Fri, 11 Sep 2020

Package chinese.misc updated to version 0.2.3 with previous version 0.2.2 dated 2020-05-09

Title: Miscellaneous Tools for Chinese Text Mining and More
Description: Efforts are made to make Chinese text mining easier, faster, and robust to errors. Document term matrix can be generated by only one line of code; detecting encoding, segmenting and removing stop words are done automatically. Some convenient tools are also supplied.
Author: Jiang Wu [aut, cre] (from Capital Normal University)
Maintainer: Jiang Wu <textidea@sina.com>

Diff between chinese.misc versions 0.2.2 dated 2020-05-09 and 0.2.3 dated 2020-09-11

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Package r2dii.match updated to version 0.0.5 with previous version 0.0.4 dated 2020-08-13

Title: Tools to Match Financial Portfolios with Climate Data
Description: These tools implement in R a fundamental part of the software 'PACTA' (Paris Agreement Capital Transition Assessment), which is a free tool that calculates the alignment between financial portfolios and climate scenarios (<https://2degrees-investing.org/>). Financial institutions use 'PACTA' to study how their capital allocation impacts the climate. This package matches data from financial portfolios to asset level data from market-intelligence databases (e.g. power plant capacities, emission factors, etc.). This is the first step to assess if a financial portfolio aligns with climate goals.
Author: Mauro Lepore [aut, cre, ctr] (<https://orcid.org/0000-0002-1986-7988>), Jackson Hoffart [aut] (<https://orcid.org/0000-0002-8600-5042>), Klaus Hagedorn [aut], Florence Palandri [aut], Evgeny Petrovsky [aut], 2 Degrees Investing Initiative [cph, fnd]
Maintainer: Mauro Lepore <maurolepore@gmail.com>

Diff between r2dii.match versions 0.0.4 dated 2020-08-13 and 0.0.5 dated 2020-09-11

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Package modeltests updated to version 0.1.3 with previous version 0.1.2 dated 2020-06-03

Title: Testing Infrastructure for Broom Model Generics
Description: Provides a number of testthat tests that can be used to verify that tidy(), glance() and augment() methods meet consistent specifications. This allows methods for the same generic to be spread across multiple packages, since all of those packages can make the same guarantees to users about returned objects.
Author: Alex Hayes [aut, cre] (<https://orcid.org/0000-0002-4985-5160>), Simon Couch [ctb]
Maintainer: Alex Hayes <alexpghayes@gmail.com>

Diff between modeltests versions 0.1.2 dated 2020-06-03 and 0.1.3 dated 2020-09-11

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Package MetaClean updated to version 1.0.0 with previous version 0.1.0 dated 2020-06-14

Title: Detection of Low-Quality Peaks in Untargeted Metabolomics Data
Description: Utilizes 11 peak quality metrics and 8 diverse machine learning algorithms to build a classifier for the automatic assessment of peak integration quality of peaks from untargeted metabolomics analyses. The 12 peak quality metrics were adapted from those defined in the following references: Zhang, W., & Zhao, P.X. (2014) <doi:10.1186/1471-2105-15-S11-S5> Toghi Eshghi, S., Auger, P., & Mathews, W.R. (2018) <doi:10.1186/s12014-018-9209-x>.
Author: Kelsey Chetnik
Maintainer: Kelsey Chetnik <kchetnik73@gmail.com>

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Package actel updated to version 1.1.1 with previous version 1.1.0 dated 2020-08-01

Title: Acoustic Telemetry Data Analysis
Description: Designed for studies where animals tagged with acoustic tags are expected to move through receiver arrays. This package combines the advantages of automatic sorting and checking of animal movements with the possibility for user intervention on tags that deviate from expected behaviour. The three analysis functions (explore(), migration() and residency()) allow the users to analyse their data in a systematic way, making it easy to compare results from different studies. CJS calculations are based on Perry et al. (2012) <https://www.researchgate.net/publication/256443823_Using_mark-recapture_models_to_estimate_survival_from_telemetry_data>.
Author: Hugo Flávio [aut, cre] (<https://orcid.org/0000-0002-5174-1197>)
Maintainer: Hugo Flávio <hdmfla@aqua.dtu.dk>

Diff between actel versions 1.1.0 dated 2020-08-01 and 1.1.1 dated 2020-09-11

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Package MatTransMix updated to version 0.1.12 with previous version 0.1.11 dated 2020-08-26

Title: Clustering with Matrix Gaussian and Matrix Transformation Mixture Models
Description: Provides matrix Gaussian mixture models, matrix transformation mixture models and their model-based clustering results. The parsimonious models of the mean matrices and variance covariance matrices are implemented with a total of 196 variations.
Author: Xuwen Zhu [aut, cre], Volodymyr Melnykov [aut], Shuchismita Sarkar [ctb], Michael Hutt [ctb, cph], Stephen Moshier [ctb, cph], Rouben Rostamian [ctb, cph], Carl Edward Rasmussen [ctb, cph], Dianne Cook [ctb, cph]
Maintainer: Xuwen Zhu <xzhu20@cba.ua.edu>

