Thu, 25 Aug 2022

Package corx updated to version 1.0.7.0 with previous version 1.0.6.1 dated 2020-06-30

Title: Create and Format Correlation Matrices
Description: Create correlation (or partial correlation) matrices. Correlation matrices are formatted with significance stars based on user preferences. Matrices of coefficients, p-values, and number of pairwise observations are returned. Send resultant formatted matrices to the clipboard to be pasted into excel and other programs. A plot method allows users to visualize correlation matrices created with 'corx'.
Author: James Conigrave [aut, cre]
Maintainer: James Conigrave <james.conigrave@gmail.com>

Diff between corx versions 1.0.6.1 dated 2020-06-30 and 1.0.7.0 dated 2022-08-25

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 31 files changed, 578 insertions(+), 453 deletions(-)

More information about corx at CRAN
Permanent link

Package rticles updated to version 0.24 with previous version 0.23 dated 2022-03-04

Title: Article Formats for R Markdown
Description: A suite of custom R Markdown formats and templates for authoring journal articles and conference submissions.
Author: JJ Allaire [aut], Yihui Xie [aut] , Christophe Dervieux [aut, cre] , RStudio [cph, fnd], R Foundation [aut, cph], Hadley Wickham [aut], Journal of Statistical Software [aut, cph], Ramnath Vaidyanathan [aut, cph], Association for Computing Machinery [ [...truncated...]
Maintainer: Christophe Dervieux <cderv@rstudio.com>

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Package nftbart updated to version 1.4 with previous version 1.3 dated 2022-03-29

Title: Nonparametric Failure Time Bayesian Additive Regression Trees
Description: Nonparametric Failure Time (NFT) Bayesian Additive Regression Trees (BART): Time-to-event Machine Learning with Heteroskedastic Bayesian Additive Regression Trees (HBART) and Low Information Omnibus (LIO) Dirichlet Process Mixtures (DPM). An NFT BART model is of the form Y = mu + f(x) + sd(x) E where functions f and sd have BART and HBART priors, respectively, while E is a nonparametric error distribution due to a DPM LIO prior hierarchy. See the following for a technical description of the model <https://www.mcw.edu/-/media/MCW/Departments/Biostatistics/tr72.pdf?la=en>.
Author: Rodney Sparapani [aut, cre], Robert McCulloch [aut], Matthew Pratola [ctb], Hugh Chipman [ctb]
Maintainer: Rodney Sparapani <rsparapa@mcw.edu>

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Package eventTrack updated to version 1.0.2 with previous version 1.0.1 dated 2021-09-03

Title: Event Prediction for Time-to-Event Endpoints
Description: Implements the hybrid framework for event prediction described in Fang & Zheng (2011, <doi:10.1016/j.cct.2011.05.013>). To estimate the survival function the event prediction is based on, a piecewise exponential hazard function is fit to the time-to-event data to infer the potential change points. Prior to the last identified change point, the survival function is estimated using Kaplan-Meier, and the tail after the change point is fit using piecewise exponential.
Author: Kaspar Rufibach
Maintainer: Kaspar Rufibach <kaspar.rufibach@roche.com>

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Package dobin updated to version 1.0.4 with previous version 1.0.3 dated 2022-05-18

Title: Dimension Reduction for Outlier Detection
Description: A dimension reduction technique for outlier detection. DOBIN: a Distance based Outlier BasIs using Neighbours, constructs a set of basis vectors for outlier detection. This is not an outlier detection method; rather it is a pre-processing method for outlier detection. It brings outliers to the fore-front using fewer basis vectors (Kandanaarachchi, Hyndman 2020) <doi:10.1080/10618600.2020.1807353>.
Author: Sevvandi Kandanaarachchi [aut, cre]
Maintainer: Sevvandi Kandanaarachchi <sevvandik@gmail.com>

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Package designmatch updated to version 0.4.1 with previous version 0.3.1 dated 2018-06-18

Title: Matched Samples that are Balanced and Representative by Design
Description: Includes functions for the construction of matched samples that are balanced and representative by design. Among others, these functions can be used for matching in observational studies with treated and control units, with cases and controls, in related settings with instrumental variables, and in discontinuity designs. Also, they can be used for the design of randomized experiments, for example, for matching before randomization. By default, 'designmatch' uses the 'GLPK' optimization solver, but its performance is greatly enhanced by the 'Gurobi' optimization solver and its associated R interface. For their installation, please follow the instructions at <https://www.gurobi.com/documentation/quickstart.html> and <https://www.gurobi.com/documentation/7.0/refman/r_api_overview.html>. We have also included directions in the gurobi_installation file in the inst folder.
Author: Jose R. Zubizarreta <zubizarreta@hcp.med.harvard.edu>, Cinar Kilcioglu <ckilcioglu16@gsb.columbia.edu>, Juan P. Vielma <jvielma@mit.edu>, Eric R. Cohn <ericcohn@g.harvard.edu>
Maintainer: Jose R. Zubizarreta <zubizarreta@hcp.med.harvard.edu>

Diff between designmatch versions 0.3.1 dated 2018-06-18 and 0.4.1 dated 2022-08-25

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Package asbio updated to version 1.8-2 with previous version 1.8-1 dated 2022-07-11

Title: A Collection of Statistical Tools for Biologists
Description: Contains functions from: Aho, K. (2014) Foundational and Applied Statistics for Biologists using R. CRC/Taylor and Francis, Boca Raton, FL, ISBN: 978-1-4398-7338-0.
Author: Ken Aho
Maintainer: Ken Aho <kenaho1@gmail.com>

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Package R.matlab updated to version 3.7.0 with previous version 3.6.2 dated 2018-09-27

Title: Read and Write MAT Files and Call MATLAB from Within R
Description: Methods readMat() and writeMat() for reading and writing MAT files. For user with MATLAB v6 or newer installed (either locally or on a remote host), the package also provides methods for controlling MATLAB (trademark) via R and sending and retrieving data between R and MATLAB.
Author: Henrik Bengtsson [aut, cre, cph], Andy Jacobson [ctb] , Jason Riedy [ctb]
Maintainer: Henrik Bengtsson <henrikb@braju.com>

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Package scs updated to version 3.0-1 with previous version 3.0-0 dated 2021-11-07

Title: Splitting Conic Solver
Description: Solves convex cone programs via operator splitting. Can solve: linear programs ('LPs'), second-order cone programs ('SOCPs'), semidefinite programs ('SDPs'), exponential cone programs ('ECPs'), and power cone programs ('PCPs'), or problems with any combination of those cones. 'SCS' uses 'AMD' (a set of routines for permuting sparse matrices prior to factorization) and 'LDL' (a sparse 'LDL' factorization and solve package) from 'SuiteSparse' (<https://people.engr.tamu.edu/davis/suitesparse.html>).
Author: Florian Schwendinger [aut, cre], Brendan O'Donoghue [aut, cph], Balasubramanian Narasimhan [aut], Timothy A. Davis [cph], Patrick R. Amestory [cph], Iain S. Duff [cph]
Maintainer: Florian Schwendinger <FlorianSchwendinger@gmx.at>

Diff between scs versions 3.0-0 dated 2021-11-07 and 3.0-1 dated 2022-08-25

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Package didimputation updated to version 0.3.0 with previous version 0.1.0 dated 2021-08-02

Title: Imputation Estimator from Borusyak, Jaravel, and Spiess (2021)
Description: Estimates Two-way Fixed Effects difference-in-differences/event-study models using the imputation-based approach proposed by Borusyak, Jaravel, and Spiess (2021).
Author: Kyle Butts [aut, cre]
Maintainer: Kyle Butts <kyle.butts@colorado.edu>

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Package roger updated to version 1.0-0 with previous version 0.99-2 dated 2022-01-13

Title: Automated Grading of R Scripts
Description: Tools for grading the coding style and documentation of R scripts. This is the R component of Roger the Omni Grader, an automated grading system for computer programming projects based on Unix shell scripts; see <https://gitlab.com/roger-project>. The package also provides an R interface to the shell scripts. Inspired by the lintr package.
Author: Vincent Goulet [aut, cre], Samuel Frechette [aut], Jean-Christophe Langlois [aut], Jim Hester [ctb]
Maintainer: Vincent Goulet <vincent.goulet@act.ulaval.ca>

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Package pairwise updated to version 0.6.0-0 with previous version 0.5.0-2 dated 2021-01-06

Title: Rasch Model Parameters by Pairwise Algorithm
Description: Performs the explicit calculation -- not estimation! -- of the Rasch item parameters for dichotomous and polytomous item responses, using a pairwise comparison approach. Person parameters (WLE) are calculated according to Warm's weighted likelihood approach.
Author: Joerg-Henrik Heine <jhheine@googlemail.com>
Maintainer: Joerg-Henrik Heine <jhheine@googlemail.com>

Diff between pairwise versions 0.5.0-2 dated 2021-01-06 and 0.6.0-0 dated 2022-08-25

