Thu, 09 May 2019

Package OrthoPanels updated to version 1.1-3 with previous version 1.1-2 dated 2019-04-05

Title: Dynamic Panel Models with Orthogonal Reparameterization of Fixed Effects
Description: Implements the orthogonal reparameterization approach recommended by Lancaster (2002) to estimate dynamic panel models with fixed effects (and optionally: panel specific intercepts). The approach uses a likelihood-based estimator and produces estimates that are asymptotically unbiased as N goes to infinity, with a T as low as 2.
Author: Davor Cubranic [aut], Mark Pickup [aut, cre], Paul Gustafson [aut], Geoffrey Evans [aut], Jonoska Stojkova Biljana [ctb]
Maintainer: Mark Pickup <mark.pickup@sfu.ca>

Diff between OrthoPanels versions 1.1-2 dated 2019-04-05 and 1.1-3 dated 2019-05-09

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Package rhierbaps updated to version 1.1.2 with previous version 1.1.0 dated 2018-10-10

Title: Clustering Genetic Sequence Data Using the HierBAPS Algorithm
Description: Implements the hierarchical Bayesian analysis of populations structure (hierBAPS) algorithm of Cheng et al. (2013) <doi:10.1093/molbev/mst028> for clustering DNA sequences from multiple sequence alignments in FASTA format. The implementation includes improved defaults and plotting capabilities and unlike the original 'MATLAB' version removes singleton SNPs by default.
Author: Gerry Tonkin-Hill [cre, aut]
Maintainer: Gerry Tonkin-Hill <g.tonkinhill@gmail.com>

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Package qvcalc updated to version 1.0.0 with previous version 0.9-1 dated 2017-09-19

Title: Quasi Variances for Factor Effects in Statistical Models
Description: Functions to compute quasi variances and associated measures of approximation error.
Author: David Firth
Maintainer: David Firth <d.firth@warwick.ac.uk>

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Package MRPC updated to version 2.1.0 with previous version 2.0.0 dated 2018-10-13

Title: PC Algorithm with the Principle of Mendelian Randomization
Description: A PC Algorithm with the Principle of Mendelian Randomization. This package implements the MRPC (PC with the principle of Mendelian randomization) algorithm to infer causal graphs. It also contains functions to simulate data under a certain topology, to visualize a graph in different ways, and to compare graphs and quantify the differences. See Badsha and Fu (2018) <doi:10.1101/171348>,Badsha, Martin and Fu (2018) <arXiv:1806.01899>.
Author: Md Bahadur Badsha [aut,cre],Evan A Martin [ctb] and Audrey Qiuyan Fu [aut]
Maintainer: Md Bahadur Badsha <mdbadsha@uidaho.edu>

Diff between MRPC versions 2.0.0 dated 2018-10-13 and 2.1.0 dated 2019-05-09

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Package symbolicDA updated to version 0.6-1 with previous version 0.5-3 dated 2018-03-25

Title: Analysis of Symbolic Data
Description: Symbolic data analysis methods: importing/exporting data from ASSO XML Files, distance calculation for symbolic data (Ichino-Yaguchi, de Carvalho measure), zoom star plot, 3d interval plot, multidimensional scaling for symbolic interval data, dynamic clustering based on distance matrix, HINoV method for symbolic data, Ichino's feature selection method, principal component analysis for symbolic interval data, decision trees for symbolic data based on optimal split with bagging, boosting and random forest approach (+visualization), kernel discriminant analysis for symbolic data, Kohonen's self-organizing maps for symbolic data, replication and profiling, artificial symbolic data generation. (Milligan, G.W., Cooper, M.C. (1985) <doi:10.1007/BF02294245>, Breiman, L. (1996), <doi:10.1007/BF00058655>, Hubert, L., Arabie, P. (1985), <doi:10.1007%2FBF01908075>, Ichino, M., & Yaguchi, H. (1994), <doi:10.1109/21.286391>, Rand, W.M. (1971) <doi:10.1080/01621459.1971.10482356>, Calinski, T., Harabasz, J. (1974) <doi:10.1080/03610927408827101>, Breckenridge, J.N. (2000) <doi:10.1207/S15327906MBR3502_5>, Groenen, P.J.F, Winsberg, S., Rodriguez, O., Diday, E. (2006) <doi:10.1016/j.csda.2006.04.003>, Walesiak, M., Dudek, A. (2008) <doi:10.1007/978-3-540-78246-9_11>, Dudek, A. (2007), <doi:10.1007/978-3-540-70981-7_4>).
Author: Andrzej Dudek, Marcin Pelka <marcin.pelka@ue.wroc.pl>, Justyna Wilk<justyna.wilk@ue.wroc.pl> (to 2017-09-20), Marek Walesiak <Marek.Walesiak@ue.wroc.pl> (from 2018-02-01)
Maintainer: Andrzej Dudek <andrzej.dudek@ue.wroc.pl>

Diff between symbolicDA versions 0.5-3 dated 2018-03-25 and 0.6-1 dated 2019-05-09

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Package rr2 updated to version 1.0.2 with previous version 1.0.1 dated 2019-02-04

Title: R2s for Regression Models
Description: Three methods to calculate R2 for models with correlated errors, including Phylogenetic GLS, Phylogenetic Logistic Regression, Linear Mixed Models (LMMs), and Generalized Linear Mixed Models (GLMMs). See details in Ives 2018 <doi:10.1093/sysbio/syy060>.
Author: Anthony Ives [aut, cre], Daijiang Li [ctb]
Maintainer: Anthony Ives <arives@wisc.edu>

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Package intccr updated to version 1.1.4 with previous version 1.1.3 dated 2019-05-06

Title: Semiparametric Competing Risks Regression under Interval Censoring
Description: Semiparametric regression models on the cumulative incidence function with interval-censored competing risks data as described in Bakoyannis, Yu, & Yiannoutsos (2017) <doi:10.1002/sim.7350>. The main function fits the proportional subdistribution hazards model (Fine-Gray model), the proportional odds model, and other models that belong to the class of semiparametric generalized odds rate transformation models.
Author: Giorgos Bakoyannis <gbakogia@iu.edu>, Jun Park <jp84@iu.edu>
Maintainer: Jun Park <jp84@iu.edu>

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Package GPareto updated to version 1.1.3 with previous version 1.1.2 dated 2018-12-10

Title: Gaussian Processes for Pareto Front Estimation and Optimization
Description: Gaussian process regression models, a.k.a. Kriging models, are applied to global multi-objective optimization of black-box functions. Multi-objective Expected Improvement and Step-wise Uncertainty Reduction sequential infill criteria are available. A quantification of uncertainty on Pareto fronts is provided using conditional simulations.
Author: Mickael Binois, Victor Picheny
Maintainer: Mickael Binois <mbinois@mcs.anl.gov>

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Package caesar updated to version 1.0.0 with previous version 0.1.0 dated 2017-01-18

Title: Encrypts and Decrypts Strings
Description: Encrypts and decrypts strings using either the Caesar cipher or a pseudorandom number generation (using set.seed()) method.
Author: Jacob Kaplan [aut, cre] (<https://orcid.org/0000-0002-0601-0387>)
Maintainer: Jacob Kaplan <jkkaplan6@gmail.com>

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Package abtest updated to version 0.1.3 with previous version 0.1.2 dated 2019-05-03

Title: Bayesian A/B Testing
Description: Provides functions for Bayesian A/B testing including prior elicitation options based on Kass and Vaidyanathan (1992) <doi:10.1111/j.2517-6161.1992.tb01868.x>.
Author: Quentin F. Gronau [aut, cre], Akash Raj [ctb], Eric-Jan Wagenmakers [ths]
Maintainer: Quentin F. Gronau <Quentin.F.Gronau@gmail.com>

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Package nanostringr updated to version 0.1.4 with previous version 0.1.3 dated 2019-04-24

Title: Performs Quality Control, Data Normalization, and Batch Effect Correction for 'NanoString nCounter' Data
Description: Provides quality control (QC), normalization, and batch effect correction operations for 'NanoString nCounter' data, Talhouk et al. (2016) <doi:10.1371/journal.pone.0153844>. Various metrics are used to determine which samples passed or failed QC. Gene expression should first be normalized to housekeeping genes, before a reference-based approach is used to adjust for batch effects. Raw NanoString data can be imported in the form of Reporter Code Count (RCC) files.
Author: Derek Chiu [aut, cre], Aline Talhouk [aut], Samuel Leung [aut]
Maintainer: Derek Chiu <dchiu@bccrc.ca>

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Package pewdata updated to version 0.3.0 with previous version 0.2.0 dated 2016-09-24

Title: Reproducible Retrieval of Pew Research Center Datasets
Description: Reproducible, programmatic retrieval of survey datasets from the Pew Research Center.
Author: Frederick Solt [aut, cre], Yue Hu [aut], Eric Persson [ctb]
Maintainer: Frederick Solt <frederick-solt@uiowa.edu>

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Package lidR updated to version 2.0.3 with previous version 2.0.2 dated 2019-03-03

Title: Airborne LiDAR Data Manipulation and Visualization for Forestry Applications
Description: Airborne LiDAR (Light Detection and Ranging) interface for data manipulation and visualization. Read/write 'las' and 'laz' files, computation of metrics in area based approach, point filtering, artificial point reduction, classification from geographic data, normalization, individual tree segmentation and other manipulations.
Author: Jean-Romain Roussel [aut, cre, cph], David Auty [aut, ctb] (Reviews the documentation), Florian De Boissieu [ctb] (Fixed bugs and improved catalog features), Andrew Sánchez Meador [ctb] (Implemented lassnags)
Maintainer: Jean-Romain Roussel <jean-romain.roussel.1@ulaval.ca>

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Package capitalR updated to version 1.2.0 with previous version 1.1.0 dated 2019-04-10

Title: Capital Budgeting Analysis, Annuity Loan Calculations and Amortization Schedules
Description: Provides Capital Budgeting Analysis functionality and the essential Annuity loan functions. Also computes Loan Amortization Schedules including schedules with irregular payments.
Author: John T. Buynak
Maintainer: John T. Buynak <jbuynak94@gmail.com>

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Package taxize updated to version 0.9.7 with previous version 0.9.6 dated 2019-02-24

