid.org/0000-0002-7544-0700>)
Maintainer: Laura DeCicco <ldecicco@usgs.gov>

Diff between dataRetrieval versions 2.7.4 dated 2019-03-25 and 2.7.5 dated 2019-06-05

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 dataRetrieval-2.7.5/dataRetrieval/tests/testthat/tests_userFriendly_fxns.R |   58 ++--
 dataRetrieval-2.7.5/dataRetrieval/vignettes/dataRetrieval.Rmd              |    8 
 71 files changed, 820 insertions(+), 516 deletions(-)

More information about dataRetrieval at CRAN
Permanent link

Package rxylib updated to version 0.2.4 with previous version 0.2.3 dated 2019-04-11

Title: Import XY-Data into R
Description: Provides access to the 'xylib' C library for to import xy data from powder diffraction, spectroscopy and other experimental methods.
Author: Sebastian Kreutzer [aut, trl, cre] (<https://orcid.org/0000-0002-0734-2199>), Johannes Friedrich [aut] (<https://orcid.org/0000-0002-0805-9547>), RLum Team [ctb], Marcin Wojdyr [cph] (C++ library 'xylib'), Peng Zhang [cph] (C++ library 'xylib')
Maintainer: Sebastian Kreutzer <sebastian.kreutzer@u-bordeaux-montaigne.fr>

Diff between rxylib versions 0.2.3 dated 2019-04-11 and 0.2.4 dated 2019-06-05

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More information about rxylib at CRAN
Permanent link

Package RobustGaSP updated to version 0.5.7 with previous version 0.5.6 dated 2018-09-11

Title: Robust Gaussian Stochastic Process Emulation
Description: Robust parameter estimation and prediction of Gaussian stochastic process emulators. It allows for robust parameter estimation and prediction using Gaussian stochastic process emulator. It also implements the parallel partial Gaussian stochastic process emulator for computer model with massive outputs See the reference: Mengyang Gu and Jim Berger, 2016, Annals of Applied Statistics; Mengyang Gu, Xiaojing Wang and Jim Berger, 2018, Annals of Statistics.
Author: Mengyang Gu [aut, cre], Jesus Palomo [aut], James Berger [aut]
Maintainer: Mengyang Gu <mgu6@jhu.edu>

Diff between RobustGaSP versions 0.5.6 dated 2018-09-11 and 0.5.7 dated 2019-06-05

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More information about RobustGaSP at CRAN
Permanent link

Package bWGR updated to version 1.6.5 with previous version 1.6.4 dated 2019-05-20

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

Diff between bWGR versions 1.6.4 dated 2019-05-20 and 1.6.5 dated 2019-06-05

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More information about bWGR at CRAN
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Package Rxnat updated to version 1.0.5 with previous version 1.0.4 dated 2019-03-29

Title: Queries and Extracts Images from Extensible Neuroimaging Archive Toolkit Public/Private Datasets
Description: Allows communication with Extensible Neuroimaging Archive Toolkit <https://www.xnat.org>. 'Rxnat' is using the 'XNAT' REST API to perform data queries and download images.
Author: Adi Gherman [aut, cre]
Maintainer: Adi Gherman <adig@jhu.edu>

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More information about Rxnat at CRAN
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Package rdtLite updated to version 1.1.0 with previous version 1.0.2 dated 2018-11-30

Title: Provenance Collector
Description: Defines functions that can be used to collect provenance as an R script executes or during a console session. The output is a text file in PROV-JSON format.
Author: Barbara Lerner [aut, cre], Emery Boose [aut], Elizabeth Fong [aut], Luis Perez [aut], Thomas Pasquier [ctb], Matthew Lau [ctb], Yada Pruksachatkun [ctb], Alex Liu [ctb], Moe Pwint Phyu [ctb], Connor Gregorich-Trevor [ctb], Aaron Ellison [res], Margo Seltzer [res], Joe Wonsil [res], Orenna Brand [res]
Maintainer: Barbara Lerner <blerner@mtholyoke.edu>

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More information about rdtLite at CRAN
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Package groupedstats updated to version 0.0.7 with previous version 0.0.6 dated 2019-03-20