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Package shorts updated to version 1.1.1 with previous version 1.1.0 dated 2020-07-28

Title: Short Sprints
Description: Create short sprint (<6sec) profiles using the split times or the radar gun data. Mono-exponential equation is used to estimate maximal sprinting speed (MSS), relative acceleration (TAU), and other parameters such us maximal acceleration (MAC) and maximal relative power (PMAX). These parameters can be used to predict kinematic and kinetics variables and to compare individuals. The modeling method utilized in this package is based on the works of Chelly SM, Denis C. (2001) <doi: 10.1097/00005768-200102000-00024>, Clark KP, Rieger RH, Bruno RF, Stearne DJ. (2017) <doi: 10.1519/JSC.0000000000002081>, Furusawa K, Hill AV, Parkinson JL (1927) <doi: 10.1098/rspb.1927.0035>, Greene PR. (1986) <doi: 10.1016/0025-5564(86)90063-5>, and Samozino P. (2018) <doi: 10.1007/978-3-319-05633-3_11>.
Author: Mladen Jovanovic [aut, cre], Jason D. Vescovi [dtc]
Maintainer: Mladen Jovanovic <coach.mladen.jovanovic@gmail.com>

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Package DAMisc updated to version 1.6.1 with previous version 1.5.4 dated 2020-04-23

Title: Dave Armstrong's Miscellaneous Functions
Description: Miscellaneous set of functions I use in my teaching either at the University of Western Ontario or the Inter-university Consortium for Political and Social Research (ICPSR) Summer Program in Quantitative Methods. Broadly, the functions help with presentation and interpretation of LMs and GLMs, but also implement some new tools like Alternating Least Squares Optimal Scaling for dependent variables, a Bayesian analog to the ALSOS algorithm. There are also tools to help understand interactions in both LMs and binary GLMs.
Author: Dave Armstrong [aut, cre]
Maintainer: Dave Armstrong <dave@quantoid.net>

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Package alfred updated to version 0.1.8 with previous version 0.1.7 dated 2019-04-01

Title: Downloading Time Series from ALFRED Database for Various Vintages
Description: Provides direct access to the ALFRED (<https://alfred.stlouisfed.org>) and FRED (<https://fred.stlouisfed.org>) databases. Its functions return tidy data frames for different releases of the specified time series. Note that this product uses the FRED© API but is not endorsed or certified by the Federal Reserve Bank of St. Louis.
Author: Onno Kleen [aut, cre] (<https://orcid.org/0000-0003-4731-4640>)
Maintainer: Onno Kleen <r@onnokleen.de>

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Package Pareto updated to version 2.2.1 with previous version 2.2.0 dated 2020-08-03

Title: The Pareto, Piecewise Pareto and Generalized Pareto Distribution
Description: Utilities for the Pareto, piecewise Pareto and generalized Pareto distribution that are useful for reinsurance pricing. In particular, the package provides a non-trivial algorithm that can be used to match the expected losses of a tower of reinsurance layers with a layer-independent collective risk model. The theoretical background of the matching algorithm and most other methods are described in Ulrich Riegel (2018) <doi:10.1007/s13385-018-0177-3>.
Author: Ulrich Riegel [aut, cre]
Maintainer: Ulrich Riegel <ulrich.riegel@gmx.de>

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New package sparseFLMM with initial version 0.3.1
Package: sparseFLMM
Type: Package
Title: Functional Linear Mixed Models for Irregularly or Sparsely Sampled Data
Version: 0.3.1
Author: Jona Cederbaum
Maintainer: Jona Cederbaum <Jona.Cederbaum@gmail.com>
Description: Estimation of functional linear mixed models for irregularly or sparsely sampled data based on functional principal component analysis.
License: GPL-2
LazyData: TRUE
Depends: R (>= 3.3), mgcv (>= 1.8-12), refund (>= 0.1-22)
Imports: methods, parallel, MASS, Matrix, data.table
Suggests:
Collate: 'call_all_functions.R' 'cov_estimation_tri.R' 'cov_estimation_tri_constr.R' 'cov_estimation_whole.R' 'fpc_estimation.R' 'fpc_famm_estimation.R' 'get_cross_products.R' 'mean_estimation.R' 'tri_constraint_constructor.R' 'useful_functions.R' 'zzz.R'
RoxygenNote: 7.1.1
NeedsCompilation: no
Packaged: 2020-09-11 11:11:30 UTC; Jona
Repository: CRAN
Date/Publication: 2020-09-11 12:20:02 UTC