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Package DPpack updated to version 0.0.11 with previous version 0.0.1 dated 2022-04-28

Title: Differentially Private Statistical Analysis and Machine Learning
Description: An implementation of common statistical analysis and models with differential privacy (Dwork et al., 2006a) <doi:10.1007/11681878_14> guarantees. The package contains, for example, functions providing differentially private computations of mean, variance, median, histograms, and contingency tables. It also implements some statistical models and machine learning algorithms such as linear regression (Kifer et al., 2012) <https://proceedings.mlr.press/v23/kifer12.html> and SVM (Chaudhuri et al., 2011) <https://jmlr.org/papers/v12/chaudhuri11a.html>. In addition, it implements some popular randomization mechanisms such as the Laplace mechanism (Dwork et al., 2006a) <doi:10.1007/11681878_14>, Gaussian mechanism (Dwork et al., 2006b) <doi:10.1007/11761679_29>, and exponential mechanism (McSherry & Talwar, 2007) <doi:10.1109/FOCS.2007.66>.
Author: Spencer Giddens <giddens2spencer@gmail.com> with contributions from Fang Liu <fliu2@nd.edu>
Maintainer: Spencer Giddens <giddens2spencer@gmail.com>

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Package CNAIM updated to version 2.1.3 with previous version 2.1.2 dated 2022-08-06

Title: Common Network Asset Indices Methodology (CNAIM)
Description: Implementation of the CNAIM standard in R. Contains a series of algorithms which determine the probability of failure, consequences of failure and monetary risk associated with electricity distribution companies' assets such as transformers and cables. Results are visualized in an easy-to-understand risk matrix.
Author: Emil Larsen [aut], Kalle Hansen [aut, cph], Kenneth Rosenorn [aut], Peter Larsen [aut], Mohsin Vindhani [aut, cre]
Maintainer: Mohsin Vindhani <mohsin@utiligize.com>

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Package MazamaTimeSeries updated to version 0.2.7 with previous version 0.2.5 dated 2022-04-05

Title: Core Functionality for Environmental Time Series
Description: Utility functions for working with environmental time series data from known locations. The compact data model is structured as a list with two dataframes. A 'meta' dataframe contains spatial and measuring device metadata associated with deployments at known locations. A 'data' dataframe contains a 'datetime' column followed by columns of measurements associated with each "device-deployment". Ephemerides calculations are based on code originally found in NOAA's "Solar Calculator" <https://gml.noaa.gov/grad/solcalc/>.
Author: Jonathan Callahan [aut, cre], Hans Martin [ctb], Eli Grosman [ctb], Roger Bivand [ctb], Sebastian Luque [ctb]
Maintainer: Jonathan Callahan <jonathan.s.callahan@gmail.com>

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Package easycensus updated to version 1.0.0 with previous version 0.2.1 dated 2022-02-28

Title: Quickly Find, Extract, and Marginalize U.S. Census Tables
Description: Extracting desired data using the proper Census variable names can be time-consuming. This package takes the pain out of that process by providing functions to quickly locate variables and download labeled tables from the Census APIs (<https://www.census.gov/data/developers/data-sets.html>).
Author: Cory McCartan [aut, cre]
Maintainer: Cory McCartan <cmccartan@g.harvard.edu>

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Package PL94171 updated to version 1.1.1 with previous version 1.0.2 dated 2022-05-10

Title: Tabulate P.L. 94-171 Redistricting Data Summary Files
Description: Tools to process legacy format summary redistricting data files produced by the United States Census Bureau pursuant to P.L. 94-171. These files are generally available earlier but are difficult to work with as-is.
Author: Cory McCartan [aut, cre], Christopher T. Kenny [aut]
Maintainer: Cory McCartan <cmccartan@g.harvard.edu>

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Package flobr updated to version 0.2.3 with previous version 0.2.2 dated 2021-10-27

Title: Convert Files to and from Binary Objects (BLOBs)
Description: Converts files to and from flobs. A flob is a file that was read into binary in integer-mode as little endian, saved as the single element of a named list (where the name is the name of the original file) and then serialized before being coerced into a blob. Flobs are useful for writing and reading files to and from databases.
Author: Joe Thorley [aut, cre] , Evan Amies-Galonski [aut] , Poisson Consulting [cph, fnd]
Maintainer: Joe Thorley <joe@poissonconsulting.ca>

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Package semptools updated to version 0.2.9.6 with previous version 0.2.9.3 dated 2021-10-11

Title: Customizing Structural Equation Modelling Plots
Description: Most function focus on specific ways to customize a graph. They use a 'qgraph' output as the first argument, and return a modified 'qgraph' object. This allows the functions to be chained by a pipe operator.
Author: Shu Fai Cheung [aut, cre] , Mark Hok Chio Lai [aut]
Maintainer: Shu Fai Cheung <shufai.cheung@gmail.com>

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Package Rcurvep updated to version 1.2.1 with previous version 1.2.0 dated 2021-01-07

Title: Concentration-Response Data Analysis using Curvep
Description: Provide an R interface for processing concentration-response datasets using Curvep, a response noise filtering algorithm. The algorithm was described in the publications (Sedykh A et al. (2011) <doi:10.1289/ehp.1002476> and Sedykh A (2016) <doi:10.1007/978-1-4939-6346-1_14>). Other parametric fitting approaches (e.g., Hill equation) are also adopted for ease of comparison. Also, methods for calculating the confidence interval around the activity metrics are also provided. The methods are based on the bootstrap approach to simulate the datasets (Hsieh J-H et al. <doi:10.1093/toxsci/kfy258>). The simulated datasets can be used to derive the baseline noise threshold in an assay endpoint. This threshold is critical in the toxicological studies to derive the point-of-departure (POD).
Author: Jui-Hua Hsieh [aut, cre], Alexander Sedykh [aut]
Maintainer: Jui-Hua Hsieh <juihua.hsieh@gmail.com>

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New package fslr with initial version 2.25.2
Package: fslr
Title: Wrapper Functions for 'FSL' ('FMRIB' Software Library) from Functional MRI of the Brain ('FMRIB')
Version: 2.25.2
Maintainer: John Muschelli <muschellij2@gmail.com>
Description: Wrapper functions that interface with 'FSL' <http://fsl.fmrib.ox.ac.uk/fsl/fslwiki/>, a powerful and commonly-used 'neuroimaging' software, using system commands. The goal is to be able to interface with 'FSL' completely in R, where you pass R objects of class 'nifti', implemented by package 'oro.nifti', and the function executes an 'FSL' command and returns an R object of class 'nifti' if desired.
Imports: methods, R.utils, graphics, grDevices, stats, utils
Depends: oro.nifti (>= 0.5.0), neurobase (>= 1.32.0), R (>= 3.2.0)
License: GPL-3
VignetteBuilder: knitr
Suggests: knitr, rmarkdown, covr
BugReports: https://github.com/muschellij2/fslr/issues
SystemRequirements: FSL
Encoding: UTF-8
NeedsCompilation: no
Packaged: 2022-08-25 14:48:57 UTC; johnmuschelli
Author: John Muschelli [aut, cre]
Repository: CRAN
Date/Publication: 2022-08-25 15:12:35 UTC

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Package CDM updated to version 8.2-6 with previous version 8.1-12 dated 2022-05-13

Title: Cognitive Diagnosis Modeling
Description: Functions for cognitive diagnosis modeling and multidimensional item response modeling for dichotomous and polytomous item responses. This package enables the estimation of the DINA and DINO model (Junker & Sijtsma, 2001, <doi:10.1177/01466210122032064>), the multiple group (polytomous) GDINA model (de la Torre, 2011, <doi:10.1007/s11336-011-9207-7>), the multiple choice DINA model (de la Torre, 2009, <doi:10.1177/0146621608320523>), the general diagnostic model (GDM; von Davier, 2008, <doi:10.1348/000711007X193957>), the structured latent class model (SLCA; Formann, 1992, <doi:10.1080/01621459.1992.10475229>) and regularized latent class analysis (Chen, Li, Liu, & Ying, 2017, <doi:10.1007/s11336-016-9545-6>). See George, Robitzsch, Kiefer, Gross, and Uenlue (2017) <doi:10.18637/jss.v074.i02> or Robitzsch and George (2019, <doi:10.1007/978-3-030-05584-4_26>) for further details on estimation and the package structure. For tutorial [...truncated...]
Author: Alexander Robitzsch [aut, cre], Thomas Kiefer [aut], Ann Cathrice George [aut], Ali Uenlue [aut]
Maintainer: Alexander Robitzsch <robitzsch@ipn.uni-kiel.de>

Diff between CDM versions 8.1-12 dated 2022-05-13 and 8.2-6 dated 2022-08-25

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Package bartMachineJARs updated to version 1.2 with previous version 1.1 dated 2018-03-02

Title: bartMachine JARs
Description: These are bartMachine's Java dependency libraries. Note: this package has no functionality of its own and should not be installed as a standalone package without bartMachine.
Author: Adam Kapelner and Justin Bleich , see COPYRIGHTS file for the authors of the java libraries
Maintainer: Adam Kapelner <kapelner@qc.cuny.edu>

