Wed, 12 Jun 2024

Package Epi updated to version 2.51 with previous version 2.50 dated 2024-05-27

Title: Statistical Analysis in Epidemiology
Description: Functions for demographic and epidemiological analysis in the Lexis diagram, i.e. register and cohort follow-up data. In particular representation, manipulation, rate estimation and simulation for multistate data - the Lexis suite of functions, which includes interfaces to 'mstate', 'etm' and 'cmprsk' packages. Contains functions for Age-Period-Cohort and Lee-Carter modeling and a function for interval censored data and some useful functions for tabulation and plotting, as well as a number of epidemiological data sets.
Author: Bendix Carstensen [aut, cre], Martyn Plummer [aut], Esa Laara [ctb], Michael Hills [ctb]
Maintainer: Bendix Carstensen <b@bxc.dk>

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Package cfr updated to version 0.1.1 with previous version 0.1.0 dated 2023-11-21

Title: Estimate Disease Severity and Case Ascertainment
Description: Estimate the severity of a disease and ascertainment of cases, as discussed in Nishiura et al. (2009) <doi:10.1371/journal.pone.0006852>.
Author: Pratik R. Gupte [aut, cph] , Adam Kucharski [aut, cph, cre] , Tim Russell [aut, cph] , Joshua W. Lambert [rev] , Hugo Gruson [rev] , Tim Taylor [rev] , James M. Azam [rev] , Abdoelnaser M. Degoot [rev] , Sebastian Funk [rev]
Maintainer: Adam Kucharski <adam.kucharski@lshtm.ac.uk>

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Package bdlim updated to version 0.4.2 with previous version 0.4.1 dated 2024-05-22

Title: Bayesian Distributed Lag Interaction Models
Description: Estimation and interpretation of Bayesian distributed lag interaction models (BDLIMs). A BDLIM regresses a scalar outcome on repeated measures of exposure and allows for modification by a categorical variable under four specific patterns of modification. The main function is bdlim(). There are also summary and plotting files. Details on methodology are described in Wilson et al. (2017) <doi:10.1093/biostatistics/kxx002>.
Author: Ander Wilson [aut, cre]
Maintainer: Ander Wilson <ander.wilson@colostate.edu>

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Package wxgenR updated to version 1.4.0 with previous version 1.3.6 dated 2023-09-18

Title: A Stochastic Weather Generator with Seasonality
Description: A weather generator to simulate precipitation and temperature for regions with seasonality. Users input training data containing precipitation, temperature, and seasonality (up to 20 seasons). Including weather season as a training variable allows users to explore the effects of potential changes in season duration as well as average start- and end-time dates due to phenomena like climate change. Data for training should be a single time series but can originate from station data, basin averages, grid cells, etc. Bearup, L., Gangopadhyay, S., & Mikkelson, K. (2021). "Hydroclimate Analysis Lower Santa Cruz River Basin Study (Technical Memorandum No ENV-2020-056)." Bureau of Reclamation. Gangopadhyay, S., Bearup, L. A., Verdin, A., Pruitt, T., Halper, E., & Shamir, E. (2019, December 1). "A collaborative stochastic weather generator for climate impacts assessment in the Lower Santa Cruz River Basin, Arizona." Fall Meeting 2019, American Geophysical Union. <https://ui.adsabs.ha [...truncated...]
Author: Subhrendu Gangopadhyay [aut], Lindsay Bearup [aut], David Woodson [aut, cre], Marketa McGuire [aut], Andrew Verdin [aut], Eylon Shamir [aut], Eve Halper [aut]
Maintainer: David Woodson <dwoodson@usbr.gov>

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Package streamConnect updated to version 0.0-3 with previous version 0.0-2 dated 2024-05-19

Title: Connecting Stream Mining Components Using Sockets and Web Services
Description: Adds functionality to connect stream mining components from package stream using sockets and Web services. The package can be used create distributed workflows and create plumber-based Web services which can be deployed on most common cloud services.
Author: Michael Hahsler [aut, cre, cph]
Maintainer: Michael Hahsler <mhahsler@lyle.smu.edu>

