Tue, 06 Jul 2021

Package RcppEnsmallen updated to version 0.2.17.0.1 with previous version 0.2.16.1.1 dated 2021-03-05

Title: Header-Only C++ Mathematical Optimization Library for 'Armadillo'
Description: 'Ensmallen' is a templated C++ mathematical optimization library (by the 'MLPACK' team) that provides a simple set of abstractions for writing an objective function to optimize. Provided within are various standard and cutting-edge optimizers that include full-batch gradient descent techniques, small-batch techniques, gradient-free optimizers, and constrained optimization. The 'RcppEnsmallen' package includes the header files from the 'Ensmallen' library and pairs the appropriate header files from 'armadillo' through the 'RcppArmadillo' package. Therefore, users do not need to install 'Ensmallen' nor 'Armadillo' to use 'RcppEnsmallen'. Note that 'Ensmallen' is licensed under 3-Clause BSD, 'Armadillo' starting from 7.800.0 is licensed under Apache License 2, 'RcppArmadillo' (the 'Rcpp' bindings/bridge to 'Armadillo') is licensed under the GNU GPL version 2 or later. Thus, 'RcppEnsmallen' is also licensed under similar terms. Note that 'Ensmallen' requires a compiler that supports 'C++11' and 'Armadillo' 8.400 or later.
Author: James Joseph Balamuta [aut, cre, cph] (<https://orcid.org/0000-0003-2826-8458>), Dirk Eddelbuettel [aut, cph] (<https://orcid.org/0000-0001-6419-907X>)
Maintainer: James Joseph Balamuta <balamut2@illinois.edu>

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Package EPX updated to version 1.0.4 with previous version 1.0.3 dated 2020-09-20

Title: Ensemble of Phalanxes
Description: An ensemble method for the statistical detection of a rare class in two-class classification problems. The method uses an ensemble of classifiers where the constituent models of the ensemble use disjoint subsets (phalanxes) of explanatory variables. We provide an implementation of the phalanx-formation algorithm. Please see Tomal et al. (2015) <doi:10.1214/14-AOAS778>, Tomal et al. (2016) <doi:10.1021/acs.jcim.5b00663>, and Tomal et al. (2019) <arXiv:1706.06971> for more details.
Author: Jabed Tomal [aut, cre], Grace Hsu [aut], William Welch [aut], Marcia Wang [ctb]
Maintainer: Jabed Tomal <jtomal@tru.ca>

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Package drughelper updated to version 0.2.0 with previous version 0.1.0 dated 2021-06-17

Title: Drug Identification and Drug Name Correction with Automatic Updates
Description: Contains a function which identifies and corrects the names of a set of drugs between clinical phases 1-4 with a periodically actualized drug database.
Author: Fernando Carazo [aut, cre], Javier Garcia [aut], Tecnun [cph]
Maintainer: Fernando Carazo <fcarazo@tecnun.es>

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Package autostsm updated to version 1.5 with previous version 1.4 dated 2021-06-09

Title: Automatic Structural Time Series Models
Description: Automatic model selection for structural time series decomposition into trend, cycle, and seasonal components using the Kalman filter. Koopman, Siem Jan and Marius Ooms (2012) "Forecasting Economic Time Series Using Unobserved Components Time Series Models" <doi:10.1093/oxfordhb/9780195398649.013.0006>. Kim, Chang-Jin and Charles R. Nelson (1999) "State-Space Models with Regime Switching: Classical and Gibbs-Sampling Approaches with Applications" <doi:10.7551/mitpress/6444.001.0001><http://econ.korea.ac.kr/~cjkim/>.
Author: Alex Hubbard
Maintainer: Alex Hubbard <hubbard.alex@gmail.com>

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Package opentimsr updated to version 1.0.7 with previous version 1.0.5 dated 2021-03-10

Title: An Open-Source Loader for Bruker's timsTOF Data Files
Description: A free, open-source package designed for handling .tdf data files produced by Bruker's 'timsTOF' mass spectrometers. Fast, free, crossplatform, with no reading through EULAs or messing with binary .dll files involved.
Author: Michał Piotr Startek [aut, cre, cph] (<https://orcid.org/0000-0001-5227-3447>), Mateusz Krzysztof Łącki [aut, cph] (<https://orcid.org/0000-0001-7415-4748>)
Maintainer: Michał Piotr Startek <michal.startek@mimuw.edu.pl>

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Package MultivariateAnalysis updated to version 0.1.1 with previous version 0.1.0 dated 2021-06-28

Title: Pacote Para Analise Multivariada
Description: Package with multivariate analysis methodologies for experiment evaluation. The package estimates dissimilarity measures, builds dendrograms, obtains MANOVA, principal components, canonical variables, etc. (Pacote com metodologias de analise multivariada para avaliação de experimentos. O pacote estima medidas de dissimilaridade, construi de dendogramas, obtem a MANOVA, componentes principais, variáveis canônicas, etc.)
Author: Alcinei Mistico Azevedo [aut, cre] (<https://orcid.org/0000-0001-5196-0851>)
Maintainer: Alcinei Mistico Azevedo <alcineimistico@hotmail.com>

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Package LogicReg updated to version 1.6.4 with previous version 1.6.2 dated 2019-12-07

Title: Logic Regression
Description: Routines for fitting Logic Regression models. Logic Regression is described in Ruczinski, Kooperberg, and LeBlanc (2003) <DOI:10.1198/1061860032238>. Monte Carlo Logic Regression is described in and Kooperberg and Ruczinski (2005) <DOI:10.1002/gepi.20042>.
Author: Charles Kooperberg <clk@fredhutch.org> and Ingo Ruczinski <ingo@jhu.edu>
Maintainer: Charles Kooperberg <clk@fredhutch.org>

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Package ttdo updated to version 0.0.7 with previous version 0.0.6 dated 2020-07-28

Title: Extend 'tinytest' with 'diffobj'
Description: The 'tinytest' package offers a light-weight zero-dependency unit-testing framework to which this package adds support of the 'diffobj' package for 'diff'-style comparison of R objects.
Author: Dirk Eddelbuettel and Alton Barbehenn
Maintainer: Dirk Eddelbuettel <edd@debian.org>

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Package grf updated to version 2.0.1 with previous version 2.0.0 dated 2021-06-22

Title: Generalized Random Forests
Description: A pluggable package for forest-based statistical estimation and inference. GRF currently provides methods for non-parametric least-squares regression, quantile regression, survival regression and treatment effect estimation (optionally using instrumental variables), with support for missing values.
Author: Julie Tibshirani [aut, cre], Susan Athey [aut], Rina Friedberg [ctb], Vitor Hadad [ctb], David Hirshberg [ctb], Luke Miner [ctb], Erik Sverdrup [aut], Stefan Wager [aut], Marvin Wright [ctb]
Maintainer: Julie Tibshirani <jtibs@cs.stanford.edu>

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Package tinytest updated to version 1.3.1 with previous version 1.2.4 dated 2020-12-17

Title: Lightweight and Feature Complete Unit Testing Framework
Description: Provides a lightweight (zero-dependency) and easy to use unit testing framework. Main features: install tests with the package. Test results are treated as data that can be stored and manipulated. Test files are R scripts interspersed with test commands, that can be programmed over. Fully automated build-install-test sequence for packages. Skip tests when not run locally (e.g. on CRAN). Flexible and configurable output printing. Compare computed output with output stored with the package. Run tests in parallel. Extensible by other packages. Report side effects.
Author: Mark van der Loo [aut, cre] (<https://orcid.org/0000-0002-9807-4686>)
Maintainer: Mark van der Loo <mark.vanderloo@gmail.com>