Diff between bartMachineJARs versions 1.1 dated 2018-03-02 and 1.2 dated 2022-08-25

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Package tidyRSS updated to version 2.0.6 with previous version 2.0.5 dated 2022-05-29

Title: Tidy RSS for R
Description: With the objective of including data from RSS feeds into your analysis, 'tidyRSS' parses RSS, Atom and JSON feeds and returns a tidy data frame.
Author: Robert Myles McDonnell [aut, cre], Jonathan Carroll [ctb], Mike Smith [ctb], Joseph Stachelek [ctb], Chung-hong Chan [ctb]
Maintainer: Robert Myles McDonnell <robertmylesmcdonnell@gmail.com>

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Package rmcorr updated to version 0.5.2 with previous version 0.5.0 dated 2022-08-08

Title: Repeated Measures Correlation
Description: Compute the repeated measures correlation, a statistical technique for determining the overall within-individual relationship among paired measures assessed on two or more occasions, first introduced by Bland and Altman (1995). Includes functions for diagnostics, p-value, effect size with confidence interval including optional bootstrapping, as well as graphing. Also includes several example datasets. For more details, see the web documentation <https://lmarusich.github.io/rmcorr/index.html> and the original paper: Bakdash and Marusich (2017) <doi:10.3389/fpsyg.2017.00456>.
Author: Jonathan Z. Bakdash [aut] , Laura R. Marusich [aut, cre]
Maintainer: Laura R. Marusich <lmarusich@gmail.com>

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Package cancensus updated to version 0.5.3 with previous version 0.5.2 dated 2022-08-19

Title: Access, Retrieve, and Work with Canadian Census Data and Geography
Description: Integrated, convenient, and uniform access to Canadian Census data and geography retrieved using the 'CensusMapper' API. This package produces analysis-ready tidy data frames and spatial data in multiple formats, as well as convenience functions for working with Census variables, variable hierarchies, and region selection. API keys are freely available with free registration at <https://censusmapper.ca/api>. Census data and boundary geometries are reproduced and distributed on an "as is" basis with the permission of Statistics Canada (Statistics Canada 2001; 2006; 2011; 2016; 2021).
Author: Jens von Bergmann [aut] , Dmitry Shkolnik [aut, cre] , Aaron Jacobs [aut]
Maintainer: Dmitry Shkolnik <shkolnikd@gmail.com>

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Package AlphaSimR updated to version 1.3.1 with previous version 1.2.1 dated 2022-07-05

Title: Breeding Program Simulations
Description: The successor to the 'AlphaSim' software for breeding program simulation [Faux et al. (2016) <doi:10.3835/plantgenome2016.02.0013>]. Used for stochastic simulations of breeding programs to the level of DNA sequence for every individual. Contained is a wide range of functions for modeling common tasks in a breeding program, such as selection and crossing. These functions allow for constructing simulations of highly complex plant and animal breeding programs via scripting in the R software environment. Such simulations can be used to evaluate overall breeding program performance and conduct research into breeding program design, such as implementation of genomic selection. Included is the 'Markovian Coalescent Simulator' ('MaCS') for fast simulation of biallelic sequences according to a population demographic history [Chen et al. (2009) <doi:10.1101/gr.083634.108>].
Author: Chris Gaynor [aut, cre] , Gregor Gorjanc [ctb] , John Hickey [ctb] , Daniel Money [ctb] , David Wilson [ctb], Thiago Oliveira [ctb]
Maintainer: Chris Gaynor <gaynor.robert@hotmail.com>

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Package rglobi updated to version 0.2.28 with previous version 0.2.27 dated 2021-10-18

Title: R Interface to Global Biotic Interactions
Description: A programmatic interface to the web service methods provided by Global Biotic Interactions (GloBI) (<https://www.globalbioticinteractions.org/>). GloBI provides access to spatial-temporal species interaction records from sources all over the world. rglobi provides methods to search species interactions by location, interaction type, and taxonomic name. In addition, it supports Cypher, a graph query language, to allow for executing custom queries on the GloBI aggregate species interaction data set.
Author: Jorrit Poelen [aut, cre], Stephen Gosnell [aut], Sergey Slyusarev [aut], Helen Waters [aut]
Maintainer: Jorrit Poelen <jhpoelen@xs4all.nl>

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Package netgwas updated to version 1.14.1 with previous version 1.14 dated 2022-08-17

Title: Network-Based Genome Wide Association Studies
Description: A multi-core R package that contains a set of tools based on copula graphical models for accomplishing the three interrelated goals in genetics and genomics in an unified way: (1) linkage map construction, (2) constructing linkage disequilibrium networks, and (3) exploring high-dimensional genotype-phenotype network and genotype- phenotype-environment interactions networks. The 'netgwas' package can deal with biparental inbreeding and outbreeding species with any ploidy level, namely diploid (2 sets of chromosomes), triploid (3 sets of chromosomes), tetraploid (4 sets of chromosomes) and so on. We target on high-dimensional data where number of variables p is considerably larger than number of sample sizes (p >> n). The computations is memory-optimized using the sparse matrix output. The 'netgwas' implements the methodological developments in Behrouzi and Wit (2017) <doi:10.1111/rssc.12287> and Behrouzi and Wit (2017) <doi:10.1093/bioinformatics/bty777>.
Author: Pariya Behrouzi [aut, cre] , Ernst C. Wit [ctb]
Maintainer: Pariya Behrouzi <pariya.behrouzi@gmail.com>

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Package FuzzyClass updated to version 0.1.2 with previous version 0.1.1 dated 2022-05-27

Title: Fuzzy and Non-Fuzzy Classifiers
Description: It provides classifiers which can be used for discrete variables and for continuous variables based on the Naive Bayes and Fuzzy Naive Bayes hypothesis. Those methods were developed by researchers belong to the 'Laboratory of Technologies for Virtual Teaching and Statistics (LabTEVE)' (<http://www.de.ufpb.br/~labteve/>) and 'Laboratory of Applied Statistics to Image Processing and Geoprocessing (LEAPIG)' (<http://www.de.ufpb.br/~leapig/>) at 'Federal University of Paraiba, Brazil'. They considered some statistical distributions and their papers were published in the scientific literature, as for instance, the Gaussian classifier using fuzzy parameters, proposed by 'Moraes, Ferreira and Machado' (2021) <doi:10.1007/s40815-020-00936-4>.
Author: Jodavid Ferreira [aut, cre] , Ronei Moraes [ctb] , Arthur Ricardo [ctb]
Maintainer: Jodavid Ferreira <jodavid@protonmail.com>

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Package VIM updated to version 6.2.2 with previous version 6.1.1 dated 2021-07-22

Title: Visualization and Imputation of Missing Values
Description: New tools for the visualization of missing and/or imputed values are introduced, which can be used for exploring the data and the structure of the missing and/or imputed values. Depending on this structure of the missing values, the corresponding methods may help to identify the mechanism generating the missing values and allows to explore the data including missing values. In addition, the quality of imputation can be visually explored using various univariate, bivariate, multiple and multivariate plot methods. A graphical user interface available in the separate package VIMGUI allows an easy handling of the implemented plot methods.
Author: Matthias Templ [aut, cre], Alexander Kowarik [aut] , Andreas Alfons [aut], Gregor de Cillia [aut], Bernd Prantner [ctb], Wolfgang Rannetbauer [aut]
Maintainer: Matthias Templ <matthias.templ@gmail.com>

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Package shapefiles updated to version 0.7.2 with previous version 0.7.1 dated 2022-08-24

Title: Read and Write ESRI Shapefiles
Description: Functions to read and write ESRI shapefiles.
Author: Ben Stabler <benstabler@yahoo.com>
Maintainer: Ben Stabler <benstabler@yahoo.com>

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Package rgraph6 updated to version 2.0-2 with previous version 2.0-1 dated 2022-03-09

Title: Representing Graphs as 'graph6', 'digraph6' or 'sparse6' Strings
Description: Encode network data as strings of printable ASCII characters. Implemented functions include encoding and decoding adjacency matrices, edgelists, igraph, and network objects to/from formats 'graph6', 'sparse6', and 'digraph6'. The formats and methods are described in McKay, B.D. and Piperno, A (2014) <doi:10.1016/j.jsc.2013.09.003>.
Author: Michal Bojanowski [aut, cre] , David Schoch [aut]
Maintainer: Michal Bojanowski <michal2992@gmail.com>

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Package pathfindR updated to version 1.6.4 with previous version 1.6.3 dated 2021-11-15