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New package RMSDp with initial version 0.1.1
Package: RMSDp
Title: Refined Modified Stahel-Donoho (MSD) Estimators for Outlier Detection (Parallel Version)
Version: 0.1.1
Suggests: testthat (>= 3.0.0)
Depends: R (>= 2.10), stats
Imports: parallel, doParallel, foreach
Description: A parallel function for multivariate outlier detection named modified Stahel-Donoho estimators is contained in this package. The function RMSDp() is for elliptically distributed datasets and recognizes outliers based on Mahalanobis distance. This function is for higher dimensional datasets that cannot be handled by a single core function RMSD() included in 'RMSD' package. See Wada and Tsubaki (2013) <doi:10.1109/CLOUDCOM-ASIA.2013.86> for the detail of the algorithm.
License: GPL (>= 3)
Encoding: UTF-8
Language: en-US
LazyData: true
NeedsCompilation: no
Packaged: 2024-06-10 13:48:49 UTC; wada
Author: Kazumi Wada [aut, cre]
Maintainer: Kazumi Wada <kazwd2008@gmail.com>
Repository: CRAN
Date/Publication: 2024-06-12 21:00:21 UTC

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Package poputils updated to version 0.3.1 with previous version 0.3.0 dated 2024-05-24

Title: Demographic Analysis and Data Manipulation
Description: Perform tasks commonly encountered when preparing and analysing demographic data. Some functions are intended for end users, and others for developers. Includes functions for working with life tables.
Author: John Bryant [aut, cre], Bayesian Demography Limited [cph]
Maintainer: John Bryant <john@bayesiandemography.com>

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Package diffviewer updated to version 0.1.2 with previous version 0.1.1 dated 2021-09-30

Title: HTML Widget to Show File Differences
Description: A HTML widget that shows differences between files (text, images, and data frames).
Author: Hadley Wickham [aut, cre], Joshua Kunst [aut], Winston Chang [aut], Posit Software, PBC [cph, fnd], Paul Fitzpatrick [cph] , Rodrigo Fernandes [cph] , JQuery Foundation [cph] , Kevin Decker [cph] , Matthew Holt [cph] , Huddle [cph]
Maintainer: Hadley Wickham <hadley@posit.co>

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Package baorista updated to version 0.1.4 with previous version 0.1.3 dated 2024-05-23

Title: Bayesian Aoristic Analyses
Description: Provides an alternative approach to aoristic analyses for archaeological datasets by fitting Bayesian parametric growth models and non-parametric random-walk Intrinsic Conditional Autoregressive (ICAR) models on time frequency data (Crema (2024)<doi:10.1111/arcm.12984>). It handles event typo-chronology based timespans defined by start/end date as well as more complex user-provided vector of probabilities.
Author: Enrico Crema [aut, cre]
Maintainer: Enrico Crema <enrico.crema@gmail.com>

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Package vitae updated to version 0.6.0 with previous version 0.5.4 dated 2023-11-29

Title: Curriculum Vitae for R Markdown
Description: Provides templates and functions to simplify the production and maintenance of curriculum vitae.
Author: Mitchell O'Hara-Wild [aut, cre] , Rob Hyndman [aut] , Yihui Xie [ctb] , Albert Krewinkel [cph] , JooYoung Seo [ctb] , Isabelle Greco [ctb]
Maintainer: Mitchell O'Hara-Wild <mail@mitchelloharawild.com>

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Package RAQSAPI updated to version 2.0.5 with previous version 2.0.3 dated 2022-01-28