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Package sptotal updated to version 1.0.0 with previous version 0.1.0 dated 2020-07-01

Title: Predicting Totals and Weighted Sums from Spatial Data
Description: Performs predictions of totals and weighted sums, or finite population block kriging, on spatial data using the methods in Ver Hoef (2008) <doi:10.1007/s10651-007-0035-y>. The primary outputs are an estimate of the total, mean, or weighted sum in the region, an estimated prediction variance, and a plot of the predicted and observed values. This is useful primarily to users with ecological data that are counts or densities measured on some sites in a finite area of interest. Spatial prediction for the total count or average density in the entire region can then be done using the functions in this package.
Author: Higham Matt [cre, aut], Ver Hoef Jay [aut], Frank Bryce [aut], Michael Dumelle [aut] (<https://orcid.org/0000-0002-3393-5529>)
Maintainer: Higham Matt <mhigham@stlawu.edu>

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Package pcoxtime updated to version 1.0.2 with previous version 1.0.1 dated 2021-03-28

Title: Penalized Cox Proportional Hazard Model for Time-Dependent Covariates
Description: Fits penalized models for both time-independent and time-dependent survival data. It fully implements elastic net and uses proximal gradient descent to solve the optimization problem. The package is an implementation of Steve Cygu and Benjamin M. Bolker. (2021) <arXiv:2102.02297>.
Author: Bicko Cygu [aut, cre] (<https://orcid.org/0000-0002-9284-8863>), Ben Bolker [aut] (<https://orcid.org/0000-0002-2127-0443>)
Maintainer: Bicko Cygu <cygubicko@gmail.com>

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Package logger updated to version 0.2.1 with previous version 0.2.0 dated 2021-03-04

Title: A Lightweight, Modern and Flexible Logging Utility
Description: Inspired by the the 'futile.logger' R package and 'logging' Python module, this utility provides a flexible and extensible way of formatting and delivering log messages with low overhead.
Author: Gergely Daróczi [aut, cre] (<https://orcid.org/0000-0003-3149-8537>), System1 [fnd]
Maintainer: Gergely Daróczi <daroczig@rapporter.net>

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Package biogrowth updated to version 0.2.2 with previous version 0.2.1 dated 2021-06-22

Title: Modelling of Population Growth
Description: Modelling of population growth under static and dynamic environmental conditions. Includes functions for model fitting and making prediction under isothermal and dynamic conditions. The methods (algorithms & models) are based on predictive microbiology (See Perez-Rodriguez and Valero (2012, ISBN:978-1-4614-5519-6)).
Author: Alberto Garre [aut, cre] (<https://orcid.org/0000-0002-4404-3550>), Jeroen Koomen [aut], Heidy den Besten [aut], Marcel Zwietering [aut]
Maintainer: Alberto Garre <garre.alberto@gmail.com>

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Package NanoStringNorm (with last version 1.2.1.1) was removed from CRAN

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

2020-09-11 1.2.1.1
2017-12-12 1.2.1
2017-11-10 1.2.0
2015-11-18 1.1.21
2015-03-20 1.1.19
2014-01-17 1.1.17
2013-09-24 1.1.16
2013-04-04 1.1.14
2013-01-21 1.1.13
2013-01-08 1.1.12

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Package tidycomm updated to version 0.2.1 with previous version 0.1.0 dated 2019-09-22

Title: Data Modification and Analysis for Communication Research
Description: Provides convenience functions for common data modification and analysis tasks in communication research. This includes functions for univariate and bivariate data analysis, index generation and reliability computation, and intercoder reliability tests. All functions follow the style and syntax of the tidyverse, and are construed to perform their computations on multiple variables at once. Functions for univariate and bivariate data analysis comprise summary statistics for continuous and categorical variables, as well as several tests of bivariate association including effect sizes. Functions for data modification comprise index generation and automated reliability analysis of index variables. Functions for intercoder reliability comprise tests of several intercoder reliability estimates, including simple and mean pairwise percent agreement, Krippendorff's Alpha (Krippendorff 2004, ISBN: 9780761915454), and various Kappa coefficients (Brennan & Prediger 1981 <doi: 10.1177/001316448104100307>; Cohen 1960 <doi: 10.1177/001316446002000104>; Fleiss 1971 <doi: 10.1037/h0031619>).
Author: Julian Unkel [aut, cre] (<https://orcid.org/0000-0001-9568-7041>)
Maintainer: Julian Unkel <julian.unkel@gmail.com>

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Package Surrogate updated to version 1.9 with previous version 1.8 dated 2020-12-13

Title: Evaluation of Surrogate Endpoints in Clinical Trials
Description: In a clinical trial, it frequently occurs that the most credible outcome to evaluate the effectiveness of a new therapy (the true endpoint) is difficult to measure. In such a situation, it can be an effective strategy to replace the true endpoint by a (bio)marker that is easier to measure and that allows for a prediction of the treatment effect on the true endpoint (a surrogate endpoint). The package 'Surrogate' allows for an evaluation of the appropriateness of a candidate surrogate endpoint based on the meta-analytic, information-theoretic, and causal-inference frameworks. Part of this software has been developed using funding provided from the European Union's Seventh Framework Programme for research, technological development and demonstration under Grant Agreement no 602552.
Author: Wim Van der Elst, Paul Meyvisch, Alvaro Florez Poveda, Ariel Alonso, Hannah M. Ensor, Christopher J. Weir & Geert Molenberghs
Maintainer: Wim Van der Elst <Wim.vanderelst@gmail.com>

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Package SpATS updated to version 1.0-15 with previous version 1.0-14 dated 2021-05-24

Title: Spatial Analysis of Field Trials with Splines
Description: Analysis of field trial experiments by modelling spatial trends using two-dimensional Penalised spline (P-spline) models.
Author: Maria Xose Rodriguez-Alvarez [aut, cre], Martin Boer [aut], Paul Eilers [aut], Fred van Eeuwijk [ctb]
Maintainer: Maria Xose Rodriguez-Alvarez <mxrodriguez@bcamath.org>

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Package npwbs updated to version 0.2.0 with previous version 0.1.0 dated 2021-07-02

Title: Nonparametric Multiple Change Point Detection Using WBS
Description: Implements the procedure from G. J. Ross (2021) - "Nonparametric Detection of Multiple Location-Scale Change Points via Wild Binary Segmentation" <arxiv:2107.01742>. This uses a version of Wild Binary Segmentation to detect multiple location-scale (i.e. mean and/or variance) change points in a sequence of univariate observations, with a strict control on the probability of incorrectly detecting a change point in a sequence which does not contain any.
Author: Gordon J. Ross
Maintainer: Gordon J. Ross <gordon.ross@ed.ac.uk>

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Package mlma updated to version 6.1-1 with previous version 6.0-1 dated 2021-01-04

Title: Multilevel Mediation Analysis
Description: Do multilevel mediation analysis with generalized additive multilevel models. The analysis method is described in Yu and Li (2020), "Third-Variable Effect Analysis with Multilevel Additive Models", PLoS ONE 15(10): e0241072.
Author: Qingzhao Yu, Bin Li
Maintainer: Qingzhao Yu <qyu@lsuhsc.edu>

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Package jfa updated to version 0.5.6 with previous version 0.5.5 dated 2021-07-01