Title: Enrichment Analysis Utilizing Active Subnetworks
Description: Enrichment analysis enables researchers to uncover mechanisms underlying a phenotype. However, conventional methods for enrichment analysis do not take into account protein-protein interaction information, resulting in incomplete conclusions. pathfindR is a tool for enrichment analysis utilizing active subnetworks. The main function identifies active subnetworks in a protein-protein interaction network using a user-provided list of genes and associated p values. It then performs enrichment analyses on the identified subnetworks, identifying enriched terms (i.e. pathways or, more broadly, gene sets) that possibly underlie the phenotype of interest. pathfindR also offers functionalities to cluster the enriched terms and identify representative terms in each cluster, to score the enriched terms per sample and to visualize analysis results. The enrichment, clustering and other methods implemented in pathfindR are described in detail in Ulgen E, Ozisik O, Sezerman OU. 2019. pathfindR: An R [...truncated...]
Author: Ege Ulgen [cre, cph] , Ozan Ozisik [aut]
Maintainer: Ege Ulgen <egeulgen@gmail.com>

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Package OncoBayes2 updated to version 0.8-7 with previous version 0.8-6 dated 2022-05-02

Title: Bayesian Logistic Regression for Oncology Dose-Escalation Trials
Description: Bayesian logistic regression model with optional EXchangeability-NonEXchangeability parameter modelling for flexible borrowing from historical or concurrent data-sources. The safety model can guide dose-escalation decisions for adaptive oncology Phase I dose-escalation trials which involve an arbitrary number of drugs. Please refer to Neuenschwander et al. (2008) <doi:10.1002/sim.3230> and Neuenschwander et al. (2016) <doi:10.1080/19466315.2016.1174149> for details on the methodology.
Author: Novartis Pharma AG [cph], Sebastian Weber [aut, cre], Lukas A. Widmer [aut], Andrew Bean [aut], Trustees of Columbia University [cph]
Maintainer: Sebastian Weber <sebastian.weber@novartis.com>

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Package netseg updated to version 1.0-1 with previous version 1.0-0 dated 2021-02-17

Title: Measures of Network Segregation and Homophily
Description: Segregation is a network-level property such that edges between predefined groups of vertices are relatively less likely. Network homophily is a individual-level tendency to form relations with people who are similar on some attribute (e.g. gender, music taste, social status, etc.). In general homophily leads to segregation, but segregation might arise without homophily. This package implements descriptive indices measuring homophily/segregation. It is a computational companion to Bojanowski & Corten (2014) <doi:10.1016/j.socnet.2014.04.001>.
Author: Michal Bojanowski [aut, cre]
Maintainer: Michal Bojanowski <michal2992@gmail.com>

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Package gpboost updated to version 0.7.9 with previous version 0.7.8 dated 2022-07-08

Title: Combining Tree-Boosting with Gaussian Process and Mixed Effects Models
Description: An R package that allows for combining tree-boosting with Gaussian process and mixed effects models. It also allows for independently doing tree-boosting as well as inference and prediction for Gaussian process and mixed effects models. See <https://github.com/fabsig/GPBoost> for more information on the software and Sigrist (2020) <arXiv:2004.02653> and Sigrist (2021) <arXiv:2105.08966> for more information on the methodology.
Author: Fabio Sigrist [aut, cre], Benoit Jacob [cph], Gael Guennebaud [cph], Nicolas Carre [cph], Pierre Zoppitelli [cph], Gauthier Brun [cph], Jean Ceccato [cph], Jitse Niesen [cph], Other authors of Eigen for the included version of Eigen [ctb, cph], Timot [...truncated...]
Maintainer: Fabio Sigrist <fabiosigrist@gmail.com>

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Package RApiSerialize updated to version 0.1.2 with previous version 0.1.1 dated 2022-08-07

Title: R API Serialization
Description: Access to the internal R serialization code is provided for use by other packages at the C function level by using the registration of native function mechanism. Client packages simply include a single header file RApiSerializeAPI.h provided by this package. This packages builds on the Rhpc package by Ei-ji Nakama and Junji Nakano which also includes a (partial) copy of the file src/main/serialize.c from R itself. The R Core group is the original author of the serialization code made available by this package.
Author: Dirk Eddelbuettel, Ei-ji Nakama, Junji Nakano, and R Core
Maintainer: Dirk Eddelbuettel <edd@debian.org>

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Package polished updated to version 0.7.0 with previous version 0.6.1 dated 2022-02-24

Title: Authentication, User Administration, and Hosting for 'shiny' Apps
Description: Authentication, user administration, hosting, and additional infrastructure for 'shiny' apps.
Author: Andy Merlino [aut, cre], Patrick Howard [aut]
Maintainer: Andy Merlino <andy.merlino@tychobra.com>

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Package mlr3tuning updated to version 0.14.0 with previous version 0.13.1 dated 2022-05-03

Title: Tuning for 'mlr3'
Description: Implements methods for hyperparameter tuning with 'mlr3', e.g. grid search, random search, generalized simulated annealing and iterated racing. Various termination criteria can be set and combined. The class 'AutoTuner' provides a convenient way to perform nested resampling in combination with 'mlr3'.
Author: Marc Becker [cre, aut] , Michel Lang [aut] , Jakob Richter [aut] , Bernd Bischl [aut] , Daniel Schalk [aut]
Maintainer: Marc Becker <marcbecker@posteo.de>

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Package mlr3hyperband updated to version 0.4.2 with previous version 0.4.1 dated 2022-05-04

Title: Hyperband for 'mlr3'
Description: Implements hyperband method for hyperparameter tuning. Various termination criteria can be set and combined. The class 'AutoTuner' provides a convenient way to perform nested resampling in combination with 'mlr3'. The hyperband algorithm was proposed by Lisha Li, Kevin Jamieson, Giulia DeSalvo, Afshin Rostamizadeh and Ameet Talwalkar (2018) <arXiv:1603.06560>.
Author: Marc Becker [aut, cre] , Sebastian Gruber [aut] , Jakob Richter [aut] , Julia Moosbauer [aut] , Bernd Bischl [aut]
Maintainer: Marc Becker <marcbecker@posteo.de>

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Package PLNmodels updated to version 0.11.7 with previous version 0.11.6 dated 2022-02-01

Title: Poisson Lognormal Models
Description: The Poisson-lognormal model and variants (Chiquet, Mariadassou and Robin, 2021 <doi:10.3389/fevo.2021.588292>) can be used for a variety of multivariate problems when count data are at play, including principal component analysis for count data, discriminant analysis, model-based clustering and network inference. Implements variational algorithms to fit such models accompanied with a set of functions for visualization and diagnostic.
Author: Julien Chiquet [aut, cre] , Mahendra Mariadassou [aut] , Stephane Robin [ctb], Giovanni Poggiato [ctb], Francois Gindraud [aut]
Maintainer: Julien Chiquet <julien.chiquet@inrae.fr>

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Package mlr3fselect updated to version 0.7.2 with previous version 0.7.1 dated 2022-05-03

Title: Feature Selection for 'mlr3'
Description: Implements methods for feature selection with 'mlr3', e.g. random search and sequential selection. Various termination criteria can be set and combined. The class 'AutoFSelector' provides a convenient way to perform nested resampling in combination with 'mlr3'.
Author: Marc Becker [aut, cre] , Patrick Schratz [aut] , Michel Lang [aut] , Bernd Bischl [aut]
Maintainer: Marc Becker <marcbecker@posteo.de>

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Package fundiversity updated to version 1.0.0 with previous version 0.2.1 dated 2021-09-21

Title: Easy Computation of Alpha Functional Diversity Indices
Description: Computes 5 alpha-functional diversity indices: Functional Divergence (FDiv), Function Evenness (FEve), Functional Richness (FRic), Functional Dispersion (FDis) and Rao's entropy (Q) (reviewed in Villéger et al. 2008 <doi:10.1890/07-1206.1>). Provides efficient, modular, and parallel functions to compute functional diversity indices.
Author: Matthias Grenie [aut, cre] , Hugo Gruson [aut]
Maintainer: Matthias Grenie <matthias.grenie@gmail.com>

Diff between fundiversity versions 0.2.1 dated 2021-09-21 and 1.0.0 dated 2022-08-25

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Package ComparisonSurv updated to version 1.1.1 with previous version 1.1.0 dated 2022-06-17

Title: Comparison of Survival Curves Between Two Groups
Description: Various statistical methods for survival analysis in comparing survival curves between two groups, including overall hypothesis tests described in Li et al. (2015) <doi:10.1371/journal.pone.0116774> and Huang et al. (2020) <doi:10.1080/03610918.2020.1753075>, fixed-point tests in Klein et al. (2007) <doi:10.1002/sim.2864>, short-term tests, and long-term tests in Logan et al. (2008) <doi:10.1111/j.1541-0420.2007.00975.x>. Some commonly used descriptive statistics and plots are also included.
Author: Jingjing Lyu [aut], Zheng Chen [cre], Huimin Li [ctb], Jinbao Chen [ctb], Xinghui Huang [ctb]
Maintainer: Zheng Chen <zheng-chen@hotmail.com>

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Package bbotk updated to version 0.5.4 with previous version 0.5.3 dated 2022-05-04