Title: Taxonomic Information from Around the Web
Description: Interacts with a suite of web 'APIs' for taxonomic tasks, such as getting database specific taxonomic identifiers, verifying species names, getting taxonomic hierarchies, fetching downstream and upstream taxonomic names, getting taxonomic synonyms, converting scientific to common names and vice versa, and more.
Author: Scott Chamberlain [aut, cre] (<https://orcid.org/0000-0003-1444-9135>), Eduard Szoecs [aut], Zachary Foster [aut], Zebulun Arendsee [aut], Carl Boettiger [ctb], Karthik Ram [ctb], Ignasi Bartomeus [ctb], John Baumgartner [ctb], James O'Donnell [ctb], Jari Oksanen [ctb], Bastian Greshake Tzovaras [ctb], Philippe Marchand [ctb], Vinh Tran [ctb], Maëlle Salmon [ctb], Gaopeng Li [ctb], Matthias Grenié [ctb], rOpenSci [fnd] (https://ropensci.org/)
Maintainer: Scott Chamberlain <myrmecocystus@gmail.com>

Diff between taxize versions 0.9.6 dated 2019-02-24 and 0.9.7 dated 2019-05-09

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Package SparkR updated to version 2.4.3 with previous version 2.4.2 dated 2019-04-25

Title: R Front End for 'Apache Spark'
Description: Provides an R Front end for 'Apache Spark' <https://spark.apache.org>.
Author: Shivaram Venkataraman [aut, cre], Xiangrui Meng [aut], Felix Cheung [aut], The Apache Software Foundation [aut, cph]
Maintainer: Shivaram Venkataraman <shivaram@cs.berkeley.edu>

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Package rENA updated to version 0.1.6.1 with previous version 0.1.6 dated 2019-02-07

Title: Epistemic Network Analysis
Description: ENA (Shaffer, D. W. (2017) Quantitative Ethnography. ISBN: 0578191687) is a method used to identify meaningful and quantifiable patterns in discourse or reasoning. ENA moves beyond the traditional frequency-based assessments by examining the structure of the co-occurrence, or connections in coded data. Moreover, compared to other methodological approaches, ENA has the novelty of (1) modeling whole networks of connections and (2) affording both quantitative and qualitative comparisons between different network models. Shaffer, D.W., Collier, W., & Ruis, A.R. (2016) <doi:10.18608/jla.2016.33.3>.
Author: Cody L Marquart [aut, cre], Zachari Swiecki [aut], Wesley Collier [aut], Brendan Eagan [aut], Roman Woodward [aut], David Williamson Shaffer [aut]
Maintainer: Cody L Marquart <cody.marquart@wisc.edu>

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Package Tinflex updated to version 1.4 with previous version 1.2 dated 2017-06-08

Title: A Universal Non-Uniform Random Number Generator
Description: A universal non-uniform random number generator for quite arbitrary distributions with piecewise twice differentiable densities.
Author: Josef Leydold, Carsten Botts and Wolfgang H\"ormann
Maintainer: Josef Leydold <josef.leydold@wu.ac.at>

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 src/Tinflex_source.h   |   11 ++++++-----
 9 files changed, 68 insertions(+), 36 deletions(-)

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New package SpatialML with initial version 0.1.3
Package: SpatialML
Version: 0.1.3
Date: 2019-05-09
Type: Package
Title: Spatial Machine Learning
Author: Stamatis Kalogirou [aut, cre], Stefanos Georganos [aut, ctb]
Maintainer: Stamatis Kalogirou <stamatis@lctools.science>
Depends: R (>= 3.5.0), randomForest (>= 4.6-14)
Description: Implements a spatial extension of the random forest algorithm (Georganos et al. (2019) <doi:10.1080/10106049.2019.1595177>). Future updates include more local machine learning methods as well as a geographically weighted random forest.
License: GPL (>= 2)
Encoding: UTF-8
LazyData: true
URL: http://lctools.science/
NeedsCompilation: no
Packaged: 2019-05-09 07:34:18 UTC; Stamatis
Repository: CRAN
Date/Publication: 2019-05-09 15:10:07 UTC

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New package shinylogs with initial version 0.1.5
Package: shinylogs
Title: Record Everything that Happens in a 'Shiny' Application
Version: 0.1.5
Authors@R: c(person("Fanny", "Meyer", email = "fanny.meyer@dreamrs.fr", role = c("aut")), person("Victor", "Perrier", email = "victor.perrier@dreamrs.fr", role = c("aut", "cre")), person("Silex Technologies", comment = "https://www.silex-ip.com", role = "fnd"), person("iamkun", role = "cph", comment = "dayjs library"), person("Mozilla", role = "cph", comment = "localForage library"))
Description: Track and record the use of applications and the user's interactions with 'Shiny' inputs. Allow to save inputs clicked, output generated and eventually errors.
License: GPL-3
Encoding: UTF-8
LazyData: true
RoxygenNote: 6.1.1
URL: https://github.com/dreamRs/shinylogs
BugReports: https://github.com/dreamRs/shinylogs/issues
Imports: htmltools, shiny (>= 1.1.0), jsonlite, data.table, bit64, nanotime, digest, anytime, DBI, RSQLite
Suggests: testthat
NeedsCompilation: no
Packaged: 2019-05-08 17:37:17 UTC; perri
Author: Fanny Meyer [aut], Victor Perrier [aut, cre], Silex Technologies [fnd] (https://www.silex-ip.com), iamkun [cph] (dayjs library), Mozilla [cph] (localForage library)
Maintainer: Victor Perrier <victor.perrier@dreamrs.fr>
Repository: CRAN
Date/Publication: 2019-05-09 15:50:02 UTC

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New package photosynthesis with initial version 1.0.0
Package: photosynthesis
Version: 1.0.0
Date: 2019-05-08
Title: Model C3 Photosynthesis
Authors@R: person("Chris", "Muir", role = c("aut", "cre"), email = "cdmuir@hawaii.edu")
Depends: R (>= 3.5.0), units (>= 0.6.0)
Imports: crayon (>= 1.3.0), dplyr (>= 0.8.0), furrr (>= 0.1.0), future (>= 1.10.0), glue (>= 1.3.0), gunit (>= 1.0.0), magrittr (>= 1.5.0), methods (>= 3.5.0), purrr (>= 0.2.5), rlang (>= 0.3.0), stringr (>= 1.3.0), tealeaves (>= 1.0.0), tidyr (>= 0.8.2), tidyselect (>= 0.2.5)
Suggests: ggplot2, testthat, knitr, rmarkdown
Description: Simulate C3 photosynthesis using the Farquhar, von Caemmerer, Berry (1980) <doi:10.1007/BF00386231> model as described in Buckley and Diaz-Espejo (2015) <doi:10.1111/pce.12459>. It uses units to ensure that parameters are properly specified and transformed before calculations. Temperature response functions get automatically "baked" into all parameters based on leaf temperature following Bernacchi et al. (2002) <doi:10.1104/pp.008250>. The package includes boundary layer, cuticular, stomatal, and mesophyll conductances to CO2, which each can vary on the upper and lower portions of the leaf. Use straightforward functions to simulate photosynthesis over environmental gradients such as Photosynthetic Photon Flux Density (PPFD) and leaf temperature, or over trait gradients such as CO2 conductance or photochemistry.
License: MIT + file LICENSE
Encoding: UTF-8
LazyData: true
RoxygenNote: 6.1.1
VignetteBuilder: knitr
NeedsCompilation: no
Packaged: 2019-05-09 09:30:30 UTC; cdmuir
Author: Chris Muir [aut, cre]
Maintainer: Chris Muir <cdmuir@hawaii.edu>
Repository: CRAN
Date/Publication: 2019-05-09 15:10:03 UTC

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New package paws.machine.learning with initial version 0.1.0
Package: paws.machine.learning
Title: Amazon Web Services Machine Learning APIs
Version: 0.1.0
Authors@R: c(person(given = "David", family = "Kretch", role = c("aut", "cre"), email = "david.kretch@gmail.com"), person(given = "Adam", family = "Banker", role = "aut", email = "adam.banker39@gmail.com"), person(given = "Amazon.com, Inc.", role = "cph"))
Description: Interface to Amazon Web Services machine learning APIs, including 'SageMaker' managed machine learning service, natural language processing, speech recognition, translation, and more <https://aws.amazon.com/machine-learning/>.
License: Apache License (>= 2.0)
Imports: paws.common
Suggests: testthat
Encoding: UTF-8
LazyData: true
RoxygenNote: 6.1.1
Collate: 'comprehend_service.R' 'comprehend_interfaces.R' 'comprehend_operations.R' 'comprehendmedical_service.R' 'comprehendmedical_interfaces.R' 'comprehendmedical_operations.R' 'lexmodelbuildingservice_service.R' 'lexmodelbuildingservice_interfaces.R' 'lexmodelbuildingservice_operations.R' 'lexruntimeservice_service.R' 'lexruntimeservice_interfaces.R' 'lexruntimeservice_operations.R' 'machinelearning_service.R' 'machinelearning_interfaces.R' 'machinelearning_operations.R' 'polly_service.R' 'polly_interfaces.R' 'polly_operations.R' 'rekognition_service.R' 'rekognition_interfaces.R' 'rekognition_operations.R' 'sagemaker_service.R' 'sagemaker_interfaces.R' 'sagemaker_operations.R' 'sagemakerruntime_service.R' 'sagemakerruntime_interfaces.R' 'sagemakerruntime_operations.R' 'textract_service.R' 'textract_interfaces.R' 'textract_operations.R' 'transcribeservice_service.R' 'transcribeservice_interfaces.R' 'transcribeservice_operations.R' 'translate_service.R' 'translate_interfaces.R' 'translate_operations.R'
NeedsCompilation: no
Packaged: 2019-05-01 00:00:58 UTC; david.kretch
Author: David Kretch [aut, cre], Adam Banker [aut], Amazon.com, Inc. [cph]
Maintainer: David Kretch <david.kretch@gmail.com>
Repository: CRAN
Date/Publication: 2019-05-09 15:20:03 UTC