Title: Bayesian and Classical Audit Sampling
Description: Implements the audit sampling workflow as discussed in Derks et al. (2019) <doi:10.31234/osf.io/9f6ub>. The package makes it easy for an auditor to plan a statistical sample, select the sample from the population, and evaluate the sample using various methods according to the International Standards on Auditing. Furthermore, the package implements Bayesian equivalents of these methods.
Author: Koen Derks [aut, cre] (<https://orcid.org/0000-0002-5533-9349>)
Maintainer: Koen Derks <k.derks@nyenrode.nl>

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Package eatTools updated to version 0.6.0 with previous version 0.5.0 dated 2021-02-09

Title: Miscellaneous Functions for the Analysis of Educational Assessments
Description: Miscellaneous functions for data cleaning and data analysis of educational assessments. Includes functions for descriptive analyses, character vector manipulations and weighted statistics. Mainly a lightweight dependency for the packages 'eatRep', 'eatGADS', 'eatPrep' and 'eatModel' (which will be subsequently submitted to 'CRAN'). The function for defining (weighted) contrasts in weighted effect coding refers to te Grotenhuis et al. (2017) <doi:10.1007/s00038-016-0901-1>. Functions for weighted statistics refer to Wolter (2007) <doi:10.1007/978-0-387-35099-8>.
Author: Sebastian Weirich [aut, cre], Martin Hecht [aut], Karoline Sachse [aut], Benjamin Becker [aut], Nicole Mahler [aut]
Maintainer: Sebastian Weirich <sebastian.weirich@iqb.hu-berlin.de>

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Package eatATA updated to version 1.0.0 with previous version 0.11.2 dated 2021-05-02

Title: Create Constraints for Small Test Assembly Problems
Description: Provides simple functions to create constraints for small test assembly problems (e.g. van der Linden (2005, ISBN: 978-0-387-29054-6)) using sparse matrices. Currently, 'GLPK', 'lpSolve', 'Symphony', and 'Gurobi' are supported as solvers. The 'gurobi' package is not available from any mainstream repository; see <https://www.gurobi.com/downloads/>.
Author: Benjamin Becker [aut, cre], Dries Debeer [aut]
Maintainer: Benjamin Becker <b.becker@iqb.hu-berlin.de>

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Package DecomposeR updated to version 1.0.4 with previous version 1.0.3 dated 2020-11-03

Title: Empirical Mode Decomposition for Cyclostratigraphy
Description: Tools to apply Ensemble Empirical Mode Decomposition (EEMD) for cyclostratigraphy purposes. Mainly: a new algorithm, extricate, that performs EEMD in seconds, a linear interpolation algorithm using the greatest rational common divisor of depth or time, different algorithms to compute instantaneous amplitude, frequency and ratios of frequencies, and functions to verify and visualise the outputs. The functions were developed during the CRASH project (Checking the Reproducibility of Astrochronology in the Hauterivian). When using for publication please cite Wouters, S., Da Silva, A.C. Crucifix, M., Sinnesael, M., Zivanovic, M., Boulvain, F., Devleeschouwer, X., 2019, "Litholog generation with the 'StratigrapheR' package and signal decomposition for cyclostratigraphic purposes". Geophysical Research Abstracts Vol. 21, EGU2019-5520, 2019, EGU General Assembly 2019. <http://hdl.handle.net/2268/234402>.
Author: Sebastien Wouters [aut, cre]
Maintainer: Sebastien Wouters <sebastien.wouters@doct.uliege.be>

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Package blindrecalc updated to version 0.1.3 with previous version 0.1.2 dated 2020-05-11

Title: Blinded Sample Size Recalculation
Description: Computation of key characteristics and plots for blinded sample size recalculation. Continuous as well as binary endpoints are supported in superiority and non-inferiority trials. The implemented methods include the approaches by Lu, K. (2019) <doi:10.1002/pst.1737>, Kieser, M. and Friede, T. (2000) <doi:10.1002/(SICI)1097-0258(20000415)19:7%3C901::AID-SIM405%3E3.0.CO;2-L>, Friede, T. and Kieser, M. (2004) <doi:10.1002/pst.140>, Friede, T., Mitchell, C., Mueller-Veltern, G. (2007) <doi:10.1002/bimj.200610373>, and Friede, T. and Kieser, M. (2011) <doi:10.3414/ME09-01-0063>.
Author: Lukas Baumann [aut, cre] (<https://orcid.org/0000-0001-7931-7470>), Maximilian Pilz [aut] (<https://orcid.org/0000-0002-9685-1613>), Institute of Medical Biometry and Informatics - University of Heidelberg [cph]
Maintainer: Lukas Baumann <baumann@imbi.uni-heidelberg.de>

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 man/Student.Rd                                   |  165 ++---
 man/adjusted_alpha.ChiSquare.Rd                  |  140 ++--
 man/adjusted_alpha.FarringtonManning.Rd          |  134 ++--
 man/adjusted_alpha.Rd                            |   80 +-
 man/adjusted_alpha.Student.Rd                    |   98 +--
 man/n_dist.ChiSquare.Rd                          |  122 +--
 man/n_dist.FarringtonManning.Rd                  |  118 +--
 man/n_dist.Rd                                    |   93 +-
 man/n_dist.Student.Rd                            |  135 ++--
 man/n_fix.ChiSquare.Rd                           |   88 +-
 man/n_fix.FarringtonManning.Rd                   |   72 +-
 man/n_fix.Rd                                     |   70 +-
 man/n_fix.Student.Rd                             |   64 +-
 man/pow.ChiSquare.Rd                             |  104 +--
 man/pow.FarringtonManning.Rd                     |  100 +--
 man/pow.Rd                                       |   84 +-
 man/pow.Student.Rd                               |  112 +--
 man/simulation.Rd                                |  132 ++--
 man/toer.ChiSquare.Rd                            |  104 +--
 man/toer.FarringtonManning.Rd                    |  100 +--
 man/toer.Rd                                      |   82 +-
 man/toer.Student.Rd                              |  114 +--
 tests/testthat.R                                 |    8 
 tests/testthat/Rplots.pdf                        |binary
 tests/testthat/test_chisquare_adjalpha.R         |  102 +--
 tests/testthat/test_chisquare_ndist.R            |   82 +-
 tests/testthat/test_chisquare_nfix.R             |   70 +-
 tests/testthat/test_chisquare_pow.R              |  241 ++++---
 tests/testthat/test_chisquare_toer.R             |  136 ++--
 tests/testthat/test_farringtonmanning_adjalpha.R |   84 +-
 tests/testthat/test_farringtonmanning_ndist.R    |   96 +--
 tests/testthat/test_farringtonmanning_nfix.R     |   90 +-
 tests/testthat/test_farringtonmanning_pow.R      |  241 ++++---
 tests/testthat/test_farringtonmanning_toer.R     |  146 ++--
 tests/testthat/test_restricted_ml.R              |   22 
 tests/testthat/test_t_test.R                     |  365 +++++++----
 tests/testthat/test_t_test_vectorization.R       |  122 +--
 53 files changed, 4145 insertions(+), 3650 deletions(-)

More information about blindrecalc at CRAN
Permanent link

Package landscapemetrics updated to version 1.5.3 with previous version 1.5.2 dated 2021-02-04