Title: Black-Box Optimization Toolkit
Description: Provides a common framework for optimization of black-box functions for other packages, e.g. 'mlr3tuning' or 'mlr3fselect'. It offers various optimization methods e.g. grid search, random search, generalized simulated annealing and iterated racing.
Author: Marc Becker [cre, aut] , Jakob Richter [aut] , Michel Lang [aut] , Bernd Bischl [aut] , Martin Binder [aut], Olaf Mersmann [ctb]
Maintainer: Marc Becker <marcbecker@posteo.de>

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Package Rnumerai updated to version 3.0.0 with previous version 2.1.4 dated 2021-10-08

Title: Interface to the Numerai Machine Learning Tournament API
Description: Routines to interact with the Numerai Machine Learning Tournament API <https://numer.ai>. The functionality includes the ability to automatically download the current tournament data, submit predictions, and to get information for your user.
Author: Omni Analytics Group [aut], Eric Hare [cre], Yogesh Bansal [ctb]
Maintainer: Eric Hare <eric@omnianalytics.org>

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Package quadrupen updated to version 0.2-9 with previous version 0.2-8 dated 2020-11-18

Title: Sparsity by Worst-Case Quadratic Penalties
Description: Fits classical sparse regression models with efficient active set algorithms by solving quadratic problems as described by Grandvalet, Chiquet and Ambroise (2017) <arXiv:1210.2077>. Also provides a few methods for model selection purpose (cross-validation, stability selection).
Author: Julien Chiquet [aut, cre]
Maintainer: Julien Chiquet <julien.chiquet@inrae.fr>

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Package miceadds updated to version 3.14-3 with previous version 3.13-12 dated 2022-06-01

Title: Some Additional Multiple Imputation Functions, Especially for 'mice'
Description: Contains functions for multiple imputation which complements existing functionality in R. In particular, several imputation methods for the mice package (van Buuren & Groothuis-Oudshoorn, 2011, <doi:10.18637/jss.v045.i03>) are included. Main features of the miceadds package include plausible value imputation (Mislevy, 1991, <doi:10.1007/BF02294457>), multilevel imputation for variables at any level or with any number of hierarchical and non-hierarchical levels (Grund, Luedtke & Robitzsch, 2018, <doi:10.1177/1094428117703686>; van Buuren, 2018, Ch.7, <doi:10.1201/9780429492259>), imputation using partial least squares (PLS) for high dimensional predictors (Robitzsch, Pham & Yanagida, 2016), nested multiple imputation (Rubin, 2003, <doi:10.1111/1467-9574.00217>), substantive model compatible imputation (Bartlett et al., 2015, <doi:10.1177/0962280214521348>), and features for the generation of synthetic datasets (Reiter, 2005, <doi:10.111 [...truncated...]
Author: Alexander Robitzsch [aut,cre] , Simon Grund [aut] , Thorsten Henke [ctb]
Maintainer: Alexander Robitzsch <robitzsch@ipn.uni-kiel.de>

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New package lcc with initial version 1.1.4
Package: lcc
Title: Longitudinal Concordance Correlation
Version: 1.1.4
Author: Thiago de Paula Oliveira [aut, cre] , Rafael de Andrade Moral [aut] , Silvio Sandoval Zocchi [ctb] , Clarice Garcia Borges Demetrio [ctb] , John Hinde [aut]
Maintainer: Thiago de Paula Oliveira <thiago.paula.oliveira@alumni.usp.br>
Description: Estimates the longitudinal concordance correlation to access the longitudinal agreement profile. The estimation approach implemented is variance components approach based on polynomial mixed effects regression model, as proposed by Oliveira, Hinde and Zocchi (2018) <doi:10.1007/s13253-018-0321-1>. In addition, non-parametric confidence intervals were implemented using percentile method or normal-approximation based on Fisher Z-transformation.
Date: 2022-08-23
Depends: R (>= 3.2.3), nlme (>= 3.1-124), ggplot2 (>= 2.2.1)
Imports: hnp, parallel, doSNOW, doRNG, foreach
Suggests: roxygen2 (>= 3.0.0), covr, testthat, MASS
License: GPL (>= 2)
Encoding: UTF-8
Repository: CRAN
NeedsCompilation: yes
LazyData: true
Packaged: 2022-08-24 20:25:40 UTC; thiago
Date/Publication: 2022-08-25 09:00:02 UTC

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New package evalR with initial version 0.0.1
Package: evalR
Title: Evaluation of Unverified Code
Version: 0.0.1
Description: The purpose of this package is to generate trees and validate unverified code. Trees are made by parsing a statement into a verification tree data structure. This will make it easy to port the statement into another language. Safe statement evaluations are done by executing the verification trees.
Depends: R (>= 3.5.0)
License: MIT + file LICENSE
Imports: Rcpp (>= 1.0.1)
LinkingTo: Rcpp
Suggests: testthat, rmarkdown, knitr, tufte, microbenchmark
VignetteBuilder: knitr
NeedsCompilation: yes
Packaged: 2022-08-24 21:20:52 UTC; tlols
Author: Numerious Inc. [cph, fnd], Trevor Olsen [aut, cre]
Maintainer: Trevor Olsen <trevor@numerious.com>
Repository: CRAN
Date/Publication: 2022-08-25 09:32:34 UTC

More information about evalR at CRAN
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Package vegclust updated to version 2.0.2 with previous version 2.0.0 dated 2021-06-01

Title: Fuzzy Clustering of Vegetation Data
Description: A set of functions to: (1) perform fuzzy clustering of vegetation data (De Caceres et al, 2010) <doi:10.1111/j.1654-1103.2010.01211.x>; (2) to assess ecological community similarity on the basis of structure and composition (De Caceres et al, 2013) <doi:10.1111/2041-210X.12116>.
Author: Miquel De Caceres [aut, cre]
Maintainer: Miquel De Caceres <miquelcaceres@gmail.com>

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Package threeBrain updated to version 0.2.6 with previous version 0.2.5 dated 2022-05-30

Title: 3D Brain Visualization
Description: A fast, interactive cross-platform, and easy to share 'WebGL'-based 3D brain viewer that visualizes 'FreeSurfer' and/or 'AFNI/SUMA' surfaces. The viewer widget can be either standalone or embedded into 'R-shiny' applications. The standalone version only require a web browser with 'WebGL2' support (for example, 'Chrome', 'Firefox', 'Safari'), and can be inserted into any websites. The 'R-shiny' support allows the 3D viewer to be dynamically generated from reactive user inputs. This feature has been fully adopted by 'RAVE' <https://openwetware.org/wiki/RAVE>, an interactive toolbox to analyze 'iEEG' data. Documentation about 'threeBrain' is provided by <https://dipterix.org/threeBrain/> and several vignettes included in this package. To cite the package, please check our 'NeuroImage' paper by Magnotti, Wang, and Beauchamp (2020, <doi:10.1016/j.neuroimage.2020.117341>), or see 'citation("threeBrain")' for details.
Author: Zhengjia Wang [aut, cre, cph], John Magnotti [aut], Xiang Zhang [ctb, res], Brian Metzger [res], Elizabeth Nesbitt [res], Meng Li [ths], Michael Beauchamp [aut, dtc]
Maintainer: Zhengjia Wang <dipterix.wang@gmail.com>

Diff between threeBrain versions 0.2.5 dated 2022-05-30 and 0.2.6 dated 2022-08-25

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Package spnaf updated to version 0.2.1 with previous version 0.2.0 dated 2022-08-07

Title: Spatial Network Autocorrelation for Flow Data
Description: Identify statistically significant flow clusters using the local spatial network autocorrelation statistic G_ij* proposed by 'Berglund' and 'Karlström' (1999) <doi:10.1007/s101090050013>. The metric, an extended statistic of 'Getis/Ord' G ('Getis' and 'Ord' 1992) <doi:10.1111/j.1538-4632.1992.tb00261.x>, detects a group of flows having similar traits in terms of directionality. You provide OD data and the associated polygon to get results with several parameters, some of which are defined by spdep package.
Author: Youngbin Lee [aut, cre] , Hui Jeong Ha [aut] , Sohyun Park [aut] , Kyusik Kim [aut] , Jinhyung Lee [aut]
Maintainer: Youngbin Lee <youngbin@snu.ac.kr>

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Package SDMtune updated to version 1.1.6 with previous version 1.1.5 dated 2021-07-17

Title: Species Distribution Model Selection
Description: User-friendly framework that enables the training and the evaluation of species distribution models (SDMs). The package implements functions for data driven variable selection and model tuning and includes numerous utilities to display the results. All the functions used to select variables or to tune model hyperparameters have an interactive real-time chart displayed in the 'RStudio' viewer pane during their execution.
Author: Sergio Vignali [aut, cre] , Arnaud Barras [aut] , Veronika Braunisch [aut] , Conservation Biology - University of Bern [fnd]
Maintainer: Sergio Vignali <sergio.vignali@iee.unibe.ch>

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Package satscanMapper updated to version 1.0.2 with previous version 1.0.1 dated 2018-07-05