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New package ads with initial version 1.5-4
Package: ads
Type: Package
Title: Spatial Point Patterns Analysis
Version: 1.5-4
Date: 2020-09-11
Author: R. Pelissier and F. Goreaud
Maintainer: Raphael Pelissier <Raphael.Pelissier@ird.fr>
Imports: ade4, spatstat, spatstat.utils, spatstat.data
Description: Perform first- and second-order multi-scale analyses derived from Ripley K-function (Ripley B. D. (1977) <doi:10.1111/j.2517-6161.1977.tb01615.x>), for univariate, multivariate and marked mapped data in rectangular, circular or irregular shaped sampling windows, with tests of statistical significance based on Monte Carlo simulations.
Depends: R (>= 3.5.0)
License: GPL-2
NeedsCompilation: yes
Repository: CRAN
Date/Publication: 2020-09-11 12:20:07 UTC
Packaged: 2020-09-11 11:19:29 UTC; rpelissier
RoxygenNote: 7.1.1

More information about ads at CRAN
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Package fbst updated to version 1.3 with previous version 1.2 dated 2020-09-04

Title: The Full Bayesian Significance Test and the e-Value
Description: Provides access to a range of functions for computing and visualising the Full Bayesian Significance Test (FBST) and the e-value for testing a sharp hypothesis against its alternative. The methods are widely applicable as long as a posterior MCMC sample is available. For details on the computation and theory of the FBST see <arXiv:2005.13181>.
Author: Riko Kelter
Maintainer: Riko Kelter <riko.kelter@uni-siegen.de>

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Package Distributacalcul updated to version 0.3.0 with previous version 0.2.2 dated 2020-06-13

Title: Probability Distribution Functions
Description: Calculates expected values, variance, different moments (kth moment, truncated mean), stop-loss, mean excess loss, Value-at-Risk (VaR) and Tail Value-at-Risk (TVaR) as well as some density and cumulative (survival) functions of continuous, discrete and compound distributions. This package also includes a visual 'Shiny' component to enable students to visualize distributions and understand the impact of their parameters. This package is intended to expand the 'stats' package so as to enable students to develop an intuition for probability.
Author: Alec James van Rassel [aut, cre, cph], Gabriel Crépeault-Cauchon [aut, ccp], Étienne Marceau [tch, sad], Hélène Cossette [tch, sad], Laboratoire Act & Risk [fnd, sht], École d'actuariat de l'Université Laval [fnd, his, uvp], Natural Sciences and Engineering Research Council of Canada [fnd], Marc-André Devost [ccp]
Maintainer: Alec James van Rassel <alec.van-rassel.1@ulaval.ca>

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New package tsrobprep with initial version 0.0.0.1
Package: tsrobprep
Title: Robust Preprocessing of Time Series Data
Version: 0.0.0.1
Date: 2020-08-17
Authors@R: c( person(given = "Michał", family = "Narajewski", role = c("aut", "cre"), email = "michal.narajewski@uni-due.de", comment = c(ORCID = "https://orcid.org/0000-0002-3115-0162")), person(given = "Florian", family = "Ziel", role = "aut", email = "florian.ziel@uni-due.de", comment = c(ORCID = "https://orcid.org/0000-0002-2974-2660")), person(given = "Jens", family = "Kley-Holsteg", role = "ctb", email = "jens.kley-holsteg@hs-ruhrwest.de"))
Description: Methods for handling the missing values outliers are introduced in this package. The recognized missing values and outliers are replaced using a model-based approach. The model may consist of both autoregressive components and external regressors. The methods work robust and efficient, and they are fully tunable. The primary motivation for writing the package was preprocessing of the energy systems data, e.g. power plant production time series, but the package could be used with any time series data.
Depends: R (>= 3.2.0)
License: MIT + file LICENSE
Encoding: UTF-8
Imports: Matrix, quantreg
LazyData: true
RoxygenNote: 7.1.1
NeedsCompilation: no
Packaged: 2020-09-04 07:55:24 UTC; michal
Author: Michał Narajewski [aut, cre] (<https://orcid.org/0000-0002-3115-0162>), Florian Ziel [aut] (<https://orcid.org/0000-0002-2974-2660>), Jens Kley-Holsteg [ctb]
Maintainer: Michał Narajewski <michal.narajewski@uni-due.de>
Repository: CRAN
Date/Publication: 2020-09-11 09:20:03 UTC