Title: A Simple Interface to the US EPA Air Quality System Data Mart API
Description: Retrieve air monitoring data and associated metadata from the US Environmental Protection Agency's Air Quality System service using functions. See <https://aqs.epa.gov/aqsweb/documents/data_api.html> for details about the US EPA Data Mart API.
Author: Clinton Mccrowey [cre, aut] , Timothy Sharac [ctb, rev] , Nick Mangus [rev] , Doug Jager [ctb, rev] , Ryan Brown [ctb, rev] , Daniel Garver [ctb, rev] , Benjamin Wells [ctb, rev] , Hayley Brittingham [crr, ctr] , Jeffrey Hollister [rev] , Edward Andr [...truncated...]
Maintainer: Clinton Mccrowey <mccrowey.clinton@epa.gov>

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Package inTextSummaryTable updated to version 3.3.3 with previous version 3.3.2 dated 2024-03-09

Title: Creation of in-Text Summary Table
Description: Creation of tables of summary statistics or counts for clinical data (for 'TLFs'). These tables can be exported as in-text table (with the 'flextable' package) for a Clinical Study Report (Word format) or a 'topline' presentation (PowerPoint format), or as interactive table (with the 'DT' package) to an html document for clinical data review.
Author: Laure Cougnaud [aut, cre], Michela Pasetto [aut], Margaux Faes [rev] , Open Analytics [cph]
Maintainer: Laure Cougnaud <laure.cougnaud@openanalytics.eu>

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Package vtreat updated to version 1.6.5 with previous version 1.6.4 dated 2023-08-19

Title: A Statistically Sound 'data.frame' Processor/Conditioner
Description: A 'data.frame' processor/conditioner that prepares real-world data for predictive modeling in a statistically sound manner. 'vtreat' prepares variables so that data has fewer exceptional cases, making it easier to safely use models in production. Common problems 'vtreat' defends against: 'Inf', 'NA', too many categorical levels, rare categorical levels, and new categorical levels (levels seen during application, but not during training). Reference: "'vtreat': a data.frame Processor for Predictive Modeling", Zumel, Mount, 2016, <DOI:10.5281/zenodo.1173313>.
Author: John Mount [aut, cre], Nina Zumel [aut], Win-Vector LLC [cph]
Maintainer: John Mount <jmount@win-vector.com>

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Package CohortConstructor updated to version 0.2.0 with previous version 0.1.0 dated 2024-06-01

Title: Build and Manipulate Study Cohorts Using a Common Data Model
Description: Create and manipulate study cohorts in data mapped to the Observational Medical Outcomes Partnership Common Data Model.
Author: Edward Burn [aut, cre] , Marti Catala [aut] , Nuria Mercade-Besora [aut] , Marta Alcalde-Herraiz [aut] , Mike Du [aut] , Yuchen Guo [aut] , Xihang Chen [aut] , Kim Lopez [aut]
Maintainer: Edward Burn <edward.burn@ndorms.ox.ac.uk>

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Package RRPP updated to version 2.0.2 with previous version 2.0.1 dated 2024-06-04

Title: Linear Model Evaluation with Randomized Residuals in a Permutation Procedure
Description: Linear model calculations are made for many random versions of data. Using residual randomization in a permutation procedure, sums of squares are calculated over many permutations to generate empirical probability distributions for evaluating model effects. This packaged is described by Collyer & Adams (2018). Additionally, coefficients, statistics, fitted values, and residuals generated over many permutations can be used for various procedures including pairwise tests, prediction, classification, and model comparison. This package should provide most tools one could need for the analysis of high-dimensional data, especially in ecology and evolutionary biology, but certainly other fields, as well.
Author: Michael Collyer [aut, cre] , Dean Adams [aut]
Maintainer: Michael Collyer <mlcollyer@gmail.com>

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Package bbk updated to version 0.3.0 with previous version 0.2.0 dated 2024-04-30

Title: Client for the Bundesbank API
Description: Download data and metadata from the 'Bundesbank SDMX Web Service API' found at <https://www.bundesbank.de/en/statistics/time-series-databases/help-for-sdmx-web-service/web-service-interface-data>.
Author: Maximilian Muecke [aut, cre]
Maintainer: Maximilian Muecke <muecke.maximilian@gmail.com>

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Package FMAT updated to version 2024.6 with previous version 2024.5 dated 2024-05-19