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New package paws.analytics with initial version 0.1.0
Package: paws.analytics
Title: Amazon Web Services Analytics APIs
Version: 0.1.0
Authors@R: c(person(given = "David", family = "Kretch", role = c("aut", "cre"), email = "david.kretch@gmail.com"), person(given = "Adam", family = "Banker", role = "aut", email = "adam.banker39@gmail.com"), person(given = "Amazon.com, Inc.", role = "cph"))
Description: Interface to Amazon Web Services analytics APIs, including 'Elastic MapReduce' 'Hadoop' and 'Spark' big data service, 'Elasticsearch' search engine, and more <https://aws.amazon.com/>.
License: Apache License (>= 2.0)
Imports: paws.common
Suggests: testthat
Encoding: UTF-8
LazyData: true
RoxygenNote: 6.1.1
Collate: 'athena_service.R' 'athena_interfaces.R' 'athena_operations.R' 'cloudsearch_service.R' 'cloudsearch_interfaces.R' 'cloudsearch_operations.R' 'cloudsearchdomain_service.R' 'cloudsearchdomain_interfaces.R' 'cloudsearchdomain_operations.R' 'datapipeline_service.R' 'datapipeline_interfaces.R' 'datapipeline_operations.R' 'elasticsearchservice_service.R' 'elasticsearchservice_interfaces.R' 'elasticsearchservice_operations.R' 'emr_service.R' 'emr_interfaces.R' 'emr_operations.R' 'firehose_service.R' 'firehose_interfaces.R' 'firehose_operations.R' 'glue_service.R' 'glue_interfaces.R' 'glue_operations.R' 'kafka_service.R' 'kafka_interfaces.R' 'kafka_operations.R' 'kinesis_service.R' 'kinesis_interfaces.R' 'kinesis_operations.R' 'kinesisanalytics_service.R' 'kinesisanalytics_interfaces.R' 'kinesisanalytics_operations.R' 'kinesisanalyticsv2_service.R' 'kinesisanalyticsv2_interfaces.R' 'kinesisanalyticsv2_operations.R' 'mturk_service.R' 'mturk_interfaces.R' 'mturk_operations.R' 'quicksight_service.R' 'quicksight_interfaces.R' 'quicksight_operations.R'
NeedsCompilation: no
Packaged: 2019-04-30 23:52:37 UTC; david.kretch
Author: David Kretch [aut, cre], Adam Banker [aut], Amazon.com, Inc. [cph]
Maintainer: David Kretch <david.kretch@gmail.com>
Repository: CRAN
Date/Publication: 2019-05-09 15:20:11 UTC

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New package paws with initial version 0.1.0
Package: paws
Title: Amazon Web Services Software Development Kit
Version: 0.1.0
Authors@R: c(person(given = "David", family = "Kretch", role = c("aut", "cre"), email = "david.kretch@gmail.com"), person(given = "Adam", family = "Banker", role = "aut", email = "adam.banker39@gmail.com"), person(given = "Amazon.com, Inc.", role = "cph"))
Description: Interface to Amazon Web Services <https://aws.amazon.com>, including storage, database, and compute services, such as 'Simple Storage Service' ('S3'), 'DynamoDB' 'NoSQL' database, and 'Lambda' functions-as-a-service.
License: Apache License (>= 2.0)
Imports: paws.compute, paws.storage, paws.database, paws.security.identity, paws.application.integration
Suggests: testthat
Encoding: UTF-8
LazyData: true
RoxygenNote: 6.1.1
NeedsCompilation: no
Packaged: 2019-05-08 02:27:51 UTC; david.kretch
Author: David Kretch [aut, cre], Adam Banker [aut], Amazon.com, Inc. [cph]
Maintainer: David Kretch <david.kretch@gmail.com>
Repository: CRAN
Date/Publication: 2019-05-09 15:30:03 UTC

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New package KNNShiny with initial version 0.1.0
Package: KNNShiny
Type: Package
Title: Interactive Document for Working with KNN Analysis
Version: 0.1.0
Author: Kartikeya Bolar
Maintainer: Kartikeya Bolar <kartikeya.bolar@tapmi.edu.in>
Description: An interactive document on the topic of K-nearest neighbour (KNN) using 'rmarkdown' and 'shiny' packages. Runtime examples are provided in the package function as well as at <https://kartikeyabolar.shinyapps.io/KNNShiny/>.
License: GPL-2
Encoding: UTF-8
LazyData: TRUE
Depends: R (>= 3.0.3)
Imports: shiny,rmarkdown,dplyr,datasets,caret,e1071,rhandsontable,psycho,FNN
RoxygenNote: 6.1.0
NeedsCompilation: no
Packaged: 2019-05-08 19:40:39 UTC; KARTIKEYA
Repository: CRAN
Date/Publication: 2019-05-09 16:00:07 UTC

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Package jpndistrict updated to version 0.3.3 with previous version 0.3.2 dated 2018-06-14

Title: Create Japanese Administration Area and Office Maps
Description: Utilizing the data that Japanese administration area provided by the National Land Numerical Information download service (<http://nlftp.mlit.go.jp/ksj/index.html>). This package provide map data is based on the Digital Map 25000 (Map Image) published by Geospatial Information Authority of Japan (Approval No.603FY2017 information usage <http://www.gsi.go.jp>).
Author: Shinya Uryu [aut, cre] (<https://orcid.org/0000-0002-0493-6186>), Geospatial Information Authority of Japan [dtc] (This package data sets, National Land numerical information by the Geographical Survey Institute with the approval of Geographical Survey Institute Head (Approval No.603FY2017 information usage))
Maintainer: Shinya Uryu <suika1127@gmail.com>

Diff between jpndistrict versions 0.3.2 dated 2018-06-14 and 0.3.3 dated 2019-05-09

 jpndistrict-0.3.2/jpndistrict/man/admins_code_validate.Rd     |only
 jpndistrict-0.3.3/jpndistrict/DESCRIPTION                     |   14 
 jpndistrict-0.3.3/jpndistrict/MD5                             |   43 +--
 jpndistrict-0.3.3/jpndistrict/NAMESPACE                       |   17 -
 jpndistrict-0.3.3/jpndistrict/NEWS.md                         |   15 +
 jpndistrict-0.3.3/jpndistrict/R/city_name_table.R             |only
 jpndistrict-0.3.3/jpndistrict/R/code_validate.R               |only
 jpndistrict-0.3.3/jpndistrict/R/data.R                        |   16 -
 jpndistrict-0.3.3/jpndistrict/R/district_viewer.R             |   21 +
 jpndistrict-0.3.3/jpndistrict/R/export_mesh.R                 |   13 
 jpndistrict-0.3.3/jpndistrict/R/find_city.R                   |   82 +++--
 jpndistrict-0.3.3/jpndistrict/R/spdf_jpn.R                    |   26 +
 jpndistrict-0.3.3/jpndistrict/R/util.R                        |   82 ++---
 jpndistrict-0.3.3/jpndistrict/data/jpnprefs.rda               |binary
 jpndistrict-0.3.3/jpndistrict/data/prefecture_mesh.rda        |binary
 jpndistrict-0.3.3/jpndistrict/inst/extdata/citycode_sets.rds  |only
 jpndistrict-0.3.3/jpndistrict/man/code_reform.Rd              |only
 jpndistrict-0.3.3/jpndistrict/man/code_validate.Rd            |only
 jpndistrict-0.3.3/jpndistrict/man/figures/logo.png            |binary
 jpndistrict-0.3.3/jpndistrict/man/find_jis_code.Rd            |only
 jpndistrict-0.3.3/jpndistrict/man/jpn_pref.Rd                 |    2 
 jpndistrict-0.3.3/jpndistrict/man/jpnprefs.Rd                 |    6 
 jpndistrict-0.3.3/jpndistrict/man/prefecture_mesh.Rd          |   10 
 jpndistrict-0.3.3/jpndistrict/tests/testthat/test-find_city.R |   64 ++--
 jpndistrict-0.3.3/jpndistrict/tests/testthat/test-spdf_jpn.R  |   10 
 jpndistrict-0.3.3/jpndistrict/tests/testthat/test-util.R      |  143 +++++++++-
 26 files changed, 386 insertions(+), 178 deletions(-)

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New package IDmeasurer with initial version 1.0.0
Package: IDmeasurer
Type: Package
Title: Assessment of Individual Identity in Animal Signals
Version: 1.0.0
Authors@R: person("Pavel", "Linhart", email = "pavel.linhart@centrum.cz", role = c("aut", "cre"))
Maintainer: Pavel Linhart <pavel.linhart@centrum.cz>
Description: Provides tools for assessment and quantification of individual identity information in animal signals. This package accompanies a research article by Linhart et al. (2019) <doi:10.1101/546143>: "Measuring individual identity information in animal signals: Overview and performance of available identity metrics".
Depends: R (>= 2.10)
License: CC0
Encoding: UTF-8
LazyData: true
Imports: MASS, infotheo, lme4
RoxygenNote: 6.1.1
Suggests: knitr, rmarkdown
VignetteBuilder: knitr
NeedsCompilation: no
Packaged: 2019-05-09 08:01:34 UTC; pavel
Author: Pavel Linhart [aut, cre]
Repository: CRAN
Date/Publication: 2019-05-09 15:10:10 UTC

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New package BLRShiny with initial version 0.1.0
Package: BLRShiny
Type: Package
Title: Interactive Document for Working with Binary Logistic Regression Analysis
Version: 0.1.0
Author: Kartikeya Bolar
Maintainer: Kartikeya Bolar <kartikeya.bolar@tapmi.edu.in>
Description: An interactive document on the topic of binary logistic regression analysis using 'rmarkdown' and 'shiny' packages. Runtime examples are provided in the package function as well as at <https://analyticmodels.shinyapps.io/BinaryLogisticRegressionModelling/>.
License: GPL-2
Encoding: UTF-8
LazyData: TRUE
Depends: R (>= 3.0.3)
Imports: shiny,rmarkdown,dplyr,datasets,caret,e1071,rhandsontable,ggplot2
RoxygenNote: 6.1.0
NeedsCompilation: no
Packaged: 2019-05-05 01:26:36 UTC; KARTIKEYA
Repository: CRAN
Date/Publication: 2019-05-09 15:50:10 UTC

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Package tidyRSS updated to version 1.2.9 with previous version 1.2.8 dated 2019-03-05

Title: Tidy RSS for R
Description: With the objective of including data from RSS feeds into your analysis, 'tidyRSS' parses RSS, Atom XML, JSON and geoRSS feeds and returns a tidy data frame.
Author: Robert Myles McDonnell
Maintainer: Robert Myles McDonnell <robertmylesmcdonnell@gmail.com>

Diff between tidyRSS versions 1.2.8 dated 2019-03-05 and 1.2.9 dated 2019-05-09

 DESCRIPTION           |    6 +++---
 MD5                   |   12 ++++++------
 NEWS.md               |    5 +++++
 R/geo_parse.R         |   16 ++++++++++++++--
 R/rss_parse.R         |   23 +++++++++++++----------
 build/vignette.rds    |binary
 inst/doc/tidyrss.html |    9 ++++++---
 7 files changed, 47 insertions(+), 24 deletions(-)