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New package tidyseurat with initial version 0.1.6
Type: Package
Package: tidyseurat
Title: Brings Seurat to the Tidyverse
Version: 0.1.6
Authors@R: c(person("Stefano", "Mangiola", email = "mangiolastefano@gmail.com", role = c("aut", "cre")), person("Maria", "Doyle", email = "Maria.Doyle@petermac.org", role = c("ctb")) )
Description: It creates an invisible layer that allow to see the 'Seurat' object as tibble and interact seamlessly with the tidyverse.
License: GPL-3
Depends: R (>= 3.6.0), Seurat
Imports: tibble, dplyr, magrittr, tidyr, ggplot2, rlang, purrr, lifecycle, methods, plotly, ellipsis, tidyselect, utils
Suggests: BiocStyle, testthat, knitr, GGally, markdown, SingleCellSignalR
VignetteBuilder: knitr
RdMacros: lifecycle
Biarch: true
biocViews: AssayDomain, Infrastructure, RNASeq, DifferentialExpression, GeneExpression, Normalization, Clustering, QualityControl, Sequencing, Transcription, Transcriptomics
Encoding: UTF-8
LazyData: true
RoxygenNote: 7.1.1
NeedsCompilation: no
Packaged: 2020-09-11 04:48:40 UTC; mangiola.s
Author: Stefano Mangiola [aut, cre], Maria Doyle [ctb]
Maintainer: Stefano Mangiola <mangiolastefano@gmail.com>
Repository: CRAN
Date/Publication: 2020-09-11 09:50:03 UTC

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New package SimSurvNMarker with initial version 0.1.0
Package: SimSurvNMarker
Type: Package
Title: Simulate Survival Time and Markers
Version: 0.1.0
Authors@R: c(person("Benjamin", "Christoffersen", email = "boennecd@gmail.com", role = c("cre", "aut")), person("Mark", "Clements", role = "cph"), person("Ignace", "Bogaert", role = "cph"))
Maintainer: Benjamin Christoffersen <boennecd@gmail.com>
Description: Provides functions to simulate from joint survival and marker models. The user can specific all basis functions of time, random or deterministic covariates, random or deterministic left-truncation and right-censoring times, and model parameters.
License: GPL-2
Encoding: UTF-8
LazyData: true
Suggests: testthat (>= 2.1.0), splines, R.rsp
RoxygenNote: 7.1.1
LinkingTo: Rcpp, RcppArmadillo
Imports: Rcpp
SystemRequirements: C++14
VignetteBuilder: R.rsp
NeedsCompilation: yes
Packaged: 2020-09-04 12:02:54 UTC; boennecd
Author: Benjamin Christoffersen [cre, aut], Mark Clements [cph], Ignace Bogaert [cph]
Repository: CRAN
Date/Publication: 2020-09-11 09:50:11 UTC

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New package procmaps with initial version 0.0.1
Package: procmaps
Title: Portable Address Space Mapping
Version: 0.0.1
Date: 2020-09-03
Authors@R: c(person(given = "Kirill", family = "M\u00fcller", role = c("aut", "cre"), email = "krlmlr+r@mailbox.org", comment = c(ORCID = "0000-0002-1416-3412")), person(given = "R Consortium", role = "fnd"), person(given = "Kostya", family = "Serebryany", role = "ctb", comment = "Bundled gperftools library"), person(given = "Sanjay", family = "Ghemawat", role = "ctb", comment = "Bundled gperftools library"), person(given = "Craig", family = "Silverstein", role = "ctb", comment = "Bundled gperftools library"), person(family = "Google Inc.", role = "cph", comment = "Bundled gperftools library"))
Description: Portable '/proc/self/maps' as a data frame. Determine which library or other region is mapped to a specific address of a process. -- R packages can contain native code, compiled to shared libraries at build or installation time. When loaded, each shared library occupies a portion of the address space of the main process. When only a machine instruction pointer is available (e.g. from a backtrace during error inspection or profiling), the address space map determines which library this instruction pointer corresponds to.
License: GPL-3
URL: https://r-prof.github.io/procmaps/, https://github.com/r-prof/procmaps
BugReports: https://github.com/r-prof/procmaps/issues
Suggests: covr, testthat, tibble
Encoding: UTF-8
LazyData: true
RoxygenNote: 7.1.1.9000
SystemRequirements: GNU make, gcc (>= 5) or clang
NeedsCompilation: yes
Packaged: 2020-09-11 02:29:29 UTC; kirill
Author: Kirill Müller [aut, cre] (<https://orcid.org/0000-0002-1416-3412>), R Consortium [fnd], Kostya Serebryany [ctb] (Bundled gperftools library), Sanjay Ghemawat [ctb] (Bundled gperftools library), Craig Silverstein [ctb] (Bundled gperftools library), Google Inc. [cph] (Bundled gperftools library)
Maintainer: Kirill Müller <krlmlr+r@mailbox.org>
Repository: CRAN
Date/Publication: 2020-09-11 09:50:06 UTC