Title: Landscape Metrics for Categorical Map Patterns
Description: Calculates landscape metrics for categorical landscape patterns in a tidy workflow. 'landscapemetrics' reimplements the most common metrics from 'FRAGSTATS' (<https://www.umass.edu/landeco/research/fragstats/fragstats.html>) and new ones from the current literature on landscape metrics. This package supports 'raster' spatial objects and takes RasterLayer, RasterStacks, RasterBricks or lists of RasterLayer from the 'raster' package as input arguments. It further provides utility functions to visualize patches, select metrics and building blocks to develop new metrics.
Author: Maximillian H.K. Hesselbarth [aut, cre] (<https://orcid.org/0000-0003-1125-9918>), Marco Sciaini [aut] (<https://orcid.org/0000-0002-3042-5435>), Jakub Nowosad [aut] (<https://orcid.org/0000-0002-1057-3721>), Sebastian Hanss [aut] (<https://orcid.org/0000-0002-3990-4897>), Laura J. Graham [ctb] (Input on package structure), Jeffrey Hollister [ctb] (Input on package structure), Kimberly A. With [ctb] (Input on package structure), Florian Privé [ctb] (Original author of underlying C++ code for get_nearestneighbour() function), Project Nayuki [ctb] (Original author of underlying C++ code for get_circumscribingcircle and lsm_p_circle), Matt Strimas-Mackey [ctb] (Bugfix in sample_metrics())
Maintainer: Maximillian H.K. Hesselbarth <mhk.hesselbarth@gmail.com>

Diff between landscapemetrics versions 1.5.2 dated 2021-02-04 and 1.5.3 dated 2021-07-06

 DESCRIPTION                                       |   12 -
 MD5                                               |  180 +++++++--------
 NAMESPACE                                         |  121 ----------
 NEWS.md                                           |   11 
 R/calculate_lsm.R                                 |  264 ----------------------
 R/check_landscape.R                               |   72 ------
 R/extract_lsm.R                                   |  198 ----------------
 R/get_adjacencies.R                               |   95 -------
 R/get_boundaries.R                                |  169 +-------------
 R/get_centroids.R                                 |  133 -----------
 R/get_circumscribingcircle.R                      |  111 ---------
 R/get_nearestneighbour.R                          |   75 ------
 R/get_patches.R                                   |  221 ++----------------
 R/get_unique_values.R                             |  215 +----------------
 R/landscape_as_list.R                             |   77 +++++-
 R/lsm_c_clumpy.R                                  |    5 
 R/lsm_c_lsi.R                                     |    6 
 R/lsm_c_nlsi.R                                    |    6 
 R/lsm_c_np.R                                      |    9 
 R/lsm_c_pladj.R                                   |    6 
 R/lsm_c_te.R                                      |   21 -
 R/lsm_l_contag.R                                  |    2 
 R/lsm_l_lsi.R                                     |    6 
 R/lsm_l_mesh.R                                    |    2 
 R/lsm_l_msiei.R                                   |    2 
 R/lsm_l_np.R                                      |    3 
 R/lsm_l_pladj.R                                   |    8 
 R/lsm_l_pr.R                                      |    2 
 R/lsm_l_te.R                                      |    8 
 R/lsm_p_area.R                                    |    9 
 R/lsm_p_circle.R                                  |    9 
 R/lsm_p_contig.R                                  |    9 
 R/lsm_p_core.R                                    |    9 
 R/lsm_p_enn.R                                     |    7 
 R/lsm_p_gyrate.R                                  |    7 
 R/lsm_p_ncore.R                                   |   16 -
 R/lsm_p_perim.R                                   |   17 -
 R/pad_raster.R                                    |  223 ++----------------
 R/raster_to_points.R                              |   76 ------
 R/sample_lsm.R                                    |  194 ----------------
 R/scale_sample.R                                  |  197 ----------------
 R/scale_window.R                                  |  181 ---------------
 R/show_cores.R                                    |  144 ++----------
 R/show_lsm.R                                      |  157 +------------
 R/show_patches.R                                  |  107 +-------
 R/spatialize_lsm.R                                |  160 -------------
 R/sysdata.rda                                     |only
 R/unpad_raster.R                                  |  193 ++--------------
 R/window_lsm.R                                    |  151 ------------
 build/vignette.rds                                |binary
 data/lsm_abbreviations_names.rda                  |binary
 inst/doc/getstarted.html                          |   18 +
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 man/get_centroids.Rd                              |   41 ---
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 man/get_nearestneighbour.Rd                       |   19 -
 man/get_patches.Rd                                |   50 ----
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 man/sample_lsm.Rd                                 |   70 -----
 man/scale_sample.Rd                               |   53 ----
 man/scale_window.Rd                               |   60 -----
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 man/show_lsm.Rd                                   |   70 -----
 man/show_patches.Rd                               |   45 ---
 man/spatialize_lsm.Rd                             |   70 -----
 man/unpad_raster.Rd                               |   45 ---
 man/window_lsm.Rd                                 |   57 ----
 tests/testthat.R                                  |    1 
 tests/testthat/helper-landscapes.R                |    2 
 tests/testthat/test-calculate-lsm.R               |    3 
 tests/testthat/test-get-boundaries.R              |   11 
 tests/testthat/test-get-centroids.R               |    2 
 tests/testthat/test-get-nearestneighbour.R        |    5 
 tests/testthat/test-get-patches.R                 |   13 -
 tests/testthat/test-get-unique-values.R           |   30 +-
 tests/testthat/test-landscape_as_list.R           |   18 -
 tests/testthat/test-options-landscapemetrics.R    |    2 
 tests/testthat/test-pad-raster.R                  |   33 +-
 tests/testthat/test-rcpp-get-coocurrence-matrix.R |   22 -
 tests/testthat/test-rcpp-get-entropy.R            |    6 
 tests/testthat/test-rcpp_ccl.R                    |    8 
 tests/testthat/test-show-cores.R                  |   29 +-
 tests/testthat/test-show-lsm.R                    |   10 
 tests/testthat/test-show-patches.R                |   12 -
 tests/testthat/test-unpad-raster.R                |   70 +++--
 92 files changed, 687 insertions(+), 4552 deletions(-)

More information about landscapemetrics at CRAN
Permanent link

Package nnTensor updated to version 1.1.2 with previous version 1.1.0 dated 2021-06-24

Title: Non-Negative Tensor Decomposition
Description: Some functions for performing non-negative matrix factorization, non-negative CANDECOMP/PARAFAC (CP) decomposition, non-negative Tucker decomposition, and generating toy model data. See Andrzej Cichock et al (2009) <doi:10.1002/9780470747278> and the reference section of GitHub README.md <https://github.com/rikenbit/nnTensor>, for details of the methods.
Author: Koki Tsuyuzaki [aut, cre], Manabu Ishii [aut], Itoshi Nikaido [aut]
Maintainer: Koki Tsuyuzaki <k.t.the-answer@hotmail.co.jp>

Diff between nnTensor versions 1.1.0 dated 2021-06-24 and 1.1.2 dated 2021-07-06

 DESCRIPTION                              |    8 +-
 MD5                                      |   30 ++++----
 R/NMF.R                                  |  106 +++++++++++--------------------
 R/NTD.R                                  |   72 ++++++++-------------
 R/NTF.R                                  |   57 +++++-----------
 R/jNMF.R                                 |   61 +++++++----------
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 build/partial.rdb                        |binary
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 man/jNMF.Rd                              |    6 +
 man/siNMF.Rd                             |    5 +
 tests/testthat.R                         |   53 +++++++--------
 tests/testthat/test_NMF_rankestimation.R |   53 +++++++++------
 16 files changed, 244 insertions(+), 286 deletions(-)