Title: Grouped Statistical Analyses in a Tidy Way
Description: Collection of functions to run statistical tests across all levels of multiple grouping variables.
Author: Indrajeet Patil [aut, cre] (<https://orcid.org/0000-0003-1995-6531>)
Maintainer: Indrajeet Patil <patilindrajeet.science@gmail.com>

Diff between groupedstats versions 0.0.6 dated 2019-03-20 and 0.0.7 dated 2019-06-05

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More information about groupedstats at CRAN
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Package dialrjars updated to version 8.10.13 with previous version 8.10.11.1 dated 2019-05-13

Title: Required 'libphonenumber' jars for the 'dialr' Package
Description: Collects 'libphonenumber' jars required for the 'dialr' package.
Author: Danny Smith [aut, cre], Google Inc. [ctb, cph] (libphonenumber), Vonage Holdings Corp. [ctb, cph] (libphonenumber), Ian Galpin [ctb, cph] (libphonenumber), Ben Gertzfield [ctb, cph] (libphonenumber)
Maintainer: Danny Smith <danny@gorcha.org>

Diff between dialrjars versions 8.10.11.1 dated 2019-05-13 and 8.10.13 dated 2019-06-05

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Package jug (with last version 0.1.7) was removed from CRAN

Previous versions (as known to CRANberries) which should be available via the Archive link are:

2017-04-13 0.1.7
2017-02-23 0.1.6
2016-09-15 0.1.4
2016-07-28 0.1.3
2016-05-10 0.1.2
2015-10-27 0.1.0
2015-10-27 0.1.1

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Package clustermq (with last version 0.8.7) was removed from CRAN

Previous versions (as known to CRANberries) which should be available via the Archive link are:

2019-04-15 0.8.7
2019-02-22 0.8.6
2018-09-29 0.8.5
2018-06-29 0.8.4.1
2018-04-22 0.8.4
2018-01-21 0.8.3
2017-12-17 0.8.2.1
2017-11-30 0.8.2
2017-11-27 0.8.1

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Package infuser (with last version 0.2.8) was removed from CRAN

Previous versions (as known to CRANberries) which should be available via the Archive link are:

2017-10-04 0.2.8
2017-07-03 0.2.7
2017-03-14 0.2.6
2016-10-12 0.2.5
2016-08-30 0.2.4
2016-04-06 0.2.3
2016-01-04 0.2.2
2015-09-30 0.2.1
2015-05-26 0.2
2015-05-17 0.1

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Package gem (with last version 0.19) was removed from CRAN

Previous versions (as known to CRANberries) which should be available via the Archive link are:

2016-08-04 0.19

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Package traitdataform updated to version 0.5.5 with previous version 0.5.4 dated 2019-05-06

Title: Formatting and Harmonizing Ecological Trait-Data
Description: Assistance for handling ecological trait data and applying the Ecological Trait-Data Standard terminology (Schneider et al. 2018 <doi:10.1101/328302>). There are two major use cases: (1) preparation of own trait datasets for upload into public data bases, and (2) harmonizing trait datasets from different sources by re-formatting them into a unified format. See 'traitdataform' website for full documentation.
Author: Florian D. Schneider [aut, cre] (<https://orcid.org/0000-0002-1494-5684>), Caterina Penone [ctb] (<https://orcid.org/0000-0002-8170-6659>), Andreas Ostrowski [ctb] (<https://orcid.org/0000-0002-2033-779X>), Dennis Heimann [ctb], Felix Neff [ctb], Markus J. Ankenbrand [ctb]
Maintainer: Florian D. Schneider <florian.dirk.schneider@gmail.com>

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Package solitude updated to version 0.1.3 with previous version 0.1.0 dated 2018-11-14

Title: An Implementation of Isolation Forest
Description: Isolation forest is anomaly detection method introduced by the paper Isolation based Anomaly Detection (Liu, Ting and Zhou <doi:10.1145/2133360.2133363>).
Author: Komala Sheshachala Srikanth [aut, cre]
Maintainer: Komala Sheshachala Srikanth <sri.teach@gmail.com>