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Package NanoStringNorm updated to version 1.2.1.1 with previous version 1.2.1 dated 2017-12-12

Title: Normalize NanoString miRNA and mRNA Data
Description: A set of tools for normalizing, diagnostics and visualization of NanoString nCounter data.
Author: Daryl M. Waggott
Maintainer: ORPHANED

Diff between NanoStringNorm versions 1.2.1 dated 2017-12-12 and 1.2.1.1 dated 2020-09-11

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New package miic with initial version 1.5.0
Package: miic
Title: Learning Causal or Non-Causal Graphical Models Using Information Theory
Version: 1.5.0
Authors@R: c(person(given = "Vincent", family = "Cabeli", role = c("aut", "cre"), email = "vincent.cabeli@curie.fr"), person(given = "Honghao", family = "Li", role = "aut", email = "honghao.li@curie.fr"), person(given = "Marcel", family = "Ribeiro Dantas", role = "aut", email = "marcel.ribeiro-dantas@curie.fr"), person(given = "Nadir", family = "Sella", role = "aut", email = "nadir.sella@curie.fr"), person(given = "Louis", family = "Verny", role = "aut"), person(given = "Severine", family = "Affeldt", role = "aut"), person(given = "Hervé", family = "Isambert", role = "aut", email = "Herve.Isambert@curie.fr"))
Description: We report an information-theoretic method which learns a large class of causal or non-causal graphical models from purely observational data, while including the effects of unobserved latent variables, commonly found in many datasets. Starting from a complete graph, the method iteratively removes dispensable edges, by uncovering significant information contributions from indirect paths, and assesses edge-specific confidences from randomization of available data. The remaining edges are then oriented based on the signature of causality in observational data. This approach can be applied on a wide range of datasets and provide new biological insights on regulatory networks from single cell expression data, genomic alterations during tumor development and co-evolving residues in protein structures. For more information you can refer to: Cabeli et al. PLoS Comp. Bio. 2020 <doi:10.1371/journal.pcbi.1007866>, Verny et al. PLoS Comp. Bio. 2017 <doi:10.1371/journal.pcbi.1005662>.
License: GPL (>= 2)
URL: https://github.com/miicTeam/miic_R_package
BugReports: https://github.com/miicTeam/miic_R_package/issues
Imports: ppcor, Rcpp, scales, stats,
Suggests: igraph, grDevices, ggplot2 (>= 3.3.0), gridExtra
LinkingTo: Rcpp
SystemRequirements: C++14
LazyData: true
Encoding: UTF-8
RoxygenNote: 7.1.1
NeedsCompilation: yes
Packaged: 2020-09-04 10:49:38 UTC; vcabeli
Author: Vincent Cabeli [aut, cre], Honghao Li [aut], Marcel Ribeiro Dantas [aut], Nadir Sella [aut], Louis Verny [aut], Severine Affeldt [aut], Hervé Isambert [aut]
Maintainer: Vincent Cabeli <vincent.cabeli@curie.fr>
Repository: CRAN
Date/Publication: 2020-09-11 09:40:02 UTC

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Package fmtr updated to version 1.1.0 with previous version 1.0.1 dated 2020-08-07

Title: Easily Apply Formats to Data
Description: Contains a set of functions that can be used to apply formats to data frames or vectors. The package aims to provide to R functionality similar to that of SAS® formats. Formats are assigned to the format attribute on data frame columns. Then when the fdata() function is called, a new data frame is created with the column data formatted as specified. The package also contains a value() function to create a user-defined format, similar to a SAS® user-defined format.
Author: David Bosak
Maintainer: David Bosak <dbosak01@gmail.com>

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New package FactorCopula with initial version 0.5
Package: FactorCopula
Version: 0.5
Date: 2020-08-30
Title: Factor Copula Models for Mixed Continuous and Discrete Data
Authors@R: c(person("Sayed H.", "Kadhem", role = c("aut","cre"), email = "s.kadhem@uea.ac.uk"), person("Aristidis K.", "Nikoloulopoulos", role = c("aut"), email = "a.nikoloulopoulos@uea.ac.uk"))
Author: Sayed H. Kadhem [aut, cre], Aristidis K. Nikoloulopoulos [aut]
Maintainer: Sayed H. Kadhem <s.kadhem@uea.ac.uk>
Depends: R (>= 3.5.0), statmod, abind, utils, polycor
Description: Estimation, model selection and goodness-of-fit of factor copula models for mixed continuous and discrete data in Kadhem and Nikoloulopoulos (2019) <arXiv:1907.07395>.
License: GPL (>= 2)
Packaged: 2020-09-04 11:19:42 UTC; aris
NeedsCompilation: yes
Repository: CRAN
Date/Publication: 2020-09-11 09:40:11 UTC