Title: 'SaTScan' (TM) Results Mapper
Description: Supports the generation of maps based on the results from 'SaTScan' (TM) cluster analysis. The package handles mapping of Spatial and Spatial-Time analysis using the discrete Poisson, Bernoulli, and exponential models of case data generating cluster and location ('GIS') records containing observed, expected and observed/expected ratio for U. S. states (and DC), counties or census tracts of individual states based on the U. S. 'FIPS' codes for state, county and census tracts (locations) using 2000 or 2010 Census areas, 'FIPS' codes, and boundary data. 'satscanMapper' uses the 'SeerMapper' package for the boundary data and mapping of locations. Not all of the 'SaTScan' (TM) analysis and models generate the observed, expected and observed/expected ratio values for the clusters and locations. The user can map the observed/expected ratios for locations (states, counties, or census tracts) for each cluster with a p-value less than 0.05 or a user specified p-value. The locations are categori [...truncated...]
Author: Jim Pearson [aut, cre, cph]
Maintainer: Jim Pearson <jbpearson353@gmail.com>

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Package ravetools updated to version 0.0.6 with previous version 0.0.5 dated 2022-08-06

Title: Signal Processing Toolbox for Analyzing 'Electrophysiology' Data
Description: Implemented fast and memory-efficient 'Notch'-filter, 'Welch-periodogram', and discrete wavelet transform algorithm for hours of high-resolution signals; providing fundamental toolbox for 'iEEG' preprocess pipelines. Documentation and examples about 'RAVE' project are provided at <https://openwetware.org/wiki/RAVE>, and the paper by John F. Magnotti, Zhengjia Wang, Michael S. Beauchamp (2020) <doi:10.1016/j.neuroimage.2020.117341>; see 'citation("ravetools")' for details.
Author: Zhengjia Wang [aut, cre, cph], Beauchamp lab [cph], Karim Rahim [cph] , Prerau Lab [cph] , RcppParallel Authors [cph] , Marcus Geelnard [cph]
Maintainer: Zhengjia Wang <dipterix.wang@gmail.com>

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Package raveio updated to version 0.0.8 with previous version 0.0.7 dated 2022-06-20

Title: File-System Toolbox for RAVE Project
Description: Includes multiple cross-platform read/write interfaces for 'RAVE' project. 'RAVE' stands for "R analysis and visualization of human intracranial electroencephalography data". The whole project aims at providing powerful free-source package that analyze brain recordings from patients with electrodes placed on the cortical surface or inserted into the brain. 'raveio' as part of this project provides tools to read/write neurophysiology data from/to 'RAVE' file structure, as well as several popular formats including 'EDF(+)', 'Matlab', 'BIDS-iEEG', and 'HDF5', etc. Documentation and examples about 'RAVE' project are provided at <https://openwetware.org/wiki/RAVE>, and the paper by John F. Magnotti, Zhengjia Wang, Michael S. Beauchamp (2020) <doi:10.1016/j.neuroimage.2020.117341>; see 'citation("raveio")' for details.
Author: Zhengjia Wang [aut, cre], Beauchamp lab [cph, fnd]
Maintainer: Zhengjia Wang <dipterix.wang@gmail.com>

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Package paws.compute updated to version 0.1.13 with previous version 0.1.12 dated 2021-08-23

Title: 'Amazon Web Services' Compute Services
Description: Interface to 'Amazon Web Services' compute services, including 'Elastic Compute Cloud' ('EC2'), 'Lambda' functions-as-a-service, containers, batch processing, and more <https://aws.amazon.com/>.
Author: David Kretch [aut], Adam Banker [aut], Dyfan Jones [cre], Amazon.com, Inc. [cph]
Maintainer: Dyfan Jones <dyfan.r.jones@gmail.com>

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Package MXM updated to version 1.5.5 with previous version 1.5.4 dated 2022-06-06

Title: Feature Selection (Including Multiple Solutions) and Bayesian Networks
Description: Many feature selection methods for a wide range of response variables, including minimal, statistically-equivalent and equally-predictive feature subsets. Bayesian network algorithms and related functions are also included. The package name 'MXM' stands for "Mens eX Machina", meaning "Mind from the Machine" in Latin. References: a) Lagani, V. and Athineou, G. and Farcomeni, A. and Tsagris, M. and Tsamardinos, I. (2017). Feature Selection with the R Package MXM: Discovering Statistically Equivalent Feature Subsets. Journal of Statistical Software, 80(7). <doi:10.18637/jss.v080.i07>. b) Tsagris, M., Lagani, V. and Tsamardinos, I. (2018). Feature selection for high-dimensional temporal data. BMC Bioinformatics, 19:17. <doi:10.1186/s12859-018-2023-7>. c) Tsagris, M., Borboudakis, G., Lagani, V. and Tsamardinos, I. (2018). Constraint-based causal discovery with mixed data. International Journal of Data Science and Analytics, 6(1): 19-30. <doi:10.1007/s41060-018-0097-y>. d) [...truncated...]
Author: Konstantina Biza [aut, cre], Ioannis Tsamardinos [aut, cph], Vincenzo Lagani [aut, cph], Giorgos Athineou [aut], Michail Tsagris [aut], Giorgos Borboudakis [ctb], Anna Roumpelaki [ctb]
Maintainer: Konstantina Biza <kbiza@csd.uoc.gr>

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Package iccde updated to version 0.3.4 with previous version 0.3.3 dated 2022-04-22

Title: Computation of the Double-Entry Intraclass Correlation
Description: The function computes the double-entry intraclass correlation, which is an index of profile similarity (Furr, 2010; McCrae, 2008). The double-entry intraclass correlation is a more precise index of the agreement of two empirically observed profiles than the often-used intraclass correlation (McCrae, 2008). The function transforms profiles comprising correlations according to the Fisher z-transformation before the double-entry intraclass correlation is calculated. If the profiles comprise scores such as sum scores from various personality scales, it is recommended to standardize each individual score before entering into the function (McCrae, 2008). See Furr (2010) <doi:10.1080/00223890903379134> or McCrae (2008) <doi:10.1080/00223890701845104> for details.
Author: Christian Bloetner, Michael Paul Grosz
Maintainer: Christian Bloetner <c.bloetner@gmail.com>

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Package ggpointless updated to version 0.0.3 with previous version 0.0.2 dated 2022-06-08

Title: A Small Collection of Geometries, and Stats for 'ggplot2'
Description: A collection of geometries and stats for 'ggplot2'. Currently it supports geom_pointless() which adds minimal emphasis to your plots. Or just some visual sugar. geom_lexis() draws a 45° lifeline of an event that mimics lexis diagrams. geom_chaikin() applies Chaikin's corner cutting algorithm to a path.
Author: Markus Doering [aut, cre]
Maintainer: Markus Doering <m4rkus.doering@gmail.com>

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Package excursions updated to version 2.5.3 with previous version 2.5.2 dated 2021-09-17

Title: Excursion Sets and Contour Credibility Regions for Random Fields
Description: Functions that compute probabilistic excursion sets, contour credibility regions, contour avoiding regions, and simultaneous confidence bands for latent Gaussian random processes and fields. The package also contains functions that calculate these quantities for models estimated with the INLA package. The main references for excursions are Bolin and Lindgren (2015) <doi:10.1111/rssb.12055>, Bolin and Lindgren (2017) <doi:10.1080/10618600.2016.1228537>, and Bolin and Lindgren (2018) <doi:10.18637/jss.v086.i05>. These can be generated by the citation function in R.
Author: David Bolin [cre, aut], Finn Lindgren [aut]
Maintainer: David Bolin <davidbolin@gmail.com>

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Package diffcor updated to version 0.7.2 with previous version 0.7.1 dated 2022-05-05

Title: Fisher's z-Tests Concerning Difference of Correlations
Description: Computations of Fisher's z-tests concerning differences between correlations. diffcor.one() tests whether an expected value differs from an observed value, for example, in construct validation. diffcor.two() tests whether the correlation between two constructs differed across two studies/samples. diffcor.dep() checks whether the correlation between two constructs (r12) is significantly different from the correlation between the first construct with a third one (r13), given the intercorrelation of the compared constructs (r23). All outputs provide the compared correlations, test statistic in z-units, and p-values. For diffcor.one() and diffcor.two(), the output further provides confidence intervals of the empirical correlations and the effect size Cohens q. According to Cohen (1988), q = |.10|, |.30| and |.50| are considered small, moderate, and large differences, respectively.
Author: Christian Bloetner
Maintainer: Christian Bloetner <c.bloetner@gmail.com>

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Package competitiontoolbox updated to version 0.7.1 with previous version 0.7.0 dated 2021-05-21

Title: A Graphical User Interface for Antitrust and Trade Practitioners
Description: A graphical user interface for simulating the effects of mergers, tariffs, and quotas under an assortment of different economic models. The interface is powered by the 'Shiny' web application framework from 'RStudio'.
Author: Charles Taragin [aut, cre], Kenneth Rios [aut], Paulette Wolak [aut]
Maintainer: Charles Taragin <ctaragin+competitiontoolbox@gmail.com>