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New package SAGMM with initial version 0.2.3
Package: SAGMM
Type: Package
Title: Clustering via Stochastic Approximation and Gaussian Mixture Models
Version: 0.2.3
Date: 2019-05-07
Author: Andrew T. Jones, Hien D. Nguyen
Maintainer: Andrew T. Jones <andrewthomasjones@gmail.com>
Description: Computes clustering by fitting Gaussian mixture models (GMM) via stochastic approximation following the methods of Nguyen and Jones (2018) <doi:10.1201/9780429446177>. It also provides some test data generation and plotting functionality to assist with this process.
License: GPL-3
Encoding: UTF-8
Imports: Rcpp (>= 0.12.13), MixSim, mvtnorm, mclust, stats, lowmemtkmeans
LinkingTo: Rcpp, RcppArmadillo
RoxygenNote: 6.1.1
Suggests: testthat, ggplot2
NeedsCompilation: yes
Packaged: 2019-05-09 01:35:34 UTC; andrewjones
Repository: CRAN
Date/Publication: 2019-05-09 15:00:02 UTC

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New package nmadb with initial version 1.0.0
Package: nmadb
Type: Package
Title: Network Meta-Analysis Database API
Version: 1.0.0
Date: 2019-05-02
Authors@R: person("Theodoros", "Papakonstantinou", role = c("aut", "cre"), email = "theodoros.papakonstantinou@ispm.unibe.ch", comment = c(ORCID = "0000-0002-6630-6817"))
Description: Set of functions for accessing database of network meta-analyses described in Petropoulou M, et al. Bibliographic study showed improving statistical methodology of network meta-analyses published between 1999 and 2015 <doi:10.1016/j.jclinepi.2016.11.002>. The database is hosted in a REDcap database at the Institute of Social and Preventive Medicine (ISPM) in the University of Bern.
License: GPL-3
LazyLoad: Yes
Depends: R (>= 3.3.1)
Imports: devtools , RCurl , readxl , jsonlite
Suggests: netmeta (>= 1.0-1) , V8
Encoding: UTF-8
RoxygenNote: 6.1.1
NeedsCompilation: no
Packaged: 2019-05-08 13:38:19 UTC; tosku
Author: Theodoros Papakonstantinou [aut, cre] (<https://orcid.org/0000-0002-6630-6817>)
Maintainer: Theodoros Papakonstantinou <theodoros.papakonstantinou@ispm.unibe.ch>
Repository: CRAN
Date/Publication: 2019-05-09 14:20:04 UTC

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New package mapcan with initial version 0.0.1
Package: mapcan
Type: Package
Title: Tools for Plotting Canadian Choropleth Maps and Choropleth Alternatives
Version: 0.0.1
Authors@R: c( person("Andrew", "McCormack", email = "mccormack.andy@gmail.com", role = c("aut", "cre")), person("Aaron", "Erlich", email = "aaron.erlich@mcgill.ca", role = c("aut")))
Maintainer: Andrew McCormack <mccormack.andy@gmail.com>
Description: A variety of functions that make it easy to plot standard choropleth maps as well as choropleth alternatives in 'ggplot2'.
License: MIT + file LICENSE
Encoding: UTF-8
LazyData: true
Depends: R (>= 2.10)
RoxygenNote: 6.1.1
Imports: dplyr, ggplot2, magrittr
Suggests: knitr
VignetteBuilder: knitr
NeedsCompilation: no
Packaged: 2019-05-08 14:49:26 UTC; andrewmccormack
Author: Andrew McCormack [aut, cre], Aaron Erlich [aut]
Repository: CRAN
Date/Publication: 2019-05-09 14:30:03 UTC

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New package HACSim with initial version 1.0.0
Package: HACSim
Type: Package
Title: Iterative Extrapolation of Species' Haplotype Accumulation Curves
Version: 1.0.0
Date: 2019-04-15
Author: Jarrett D. Phillips [aut, cre], Steven H. French [ctb]
Maintainer: Jarrett D. Phillips <phillipsjarrett1@gmail.com>
Description: Performs iterative extrapolation of species' haplotype accumulation curves using a nonparametric stochastic (Monte Carlo) method for assessment of specimen sampling completeness based on the approach of Phillips et al. (2015) <doi:10.1515/dna-2015-0008> and Phillips et al. (2019) <doi:10.1002/ece3.4757>.
License: GPL-3
NeedsCompilation: yes
Imports: ape (>= 5.2), graphics (>= 3.5.1), pegas (>= 0.11), Rcpp (>= 1.0.0), stats (>= 3.5.1), utils (>= 3.5.1)
LinkingTo: Rcpp, RcppArmadillo
RoxygenNote: 6.1.1
Packaged: 2019-05-06 15:18:39 UTC; jarrettphillips
Repository: CRAN
Date/Publication: 2019-05-09 14:10:06 UTC

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New package fgeo.x with initial version 1.1.3
Package: fgeo.x
Title: Access Small ForestGEO Datasets For Examples
Version: 1.1.3
Authors@R: c(person(given = "Mauro", family = "Lepore", role = c("aut", "ctr", "cre"), email = "leporem@si.edu", comment = c(ORCID = "0000-0002-1986-7988")), person(given = "Jess", family = "Zimmerman", role = "dtc", email = "jesskz@ites.upr.edu"), person(given = "CTFS-ForestGEO", role = c("cph", "fnd"), email = "ForestGEO@si.edu"))
Description: Access small example datasets from Luquillo, a ForestGEO site in Puerto Rico (<https://forestgeo.si.edu/sites/north-america/luquillo>).
License: GPL-3
URL: https://github.com/forestgeo/fgeo.x
BugReports: https://github.com/forestgeo/fgeo.x/issues
Depends: R (>= 3.2)
Imports: memoise (>= 1.1.0), utils
Suggests: spelling (>= 2.1), testthat (>= 2.1.1)
Encoding: UTF-8
Language: en-US
LazyData: true
RoxygenNote: 6.1.1
NeedsCompilation: no
Packaged: 2019-05-07 17:05:37 UTC; leporem
Author: Mauro Lepore [aut, ctr, cre] (<https://orcid.org/0000-0002-1986-7988>), Jess Zimmerman [dtc], CTFS-ForestGEO [cph, fnd]
Maintainer: Mauro Lepore <leporem@si.edu>
Repository: CRAN
Date/Publication: 2019-05-09 14:10:03 UTC

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Package sequenza updated to version 3.0.0 with previous version 2.1.2 dated 2015-10-09

Title: Copy Number Estimation from Tumor Genome Sequencing Data
Description: Tools to analyze genomic sequencing data from paired normal-tumor samples, including cellularity and ploidy estimation; mutation and copy number (allele-specific and total copy number) detection, quantification and visualization.
Author: Francesco Favero [aut, cre] (<https://orcid.org/0000-0003-3684-2659>), Andrea Marion Marquard [rev] (<https://orcid.org/0000-0003-2928-6017>), Tejal Joshi [rev] (<https://orcid.org/0000-0002-0939-2982>), Aron Charles Eklund [aut, ths] (<https://orcid.org/0000-0003-0861-1001>)
Maintainer: Francesco Favero <favero.francesco@gmail.com>

Diff between sequenza versions 2.1.2 dated 2015-10-09 and 3.0.0 dated 2019-05-09

 sequenza-2.1.2/sequenza/R/analysis.R             |only
 sequenza-2.1.2/sequenza/R/next.R                 |only
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New package BayesianFROC with initial version 0.1.1
Package: BayesianFROC
Type: Package
Title: FROC Analysis by Bayesian Approaches
Version: 0.1.1
Authors@R: person(given = "Issei", family = "Tsunoda", role = c("aut", "cre"), email = "tsunoda.issei1111@gmail.com")
Maintainer: Issei Tsunoda <tsunoda.issei1111@gmail.com>
Description: For details please see vignettes in this package. This package aims to provide new methods for the so-called Free-response Receiver Operating Characteristic (FROC) analysis. The ultimate aim of FROC analysis is to compare observer performances, which means comparing characteristics, such as area under the curve (AUC) or figure of merit (FOM). In this package, we only use the notion of AUC for modality comparison. In the radiological FROC context, by a word modality we mean imaging methods such as Magnetic Resonance Imaging (MRI), Computed Tomography (CT),Positron Emission Tomography (PET). So there is a problem that which imaging method is better to detect the lesions from shadows in radiographs. To solve the modality comparison issues, this package provides the new methods using hierarchical Bayesian models proposed by the author of this package. Using this package, one can obtain at least one conclusion that which imaging methods are better for finding lesions in radiographs with the case of your data. Fitting FROC statistical models is sometimes not so good, it can easily confirm by drawing FROC curves and comparing the curves and the points constructed by False Positive fractions (FPFs) and True Positive Fractions (TPFs), we can validate the goodness of fit intuitively. Such validation is also implemented by the Chi square goodness of fit statistics in the Bayesian context in which the parameter is not deterministic, thus by integrating it with the posterior predictive measure, we get a desired value. To compare each imaging methods, i.e., modalities, we evaluate the AUC for each modality which gives us a comparison of modalities. FROC is developed by Dev Chakraborty, his FROC model in 1989 paper relies on the maximal likelihood methodology. In this package, I modified and provided the alternative Bayesian FROC model. Strictly speaking, his model does not coincide with models in this package. I hope that medical researchers use not only the frequentist method but also alternative Bayesian methods. In medical research, many problems are considered under only frequentist methods, such as the notion of p-values. But p-value is sometimes misunderstood. Bayesian methods provide very simple, direct, intuitive answer for research questions. To know how to use this package, please execute the following codes from the R (R studio) console, demo(demo_MRMC,package="BayesianFROC"); demo(demo_srsc, package="BayesianFROC"); demo(demo_stan, package = "BayesianFROC"); demo(demo_drawcurves_srsc, package="BayesianFROC"); demo_Bayesian_FROC(). References: Dev Chakraborty (1989) <doi:10.1118/1.596358> Maximum likelihood analysis of free - response receiver operating characteristic (FROC) data. Pre-print: Issei Tsunoda; Bayesian Models for free-response receiver operating characteristic analysis. Combining frequentist methods with Bayesian methods, we can obtain more reliable answer for research questions.
License: MIT + file LICENSE
Encoding: UTF-8
LazyData: true
RoxygenNote: 6.1.1
Imports: knitr, readxl, openxlsx, xlsx, stats, graphics, tcltk, grDevices, ggplot2, methods, rstantools, car, hexbin, MASS, crayon, DiagrammeR
Suggests: rmarkdown
Depends: rstan (>= 2.18.2), R (>= 3.4.0), Rcpp
NeedsCompilation: yes
VignetteBuilder: knitr
Packaged: 2019-05-04 09:53:36 UTC; 81909
Author: Issei Tsunoda [aut, cre]
Repository: CRAN
Date/Publication: 2019-05-09 14:00:02 UTC