More information about nnTensor at CRAN
Permanent link

Package kStatistics updated to version 2.1 with previous version 2.0 dated 2020-07-24

Title: Unbiased Estimators for Cumulant Products and Faa Di Bruno's Formula
Description: Tools for estimate (joint) cumulants and (joint) products of cumulants of a random sample using (multivariate) k-statistics and (multivariate) polykays, unbiased estimators with minimum variance. Tools for generating univariate and multivariate Faa di Bruno's formula and related polynomials, such as Bell polynomials, generalized complete Bell polynomials, partition polynomials and generalized partition polynomials. For more details see Di Nardo E., Guarino G., Senato D. (2009) <arXiv:0807.5008>, <arXiv:1012.6008>.
Author: Elvira Di Nardo <elvira.dinardo@unito.it>, Giuseppe Guarino <giuseppe.guarino@rete.basilicata.it>
Maintainer: Giuseppe Guarino <giuseppe.guarino@rete.basilicata.it>

Diff between kStatistics versions 2.0 dated 2020-07-24 and 2.1 dated 2021-07-06

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 kStatistics-2.1/kStatistics/R/nPM.R                    |   27 ++
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 72 files changed, 1072 insertions(+), 774 deletions(-)

More information about kStatistics at CRAN
Permanent link

Package adepro updated to version 3.2.0 with previous version 3.1.0 dated 2021-06-29

Title: A 'shiny' Application for the (Audio-)Visualization of Adverse Event Profiles
Description: Contains a 'shiny' application called AdEPro (Animation of Adverse Event Profiles) which (audio-)visualizes adverse events occurring in clinical trials. As this data is usually considered sensitive, this tool is provided as a stand-alone application that can be launched from any local machine on which the data is stored.
Author: Nicole Mentenich, Bastian Becker, Christoph Tasto, Steffen Jeske
Maintainer: Nicole Mentenich <nicole.mentenich@bayer.com>

Diff between adepro versions 3.1.0 dated 2021-06-29 and 3.2.0 dated 2021-07-06

 DESCRIPTION               |    8 ++++----
 MD5                       |    8 ++++----
 R/order_patient.R         |    2 +-
 inst/doc/adepro.html      |    4 ++--
 tests/testthat/Rplots.pdf |binary
 5 files changed, 11 insertions(+), 11 deletions(-)

More information about adepro at CRAN
Permanent link

Package wpa updated to version 1.6.0 with previous version 1.5.0 dated 2021-05-11

Title: Tools for Analysing and Visualising Workplace Analytics Data
Description: Opinionated functions that enable easier and faster analysis of Workplace Analytics data. There are three main types of functions in 'wpa': (i) Standard functions create a 'ggplot' visual or a summary table based on a specific Workplace Analytics metric; (2) Report Generation functions generate HTML reports on a specific analysis area, e.g. Collaboration; (3) Other miscellaneous functions cover more specific applications (e.g. Subject Line text mining) of Workplace Analytics data. This package adheres to 'tidyverse' principles and works well with the pipe syntax. 'wpa' is built with the beginner-to-intermediate R users in mind, and is optimised for simplicity.
Author: Martin Chan [aut, cre], Carlos Morales [aut], Mark Powers [ctb], Ainize Cidoncha [ctb], Rosamary Ochoa Vargas [ctb], Tannaz Sattari [ctb], Lucas Hogner [ctb], Jasminder Thind [ctb], Simone Liebal [ctb], Aleksey Ashikhmin [ctb], Ellen Trinklein [ctb], Microsoft Corporation [cph]
Maintainer: Martin Chan <martin.chan@microsoft.com>

Diff between wpa versions 1.5.0 dated 2021-05-11 and 1.6.0 dated 2021-07-06

 DESCRIPTION                      |   11 +
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 111 files changed, 736 insertions(+), 277 deletions(-)

More information about wpa at CRAN
Permanent link

New package spreval with initial version 1.0.0
Package: spreval
Title: Evaluation of Sprinkler Irrigation Uniformity and Efficiency
Version: 1.0.0
Authors@R: person(given="Garry", family="Grabow", email="glgrabow@ncsu.edu", role=c("aut", "cre", "cph"),comment=c(ORCID= "0000-0002-9616-2615"))
Maintainer: Garry Grabow <glgrabow@ncsu.edu>
Description: Processing and analysis of field collected or simulated sprinkler system catch data (depths) to characterize irrigation uniformity and efficiency using standard and other measures. Standard measures include the Christiansen coefficient of uniformity (CU) as found in Christiansen, J.E.(1942, ISBN:0138779295, "Irrigation by Sprinkling"); and distribution uniformity (DU), potential efficiency of the low quarter (PELQ), and application efficiency of the low quarter (AELQ) that are implementations of measures of the same notation in Keller, J. and Merriam, J.L. (1978) "Farm Irrigation System Evaluation: A Guide for Management" <https://pdf.usaid.gov/pdf_docs/PNAAG745.pdf>. spreval::DU.lh is similar to spreval::DU but is the distribution uniformity of the low half instead of low quarter as in DU. spreval::PELQT is a version of spreval::PELQ adapted for traveling systems instead of lateral move or solid-set sprinkler systems. The function spreval::eff is analogous to the method used to compute application efficiency for furrow irrigation presented in Walker, W. and Skogerboe, G.V. (1987,ISBN:0138779295, "Surface Irrigation: Theory and Practice"),that uses piecewise integration of infiltrated depth compared against soil-moisture deficit (SMD), when the argument "target" is set equal to SMD. The other functions contained in the package provide graphical representation of sprinkler system uniformity, and other standard univariate parametric and non-parametric statistical measures as applied to sprinkler system catch depths. A sample data set of field test data spreval::catchcan (catch depths) is provided and is used in examples and vignettes.
License: GPL-3
Encoding: UTF-8
LazyData: true
URL: https://glgrabow.github.io/spreval/
BugReports: https://github.com/glgrabow/spreval/issues
Imports: timeDate,interp
Suggests: fields,knitr, rmarkdown,
VignetteBuilder: knitr
NeedsCompilation: no
Packaged: 2021-07-05 14:43:19 UTC; garrygrabow
Author: Garry Grabow [aut, cre, cph] (<https://orcid.org/0000-0002-9616-2615>)
Depends: R (>= 3.5.0)
Repository: CRAN
Date/Publication: 2021-07-06 09:20:02 UTC