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Permanent link

Package butcher updated to version 0.3.0 with previous version 0.2.0 dated 2022-06-14

Title: Model Butcher
Description: Provides a set of S3 generics to axe components of fitted model objects and help reduce the size of model objects saved to disk.
Author: Joyce Cahoon [aut] , Davis Vaughan [aut], Max Kuhn [aut], Alex Hayes [aut], Julia Silge [cre, aut] , RStudio [cph, fnd]
Maintainer: Julia Silge <julia.silge@rstudio.com>

Diff between butcher versions 0.2.0 dated 2022-06-14 and 0.3.0 dated 2022-08-25

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Permanent link

Package aslib updated to version 0.1.2 with previous version 0.1.1 dated 2020-05-24

Title: Interface to the Algorithm Selection Benchmark Library
Description: Provides an interface to the algorithm selection benchmark library at <http://www.aslib.net> and the 'LLAMA' package (<https://cran.r-project.org/package=llama>) for building algorithm selection models; see Bischl et al. (2016) <doi:10.1016/j.artint.2016.04.003>.
Author: Bernd Bischl <bernd_bischl@gmx.net>, Lars Kotthoff <larsko@uwyo.edu>, Pascal Kerschke <kerschke@uni-muenster.de> [ctb], Damir Pulatov <damirpolat@protonmail.com> [ctb]
Maintainer: Lars Kotthoff <larsko@uwyo.edu>

Diff between aslib versions 0.1.1 dated 2020-05-24 and 0.1.2 dated 2022-08-25

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More information about aslib at CRAN
Permanent link

New package ALS with initial version 0.0.7
Package: ALS
Title: Multivariate Curve Resolution Alternating Least Squares (MCR-ALS)
Version: 0.0.7
Author: Katharine M. Mullen
Maintainer: Katharine Mullen <mullenkate@gmail.com>
Depends: nnls (>= 1.1), Iso, R (>= 2.10)
Description: Alternating least squares is often used to resolve components contributing to data with a bilinear structure; the basic technique may be extended to alternating constrained least squares. Commonly applied constraints include unimodality, non-negativity, and normalization of components. Several data matrices may be decomposed simultaneously by assuming that one of the two matrices in the bilinear decomposition is shared between datasets.
License: GPL (>= 2)
NeedsCompilation: no
Packaged: 2022-08-25 06:51:44 UTC; kmm
Repository: CRAN
Date/Publication: 2022-08-25 08:32:58 UTC

More information about ALS at CRAN
Permanent link

Package mlr3spatial updated to version 0.2.1 with previous version 0.2.0 dated 2022-08-18

Title: Support for Spatial Objects Within the 'mlr3' Ecosystem
Description: Extends the 'mlr3' ML framework with methods for spatial objects. Data storage and prediction are supported for packages 'terra', 'raster' and 'stars'.
Author: Marc Becker [aut, cre] , Patrick Schratz [aut]
Maintainer: Marc Becker <marcbecker@posteo.de>

Diff between mlr3spatial versions 0.2.0 dated 2022-08-18 and 0.2.1 dated 2022-08-25

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Permanent link

Package umap updated to version 0.2.9.0 with previous version 0.2.8.0 dated 2022-03-25

Title: Uniform Manifold Approximation and Projection
Description: Uniform manifold approximation and projection is a technique for dimension reduction. The algorithm was described by McInnes and Healy (2018) in <arXiv:1802.03426>. This package provides an interface for two implementations. One is written from scratch, including components for nearest-neighbor search and for embedding. The second implementation is a wrapper for 'python' package 'umap-learn' (requires separate installation, see vignette for more details).
Author: Tomasz Konopka [aut, cre]
Maintainer: Tomasz Konopka <tokonopka@gmail.com>

Diff between umap versions 0.2.8.0 dated 2022-03-25 and 0.2.9.0 dated 2022-08-25

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More information about umap at CRAN
Permanent link

Package tourr updated to version 0.6.1 with previous version 0.6.0 dated 2020-12-11

Title: Tour Methods for Multivariate Data Visualisation
Description: Implements geodesic interpolation and basis generation functions that allow you to create new tour methods from R.
Author: Hadley Wickham [aut, ctb] , Di Cook [aut, cre] , Nick Spyrison [ctb], Ursula Laa [ctb] , H. Sherry Zhang [ctb], Stuart Lee [ctb]
Maintainer: Di Cook <dicook@monash.edu>

Diff between tourr versions 0.6.0 dated 2020-12-11 and 0.6.1 dated 2022-08-25

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More information about tourr at CRAN
Permanent link

Package gt updated to version 0.7.0 with previous version 0.6.0 dated 2022-05-24

Title: Easily Create Presentation-Ready Display Tables
Description: Build display tables from tabular data with an easy-to-use set of functions. With its progressive approach, we can construct display tables with a cohesive set of table parts. Table values can be formatted using any of the included formatting functions. Footnotes and cell styles can be precisely added through a location targeting system. The way in which 'gt' handles things for you means that you don't often have to worry about the fine details.
Author: Richard Iannone [aut, cre] , Joe Cheng [aut], Barret Schloerke [aut] , Ellis Hughes [aut] , RStudio [cph, fnd]
Maintainer: Richard Iannone <rich@rstudio.com>