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New package bmotif with initial version 2.0.2
Package: bmotif
Title: Motif Analyses of Bipartite Networks
Version: 2.0.2
Date: 2020-09-04
Authors@R: c( person("Benno", "Simmons", email = "benno.simmons@gmail.com", role = c("aut", "cre")), person("Michelle", "Sweering", email = "michelle.sweering@gmail.com", role = c("aut")), person("Maybritt", "Schillinger", email = "maybritt.schillinger@gmail.com", role = c("aut")), person("Riccardo", "Di Clemente", email = "rdicle@mit.edu", role = c("aut")))
Description: Counts occurrences of motifs in bipartite networks, as well as the number of times each node or link appears in each unique position within motifs. Has support for both binary and weighted motifs: can calculate the mean weight of motifs and the standard deviation of their mean weights. Intended for use in ecology, but its methods are general and can be applied to any bipartite network. Full details are given in Simmons et al. (2019) <doi:10.1111/2041-210X.13149>.
Depends: R (>= 3.5.0)
License: MIT + file LICENSE
Encoding: UTF-8
LazyData: true
RoxygenNote: 7.1.1
Imports: tensor (>= 1.5), Rcpp (>= 0.12.18), reshape2 (>= 1.4.3), gtools (>= 3.8.1), stats (>= 3.5.0)
Suggests: testthat, knitr, rmarkdown
LinkingTo: Rcpp
VignetteBuilder: knitr
Language: en-GB
NeedsCompilation: yes
Packaged: 2020-09-04 10:20:35 UTC; bennosimmons
Author: Benno Simmons [aut, cre], Michelle Sweering [aut], Maybritt Schillinger [aut], Riccardo Di Clemente [aut]
Maintainer: Benno Simmons <benno.simmons@gmail.com>
Repository: CRAN
Date/Publication: 2020-09-11 09:40:06 UTC

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Package pSI (with last version 1.1) was removed from CRAN

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

2014-01-30 1.1
2014-01-10 1.0

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Package PairwiseD (with last version 0.9.62) was removed from CRAN

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

2017-05-15 0.9.62
2017-05-04 0.9.58

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Package lmms (with last version 1.3.3) was removed from CRAN

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

2016-03-06 1.3.3
2015-07-17 1.3
2014-11-20 1.2
2014-09-11 1.1
2014-06-06 1.0

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Package qbld updated to version 1.0.1 with previous version 1.0 dated 2020-09-10

Title: Quantile Regression for Binary Longitudinal Data
Description: Implements the Bayesian quantile regression model for binary longitudinal data (QBLD) developed in Rahman and Vossmeyer (2019) <DOI:10.1108/S0731-90532019000040B009>. The model handles both fixed and random effects and implements both a blocked and an unblocked Gibbs sampler for posterior inference.
Author: Ayush Agarwal [aut, cre], Dootika Vats [ctb]
Maintainer: Ayush Agarwal<ayush.agarwal50@gmail.com>

Diff between qbld versions 1.0 dated 2020-09-10 and 1.0.1 dated 2020-09-11

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New package NNbenchmark with initial version 3.1.6
Package: NNbenchmark
Title: Datasets and Functions to Benchmark Neural Network Packages
Description: Datasets and functions to benchmark (convergence, speed, ease of use) R packages dedicated to regression with neural networks (no classification in this version). The templates for the tested packages are available in the format of R, R Markdown and HTML files at <https://github.com/pkR-pkR/NNbenchmarkTemplates> and <https://akshajverma.com/NNbenchmarkWeb/index.html>.
Imports: R6, pkgload
Suggests: brnn, validann
Depends: R (>= 3.5.0)
Version: 3.1.6
Date: 2020-09-07
License: GPL-2
Maintainer: Patrice Kiener <rpackages@inmodelia.com>
Author: Patrice Kiener [aut, cre] (<https://orcid.org/0000-0002-0505-9920>), Christophe Dutang [aut] (<https://orcid.org/0000-0001-6732-1501>), Salsabila Mahdi [aut], Akshaj Verma [aut], Yifu Yan [ctb]
Authors@R: c( person("Patrice", "Kiener", role = c("aut", "cre"), email = "rpackages@inmodelia.com", comment = c(ORCID = "0000-0002-0505-9920")), person("Christophe", "Dutang", role = "aut", email = "christophe.dutang@ensimag.fr", comment = c(ORCID = "0000-0001-6732-1501")), person("Salsabila", "Mahdi", role = "aut", email = "bila.mahdi@mhs.unsyiah.ac.id"), person("Akshaj", "Verma", role = "aut", email = "akshajverma7@gmail.com"), person("Yifu", "Yan", role = "ctb", email = "yanyifu94@hotmail.com") )
Encoding: UTF-8
NeedsCompilation: no
LazyData: true
RoxygenNote: 7.1.1
Packaged: 2020-09-07 10:36:56 UTC; Patrice
Repository: CRAN
Date/Publication: 2020-09-11 08:10:13 UTC