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New package salesforcer with initial version 1.0.0
Package: salesforcer
Title: An Implementation of 'Salesforce' APIs Using Tidy Principles
Version: 1.0.0
Date: 2021-07-04
Description: Functions connecting to the 'Salesforce' Platform APIs (REST, SOAP, Bulk 1.0, Bulk 2.0, Metadata, Reports and Dashboards) <https://trailhead.salesforce.com/en/content/learn/modules/api_basics/api_basics_overview>. "API" is an acronym for "application programming interface". Most all calls from these APIs are supported as they use CSV, XML or JSON data that can be parsed into R data structures. For more details please see the 'Salesforce' API documentation and this package's website <https://stevenmmortimer.github.io/salesforcer/> for more information, documentation, and examples.
Authors@R: c(person(given = c("Steven", "M."), family = "Mortimer", role = c("aut", "cre"), email = "mortimer.steven.m@gmail.com"), person(given = "Takekatsu", family = "Hiramura", role = "ctb", email = "thira@plavox.info"), person(given = "Jennifer", family = "Bryan", role = c("ctb", "cph"), email = "jenny@rstudio.com"), person(given = "Joanna", family = "Zhao", role = c("ctb", "cph"), email = "joanna.zhao@alumni.ubc.ca"))
License: MIT + file LICENSE
URL: https://github.com/StevenMMortimer/salesforcer
BugReports: https://github.com/StevenMMortimer/salesforcer/issues
Depends: R (>= 3.6.0)
Imports: methods (>= 3.6.0), utils (>= 3.6.0), stats (>= 3.6.0), dplyr (>= 1.0.0), purrr (>= 0.3.4), vctrs (>= 0.3.4), tibble (>= 3.0.3), readr (>= 1.3.1), lubridate (>= 1.7.8), anytime (>= 0.3.9), rlang (>= 0.4.7), httr (>= 1.4.1), curl (>= 4.3), data.table (>= 1.13.0), XML (>= 3.99-0.3), xml2 (>= 1.3.2), jsonlite (>= 1.6.1), rlist (>= 0.4.6.1), zip (>= 2.0.4), base64enc (>= 0.1-3), mime (>= 0.9), lifecycle (>= 0.2.0)
Suggests: knitr, rmarkdown, testthat, spelling, here, microbenchmark, ggplot2, sessioninfo
VignetteBuilder: knitr
ByteCompile: true
Encoding: UTF-8
Language: en-US
NeedsCompilation: no
Packaged: 2021-07-06 06:21:36 UTC; steven.mortimer
Author: Steven M. Mortimer [aut, cre], Takekatsu Hiramura [ctb], Jennifer Bryan [ctb, cph], Joanna Zhao [ctb, cph]
Maintainer: Steven M. Mortimer <mortimer.steven.m@gmail.com>
Repository: CRAN
Date/Publication: 2021-07-06 09:10:03 UTC

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New package r2r with initial version 0.1.1
Package: r2r
Title: R-Object to R-Object Hash Maps
Version: 0.1.1
Authors@R: person(given = "Valerio", family = "Gherardi", role = c("aut", "cre"), email = "vgherard@sissa.it", comment = c(ORCID = "0000-0002-8215-3013"))
Description: Implementation of hash tables (hash sets and hash maps) in R, featuring arbitrary R objects as keys, arbitrary hash and key-comparison functions, and customizable behaviour upon queries of missing keys.
License: GPL (>= 3)
Encoding: UTF-8
Imports: digest, rlang
URL: https://github.com/vgherard/r2r
BugReports: https://github.com/vgherard/r2r/issues
Suggests: knitr, covr, testthat (>= 3.0.0), rmarkdown, microbenchmark, hash
VignetteBuilder: knitr
NeedsCompilation: no
Packaged: 2021-07-05 11:41:04 UTC; vale
Author: Valerio Gherardi [aut, cre] (<https://orcid.org/0000-0002-8215-3013>)
Maintainer: Valerio Gherardi <vgherard@sissa.it>
Repository: CRAN
Date/Publication: 2021-07-06 09:10:12 UTC

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New package FLightR with initial version 0.5.1
Package: FLightR
Title: Reconstruct Animal Paths from Solar Geolocation Loggers Data
Version: 0.5.1
Date: 2021-07-01
Authors@R: c( person("Eldar", "Rakhimberdiev", email = "e.rakhimberdiev@rug.nl", role = c("aut","cre")), person("Anatoly", "Saveliev", role = "aut"), person("Julia", "Karagicheva", role = "aut"), person("Simeon", "Lisovski", role = "ctb"))
Description: Spatio-temporal locations of an animal are computed from annotated data with a hidden Markov model via particle filter algorithm. The package is relatively robust to varying degrees of shading. The hidden Markov model is described in Movement Ecology (Rakhimberdiev et al., 2015) <doi:10.1186/s40462-015-0062-5>, general package description is in the Methods in Ecology and Evolution (Rakhimberdiev et al., 2017) <doi:10.1111/2041-210X.12765> and package accuracy assessed in the Journal of Avian Biology (Rakhimberdiev et al. 2016) <doi:10.1111/jav.00891>.
URL: https://CRAN.R-project.org/package=FLightR
BugReports: https://github.com/eldarrak/FLightR/issues
Depends: R (>= 3.0.2)
Imports: bit, ggsn, ggmap, ggplot2, CircStats, circular, GeoLight, fields, maptools, methods, mgcv, nlme, parallel, RcppArmadillo, rgdal, rgeos, sp, truncnorm
License: GPL-3
ByteCompile: true
Suggests: covr, testthat, knitr, rmarkdown
VignetteBuilder: knitr
NeedsCompilation: no
Packaged: 2021-07-05 14:42:18 UTC; eldar
Author: Eldar Rakhimberdiev [aut, cre], Anatoly Saveliev [aut], Julia Karagicheva [aut], Simeon Lisovski [ctb]
Maintainer: Eldar Rakhimberdiev <e.rakhimberdiev@rug.nl>
Repository: CRAN
Date/Publication: 2021-07-06 09:20:05 UTC

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Package cdcatR updated to version 1.0.3 with previous version 1.0.2 dated 2020-09-09

Title: Cognitive Diagnostic Computerized Adaptive Testing
Description: Provides a set of functions for conducting cognitive diagnostic computerized adaptive testing applications (Chen (2009) <doi:10.1007/s11336-009-9123-2>). It includes different item selection rules such us the global discrimination index (Kaplan, de la Torre, and Barrada (2015) <doi:10.1177/0146621614554650>) and the nonparametric selection method (Chang, Chiu, and Tsai (2019) <doi:10.1177/0146621618813113>), as well as several stopping rules. Functions for generating item banks and responses are also provided. To guide item bank calibration, model comparison at the item level can be conducted using the two-step likelihood ratio test statistic by Sorrel, de la Torre, Abad and Olea (2017) <doi:10.1027/1614-2241/a000131>.
Author: Miguel A. Sorrel [aut, cre, cph], Pablo Nájera [aut, cph], Francisco J. Abad [aut, cph]
Maintainer: Miguel A. Sorrel <miguel.sorrel@uam.es>

Diff between cdcatR versions 1.0.2 dated 2020-09-09 and 1.0.3 dated 2021-07-06

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Package SUMMER updated to version 1.2.0 with previous version 1.1.0 dated 2021-02-01

Title: Small-Area-Estimation Unit/Area Models and Methods for Estimation in R
Description: Provides methods for spatial and spatio-temporal smoothing of demographic and health indicators using survey data, with particular focus on estimating and projecting under-five mortality rates, described in Mercer et al. (2015) <doi:10.1214/15-AOAS872>, Li et al. (2019) <doi:10.1371/journal.pone.0210645> and Li et al. (2020) <arXiv:2007.05117>.
Author: Zehang R Li [cre, aut], Bryan D Martin [aut], Yuan Hsiao [aut], Jessica Godwin [aut], John Paige [aut], Jon Wakefield [aut], Samuel J Clark [aut], Geir-Arne Fuglstad [aut], Andrea Riebler [aut]
Maintainer: Zehang R Li <lizehang@gmail.com>

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Package slackr updated to version 2.4.1 with previous version 2.4.0 dated 2021-07-05