Diff between gt versions 0.6.0 dated 2022-05-24 and 0.7.0 dated 2022-08-25

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 gt-0.7.0/gt/man/cols_align.Rd                            |    6 
 gt-0.7.0/gt/man/cols_hide.Rd                             |    8 
 gt-0.7.0/gt/man/cols_label.Rd                            |    8 
 gt-0.7.0/gt/man/cols_merge.Rd                            |    6 
 gt-0.7.0/gt/man/cols_merge_n_pct.Rd                      |    6 
 gt-0.7.0/gt/man/cols_merge_range.Rd                      |    6 
 gt-0.7.0/gt/man/cols_merge_uncert.Rd                     |    6 
 gt-0.7.0/gt/man/cols_move.Rd                             |    6 
 gt-0.7.0/gt/man/cols_move_to_end.Rd                      |    8 
 gt-0.7.0/gt/man/cols_move_to_start.Rd                    |    8 
 gt-0.7.0/gt/man/cols_unhide.Rd                           |    8 
 gt-0.7.0/gt/man/cols_width.Rd                            |    6 
 gt-0.7.0/gt/man/countrypops.Rd                           |   20 
 gt-0.7.0/gt/man/currency.Rd                              |    6 
 gt-0.7.0/gt/man/data_color.Rd                            |    9 
 gt-0.7.0/gt/man/default_fonts.Rd                         |    6 
 gt-0.7.0/gt/man/escape_latex.Rd                          |    4 
 gt-0.7.0/gt/man/exibble.Rd                               |   28 
 gt-0.7.0/gt/man/extract_summary.Rd                       |   75 -
 gt-0.7.0/gt/man/fmt.Rd                                   |    9 
 gt-0.7.0/gt/man/fmt_bytes.Rd                             |    9 
 gt-0.7.0/gt/man/fmt_currency.Rd                          |    9 
 gt-0.7.0/gt/man/fmt_date.Rd                              |    9 
 gt-0.7.0/gt/man/fmt_datetime.Rd                          |    7 
 gt-0.7.0/gt/man/fmt_duration.Rd                          |only
 gt-0.7.0/gt/man/fmt_engineering.Rd                       |    7 
 gt-0.7.0/gt/man/fmt_fraction.Rd                          |   20 
 gt-0.7.0/gt/man/fmt_integer.Rd                           |    7 
 gt-0.7.0/gt/man/fmt_markdown.Rd                          |    9 
 gt-0.7.0/gt/man/fmt_number.Rd                            |    9 
 gt-0.7.0/gt/man/fmt_partsper.Rd                          |    7 
 gt-0.7.0/gt/man/fmt_passthrough.Rd                       |    9 
 gt-0.7.0/gt/man/fmt_percent.Rd                           |    7 
 gt-0.7.0/gt/man/fmt_scientific.Rd                        |    7 
 gt-0.7.0/gt/man/fmt_time.Rd                              |    9 
 gt-0.7.0/gt/man/ggplot_image.Rd                          |    6 
 gt-0.7.0/gt/man/google_font.Rd                           |    8 
 gt-0.7.0/gt/man/grand_summary_rows.Rd                    |    6 
 gt-0.7.0/gt/man/gt-options.Rd                            |    4 
 gt-0.7.0/gt/man/gt-package.Rd                            |    1 
 gt-0.7.0/gt/man/gt.Rd                                    |    8 
 gt-0.7.0/gt/man/gt_latex_dependencies.Rd                 |    4 
 gt-0.7.0/gt/man/gt_preview.Rd                            |    6 
 gt-0.7.0/gt/man/gtcars.Rd                                |   40 
 gt-0.7.0/gt/man/gtsave.Rd                                |   33 
 gt-0.7.0/gt/man/html.Rd                                  |    6 
 gt-0.7.0/gt/man/info_currencies.Rd                       |    8 
 gt-0.7.0/gt/man/info_date_style.Rd                       |    6 
 gt-0.7.0/gt/man/info_google_fonts.Rd                     |    6 
 gt-0.7.0/gt/man/info_locales.Rd                          |    6 
 gt-0.7.0/gt/man/info_paletteer.Rd                        |    6 
 gt-0.7.0/gt/man/info_time_style.Rd                       |    6 
 gt-0.7.0/gt/man/local_image.Rd                           |    6 
 gt-0.7.0/gt/man/md.Rd                                    |    6 
 gt-0.7.0/gt/man/opt_align_table_header.Rd                |    7 
 gt-0.7.0/gt/man/opt_all_caps.Rd                          |    7 
 gt-0.7.0/gt/man/opt_css.Rd                               |    9 
 gt-0.7.0/gt/man/opt_footnote_marks.Rd                    |    7 
 gt-0.7.0/gt/man/opt_horizontal_padding.Rd                |    7 
 gt-0.7.0/gt/man/opt_row_striping.Rd                      |    7 
 gt-0.7.0/gt/man/opt_stylize.Rd                           |only
 gt-0.7.0/gt/man/opt_table_font.Rd                        |    9 
 gt-0.7.0/gt/man/opt_table_lines.Rd                       |    7 
 gt-0.7.0/gt/man/opt_table_outline.Rd                     |    9 
 gt-0.7.0/gt/man/opt_vertical_padding.Rd                  |    7 
 gt-0.7.0/gt/man/pct.Rd                                   |    6 
 gt-0.7.0/gt/man/pizzaplace.Rd                            |   24 
 gt-0.7.0/gt/man/px.Rd                                    |    6 
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 gt-0.7.0/gt/man/row_group_order.Rd                       |    4 
 gt-0.7.0/gt/man/sp500.Rd                                 |   24 
 gt-0.7.0/gt/man/sub_large_vals.Rd                        |   37 
 gt-0.7.0/gt/man/sub_missing.Rd                           |    7 
 gt-0.7.0/gt/man/sub_small_vals.Rd                        |   37 
 gt-0.7.0/gt/man/sub_zero.Rd                              |   33 
 gt-0.7.0/gt/man/summary_rows.Rd                          |    6 
 gt-0.7.0/gt/man/sza.Rd                                   |   18 
 gt-0.7.0/gt/man/tab_footnote.Rd                          |    9 
 gt-0.7.0/gt/man/tab_header.Rd                            |    7 
 gt-0.7.0/gt/man/tab_options.Rd                           |   23 
 gt-0.7.0/gt/man/tab_row_group.Rd                         |    9 
 gt-0.7.0/gt/man/tab_source_note.Rd                       |    9 
 gt-0.7.0/gt/man/tab_spanner.Rd                           |    7 
 gt-0.7.0/gt/man/tab_spanner_delim.Rd                     |    7 
 gt-0.7.0/gt/man/tab_stub_indent.Rd                       |only
 gt-0.7.0/gt/man/tab_stubhead.Rd                          |    7 
 gt-0.7.0/gt/man/tab_style.Rd                             |   13 
 gt-0.7.0/gt/man/test_image.Rd                            |    4 
 gt-0.7.0/gt/man/text_transform.Rd                        |    7 
 gt-0.7.0/gt/man/vec_fmt_bytes.Rd                         |only
 gt-0.7.0/gt/man/vec_fmt_currency.Rd                      |only
 gt-0.7.0/gt/man/vec_fmt_date.Rd                          |only
 gt-0.7.0/gt/man/vec_fmt_datetime.Rd                      |only
 gt-0.7.0/gt/man/vec_fmt_duration.Rd                      |only
 gt-0.7.0/gt/man/vec_fmt_engineering.Rd                   |only
 gt-0.7.0/gt/man/vec_fmt_fraction.Rd                      |only
 gt-0.7.0/gt/man/vec_fmt_integer.Rd                       |only
 gt-0.7.0/gt/man/vec_fmt_markdown.Rd                      |only
 gt-0.7.0/gt/man/vec_fmt_number.Rd                        |only
 gt-0.7.0/gt/man/vec_fmt_partsper.Rd                      |only
 gt-0.7.0/gt/man/vec_fmt_percent.Rd                       |only
 gt-0.7.0/gt/man/vec_fmt_scientific.Rd                    |only
 gt-0.7.0/gt/man/vec_fmt_time.Rd                          |only
 gt-0.7.0/gt/man/web_image.Rd                             |    8 
 gt-0.7.0/gt/tests/performance-monitoring                 |only
 gt-0.7.0/gt/tests/testthat.R                             |    1 
 gt-0.7.0/gt/tests/testthat/helper-gt_attr_expectations.R |   15 
 gt-0.7.0/gt/tests/testthat/test-color_handling.R         |   17 
 gt-0.7.0/gt/tests/testthat/test-cols_align.R             |    9 
 gt-0.7.0/gt/tests/testthat/test-cols_label.R             |   29 
 gt-0.7.0/gt/tests/testthat/test-cols_merge.R             |   21 
 gt-0.7.0/gt/tests/testthat/test-cols_move.R              |  115 +
 gt-0.7.0/gt/tests/testthat/test-cols_width.R             |   13 
 gt-0.7.0/gt/tests/testthat/test-conditional_fmt.R        |   45 
 gt-0.7.0/gt/tests/testthat/test-fmt_bytes.R              |   97 -
 gt-0.7.0/gt/tests/testthat/test-fmt_currency.R           |  435 ++++--
 gt-0.7.0/gt/tests/testthat/test-fmt_date_time.R          |    8 
 gt-0.7.0/gt/tests/testthat/test-fmt_engineering.R        |  514 ++++---
 gt-0.7.0/gt/tests/testthat/test-fmt_integer.R            |  125 +
 gt-0.7.0/gt/tests/testthat/test-fmt_markdown.R           |    4 
 gt-0.7.0/gt/tests/testthat/test-fmt_number.R             |  347 +++--
 gt-0.7.0/gt/tests/testthat/test-fmt_partsper.R           |   15 
 gt-0.7.0/gt/tests/testthat/test-fmt_passthrough.R        |    4 
 gt-0.7.0/gt/tests/testthat/test-fmt_percent.R            |   64 
 gt-0.7.0/gt/tests/testthat/test-fmt_scientific.R         |  209 +--
 gt-0.7.0/gt/tests/testthat/test-gt_object.R              |  134 +-
 gt-0.7.0/gt/tests/testthat/test-gt_preview.R             |    2 
 gt-0.7.0/gt/tests/testthat/test-h_md_html.R              |    2 
 gt-0.7.0/gt/tests/testthat/test-helper_functions.R       |    2 
 gt-0.7.0/gt/tests/testthat/test-info_tables.R            |   23 
 gt-0.7.0/gt/tests/testthat/test-input_data_validation.R  |   32 
 gt-0.7.0/gt/tests/testthat/test-l_cols_align.R           |    4 
 gt-0.7.0/gt/tests/testthat/test-l_cols_merge.R           |    2 
 gt-0.7.0/gt/tests/testthat/test-l_cols_move.R            |    2 
 gt-0.7.0/gt/tests/testthat/test-l_fmt_currency.R         |    2 
 gt-0.7.0/gt/tests/testthat/test-l_fmt_date_time.R        |    2 
 gt-0.7.0/gt/tests/testthat/test-l_fmt_engineering.R      |    2 
 gt-0.7.0/gt/tests/testthat/test-l_fmt_integer.R          |    2 
 gt-0.7.0/gt/tests/testthat/test-l_fmt_markdown.R         |    4 
 gt-0.7.0/gt/tests/testthat/test-l_fmt_passthrough.R      |    2 
 gt-0.7.0/gt/tests/testthat/test-l_fmt_scientific.R       |    2 
 gt-0.7.0/gt/tests/testthat/test-l_row_group_order.R      |   10 
 gt-0.7.0/gt/tests/testthat/test-l_tab_spanner_delim.R    |    2 
 gt-0.7.0/gt/tests/testthat/test-opt_functions.R          |   17 
 gt-0.7.0/gt/tests/testthat/test-resolver.R               |    4 
 gt-0.7.0/gt/tests/testthat/test-row_group_order.R        |    6 
 gt-0.7.0/gt/tests/testthat/test-rtf_column_widths.R      |    2 
 gt-0.7.0/gt/tests/testthat/test-rtf_page_options.R       |    1 
 gt-0.7.0/gt/tests/testthat/test-tab_style.R              |   24 
 gt-0.7.0/gt/tests/testthat/test-text_transform.R         |   33 
 gt-0.7.0/gt/tests/testthat/test-util_functions.R         |   68 -
 gt-0.7.0/gt/tests/testthat/test-utils_formatters.R       |   22 
 235 files changed, 6127 insertions(+), 3675 deletions(-)

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