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Package magickGUI updated to version 1.0.1 with previous version 0.1.0 dated 2019-03-13

Title: GUI Tools for Interactive Image Processing with 'magick'
Description: Enables us to use the functions of the package 'magick' interactively.
Author: Shota Ochi [aut, cre]
Maintainer: Shota Ochi <shotaochi1990@gmail.com>

Diff between magickGUI versions 0.1.0 dated 2019-03-13 and 1.0.1 dated 2019-05-09

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Package qgraph updated to version 1.6.2 with previous version 1.6.1 dated 2019-02-13

Title: Graph Plotting Methods, Psychometric Data Visualization and Graphical Model Estimation
Description: Weighted network visualization and analysis, as well as Gaussian graphical model computation. See Epskamp et al. (2012) <doi:10.18637/jss.v048.i04>.
Author: Sacha Epskamp [aut, cre], Giulio Costantini [aut], Jonas Haslbeck [aut], Angelique O. J. Cramer [ctb], Lourens J. Waldorp [ctb], Verena D. Schmittmann [ctb], Denny Borsboom [ctb]
Maintainer: Sacha Epskamp <mail@sachaepskamp.com>

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Package rversions updated to version 2.0.0 with previous version 1.1.0 dated 2019-04-11

Title: Query 'R' Versions, Including 'r-release' and 'r-oldrel'
Description: Query the main 'R' 'SVN' repository to find the versions 'r-release' and 'r-oldrel' refer to, and also all previous 'R' versions and their release dates.
Author: Gábor Csárdi [aut, cre], Jeroen Ooms [ctb], R Consortium [fnd]
Maintainer: Gábor Csárdi <csardi.gabor@gmail.com>

Diff between rversions versions 1.1.0 dated 2019-04-11 and 2.0.0 dated 2019-05-09

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Package R.SamBada updated to version 0.1.1 with previous version 0.1.0 dated 2019-04-12

Title: Processing Pipeline for 'SamBada' from Pre- To Post-Processing
Description: Processing pipeline for 'SamBada' from pre- to post-processing. 'SamBada' is a landscape genomic software designed to run univariate or multivariate logistic regression between the presence of a genotype and one or several environmental variables. See Stucki (2017) <doi:10.1111/1755-0998.12629> and <https://github.com/Sylvie/sambada>. The package provides functions that can be classified into four categories: 1) Install 'SamBada' 2) Preprocessing (prepare genomic file into standards compatible with 'SamBada' and apply quality-control; retrieve environmental conditions at sampling location; prepare environmental file including removal of correlated variables and computation of population structure) 3) Processing (run 'SamBada' on multiple cores using 'Supervision') 4) Post-processing (calculate p-values and q-values, produce interactive Manhattan plots and query 'Ensembl' database, produce maps).
Author: Solange Duruz, Sylvie Stucki, Oliver Selmoni, Elia Vajana
Maintainer: Solange Duruz <solange.duruz@alumni.epfl.ch>

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Package bootnet updated to version 1.2.2 with previous version 1.2 dated 2019-01-24

Title: Bootstrap Methods for Various Network Estimation Routines
Description: Bootstrap methods to assess accuracy and stability of estimated network structures and centrality indices. Allows for flexible specification of any undirected network estimation procedure in R, and offers default sets for 'qgraph', 'IsingFit', 'IsingSampler', 'glasso', 'huge' and 'parcor' packages.
Author: Sacha Epskamp [aut, cre], Eiko I. Fried [ctb]
Maintainer: Sacha Epskamp <mail@sachaepskamp.com>

Diff between bootnet versions 1.2 dated 2019-01-24 and 1.2.2 dated 2019-05-09

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New package metacart with initial version 2.0-1
Package: metacart
Type: Package
Title: Meta-CART: A Flexible Approach to Identify Moderators in Meta-Analysis
Version: 2.0-1
Date: 2019-05-09
Encoding: UTF-8
Author: Xinru Li [aut, cre], Elise Dusseldorp [aut, cph], Kaihua Liu [ctb] (supported with the plot function), Juan Claramunt [ctb], Jacqueline Meulman [ctb]
Maintainer: Juan Claramunt <j.claramunt.gonzalez@fsw.leidenuniv.nl>
Description: Meta-CART integrates classification and regression trees (CART) into meta-analysis. Meta-CART is a flexible approach to identify interaction effects between moderators in meta-analysis. The method is described in Dusseldorp et al. (2014) <doi:10.1037/hea0000018> and Li et al. (2017) <doi:10.1111/bmsp.12088>.
LazyData: TRUE
License: GPL (>= 2)
Depends: R (>= 3.0.2), stats, ggplot2, gridExtra, methods, rpart
Imports: Rcpp (>= 0.12.16)
LinkingTo: Rcpp
RoxygenNote: 6.1.1
NeedsCompilation: yes
Packaged: 2019-05-09 08:47:17 UTC; jclaramunt
Repository: CRAN
Date/Publication: 2019-05-09 09:30:03 UTC

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Package dti updated to version 1.4 with previous version 1.3-0.3 dated 2018-12-20

Title: Analysis of Diffusion Weighted Imaging (DWI) Data
Description: Diffusion Weighted Imaging (DWI) is a Magnetic Resonance Imaging modality, that measures diffusion of water in tissues like the human brain. The package contains R-functions to process diffusion-weighted data. The functionality includes diffusion tensor imaging (DTI), diffusion kurtosis imaging (DKI), modeling for high angular resolution diffusion weighted imaging (HARDI) using Q-ball-reconstruction and tensor mixture models, several methods for structural adaptive smoothing including POAS and msPOAS, and a streamline fiber tracking for tensor and tensor mixture models. The package provides functionality to manipulate and visualize results in 2D and 3D.
Author: Karsten Tabelow [aut, cre], Joerg Polzehl [aut], Felix Anker [ctb]
Maintainer: Karsten Tabelow <karsten.tabelow@wias-berlin.de>

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Package bikedata updated to version 0.2.3 with previous version 0.2.2 dated 2018-10-22

Title: Download and Aggregate Data from Public Hire Bicycle Systems
Description: Download and aggregate data from all public hire bicycle systems which provide open data, currently including 'Santander' Cycles in London, U.K.; from the U.S.A., 'Ford GoBike' in San Francisco CA, 'citibike' in New York City NY, 'Divvy' in Chicago IL, 'Capital Bikeshare' in Washington DC, 'Hubway' in Boston MA, 'Metro' in Los Angeles LA, 'Indego' in Philadelphia PA, and 'Nice Ride' in Minnesota; 'Bixi' from Montreal, Canada; and 'mibici' from Guadalajara, Mexico.
Author: Mark Padgham [aut, cre] (<https://orcid.org/0000-0003-2172-5265>), Richard Ellison [aut], Tom Buckley [aut], Bea Hernández [rev] (Bea reviewed the package for ropensci, see https://github.com/ropensci/onboarding/issues/116), Elaine McVey [rev] (Elaine reviewed the package for ropensci, see https://github.com/ropensci/onboarding/issues/116), SQLite Consortium [ctb] (Authors of included SQLite code)
Maintainer: Mark Padgham <mark.padgham@email.com>

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New package UCSCXenaShiny with initial version 0.1.0
Package: UCSCXenaShiny
Title: A Shiny App for UCSC Xena Database
Version: 0.1.0
Authors@R: c( person("Shixiang", "Wang", email = "w_shixiang@163.com", role = c("aut", "cre"), comment = c(ORCID = "0000-0001-9855-7357")), person("Yi", "Xiong", email = "neuroxiong@openbiox.com", role = c("aut"), comment = c(ORCID = "0000-0002-4370-9824")), person("Longfei", "Zhao", email = "longfei8533@126.com", role = c("aut"), comment = c(ORCID = "0000-0002-6277-0137")), person("Kai", "Gu", email = "gukai1212@163.com", role = c("aut"), comment = c(ORCID = "0000-0002-0177-0774")), person("Yin", "Li", email = "yinli18@fudan.edu.cn", role = c("aut")), person("Fei", "Zhao", email = "zhaofei415@mails.ucas.edu.cn", role = c("aut")) )
Description: Provides a web app for downloading, analyzing and visualizing datasets from UCSC Xena, which is a collection of UCSC-hosted public databases such as TCGA, ICGC, TARGET, GTEx, CCLE, and others.
URL: https://github.com/openbiox/XenaShiny
BugReports: https://github.com/openbiox/XenaShiny/issues
Depends: R (>= 3.5)
Imports: UCSCXenaTools, shiny, shinythemes, shinyjs, DT, dplyr, ggplot2, plotly, RColorBrewer, magrittr, shinyBS, utils, zip
License: MIT + file LICENSE
Encoding: UTF-8
LazyData: true
RoxygenNote: 6.1.1
Suggests: covr
NeedsCompilation: no
Packaged: 2019-05-08 01:55:17 UTC; wsx
Author: Shixiang Wang [aut, cre] (<https://orcid.org/0000-0001-9855-7357>), Yi Xiong [aut] (<https://orcid.org/0000-0002-4370-9824>), Longfei Zhao [aut] (<https://orcid.org/0000-0002-6277-0137>), Kai Gu [aut] (<https://orcid.org/0000-0002-0177-0774>), Yin Li [aut], Fei Zhao [aut]
Maintainer: Shixiang Wang <w_shixiang@163.com>
Repository: CRAN
Date/Publication: 2019-05-09 08:30:22 UTC

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Package MVar updated to version 2.0.6 with previous version 2.0.5 dated 2019-03-15

Title: Multivariate Analysis
Description: Package for multivariate analysis, having functions that perform simple correspondence analysis (CA) and multiple correspondence analysis (MCA), principal components analysis (PCA), canonical correlation analysis (CCA), factorial analysis (FA), multidimensional scaling (MDS), linear (LDA) and quadratic discriminant analysis (QDA), hierarchical and non-hierarchical cluster analysis, simple and multiple linear regression, multiple factor analysis (MFA) for quantitative, qualitative, frequency (MFACT) and mixed data, projection pursuit (PP), grant tour method and other useful functions for the multivariate analysis.
Author: Paulo Cesar Ossani <ossanipc@hotmail.com> Marcelo Angelo Cirillo <macufla@des.ufla.br>
Maintainer: Paulo Cesar Ossani <ossanipc@hotmail.com>