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Package mpMap2 updated to version 1.0.4 with previous version 1.0.3 dated 2020-04-23

Title: Genetic Analysis of Multi-Parent Recombinant Inbred Lines
Description: Constructing linkage maps, reconstructing haplotypes, estimating linkage disequilibrium and quantitative trait loci (QTL) mapping in multi-parent Recombinant Inbred Lines designs.
Author: Rohan Shah [aut, cre], Emma Huang [aut], Matthew Morell [ctb], Alex Whan [ctb], Colin Cavanagh [ctb]
Maintainer: Rohan Shah <cran@bookshah.com>

Diff between mpMap2 versions 1.0.3 dated 2020-04-23 and 1.0.4 dated 2020-09-11

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New package ivitr with initial version 0.1.0
Package: ivitr
Type: Package
Title: Estimate IV-Optimal Individualized Treatment Rules
Version: 0.1.0
Author: Bo Zhang
Maintainer: Bo Zhang <bozhan@wharton.upenn.edu>
Description: A method that estimates an IV-optimal individualized treatment rule. An individualized treatment rule is said to be IV-optimal if it minimizes the maximum risk with respect to the putative IV and the set of IV identification assumptions. Please refer to <arXiv:2002.02579> for more details on the methodology and some theory underpinning the method. Function IV-PILE() uses functions in the package 'locClass'. Package 'locClass' can be accessed and installed from the 'R-Forge' repository via the following link: <https://r-forge.r-project.org/projects/locclass/>. Alternatively, one can install the package by entering the following in R: 'install.packages("locClass", repos="<http://R-Forge.R-project.org>")'.
License: GPL-3
Encoding: UTF-8
LazyData: true
RoxygenNote: 7.1.0
Depends: R (>= 2.10)
Suggests: locClass
Imports: stats, nnet, randomForest, dplyr, rlang
NeedsCompilation: no
Packaged: 2020-09-03 19:15:08 UTC; ASUS
Repository: CRAN
Date/Publication: 2020-09-11 08:40:03 UTC

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New package gconsensus with initial version 0.1.2
Package: gconsensus
Type: Package
Title: Consensus Value Constructor
Version: 0.1.2
Date: 2020-08-15
Author: Hugo Gasca-Aragon
Maintainer: Hugo Gasca-Aragon <hugo_gasca_aragon@hotmail.com>
Description: An implementation of the International Bureau of Weights and Measures (BIPM) generalized consensus estimators used to assign the reference value in a key comparison exercise. This can also be applied to any interlaboratory study. Given a set of different sources, primary laboratories or measurement methods this package provides an evaluation of the variance components according to the selected statistical method for consensus building. It also implements the comparison among different consensus builders and evaluates the participating method or sources against the consensus reference value. Based on a diverse set of references, Graybill-Deal (1959) <doi:10.2307/2527652>, DerSimonian-Laird (1986) <doi:10.1016/0197-2456(86)90046-2>, Vangel-Ruhkin (1999) <doi:10.1111/j.0006-341X.1999.00129.x>, for a complete list of references look at the reference section in the package documentation.
Depends: R (>= 3.4.0), graphics (>= 3.4.0), stats (>= 3.4.0), MASS (>= 7.0), utils (>= 3.4.4)
License: GPL (>= 3)
Encoding: UTF-8
NeedsCompilation: no
Packaged: 2020-09-02 02:38:54 UTC; hgasca
Repository: CRAN
Date/Publication: 2020-09-11 08:40:07 UTC

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Package ER updated to version 1.0.2 with previous version 1.0.0 dated 2020-08-17

Title: Effect + Residual Modelling
Description: Multivariate modeling of data after deflation of interfering effects (EF Mosleth et al. (2020) <doi:10.1016/B978-0-12-409547-2.14882-6>). The effects can be estimates from designed experiments, non-overlapping clusters or continuous effects.
Author: Kristian Hovde Liland [aut, cre], Ellen Færgestad Mosleth [ctb]
Maintainer: Kristian Hovde Liland <kristian.liland@nmbu.no>

Diff between ER versions 1.0.0 dated 2020-08-17 and 1.0.2 dated 2020-09-11

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Package gensvm updated to version 0.1.5 with previous version 0.1.4 dated 2020-09-07