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Package REndo updated to version 2.2.1 with previous version 2.2.0 dated 2019-04-13

Title: Fitting Linear Models with Endogenous Regressors using Latent Instrumental Variables
Description: Fits linear models with endogenous regressor using latent instrumental variable approaches. The methods included in the package are Lewbel's (1997) <doi:10.2307/2171884> higher moments approach as well as Lewbel's (2012) <doi:10.1080/07350015.2012.643126> heteroscedasticity approach, Park and Gupta's (2012) <doi:10.1287/mksc.1120.0718> joint estimation method that uses Gaussian copula and Kim and Frees's (2007) <doi:10.1007/s11336-007-9008-1> multilevel generalized method of moment approach that deals with endogeneity in a multilevel setting. These are statistical techniques to address the endogeneity problem where no external instrumental variables are needed. Note that with version 2.0.0 sweeping changes were introduced which greatly improve functionality and usability but break backwards compatibility.
Author: Raluca Gui [cre, aut], Markus Meierer [aut], Rene Algesheimer [aut], Patrik Schilter [aut]
Maintainer: Raluca Gui <raluca.gui@business.uzh.ch>

Diff between REndo versions 2.2.0 dated 2019-04-13 and 2.2.1 dated 2019-06-05

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Package khroma updated to version 1.1.3 with previous version 1.1.2 dated 2019-06-02

Title: Colour Schemes for Archaeological Data Visualization
Description: Colour schemes for archaeological data visualization. This package provides Paul Tol's colour schemes and several thematic palettes (geologic timescale, land cover, FAO soils, etc.) with scales for 'ggplot2'.
Author: Nicolas Frerebeau [aut, cre] (<https://orcid.org/0000-0001-5759-4944>), Brice Lebrun [ctb] (<https://orcid.org/0000-0001-7503-8685>)
Maintainer: Nicolas Frerebeau <nicolas.frerebeau@u-bordeaux-montaigne.fr>

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Package jsmodule updated to version 0.8.5 with previous version 0.8.4 dated 2019-05-30

Title: 'RStudio' Addins and 'Shiny' Modules for Medical Research
Description: 'RStudio' addins and 'Shiny' modules for descriptive statistics, regression and survival analysis.
Author: Jinseob Kim [aut, cre] (<https://orcid.org/0000-0002-9403-605X>), Zarathu [cph, fnd]
Maintainer: Jinseob Kim <jinseob2kim@gmail.com>

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Package coarseDataTools updated to version 0.6-4 with previous version 0.6-3 dated 2016-03-11

Title: Analysis of Coarsely Observed Data
Description: Functions to analyze coarse data. Specifically, it contains functions to (1) fit parametric accelerated failure time models to interval-censored survival time data, and (2) estimate the case-fatality ratio in scenarios with under-reporting. This package's development was motivated by applications to infectious disease: in particular, problems with estimating the incubation period and the case fatality ratio of a given disease. Sample data files are included in the package. See Reich et al. (2009) <doi:10.1002/sim.3659>, Reich et al. (2012) <doi:10.1111/j.1541-0420.2011.01709.x>, and Lessler et al. (2009) <doi:10.1016/S1473-3099(09)70069-6>.
Author: Nicholas G. Reich [aut, cre], Justin Lessler [aut], Andrew Azman [aut], Zhian N. Kamvar [ctb]
Maintainer: Nicholas G. Reich <nick@schoolph.umass.edu>

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Package BibPlots updated to version 0.0.6 with previous version 0.0.5 dated 2019-05-23

Title: Plot Functions for Use in Bibliometrics
Description: Currently, the package provides four functions for plotting and analyzing bibliometric data (JIF, Journal Impact Factor, and paper percentile values), beamplots with citations, and two plot function to visualize the result of a reference publication year spectroscopy (RPYS) analysis performed in the free software 'CRExplorer' (see <http://crexplorer.net>). Further extension to more plot variants is planned.
Author: Robin Haunschild [aut, cre]
Maintainer: Robin Haunschild <R.Haunschild@fkf.mpg.de>

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Package SoilHyP updated to version 0.1.3 with previous version 0.1.2 dated 2018-12-03