Title: Send Messages, Images, R Objects and Files to 'Slack' Channels/Users
Description: 'Slack' <https://slack.com/> provides a service for teams to collaborate by sharing messages, images, links, files and more. Functions are provided that make it possible to interact with the 'Slack' platform 'API'. When you need to share information or data from R, rather than resort to copy/ paste in e-mails or other services like 'Skype' <https://www.skype.com/en/>, you can use this package to send well-formatted output from multiple R objects and expressions to all teammates at the same time with little effort. You can also send images from the current graphics device, R objects, and upload files.
Author: Bob Rudis [aut, cre], Jay Jacobs [ctb], David Severski [ctb], Quinn Weber [ctb], Konrad Karczewski [ctb], Shinya Uryu [ctb], Gregory Jefferis [ctb], Ed Niles [ctb], Rick Saporta [ctb], Jonathan Sidi [aut, ctb], Matt Kaye [aut, ctb], Xinye Li [ctb], Andrie de Vries [aut, ctb]
Maintainer: Matt Kaye <mrkaye97@gmail.com>

Diff between slackr versions 2.4.0 dated 2021-07-05 and 2.4.1 dated 2021-07-06

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Package gjam updated to version 2.3.8 with previous version 2.3.7 dated 2021-05-24

Title: Generalized Joint Attribute Modeling
Description: Analyzes joint attribute data (e.g., species abundance) that are combinations of continuous and discrete data with Gibbs sampling. Full model and computation details are described in Clark et al. (2018) <doi:10.1002/ecm.1241>.
Author: James S. Clark, Daniel Taylor-Rodriquez
Maintainer: James S. Clark <jimclark@duke.edu>

Diff between gjam versions 2.3.7 dated 2021-05-24 and 2.3.8 dated 2021-07-06

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Package ChemoSpec updated to version 5.3.21 with previous version 5.3.11 dated 2021-03-26

Title: Exploratory Chemometrics for Spectroscopy
Description: A collection of functions for top-down exploratory data analysis of spectral data including nuclear magnetic resonance (NMR), infrared (IR), Raman, X-ray fluorescence (XRF) and other similar types of spectroscopy. Includes functions for plotting and inspecting spectra, peak alignment, hierarchical cluster analysis (HCA), principal components analysis (PCA) and model-based clustering. Robust methods appropriate for this type of high-dimensional data are available. ChemoSpec is designed for structured experiments, such as metabolomics investigations, where the samples fall into treatment and control groups. Graphical output is formatted consistently for publication quality plots. ChemoSpec is intended to be very user friendly and to help you get usable results quickly. A vignette covering typical operations is available.
Author: Bryan A. Hanson [aut, cre] (<https://orcid.org/0000-0003-3536-8246>), Mike Bostock [cph, ctb] (author of the d3.js library used by plotSpectraJS, http://d3js.org), Matt Keinsley [ctb] (author of initial AOV-PCA code)
Maintainer: Bryan A. Hanson <hanson@depauw.edu>

Diff between ChemoSpec versions 5.3.11 dated 2021-03-26 and 5.3.21 dated 2021-07-06

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New package chameleon with initial version 0.1-0
Package: chameleon
Version: 0.1-0
Date: 2021-07-05
Title: Automatic Colors for Multi-Dimensional Data
Description: Assign distinct colors to arbitrary multi-dimensional data, considering its structure.
Authors@R: c( person("Oren", "Ben-Kiki", email="oren@ben-kiki.org", role=c("aut", "cre")), person("Weizmann Institute of Science", role="cph") )
Encoding: UTF-8
License: MIT + file LICENSE
Imports: clue, ggplot2, grDevices, stats, umap
Depends: R (>= 3.5.0)
LazyData: true
Suggests: knitr, rmarkdown
VignetteBuilder: knitr
NeedsCompilation: no
Packaged: 2021-07-05 17:01:34 UTC; obk
Author: Oren Ben-Kiki [aut, cre], Weizmann Institute of Science [cph]
Maintainer: Oren Ben-Kiki <oren@ben-kiki.org>
Repository: CRAN
Date/Publication: 2021-07-06 08:50:02 UTC

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New package ch with initial version 0.1.0.1
Package: ch
Title: About some Small Functions
Version: 0.1.0.1
Author: Hailong Chai [aut]
Maintainer: Hailong Chai <chaihl17@lzu.edu.cn>
Description: The solution to some common problems is proposed, as well as a summary of some small functions. In particular, it provides a useful function for some problems in chemistry. For example, monoa(), monob() and mono() function can be used to calculate The pH of weak acid/base. The ggpng() function can save the PNG format with transparent background. The period_table() function will show the periodic table. Also the show_ruler() function will show the ruler. The show_color() function is funny and easier to show colors. I also provide the symb() function to generate multiple symbols at once. The csv2vcf() function provides an easy method to generate a file.
Imports: ggplot2, readr, Ryacas, magrittr, utils, grDevices, MASS, crayon
License: Artistic-2.0
Encoding: UTF-8
URL: https://github.com/tsiamut/ch
ByteCompile: true
NeedsCompilation: no
Packaged: 2021-07-05 15:00:36 UTC; Tsia
Repository: CRAN
Date/Publication: 2021-07-06 08:30:02 UTC

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New package bagged.outliertrees with initial version 1.0.0
Package: bagged.outliertrees
Maintainer: Rafael Santos <rafael.jpsantos@outlook.com>
Title: Robust Explainable Outlier Detection Based on OutlierTree
Version: 1.0.0
Authors@R: person(given = "Rafael", family = "Santos", role = c("aut", "cre"), email = "rafael.jpsantos@outlook.com")
Description: Bagged OutlierTrees is an explainable unsupervised outlier detection method based on an ensemble implementation of the existing OutlierTree procedure (Cortes, 2020). This implementation takes advantage of bootstrap aggregating (bagging) to improve robustness by reducing the possible masking effect and subsequent high variance (similarly to Isolation Forest), hence the name "Bagged OutlierTrees". To learn more about the base procedure OutlierTree (Cortes, 2020), please refer to <arXiv:2001.00636>.
License: MIT + file LICENSE
Encoding: UTF-8
LazyData: true
Imports: outliertree, dplyr, doSNOW, parallel, foreach, rlist, data.table
Depends: R (>= 3.5.0)
URL: https://github.com/RafaJPSantos/bagged.outliertrees
BugReports: https://github.com/RafaJPSantos/bagged.outliertrees/issues
NeedsCompilation: no
Packaged: 2021-07-05 09:07:11 UTC; ptrafjossan
Author: Rafael Santos [aut, cre]
Repository: CRAN
Date/Publication: 2021-07-06 09:00:02 UTC

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Package jmvconnect updated to version 2.0.0 with previous version 1.2.18 dated 2020-05-19

Title: Connect to the 'jamovi' Statistical Spreadsheet
Description: Methods to access data sets from the 'jamovi' statistical spreadsheet (see <https://www.jamovi.org> for more information) from R.
Author: Jonathon Love [aut, cre]
Maintainer: Jonathon Love <jon@thon.cc>

Diff between jmvconnect versions 1.2.18 dated 2020-05-19 and 2.0.0 dated 2021-07-06

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Package BBcor (with last version 1.0.2) was removed from CRAN

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

2021-06-20 1.0.2
2021-03-21 1.0.1
2020-07-30 1.0.0

Permanent link
Package bayeslincom (with last version 1.2.0) was removed from CRAN

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

2021-06-20 1.2.0
2021-03-11 1.1.0
2020-08-05 1.0.0

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Package SAMtool updated to version 1.2.0 with previous version 1.1.2 dated 2021-03-09