Title: The Fill-Mask Association Test
Description: The Fill-Mask Association Test ('FMAT') is an integrative and probability-based method using Masked Language Models to measure conceptual associations (e.g., attitudes, biases, stereotypes, social norms, cultural values) as propositions in natural language. Supported language models include 'BERT' <doi:10.48550/arXiv.1810.04805> and its variants available at 'Hugging Face' <https://huggingface.co/models?pipeline_tag=fill-mask>. Methodological references and installation guidance are provided at <https://psychbruce.github.io/FMAT/>.
Author: Han-Wu-Shuang Bao [aut, cre]
Maintainer: Han-Wu-Shuang Bao <baohws@foxmail.com>

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Package spnaf updated to version 1.0.0 with previous version 0.3.1 dated 2024-03-02

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 PHENTHAUproc updated to version 1.1 with previous version 1.0.1 dated 2024-01-29

Title: Phenology Modelling of Thaumetopoea Processionea
Description: Methods to calculate and present 'PHENTHAUproc', an early warning and decision support system for hazard assessment and control of oak processionary moth (OPM) using local and spatial temperature data. It was created by Halbig et al. 2024 (<doi:10.1016/j.foreco.2023.121525>) at FVA (<https://www.fva-bw.de/en/homepage/>) Forest Research Institute Baden-Wuerttemberg, Germany and at BOKU - University of Natural Ressources and Life Sciences, Vienna, Austria.
Author: Lorenz Bachfischer [aut, cre], Department of Forest Protection, FVA [fnd]
Maintainer: Lorenz Bachfischer <lorenz.bachfischer@posteo.de>

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Package cancerscreening updated to version 1.1.1 with previous version 1.1.0 dated 2024-04-14

Title: Streamline Access to Cancer Screening Data
Description: Retrieve cancer screening data for cervical, breast and colorectal cancers from the Kenya Health Information System <https://hiskenya.org> in a consistent way.
Author: David Kariuki [aut, cre, cph]
Maintainer: David Kariuki <hello@damurka.com>

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Package pencal updated to version 2.2.2 with previous version 2.2.1 dated 2024-03-31

Title: Penalized Regression Calibration (PRC) for the Dynamic Prediction of Survival
Description: Computes penalized regression calibration (PRC), a statistical method for the dynamic prediction of survival when many longitudinal predictors are available. PRC is described in Signorelli (2024) <doi:10.48550/arXiv.2309.15600> and in Signorelli et al. (2021) <doi:10.1002/sim.9178>.
Author: Mirko Signorelli [aut, cre, cph] , Pietro Spitali [ctb], Roula Tsonaka [ctb], Barbara Vreede [ctb]
Maintainer: Mirko Signorelli <msignorelli.rpackages@gmail.com>

Diff between pencal versions 2.2.1 dated 2024-03-31 and 2.2.2 dated 2024-06-12

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Package bain updated to version 0.2.11 with previous version 0.2.10 dated 2023-09-27

Title: Bayes Factors for Informative Hypotheses
Description: Computes approximated adjusted fractional Bayes factors for equality, inequality, and about equality constrained hypotheses. For a tutorial on this method, see Hoijtink, Mulder, van Lissa, & Gu, (2019) <doi:10.1037/met0000201>. For applications in structural equation modeling, see: Van Lissa, Gu, Mulder, Rosseel, Van Zundert, & Hoijtink, (2021) <doi:10.1080/10705511.2020.1745644>. For the statistical underpinnings, see Gu, Mulder, and Hoijtink (2018) <doi:10.1111/bmsp.12110>; Hoijtink, Gu, & Mulder, J. (2019) <doi:10.1111/bmsp.12145>; Hoijtink, Gu, Mulder, & Rosseel, (2019) <doi:10.31234/osf.io/q6h5w>.
Author: Xin Gu [aut], Herbert Hoijtink [aut], Joris Mulder [aut], Caspar J van Lissa [aut, cre], Van Zundert Camiel [ctb], Jeff Jones [ctb], Niels Waller [ctb]
Maintainer: Caspar J van Lissa <c.j.vanlissa@tilburguniversity.edu>