Title: Soil Hydraulic Properties
Description: Provides functions for (1) soil water retention (SWC) and unsaturated hydraulic conductivity (Ku) (van Genuchten-Mualem (vGM or vG) [1, 2], Peters-Durner-Iden (PDI) [3, 4, 5], Brooks and Corey (bc) [8]), (2) fitting of parameter for SWC and/or Ku using Shuffled Complex Evolution (SCE) optimisation and (3) calculation of soil hydraulic properties (Ku and soil water contents) based on the simplified evaporation method (SEM) [6, 7]. Main references: [1] van Genuchten (1980) <doi:10.2136/sssaj1980.03615995004400050002x>, [2] Mualem (1976) <doi:10.1029/WR012i003p00513>, [3] Peters (2013) <doi:10.1002/wrcr.20548>, [4] Iden and Durner (2013) <doi:10.1002/2014WR015937>, [5] Peters (2014) <doi:10.1002/2014WR015937>, [6] Wind G. P. (1966), [7] Peters and Durner (2008) <doi:10.1016/j.jhydrol.2008.04.016> and [8] Brooks and Corey (1964).
Author: Ullrich Dettmann [aut, cre], Felix Andrews [ctb] (For the code copied from the hydromad::SCEoptim function (Version: 0.9-15) which is not on r-cran (https://github.com/floybix/hydromad). The SCEoptim function is adapted, and substantially revised from Brecht Donckels MATLAB code which is in turn adopted from Qingyun Duans MATLAB code), Brecht Donckels [ctb] (For the Matlab code which was adapted and reviesed in the hydromad::SCEoptim function.), Qingyun Duan [ctb] (For the MATLAB code adapted from Brecht Donkels.)
Maintainer: Ullrich Dettmann <ullrich.dettmann@thuenen.de>

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Package HMMmlselect updated to version 0.1.4 with previous version 0.1.3 dated 2019-06-04

Title: Determine the Number of States in Hidden Markov Models via Marginal Likelihood
Description: Provide functions to make estimate the number of states for a hidden Markov model (HMM) using marginal likelihood method proposed by the authors. See the Manual.pdf file a detail description of all functions, and a detail tutorial.
Author: Yang Chen, Cheng-Der Fuh, Chu-Lan Kao, and S. C. Kou.
Maintainer: Chu-Lan Michael Kao <chulankao@gmail.com>

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Package HistDAWass updated to version 1.0.3 with previous version 1.0.1 dated 2018-03-20

Title: Histogram-Valued Data Analysis
Description: In the framework of Symbolic Data Analysis, a relatively new approach to the statistical analysis of multi-valued data, we consider histogram-valued data, i.e., data described by univariate histograms. The methods and the basic statistics for histogram-valued data are mainly based on the L2 Wasserstein metric between distributions, i.e., the Euclidean metric between quantile functions. The package contains unsupervised classification techniques, least square regression and tools for histogram-valued data and for histogram time series. An introducing paper is Irpino A. Verde R. (2015) <doi:10.1007/s11634-014-0176-4>.
Author: Antonio Irpino [aut, cre]
Maintainer: Antonio Irpino <antonio.irpino@unicampania.it>

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Package wiqid updated to version 0.2.2 with previous version 0.2.1 dated 2019-01-02

Title: Quick and Dirty Estimates for Wildlife Populations
Description: Provides simple, fast functions for maximum likelihood and Bayesian estimates of wildlife population parameters, suitable for use with simulated data or bootstraps. Early versions were indeed quick and dirty, but optional error-checking routines and meaningful error messages have been added. Includes single and multi-season occupancy, closed capture population estimation, survival, species richness and distance measures.
Author: Mike Meredith
Maintainer: Mike Meredith <mmeredith@wcs.org>