Title: Stock Assessment Methods Toolkit
Description: Simulation tools for closed-loop simulation are provided for the 'MSEtool' operating model to inform data-rich fisheries. 'SAMtool' provides a conditioning model, assessment models of varying complexity with standardized reporting, model-based management procedures, and diagnostic tools for evaluating assessments inside closed-loop simulation.
Author: Quang Huynh [aut, cre], Tom Carruthers [aut], Adrian Hordyk [aut]
Maintainer: Quang Huynh <quang@bluematterscience.com>

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2020-08-01 1.2.0

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Package zonebuilder (with last version 0.0.1) was removed from CRAN

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2021-02-19 0.0.1

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2020-12-03 2.0.3
2020-07-24 2.0.2
2020-07-23 2.0.1
2020-05-31 2.0.0
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Package postDoubleR (with last version 1.4.12) was removed from CRAN

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2019-10-07 1.4.12

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Package rmRNAseq (with last version 0.1.0) was removed from CRAN

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2019-11-08 0.1.0

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Package HeritSeq (with last version 1.0.1) was removed from CRAN

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2019-02-11 1.0.1
2017-01-04 1.0.0

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Package spatialClust (with last version 1.1.1) was removed from CRAN

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2016-09-03 1.1.1

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Package ggnetwork updated to version 0.5.10 with previous version 0.5.9 dated 2021-06-04

Title: Geometries to Plot Networks with 'ggplot2'
Description: Geometries to plot network objects with 'ggplot2'.
Author: François Briatte [aut, cre] (<https://orcid.org/0000-0001-6494-9774>), Michał Bojanowski [ctb] (<https://orcid.org/0000-0001-7503-852X>), Mickaël Canouil [ctb] (<https://orcid.org/0000-0002-3396-4549>), Zachary Charlop-Powers [ctb] (<https://orcid.org/0000-0001-8816-4680>), Jacob C. Fisher [ctb] (<https://orcid.org/0000-0003-0299-0346>), Kipp Johnson [ctb] (<https://orcid.org/0000-0002-5102-741X>), Tyler Rinker [ctb]
Maintainer: François Briatte <f.briatte@gmail.com>

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Package VicmapR updated to version 0.1.6 with previous version 0.1.3 dated 2021-06-10

Title: Access Victorian Spatial Data Through Web File Services (WFS)
Description: Easily interfaces R to spatial datasets available through the Victorian Government's WFS (Web Feature Service): <https://services.land.vic.gov.au/catalogue/publicproxy/guest/dv_geoserver/wfs?request=getCapabilities>, which allows users to read in 'sf' data from these sources. VicmapR uses the lazy querying approach and code developed by Teucher et al. (2021) for the 'bcdata' R package <doi:10.21105/joss.02927>.
Author: Justin Cally [aut, cre] (<https://orcid.org/0000-0003-4584-2220>), Rachel Swain [ctb], Andy Teucher [aut] (<https://orcid.org/0000-0002-7840-692X>, bcdata author), Sam Albers [aut] (<https://orcid.org/0000-0002-9270-7884>, bcdata author), Stephanie Hazlitt [aut] (<https://orcid.org/0000-0002-3161-2304>, bcdata author), Province of British Columbia [cph] (bcdata copyright)
Maintainer: Justin Cally <justin.g.cally@gmail.com>

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Package UComp updated to version 2.2.2 with previous version 2.2.1 dated 2021-06-15

Title: Automatic Unobserved Components Models
Description: Comprehensive analysis and forecasting of univariate time series using automatic unobserved components models and algorithms. Harvey, AC (1989) <doi:10.1017/CBO9781107049994>. Pedregal, DJ and Young PC (2002) <doi:10.1002/9780470996430>. Durbin J and Koopman SJ (2012) <doi:10.1093/acprof:oso/9780199641178.001.0001>.
Author: Diego J. Pedregal [aut, cre] (<https://orcid.org/0000-0003-4958-0969>)
Maintainer: Diego J. Pedregal <Diego.Pedregal@uclm.es>

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Package mlr3pipelines updated to version 0.3.5 with previous version 0.3.4 dated 2021-03-05

Title: Preprocessing Operators and Pipelines for 'mlr3'
Description: Dataflow programming toolkit that enriches 'mlr3' with a diverse set of pipelining operators ('PipeOps') that can be composed into graphs. Operations exist for data preprocessing, model fitting, and ensemble learning. Graphs can themselves be treated as 'mlr3' 'Learners' and can therefore be resampled, benchmarked, and tuned.
Author: Martin Binder [aut, cre], Florian Pfisterer [aut] (<https://orcid.org/0000-0001-8867-762X>), Lennart Schneider [aut] (<https://orcid.org/0000-0003-4152-5308>), Bernd Bischl [aut] (<https://orcid.org/0000-0001-6002-6980>), Michel Lang [aut] (<https://orcid.org/0000-0001-9754-0393>), Susanne Dandl [aut]
Maintainer: Martin Binder <mlr.developer@mb706.com>

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Package jackalope updated to version 1.1.3 with previous version 1.1.2 dated 2021-02-10

Title: A Swift, Versatile Phylogenomic and High-Throughput Sequencing Simulator
Description: Simply and efficiently simulates (i) variants from reference genomes and (ii) reads from both Illumina <https://www.illumina.com/> and Pacific Biosciences (PacBio) <https://www.pacb.com/> platforms. It can either read reference genomes from FASTA files or simulate new ones. Genomic variants can be simulated using summary statistics, phylogenies, Variant Call Format (VCF) files, and coalescent simulations—the latter of which can include selection, recombination, and demographic fluctuations. 'jackalope' can simulate single, paired-end, or mate-pair Illumina reads, as well as PacBio reads. These simulations include sequencing errors, mapping qualities, multiplexing, and optical/polymerase chain reaction (PCR) duplicates. Simulating Illumina sequencing is based on ART by Huang et al. (2012) <doi:10.1093/bioinformatics/btr708>. PacBio sequencing simulation is based on SimLoRD by Stöcker et al. (2016) <doi:10.1093/bioinformatics/btw286>. All outputs can be written to standard file formats.
Author: Lucas A. Nell [cph, aut, cre] (<https://orcid.org/0000-0003-3209-0517>)
Maintainer: Lucas A. Nell <lucas@lucasnell.com>

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Package guaguas updated to version 0.2.0 with previous version 0.1.0 dated 2020-06-26

Title: Nombres Inscritos en Chile (1920 - 2020)
Description: Datos de nombres inscritos en Chile entre 1920 y 2020, de acuerdo al Servicio de Registro Civil. English: Chilean baby names registered from 1920 to 2020 by the Civil Registry Service.
Author: Riva Quiroga [aut, cre] (<https://orcid.org/0000-0002-1147-4135>)
Maintainer: Riva Quiroga <riva.quiroga@uc.cl>

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Package evaluator updated to version 0.4.3 with previous version 0.4.2 dated 2020-04-16

Title: Quantified Risk Assessment Toolkit
Description: An open source risk analysis toolkit based on the OpenFAIR ontology <https://publications.opengroup.org/c20b> and risk analysis standard <https://publications.opengroup.org/c20a>. Empowers an organization to perform a quantifiable, repeatable, and data-driven risk review.
Author: David Severski [aut, cre] (<https://orcid.org/0000-0001-7867-0459>)
Maintainer: David Severski <davidski@deadheaven.com>

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Package CENFA (with last version 1.1.0) was removed from CRAN

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

2020-02-15 1.1.0
2018-11-06 1.0.0
2018-02-06 0.1.0

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Package sdmApp (with last version 0.0.1) was removed from CRAN

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2021-01-22 0.0.1

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