Title: A Generalized Multiclass Support Vector Machine
Description: The GenSVM classifier is a generalized multiclass support vector machine (SVM). This classifier aims to find decision boundaries that separate the classes with as wide a margin as possible. In GenSVM, the loss function is very flexible in the way that misclassifications are penalized. This allows the user to tune the classifier to the dataset at hand and potentially obtain higher classification accuracy than alternative multiclass SVMs. Moreover, this flexibility means that GenSVM has a number of other multiclass SVMs as special cases. One of the other advantages of GenSVM is that it is trained in the primal space, allowing the use of warm starts during optimization. This means that for common tasks such as cross validation or repeated model fitting, GenSVM can be trained very quickly. Based on: G.J.J. van den Burg and P.J.F. Groenen (2018) <https://www.jmlr.org/papers/v17/14-526.html>.
Author: Gertjan van den Burg [aut, cre], Patrick Groenen [ctb]
Maintainer: Gertjan van den Burg <gertjanvandenburg@gmail.com>

Diff between gensvm versions 0.1.4 dated 2020-09-07 and 0.1.5 dated 2020-09-11

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Package Copula.surv updated to version 1.1 with previous version 1.0 dated 2018-12-03

Title: Association Analysis of Bivariate Survival Data Based on Copulas
Description: Perform association analysis of bivariate survival data based on copula models. Two different ways to estimate the association parameter in copula models are implemented. A goodness-of-fit test for a given copula model is implemented. See Emura, Lin and Wang (2010) <doi:10.1016/j.csda.2010.03.013> for details. A more general reference for the copula-based analysis of bivariate survival data is Emura, Matsui, and Rondeau (2019) <doi:10.1007/978-981-13-3516-7>.
Author: Takeshi Emura
Maintainer: Takeshi Emura <takeshiemura@gmail.com>

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Package nCal updated to version 2020.9-10 with previous version 2020.5-21 dated 2020-05-21

Title: Nonlinear Calibration
Description: Performs nonlinear calibration and curve fitting for data from Luminex, RT-PCR, ELISA, RPPA etc. Its precursor is Ruminex. This package is described in Fong et al. (2013) <DOI:10.1093/bioinformatics/btt456>.
Author: Youyi Fong <youyifong@gmail.com>, Krisztian Sebestyen <ksebestyen@gmail.com>, Xuesong Yu <xyu@scharp.org>
Maintainer: Youyi Fong <youyifong@gmail.com>

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Package tidyHeatmap updated to version 1.1.5 with previous version 1.1.4 dated 2020-08-07

Title: A Tidy Implementation of Heatmap
Description: This is a tidy implementation for heatmap. At the moment it is based on the (great) package 'ComplexHeatmap'. The goal of this package is to interface a tidy data frame with this powerful tool. Some of the advantages are: Row and/or columns colour annotations are easy to integrate just specifying one parameter (column names). Custom grouping of rows is easy to specify providing a grouped tbl. For example: df %>% group_by(...). Labels size adjusted by row and column total number. Default use of Brewer and Viridis palettes.
Author: Stefano Mangiola [aut, cre], Anthony Papenfuss [ctb]
Maintainer: Stefano Mangiola <mangiolastefano@gmail.com>

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Package nptest updated to version 1.0-1 with previous version 1.0-0 dated 2019-04-23

Title: Nonparametric Tests via Permutations
Description: Robust permutation tests for location, correlation, and regression problems, as described in Helwig (2019a) <doi:10.1002/wics.1457> and Helwig (2019b) <doi:10.1016/j.neuroimage.2019.116030>. Univariate and multivariate tests are supported. For each problem, exact tests and Monte Carlo approximations are available. Parallel computing is implemented via the 'parallel' package.
Author: Nathaniel E. Helwig <helwig@umn.edu>
Maintainer: Nathaniel E. Helwig <helwig@umn.edu>

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Package gpindex updated to version 0.2.0 with previous version 0.1.2 dated 2020-07-25

Title: Generalized Price and Quantity Indexes
Description: A small package for calculating lots of different price indexes, and by extension quantity indexes. Provides tools to build and work with any type of generalized bilateral index (of which most price indexes are), along with a few important indexes that don't belong to the generalized family. Implements and extends many of the methods in Balk (2008, ISBN:978-1-107-40496-0) and ILO, IMF, OECD, Eurostat, UN, and World Bank (2004, ISBN:92-2-113699-X) for bilateral price indexes.
Author: Steve Martin [aut, cre, cph]
Maintainer: Steve Martin <stevemartin041@gmail.com>

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Package eurlex updated to version 0.3.1 with previous version 0.2.1 dated 2020-08-19

Title: Retrieve Data on European Union Law
Description: Access to data on European Union laws and court decisions made easy with pre-defined 'SPARQL' queries and 'GET' requests.
Author: Michal Ovadek [aut, cre, cph] (<https://orcid.org/0000-0002-2552-2580>)
Maintainer: Michal Ovadek <michal.ovadek@gmail.com>

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