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New package promotionImpact with initial version 0.1.2
Package: promotionImpact
Type: Package
Title: Analysis & Measurement of Promotion Effectiveness
Version: 0.1.2
Date: 2019-05-16
Authors@R: c( person("Nahyun", "Kim", email = "nhkim1302@ncsoft.com", role = c("cre", "aut")), person("Hyemin", "Um", email = "windy0126@ncsoft.com", role = "aut"), person("Eunjo", "Lee", email = "gimmesilver@ncsoft.com", role = "aut"), person(family = "NCSOFT Corporation", role = "cph") )
Description: Analysis and measurement of promotion effectiveness on a given target variable (e.g. daily sales). After converting promotion schedule into dummy or smoothed predictor variables, the package estimates the effects of these variables controlled for trend/periodicity/structural change using prophet by Taylor and Letham (2017) <doi:10.7287/peerj.preprints.3190v2> and some prespecified variables (e.g. start of a month).
Depends: R (>= 3.5.0), Rcpp (>= 0.12.17), dplyr (>= 0.7.6), ggplot2 (>= 3.0.0), scales (>= 1.0.0)
Imports: KernSmooth (>= 2.23.15), data.table (>= 1.11.4), ggpubr (>= 0.1.8), reshape2 (>= 1.4.3), stringr (>= 1.3.1), strucchange (>= 1.5.1), lmtest (>= 0.9), crayon (>= 1.3.4), prophet (>= 0.3.0.1)
License: BSD_3_clause + file LICENSE
URL: https://github.com/ncsoft/promotionImpact
LazyData: true
RoxygenNote: 6.1.1
Encoding: UTF-8
Author: Nahyun Kim [cre, aut], Hyemin Um [aut], Eunjo Lee [aut], NCSOFT Corporation [cph]
Maintainer: Nahyun Kim <nhkim1302@ncsoft.com>
NeedsCompilation: no
Packaged: 2019-06-05 01:43:34 UTC; nhkim1302
Repository: CRAN
Date/Publication: 2019-06-05 12:40:09 UTC

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Package prioritylasso updated to version 0.2.2 with previous version 0.2.1 dated 2017-09-25

Title: Analyzing Multiple Omics Data with an Offset Approach
Description: Fits successive Lasso models for several blocks of (omics) data with different priorities and takes the predicted values as an offset for the next block.
Author: Simon Klau, Roman Hornung, Alina Bauer
Maintainer: Simon Klau <simonklau@ibe.med.uni-muenchen.de>

Diff between prioritylasso versions 0.2.1 dated 2017-09-25 and 0.2.2 dated 2019-06-05

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New package ICODS with initial version 1.0
Package: ICODS
Type: Package
Title: Data Analysis for ODS and Case-Cohort Designs with Interval-Censoring
Version: 1.0
Date: 2019-6-05
Author: Shannon T. Holloway, Qingning Zhou, Jianwen Cai, Haibo Zhou
Maintainer: Shannon T. Holloway <sthollow@ncsu.edu>
Description: Sieve semiparametric likelihood methods for analyzing interval-censored failure time data from an outcome-dependent sampling (ODS) design and from a case-cohort design. Zhou, Q., Cai, J., and Zhou, H. (2018) <doi:10.1111/biom.12744>; Zhou, Q., Zhou, H., and Cai, J. (2017) <doi:10.1093/biomet/asw067>.
License: GPL-2
Depends: methods, stats, MASS
NeedsCompilation: no
Repository: CRAN
Encoding: UTF-8
RoxygenNote: 6.1.1
Collate: 'myOptim.R' 'minObj.R' 'baseInfo.R' 'CaseCohort_Obj.R' 'CaseCohort_gr.R' 'CaseCohort_fn.R' 'class_ICODS.R' 'CaseCohort_class.R' 'bernstein.R' 'CaseCohortIC.R' 'CaseCohort_data.R' 'ODSDesign_Obj.R' 'ODSDesign_class.R' 'ODSDesignIC.R' 'ODSDesign_data.R' 'ODSDesign_fn.R' 'ODSDesign_gr.R' 'testInputData.R'
Packaged: 2019-06-05 12:16:40 UTC; sthollow
Date/Publication: 2019-06-05 13:00:06 UTC

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Package tinytest updated to version 0.9.4 with previous version 0.9.3 dated 2019-05-10