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Package mongolite updated to version 2.1.0 with previous version 2.0.2 dated 2019-05-02

Title: Fast and Simple 'MongoDB' Client for R
Description: High-performance MongoDB client based on 'mongo-c-driver' and 'jsonlite'. Includes support for aggregation, indexing, map-reduce, streaming, encryption, enterprise authentication, and GridFS. The online user manual provides an overview of the available methods in the package: <https://jeroen.github.io/mongolite/>.
Author: Jeroen Ooms [aut, cre] (<https://orcid.org/0000-0002-4035-0289>), MongoDB, Inc [cph] (Bundled mongo-c-driver, see AUTHORS file)
Maintainer: Jeroen Ooms <jeroen@berkeley.edu>

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 mongolite-2.1.0/mongolite/src/bson/bson-decimal128.h                              |   12 
 mongolite-2.1.0/mongolite/src/bson/bson-endian.h                                  |   13 
 mongolite-2.1.0/mongolite/src/bson/bson-error.c                                   |   12 
 mongolite-2.1.0/mongolite/src/bson/bson-error.h                                   |    8 
 mongolite-2.1.0/mongolite/src/bson/bson-iso8601-private.h                         |    8 
 mongolite-2.1.0/mongolite/src/bson/bson-iso8601.c                                 |   30 
 mongolite-2.1.0/mongolite/src/bson/bson-iter.c                                    |  179 ++-
 mongolite-2.1.0/mongolite/src/bson/bson-iter.h                                    |   41 
 mongolite-2.1.0/mongolite/src/bson/bson-json.c                                    |   10 
 mongolite-2.1.0/mongolite/src/bson/bson-json.h                                    |    9 
 mongolite-2.1.0/mongolite/src/bson/bson-keys.c                                    |    4 
 mongolite-2.1.0/mongolite/src/bson/bson-keys.h                                    |    6 
 mongolite-2.1.0/mongolite/src/bson/bson-macros.h                                  |    9 
 mongolite-2.1.0/mongolite/src/bson/bson-md5.c                                     |    4 
 mongolite-2.1.0/mongolite/src/bson/bson-md5.h                                     |   11 
 mongolite-2.1.0/mongolite/src/bson/bson-memory.c                                  |   10 
 mongolite-2.1.0/mongolite/src/bson/bson-memory.h                                  |   11 
 mongolite-2.1.0/mongolite/src/bson/bson-oid.c                                     |  235 ----
 mongolite-2.1.0/mongolite/src/bson/bson-oid.h                                     |   26 
 mongolite-2.1.0/mongolite/src/bson/bson-prelude.h                                 |only
 mongolite-2.1.0/mongolite/src/bson/bson-private.h                                 |    8 
 mongolite-2.1.0/mongolite/src/bson/bson-reader.c                                  |    6 
 mongolite-2.1.0/mongolite/src/bson/bson-reader.h                                  |   13 
 mongolite-2.1.0/mongolite/src/bson/bson-string.c                                  |    8 
 mongolite-2.1.0/mongolite/src/bson/bson-string.h                                  |   11 
 mongolite-2.1.0/mongolite/src/bson/bson-timegm-private.h                          |    6 
 mongolite-2.1.0/mongolite/src/bson/bson-timegm.c                                  |    6 
 mongolite-2.1.0/mongolite/src/bson/bson-types.h                                   |   15 
 mongolite-2.1.0/mongolite/src/bson/bson-utf8.c                                    |    8 
 mongolite-2.1.0/mongolite/src/bson/bson-utf8.h                                    |   11 
 mongolite-2.1.0/mongolite/src/bson/bson-value.c                                   |    8 
 mongolite-2.1.0/mongolite/src/bson/bson-value.h                                   |    6 
 mongolite-2.1.0/mongolite/src/bson/bson-version-functions.c                       |    4 
 mongolite-2.1.0/mongolite/src/bson/bson-version-functions.h                       |    6 
 mongolite-2.1.0/mongolite/src/bson/bson-version.h                                 |   10 
 mongolite-2.1.0/mongolite/src/bson/bson-writer.c                                  |    6 
 mongolite-2.1.0/mongolite/src/bson/bson-writer.h                                  |    4 
 mongolite-2.1.0/mongolite/src/bson/bson.c                                         |   31 
 mongolite-2.1.0/mongolite/src/bson/bson.h                                         |   65 -
 mongolite-2.1.0/mongolite/src/common/common-b64-private.h                         |   13 
 mongolite-2.1.0/mongolite/src/common/common-b64.c                                 |    6 
 mongolite-2.1.0/mongolite/src/common/common-md5-private.h                         |   15 
 mongolite-2.1.0/mongolite/src/common/common-md5.c                                 |    2 
 mongolite-2.1.0/mongolite/src/common/common-prelude.h                             |only
 mongolite-2.1.0/mongolite/src/common/common-thread-private.h                      |only
 mongolite-2.1.0/mongolite/src/jsonsl/jsonsl.c                                     |    4 
 mongolite-2.1.0/mongolite/src/jsonsl/jsonsl.h                                     |    6 
 mongolite-2.1.0/mongolite/src/mongoc/mongoc-apm-private.h                         |    8 
 mongolite-2.1.0/mongolite/src/mongoc/mongoc-apm.c                                 |    6 
 mongolite-2.1.0/mongolite/src/mongoc/mongoc-apm.h                                 |   21 
 mongolite-2.1.0/mongolite/src/mongoc/mongoc-array-private.h                       |    8 
 mongolite-2.1.0/mongolite/src/mongoc/mongoc-array.c                               |    2 
 mongolite-2.1.0/mongolite/src/mongoc/mongoc-async-cmd-private.h                   |   22 
 mongolite-2.1.0/mongolite/src/mongoc/mongoc-async-cmd.c                           |   55 
 mongolite-2.1.0/mongolite/src/mongoc/mongoc-async-private.h                       |   12 
 mongolite-2.1.0/mongolite/src/mongoc/mongoc-async.c                               |   14 
 mongolite-2.1.0/mongolite/src/mongoc/mongoc-buffer-private.h                      |   10 
 mongolite-2.1.0/mongolite/src/mongoc/mongoc-buffer.c                              |   22 
 mongolite-2.1.0/mongolite/src/mongoc/mongoc-bulk-operation-private.h              |   17 
 mongolite-2.1.0/mongolite/src/mongoc/mongoc-bulk-operation.c                      |   37 
 mongolite-2.1.0/mongolite/src/mongoc/mongoc-bulk-operation.h                      |   14 
 mongolite-2.1.0/mongolite/src/mongoc/mongoc-change-stream-private.h               |   20 
 mongolite-2.1.0/mongolite/src/mongoc/mongoc-change-stream.c                       |  130 --
 mongolite-2.1.0/mongolite/src/mongoc/mongoc-change-stream.h                       |    6 
 mongolite-2.1.0/mongolite/src/mongoc/mongoc-client-pool-private.h                 |   16 
 mongolite-2.1.0/mongolite/src/mongoc/mongoc-client-pool.c                         |  110 -
 mongolite-2.1.0/mongolite/src/mongoc/mongoc-client-pool.h                         |   20 
 mongolite-2.1.0/mongolite/src/mongoc/mongoc-client-private.h                      |   40 
 mongolite-2.1.0/mongolite/src/mongoc/mongoc-client-session-private.h              |   13 
 mongolite-2.1.0/mongolite/src/mongoc/mongoc-client-session.c                      |  173 ++
 mongolite-2.1.0/mongolite/src/mongoc/mongoc-client-session.h                      |   12 
 mongolite-2.1.0/mongolite/src/mongoc/mongoc-client.c                              |  105 +
 mongolite-2.1.0/mongolite/src/mongoc/mongoc-client.h                              |   40 
 mongolite-2.1.0/mongolite/src/mongoc/mongoc-cluster-cyrus-private.h               |   12 
 mongolite-2.1.0/mongolite/src/mongoc/mongoc-cluster-cyrus.c                       |   12 
 mongolite-2.1.0/mongolite/src/mongoc/mongoc-cluster-private.h                     |   43 
 mongolite-2.1.0/mongolite/src/mongoc/mongoc-cluster-sasl-private.h                |   12 
 mongolite-2.1.0/mongolite/src/mongoc/mongoc-cluster-sasl.c                        |   27 
 mongolite-2.1.0/mongolite/src/mongoc/mongoc-cluster-sspi-private.h                |   12 
 mongolite-2.1.0/mongolite/src/mongoc/mongoc-cluster-sspi.c                        |   16 
 mongolite-2.1.0/mongolite/src/mongoc/mongoc-cluster.c                             |  119 +-
 mongolite-2.1.0/mongolite/src/mongoc/mongoc-cmd-private.h                         |   18 
 mongolite-2.1.0/mongolite/src/mongoc/mongoc-cmd.c                                 |   28 
 mongolite-2.1.0/mongolite/src/mongoc/mongoc-collection-private.h                  |   10 
 mongolite-2.1.0/mongolite/src/mongoc/mongoc-collection.c                          |  131 +-
 mongolite-2.1.0/mongolite/src/mongoc/mongoc-collection.h                          |   32 
 mongolite-2.1.0/mongolite/src/mongoc/mongoc-compression-private.h                 |    8 
 mongolite-2.1.0/mongolite/src/mongoc/mongoc-compression.c                         |    8 
 mongolite-2.1.0/mongolite/src/mongoc/mongoc-config.h                              |   36 
 mongolite-2.1.0/mongolite/src/mongoc/mongoc-counters-private.h                    |   10 
 mongolite-2.1.0/mongolite/src/mongoc/mongoc-counters.c                            |    6 
 mongolite-2.1.0/mongolite/src/mongoc/mongoc-crypto-cng-private.h                  |    7 
 mongolite-2.1.0/mongolite/src/mongoc/mongoc-crypto-cng.c                          |   10 
 mongolite-2.1.0/mongolite/src/mongoc/mongoc-crypto-common-crypto-private.h        |    7 
 mongolite-2.1.0/mongolite/src/mongoc/mongoc-crypto-common-crypto.c                |    6 
 mongolite-2.1.0/mongolite/src/mongoc/mongoc-crypto-openssl-private.h              |   11 
 mongolite-2.1.0/mongolite/src/mongoc/mongoc-crypto-openssl.c                      |   10 
 mongolite-2.1.0/mongolite/src/mongoc/mongoc-crypto-private.h                      |    9 
 mongolite-2.1.0/mongolite/src/mongoc/mongoc-crypto.c                              |   14 
 mongolite-2.1.0/mongolite/src/mongoc/mongoc-cursor-array.c                        |    6 
 mongolite-2.1.0/mongolite/src/mongoc/mongoc-cursor-cmd-deprecated.c               |    6 
 mongolite-2.1.0/mongolite/src/mongoc/mongoc-cursor-cmd.c                          |    6 
 mongolite-2.1.0/mongolite/src/mongoc/mongoc-cursor-find-cmd.c                     |    6 
 mongolite-2.1.0/mongolite/src/mongoc/mongoc-cursor-find-opquery.c                 |    6 
 mongolite-2.1.0/mongolite/src/mongoc/mongoc-cursor-find.c                         |    6 
 mongolite-2.1.0/mongolite/src/mongoc/mongoc-cursor-legacy.c                       |   25 
 mongolite-2.1.0/mongolite/src/mongoc/mongoc-cursor-private.h                      |   19 
 mongolite-2.1.0/mongolite/src/mongoc/mongoc-cursor.c                              |  108 +
 mongolite-2.1.0/mongolite/src/mongoc/mongoc-cursor.h                              |   12 
 mongolite-2.1.0/mongolite/src/mongoc/mongoc-cyrus-private.h                       |   14 
 mongolite-2.1.0/mongolite/src/mongoc/mongoc-cyrus.c                               |   10 
 mongolite-2.1.0/mongolite/src/mongoc/mongoc-database-private.h                    |   18 
 mongolite-2.1.0/mongolite/src/mongoc/mongoc-database.c                            |   26 
 mongolite-2.1.0/mongolite/src/mongoc/mongoc-database.h                            |   22 
 mongolite-2.1.0/mongolite/src/mongoc/mongoc-errno-private.h                       |    8 
 mongolite-2.1.0/mongolite/src/mongoc/mongoc-error.c                               |    4 
 mongolite-2.1.0/mongolite/src/mongoc/mongoc-error.h                               |   13 
 mongolite-2.1.0/mongolite/src/mongoc/mongoc-find-and-modify-private.h             |   12 
 mongolite-2.1.0/mongolite/src/mongoc/mongoc-find-and-modify.c                     |   19 
 mongolite-2.1.0/mongolite/src/mongoc/mongoc-find-and-modify.h                     |   10 
 mongolite-2.1.0/mongolite/src/mongoc/mongoc-flags.h                               |    8 
 mongolite-2.1.0/mongolite/src/mongoc/mongoc-gridfs-bucket-file-private.h          |only
 mongolite-2.1.0/mongolite/src/mongoc/mongoc-gridfs-bucket-file.c                  |only
 mongolite-2.1.0/mongolite/src/mongoc/mongoc-gridfs-bucket-private.h               |only
 mongolite-2.1.0/mongolite/src/mongoc/mongoc-gridfs-bucket.c                       |only