Diff between bain versions 0.2.10 dated 2023-09-27 and 0.2.11 dated 2024-06-12

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New package optiSel with initial version 2.0.8
Package: optiSel
Title: Optimum Contribution Selection and Population Genetics
Version: 2.0.8
Date: 2024-06-12
Depends: R (>= 3.5.0)
Description: A framework for the optimization of breeding programs via optimum contribution selection and mate allocation. An easy to use set of function for computation of optimum contributions of selection candidates, and of the population genetic parameters to be optimized. These parameters can be estimated using pedigree or genotype information, and include kinships, kinships at native haplotype segments, and breed composition of crossbred individuals. They are suitable for managing genetic diversity, removing introgressed genetic material, and accelerating genetic gain. Additionally, functions are provided for computing genetic contributions from ancestors, inbreeding coefficients, the native effective size, the native genome equivalent, pedigree completeness, and for preparing and plotting pedigrees. The methods are described in:\n Wellmann, R., and Pfeiffer, I. (2009) <doi:10.1017/S0016672309000202>.\n Wellmann, R., and Bennewitz, J. (2011) <doi:10.2527/jas.2010-3709>.\n Wellmann [...truncated...]
License: GPL-2
Imports: Matrix, plyr, kinship2, nadiv, pedigree, pspline, stringr, MASS, methods, stats, purrr, graphics, quadprog, data.table, magic, parallel, doParallel, foreach, ECOSolveR, reshape2, optiSolve, Rcpp (>= 0.12.4)
LinkingTo: Rcpp, RcppArmadillo
Suggests: knitr, ggplot2, rmarkdown, alabama, cccp, nloptr, Rsymphony, smacof
Encoding: UTF-8
VignetteBuilder: knitr
NeedsCompilation: yes
Packaged: 2024-06-12 10:40:16 UTC; rowel
Repository: CRAN
Date/Publication: 2024-06-12 11:00:03 UTC
Author: Robin Wellmann [aut, cre]
Maintainer: Robin Wellmann <r.wellmann@uni-hohenheim.de>

More information about optiSel at CRAN
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Package mlr updated to version 2.19.2 with previous version 2.19.1 dated 2022-09-29

Title: Machine Learning in R
Description: Interface to a large number of classification and regression techniques, including machine-readable parameter descriptions. There is also an experimental extension for survival analysis, clustering and general, example-specific cost-sensitive learning. Generic resampling, including cross-validation, bootstrapping and subsampling. Hyperparameter tuning with modern optimization techniques, for single- and multi-objective problems. Filter and wrapper methods for feature selection. Extension of basic learners with additional operations common in machine learning, also allowing for easy nested resampling. Most operations can be parallelized.
Author: Bernd Bischl [aut] , Michel Lang [aut] , Lars Kotthoff [aut], Patrick Schratz [aut] , Julia Schiffner [aut], Jakob Richter [aut], Zachary Jones [aut], Giuseppe Casalicchio [aut] , Mason Gallo [aut], Jakob Bossek [ctb] , Erich Studerus [ctb] , Leonard [...truncated...]
Maintainer: Martin Binder <mlr.developer@mb706.com>

Diff between mlr versions 2.19.1 dated 2022-09-29 and 2.19.2 dated 2024-06-12

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More information about mlr at CRAN
Permanent link

Package DrugExposureDiagnostics updated to version 1.0.5 with previous version 1.0.4 dated 2024-03-18

Title: Diagnostics for OMOP Common Data Model Drug Records
Description: Ingredient specific diagnostics for drug exposure records in the Observational Medical Outcomes Partnership (OMOP) common data model.
Author: Ger Inberg [aut, cre] , Edward Burn [aut] , Theresa Burkard [aut] , Yuchen Guo [ctb] , Marti Catala [ctb] , Mike Du [ctb] , Xintong Li [ctb] , Ross Williams [ctb] , Erasmus MC [cph]
Maintainer: Ger Inberg <g.inberg@erasmusmc.nl>