Title: Lightweight but Feature Complete Unit Testing Framework
Description: Provides a lightweight (zero-dependency) and easy to use unit testing framework. Main features: install tests with the package. Test results are treated as data that can be stored and manipulated. Test files are R scripts interspersed with test commands, that can be programmed over. Fully automated build-install-test sequence for packages. Skip tests when not run locally (e.g. on CRAN). Flexible and configurable output printing. Compare computed output with output stored with the package.
Author: Mark van der Loo [aut, cre]
Maintainer: Mark van der Loo <mark.vanderloo@gmail.com>

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Package QZ updated to version 0.1-7 with previous version 0.1-6 dated 2017-05-14

Title: Generalized Eigenvalues and QZ Decomposition
Description: Generalized eigenvalues and eigenvectors use QZ decomposition (generalized Schur decomposition). The decomposition needs an N-by-N non-symmetric matrix A or paired matrices (A,B) with eigenvalues reordering mechanism. The decomposition functions are mainly based Fortran subroutines in complex*16 and double precision of LAPACK library (version 3.4.2. or later).
Author: Wei-Chen Chen [aut, cre], LAPACK authors [aut, cph]
Maintainer: Wei-Chen Chen <wccsnow@gmail.com>

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Package missingHE updated to version 1.0.1 with previous version 1.0.0 dated 2019-05-03

Title: Missing Outcome Data in Health Economic Evaluation
Description: Contains a suite of functions for health economic evaluations with missing outcome data. The package can fit different types of statistical models under a fully Bayesian approach using the software 'JAGS' (which should be installed locally and which is loaded in 'missingHE' via the 'R' package 'R2jags'). Three classes of models can be fitted under a variety of missing data assumptions: selection models, pattern mixture models and hurdle models. In addition to model fitting, 'missingHE' provides a set of specialised functions to assess model convergence and summarise the statistical and economic results using different types of measures and graphs. The methods implemented are described in Mason (2018) <doi:10.1002/hec.3793>, Molenberghs (2000) <doi:10.1007/978-1-4419-0300-6_18> and Gabrio (2019) <doi:10.1002/sim.8045>.
Author: Andrea Gabrio [aut, cre]
Maintainer: Andrea Gabrio <ucakgab@ucl.ac.uk>

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Package HellCor updated to version 1.1 with previous version 1.0.1 dated 2018-11-02

Title: The Hellinger Correlation
Description: Empirical value of the Hellinger correlation, which is a new measure of dependence between two continuous random variables that satisfies a set of 7 axioms that any valid measure of dependence should satisfy. More details can be found in Geenens and Lafaye De Micheaux (2018) <arXiv:1810.10276>.
Author: Gery Geenens [aut], Pierre Lafaye De Micheaux [aut, cre]
Maintainer: Pierre Lafaye De Micheaux <lafaye@unsw.edu.au>

Diff between HellCor versions 1.0.1 dated 2018-11-02 and 1.1 dated 2019-06-05

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New package gradeR with initial version 1.0.0
Package: gradeR
Title: Helps Grade Assignment Submissions that are R Scripts
Version: 1.0.0
Authors@R: person("Taylor", "Brown", email = "trb5me@virginia.edu", role = c("aut", "cre"))
Description: After being given the location of your students' submissions and a test file, the function runs each .R file, and evaluates the results from all the given tests. Results are neatly returned in a data frame that has a row for each student, and a column for each test.
Depends: R (>= 3.4)
License: MIT + file LICENSE
Encoding: UTF-8
LazyData: true
RoxygenNote: 6.1.1
Imports: testthat, methods
Suggests: knitr, rmarkdown
VignetteBuilder: knitr
NeedsCompilation: no
Packaged: 2019-06-04 16:37:40 UTC; t
Author: Taylor Brown [aut, cre]
Maintainer: Taylor Brown <trb5me@virginia.edu>
Repository: CRAN
Date/Publication: 2019-06-05 11:30:03 UTC

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Package gap updated to version 1.2.1 with previous version 1.1-22 dated 2018-06-08

Title: Genetic Analysis Package
Description: It is designed as an integrated package for genetic data analysis of both population and family data. Currently, it contains functions for sample size calculations of both population-based and family-based designs, probability of familial disease aggregation, kinship calculation, statistics in linkage analysis, and association analysis involving genetic markers including haplotype analysis with or without environmental covariates.
Author: Jing Hua Zhao and colleagues with inputs from Kurt Hornik and Brian Ripley
Maintainer: Jing Hua Zhao <jinghuazhao@hotmail.com>