 mongolite-2.1.0/mongolite/src/mongoc/mongoc-gridfs-bucket.h                       |only
 mongolite-2.1.0/mongolite/src/mongoc/mongoc-gridfs-file-list-private.h            |   16 
 mongolite-2.1.0/mongolite/src/mongoc/mongoc-gridfs-file-list.c                    |   20 
 mongolite-2.1.0/mongolite/src/mongoc/mongoc-gridfs-file-list.h                    |   12 
 mongolite-2.1.0/mongolite/src/mongoc/mongoc-gridfs-file-page-private.h            |   10 
 mongolite-2.1.0/mongolite/src/mongoc/mongoc-gridfs-file-page.c                    |    6 
 mongolite-2.1.0/mongolite/src/mongoc/mongoc-gridfs-file-page.h                    |   16 
 mongolite-2.1.0/mongolite/src/mongoc/mongoc-gridfs-file-private.h                 |   18 
 mongolite-2.1.0/mongolite/src/mongoc/mongoc-gridfs-file.c                         |   33 
 mongolite-2.1.0/mongolite/src/mongoc/mongoc-gridfs-file.h                         |   12 
 mongolite-2.1.0/mongolite/src/mongoc/mongoc-gridfs-private.h                      |   16 
 mongolite-2.1.0/mongolite/src/mongoc/mongoc-gridfs.c                              |   41 
 mongolite-2.1.0/mongolite/src/mongoc/mongoc-gridfs.h                              |   20 
 mongolite-2.1.0/mongolite/src/mongoc/mongoc-handshake-compiler-private.h          |    6 
 mongolite-2.1.0/mongolite/src/mongoc/mongoc-handshake-os-private.h                |    2 
 mongolite-2.1.0/mongolite/src/mongoc/mongoc-handshake-private.h                   |   10 
 mongolite-2.1.0/mongolite/src/mongoc/mongoc-handshake.c                           |   40 
 mongolite-2.1.0/mongolite/src/mongoc/mongoc-handshake.h                           |   10 
 mongolite-2.1.0/mongolite/src/mongoc/mongoc-host-list-private.h                   |    8 
 mongolite-2.1.0/mongolite/src/mongoc/mongoc-host-list.c                           |    4 
 mongolite-2.1.0/mongolite/src/mongoc/mongoc-host-list.h                           |    8 
 mongolite-2.1.0/mongolite/src/mongoc/mongoc-index.c                               |    4 
 mongolite-2.1.0/mongolite/src/mongoc/mongoc-index.h                               |   10 
 mongolite-2.1.0/mongolite/src/mongoc/mongoc-init.c                                |   46 
 mongolite-2.1.0/mongolite/src/mongoc/mongoc-init.h                                |   10 
 mongolite-2.1.0/mongolite/src/mongoc/mongoc-iovec.h                               |   10 
 mongolite-2.1.0/mongolite/src/mongoc/mongoc-libressl-private.h                    |   12 
 mongolite-2.1.0/mongolite/src/mongoc/mongoc-libressl.c                            |   19 
 mongolite-2.1.0/mongolite/src/mongoc/mongoc-linux-distro-scanner-private.h        |    4 
 mongolite-2.1.0/mongolite/src/mongoc/mongoc-linux-distro-scanner.c                |   16 
 mongolite-2.1.0/mongolite/src/mongoc/mongoc-list-private.h                        |    8 
 mongolite-2.1.0/mongolite/src/mongoc/mongoc-list.c                                |    2 
 mongolite-2.1.0/mongolite/src/mongoc/mongoc-log-private.h                         |    8 
 mongolite-2.1.0/mongolite/src/mongoc/mongoc-log.c                                 |   36 
 mongolite-2.1.0/mongolite/src/mongoc/mongoc-log.h                                 |   10 
 mongolite-2.1.0/mongolite/src/mongoc/mongoc-macros.h                              |    6 
 mongolite-2.1.0/mongolite/src/mongoc/mongoc-matcher-op-private.h                  |    8 
 mongolite-2.1.0/mongolite/src/mongoc/mongoc-matcher-op.c                          |    8 
 mongolite-2.1.0/mongolite/src/mongoc/mongoc-matcher-private.h                     |   10 
 mongolite-2.1.0/mongolite/src/mongoc/mongoc-matcher.c                             |    8 
 mongolite-2.1.0/mongolite/src/mongoc/mongoc-matcher.h                             |   10 
 mongolite-2.1.0/mongolite/src/mongoc/mongoc-memcmp-private.h                      |   10 
 mongolite-2.1.0/mongolite/src/mongoc/mongoc-memcmp.c                              |    2 
 mongolite-2.1.0/mongolite/src/mongoc/mongoc-opcode.h                              |    8 
 mongolite-2.1.0/mongolite/src/mongoc/mongoc-openssl-private.h                     |   10 
 mongolite-2.1.0/mongolite/src/mongoc/mongoc-openssl.c                             |   34 
 mongolite-2.1.0/mongolite/src/mongoc/mongoc-opts-helpers-private.h                |   51 
 mongolite-2.1.0/mongolite/src/mongoc/mongoc-opts-helpers.c                        |  114 +
 mongolite-2.1.0/mongolite/src/mongoc/mongoc-opts-private.h                        |   69 +
 mongolite-2.1.0/mongolite/src/mongoc/mongoc-opts.c                                |  342 ++++-
 mongolite-2.1.0/mongolite/src/mongoc/mongoc-prelude.h                             |only
 mongolite-2.1.0/mongolite/src/mongoc/mongoc-queue-private.h                       |   10 
 mongolite-2.1.0/mongolite/src/mongoc/mongoc-queue.c                               |    2 
 mongolite-2.1.0/mongolite/src/mongoc/mongoc-rand-cng.c                            |    8 
 mongolite-2.1.0/mongolite/src/mongoc/mongoc-rand-common-crypto.c                  |    8 
 mongolite-2.1.0/mongolite/src/mongoc/mongoc-rand-openssl.c                        |    8 
 mongolite-2.1.0/mongolite/src/mongoc/mongoc-rand-private.h                        |    7 
 mongolite-2.1.0/mongolite/src/mongoc/mongoc-rand.h                                |    9 
 mongolite-2.1.0/mongolite/src/mongoc/mongoc-read-concern-private.h                |   15 
 mongolite-2.1.0/mongolite/src/mongoc/mongoc-read-concern.c                        |   51 
 mongolite-2.1.0/mongolite/src/mongoc/mongoc-read-concern.h                        |   10 
 mongolite-2.1.0/mongolite/src/mongoc/mongoc-read-prefs-private.h                  |   12 
 mongolite-2.1.0/mongolite/src/mongoc/mongoc-read-prefs.c                          |    6 
 mongolite-2.1.0/mongolite/src/mongoc/mongoc-read-prefs.h                          |   12 
 mongolite-2.1.0/mongolite/src/mongoc/mongoc-rpc-private.h                         |   20 
 mongolite-2.1.0/mongolite/src/mongoc/mongoc-rpc.c                                 |   59 -
 mongolite-2.1.0/mongolite/src/mongoc/mongoc-sasl-private.h                        |   16 
 mongolite-2.1.0/mongolite/src/mongoc/mongoc-sasl.c                                |   10 
 mongolite-2.1.0/mongolite/src/mongoc/mongoc-scram-private.h                       |    9 
 mongolite-2.1.0/mongolite/src/mongoc/mongoc-scram.c                               |   16 
 mongolite-2.1.0/mongolite/src/mongoc/mongoc-secure-channel-private.h              |   14 
 mongolite-2.1.0/mongolite/src/mongoc/mongoc-secure-channel.c                      |   34 
 mongolite-2.1.0/mongolite/src/mongoc/mongoc-secure-transport-private.h            |   12 
 mongolite-2.1.0/mongolite/src/mongoc/mongoc-secure-transport.c                    |  158 +-
 mongolite-2.1.0/mongolite/src/mongoc/mongoc-server-description-private.h          |    4 
 mongolite-2.1.0/mongolite/src/mongoc/mongoc-server-description.c                  |   31 
 mongolite-2.1.0/mongolite/src/mongoc/mongoc-server-description.h                  |   14 
 mongolite-2.1.0/mongolite/src/mongoc/mongoc-server-stream-private.h               |   16 
 mongolite-2.1.0/mongolite/src/mongoc/mongoc-server-stream.c                       |    6 
 mongolite-2.1.0/mongolite/src/mongoc/mongoc-set-private.h                         |   16 
 mongolite-2.1.0/mongolite/src/mongoc/mongoc-set.c                                 |   34 
 mongolite-2.1.0/mongolite/src/mongoc/mongoc-socket-private.h                      |    8 
 mongolite-2.1.0/mongolite/src/mongoc/mongoc-socket.c                              |   12 
 mongolite-2.1.0/mongolite/src/mongoc/mongoc-socket.h                              |   14 
 mongolite-2.1.0/mongolite/src/mongoc/mongoc-ssl-private.h                         |   10 
 mongolite-2.1.0/mongolite/src/mongoc/mongoc-ssl.c                                 |   20 
 mongolite-2.1.0/mongolite/src/mongoc/mongoc-ssl.h                                 |   10 
 mongolite-2.1.0/mongolite/src/mongoc/mongoc-sspi-private.h                        |   10 
 mongolite-2.1.0/mongolite/src/mongoc/mongoc-sspi.c                                |    8 
 mongolite-2.1.0/mongolite/src/mongoc/mongoc-stream-buffered.c                     |   22 
 mongolite-2.1.0/mongolite/src/mongoc/mongoc-stream-buffered.h                     |   12 
 mongolite-2.1.0/mongolite/src/mongoc/mongoc-stream-file.c                         |    8 
 mongolite-2.1.0/mongolite/src/mongoc/mongoc-stream-file.h                         |   10 
 mongolite-2.1.0/mongolite/src/mongoc/mongoc-stream-gridfs-download-private.h      |only
 mongolite-2.1.0/mongolite/src/mongoc/mongoc-stream-gridfs-download.c              |only
 mongolite-2.1.0/mongolite/src/mongoc/mongoc-stream-gridfs-upload-private.h        |only
 mongolite-2.1.0/mongolite/src/mongoc/mongoc-stream-gridfs-upload.c                |only
 mongolite-2.1.0/mongolite/src/mongoc/mongoc-stream-gridfs.c                       |   14 
 mongolite-2.1.0/mongolite/src/mongoc/mongoc-stream-gridfs.h                       |   16 
 mongolite-2.1.0/mongolite/src/mongoc/mongoc-stream-private.h                      |   12 
 mongolite-2.1.0/mongolite/src/mongoc/mongoc-stream-socket.c                       |   27 
 mongolite-2.1.0/mongolite/src/mongoc/mongoc-stream-socket.h                       |   12 
 mongolite-2.1.0/mongolite/src/mongoc/mongoc-stream-tls-libressl-private.h         |    8 
 mongolite-2.1.0/mongolite/src/mongoc/mongoc-stream-tls-libressl.c                 |   41 
 mongolite-2.1.0/mongolite/src/mongoc/mongoc-stream-tls-libressl.h                 |   10 
 mongolite-2.1.0/mongolite/src/mongoc/mongoc-stream-tls-openssl-bio-private.h      |    8 
 mongolite-2.1.0/mongolite/src/mongoc/mongoc-stream-tls-openssl-bio.c              |   26 
 mongolite-2.1.0/mongolite/src/mongoc/mongoc-stream-tls-openssl-private.h          |    8 
 mongolite-2.1.0/mongolite/src/mongoc/mongoc-stream-tls-openssl.c                  |   45 
 mongolite-2.1.0/mongolite/src/mongoc/mongoc-stream-tls-openssl.h                  |   10 
 mongolite-2.1.0/mongolite/src/mongoc/mongoc-stream-tls-private.h                  |   12 
 mongolite-2.1.0/mongolite/src/mongoc/mongoc-stream-tls-secure-channel-private.h   |    8 
 mongolite-2.1.0/mongolite/src/mongoc/mongoc-stream-tls-secure-channel.c           |   83 -
 mongolite-2.1.0/mongolite/src/mongoc/mongoc-stream-tls-secure-channel.h           |   10 
 mongolite-2.1.0/mongolite/src/mongoc/mongoc-stream-tls-secure-transport-private.h |    8 
 mongolite-2.1.0/mongolite/src/mongoc/mongoc-stream-tls-secure-transport.c         |   59 -
 mongolite-2.1.0/mongolite/src/mongoc/mongoc-stream-tls-secure-transport.h         |   10 
 mongolite-2.1.0/mongolite/src/mongoc/mongoc-stream-tls.c                          |   32 
 mongolite-2.1.0/mongolite/src/mongoc/mongoc-stream-tls.h                          |   16 
 mongolite-2.1.0/mongolite/src/mongoc/mongoc-stream.c                              |   43 
 mongolite-2.1.0/mongolite/src/mongoc/mongoc-stream.h                              |   17 
 mongolite-2.1.0/mongolite/src/mongoc/mongoc-thread-private.h                      |   71 -
 mongolite-2.1.0/mongolite/src/mongoc/mongoc-topology-description-apm-private.h    |    9 
 mongolite-2.1.0/mongolite/src/mongoc/mongoc-topology-description-apm.c            |    4 
 mongolite-2.1.0/mongolite/src/mongoc/mongoc-topology-description-private.h        |   12 
 mongolite-2.1.0/mongolite/src/mongoc/mongoc-topology-description.c                |   20 
 mongolite-2.1.0/mongolite/src/mongoc/mongoc-topology-description.h                |    8 
 mongolite-2.1.0/mongolite/src/mongoc/mongoc-topology-private.h                    |   25 
 mongolite-2.1.0/mongolite/src/mongoc/mongoc-topology-scanner-private.h            |   23 
 mongolite-2.1.0/mongolite/src/mongoc/mongoc-topology-scanner.c                    |  100 +
 mongolite-2.1.0/mongolite/src/mongoc/mongoc-topology.c                            |  221 ++-
 mongolite-2.1.0/mongolite/src/mongoc/mongoc-trace-private.h                       |    8 
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Package eplusr updated to version 0.10.1 with previous version 0.10.0 dated 2019-05-03

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 <hongyuan.jia@bears-berkeley.sg>

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Package CoSMoS updated to version 1.0.1 with previous version 0.4.1 dated 2019-04-11

Title: Complete Stochastic Modelling Solution
Description: A single framework, unifying, extending, and improving a general-purpose modelling strategy, based on the assumption that any process can emerge by transforming a specific 'parent' Gaussian process Papalexiou (2018) <doi:10.1016/j.advwatres.2018.02.013>.
Author: Filip Strnad [aut, cre], Simon Michael Papalexiou [aut], Yannis Markonis [ctb]
Maintainer: Filip Strnad <strnadf@fzp.czu.cz>

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Package cosa updated to version 1.2.2 with previous version 1.2.1 dated 2018-12-16

Title: Bound Constrained Optimal Sample Allocation
Description: Implements bound constrained optimization of sample sizes in power analysis of multilevel regression discontinuity designs (MRDDs) and multilevel randomized trials (MRTs) with continuous outcomes. Bulus, M. & Dong, N. (2019). Bound Constrained Optimization of Sample Sizes Subject to Monetary Restrictions in Planning MRTs and MRDDs (Revise & Resubmit).
Author: Metin Bulus [aut, cre], Nianbo Dong [aut]
Maintainer: Metin Bulus <bulusmetin@gmail.com>

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Package jpmesh updated to version 1.1.3 with previous version 1.1.2 dated 2019-03-20

Title: Utilities for Japanese Mesh Code
Description: Helpful functions for using mesh code (80km to 125m) data in Japan. Visualize mesh code using 'ggplot2' and 'leaflet', etc.
Author: Shinya Uryu [aut, cre] (<https://orcid.org/0000-0002-0493-6186>)
Maintainer: Shinya Uryu <suika1127@gmail.com>

Diff between jpmesh versions 1.1.2 dated 2019-03-20 and 1.1.3 dated 2019-05-09

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Package oec (with last version 2.7.8) was removed from CRAN

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

2018-05-11 2.7.8
2018-05-08 2.6.7
2017-11-29 2.5.2
2017-11-01 2.5
2017-07-17 2.4
2016-11-18 2.2
2016-08-15 2.0
2016-07-30 1.0.3
2016-07-27 1.0.2
2016-07-26 1.0

Permanent link
Package DT updated to version 0.6 with previous version 0.5 dated 2018-11-05

Title: A Wrapper of the JavaScript Library 'DataTables'
Description: Data objects in R can be rendered as HTML tables using the JavaScript library 'DataTables' (typically via R Markdown or Shiny). The 'DataTables' library has been included in this R package. The package name 'DT' is an abbreviation of 'DataTables'.
Author: Yihui Xie [aut, cre], Joe Cheng [aut], Xianying Tan [aut], JJ Allaire [ctb], Maximilian Girlich [ctb], Greg Freedman Ellis [ctb], Johannes Rauh [ctb], jQuery contributors [ctb, cph] (jQuery in htmlwidgets/lib), SpryMedia Limited [ctb, cph] (DataTables in htmlwidgets/lib), Brian Reavis [ctb, cph] (selectize.js in htmlwidgets/lib), Leon Gersen [ctb, cph] (noUiSlider in htmlwidgets/lib), Bartek Szopka [ctb, cph] (jquery.highlight.js in htmlwidgets/lib), RStudio Inc [cph]
Maintainer: Yihui Xie <xie@yihui.name>

Diff between DT versions 0.5 dated 2018-11-05 and 0.6 dated 2019-05-09

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