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Package AzureGraph updated to version 1.0.2 with previous version 1.0.1 dated 2019-05-01

Title: Simple Interface to 'Microsoft Graph'
Description: A simple interface to the 'Microsoft Graph' API <https://docs.microsoft.com/en-us/graph/overview>. 'Graph' is a comprehensive framework for accessing data in various online Microsoft services. Currently, this package aims to provide an R interface only to the 'Azure Active Directory' part, with a view to supporting interoperability of R and 'Azure': users, groups, registered apps and service principals. However it can be easily extended to cover other services. Part of the 'AzureR' family of packages.
Author: Hong Ooi [aut, cre], Microsoft [cph]
Maintainer: Hong Ooi <hongooi@microsoft.com>

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Package tseries updated to version 0.10-47 with previous version 0.10-46 dated 2018-11-19

Title: Time Series Analysis and Computational Finance
Description: Time series analysis and computational finance.
Author: Adrian Trapletti [aut], Kurt Hornik [aut, cre], Blake LeBaron [ctb] (BDS test code)
Maintainer: Kurt Hornik <Kurt.Hornik@R-project.org>

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Package getTBinR updated to version 0.6.1 with previous version 0.6.0 dated 2019-05-23

Title: Access and Summarise World Health Organisation Tuberculosis data
Description: Quickly and easily import analysis ready Tuberculosis (TB) burden data, from the World Health Organisation (WHO), into R. The aim of getTBinR is to allow researchers, and other interested individuals, to quickly and easily gain access to a detailed TB data set and to start using it to derive key insights. It provides a consistent set of tools that can be used to rapidly evaluate hypotheses on a widely used data set before they are explored further using more complex methods or more detailed data. These tools include: generic plotting and mapping functions; a data dictionary search tool; an interactive shiny dashboard; and an automated, country level, TB report. For newer R users, this package reduces the barrier to entry by handling data import, munging, and visualisation. All plotting and mapping functions are built with ggplot2 so can be readily extended.
Author: Sam Abbott [aut, cre] (<https://orcid.org/0000-0001-8057-8037>)
Maintainer: Sam Abbott <contact@samabbott.co.uk>

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Package e1071 updated to version 1.7-2 with previous version 1.7-1 dated 2019-03-19

Title: Misc Functions of the Department of Statistics, Probability Theory Group (Formerly: E1071), TU Wien
Description: Functions for latent class analysis, short time Fourier transform, fuzzy clustering, support vector machines, shortest path computation, bagged clustering, naive Bayes classifier, ...
Author: David Meyer [aut, cre], Evgenia Dimitriadou [aut, cph], Kurt Hornik [aut], Andreas Weingessel [aut], Friedrich Leisch [aut], Chih-Chung Chang [ctb, cph] (libsvm C++-code), Chih-Chen Lin [ctb, cph] (libsvm C++-code)
Maintainer: David Meyer <David.Meyer@R-project.org>

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Package bioinactivation updated to version 1.2.2 with previous version 1.2.1 dated 2017-12-15

Title: Simulation of Dynamic Microbial Inactivation
Description: Prediction and adjustment to experimental data of microbial inactivation. Several models available in the literature are implemented.
Author: Alberto Garre [aut, cre], Pablo S. Fernandez [aut], Jose A. Egea [aut]
Maintainer: Alberto Garre <garre.alberto@gmail.com>

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Package motmot (with last version 2.1) was removed from CRAN

Previous versions (as known to CRANberries) which should be available via the Archive link are:

2019-05-28 2.1

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Package Iso updated to version 0.0-18 with previous version 0.0-17 dated 2015-06-01

Title: Functions to Perform Isotonic Regression
Description: Linear order and unimodal order (univariate) isotonic regression; bivariate isotonic regression with linear order on both variables.
Author: Rolf Turner <r.turner@auckland.ac.nz>
Maintainer: Rolf Turner <r.turner@auckland.ac.nz>

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