Diff between DrugExposureDiagnostics versions 1.0.4 dated 2024-03-18 and 1.0.5 dated 2024-06-12

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Package biglm updated to version 0.9-3 with previous version 0.9-2.1 dated 2020-11-27

Title: Bounded Memory Linear and Generalized Linear Models
Description: Regression for data too large to fit in memory.
Author: Thomas Lumley
Maintainer: Thomas Lumley <t.lumley@auckland.ac.nz>

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Package BHMSMAfMRI updated to version 2.2 with previous version 2.1 dated 2022-10-02

Title: Bayesian Hierarchical Multi-Subject Multiscale Analysis of Functional MRI (fMRI) Data
Description: Package BHMSMAfMRI performs Bayesian hierarchical multi-subject multiscale analysis of fMRI data as described in Sanyal & Ferreira (2012) <DOI:10.1016/j.neuroimage.2012.08.041>, or other multiscale data, using wavelet-based prior that borrows strength across subjects and provides posterior smoothed images of the effect sizes and samples from the posterior distribution.
Author: Nilotpal Sanyal [aut, cre] , Marco A.R. Ferreira [aut]
Maintainer: Nilotpal Sanyal <nilotpal.sanyal@gmail.com>

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Package tern.mmrm updated to version 0.3.1 with previous version 0.3.0 dated 2023-12-14

Title: Tables and Graphs for Mixed Models for Repeated Measures (MMRM)
Description: Mixed models for repeated measures (MMRM) are a popular choice for analyzing longitudinal continuous outcomes in randomized clinical trials and beyond; see for example Cnaan, Laird and Slasor (1997) <doi:10.1002/(SICI)1097-0258(19971030)16:20%3C2349::AID-SIM667%3E3.0.CO;2-E>. This package provides an interface for fitting MMRM within the 'tern' <https://cran.r-project.org/package=tern> framework by Zhu et al. (2023) and tabulate results easily using 'rtables' <https://cran.r-project.org/package=rtables> by Becker et al. (2023). It builds on 'mmrm' <https://cran.r-project.org/package=mmrm> by Sabanés Bové et al. (2023) for the actual MMRM computations.
Author: Daniel Sabanes Bove [aut], Joe Zhu [aut, cre], Godwin Yung [aut], Francois Collin [aut], Julia Dedic [aut], Jana Stoilova [aut], F. Hoffmann-La Roche AG [cph, fnd]
Maintainer: Joe Zhu <joe.zhu@roche.com>

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Package tern.gee updated to version 0.1.4 with previous version 0.1.3 dated 2023-12-12

Title: Tables and Graphs for Generalized Estimating Equations (GEE) Model Fits
Description: Generalized estimating equations (GEE) are a popular choice for analyzing longitudinal binary outcomes. This package provides an interface for fitting GEE, currently for logistic regression, within the 'tern' <https://cran.r-project.org/package=tern> framework (Zhu, Sabanés Bové et al., 2023) and tabulate results easily using 'rtables' <https://cran.r-project.org/package=rtables> (Becker, Waddell et al., 2023). It builds on 'geepack' <doi:10.18637/jss.v015.i02> (Højsgaard, Halekoh and Yan, 2006) for the actual GEE model fitting.
Author: Daniel Sabanes Bove [aut], Joe Zhu [aut, cre], Emily de la Rua [aut], F. Hoffmann-La Roche AG [cph, fnd]
Maintainer: Joe Zhu <joe.zhu@roche.com>

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Package Surrogate updated to version 3.3.0 with previous version 3.2.6 dated 2024-05-27

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 (Grant Agreement no 602552), the Special Research Fund (BOF) of Hasselt University (BOF-number: BOF2OCPO3), GlaxoSmithKline Biologicals, Baekeland Mandaat (HBC.2022.0145), and Johnson & Johnson Innovative Medicine.
Author: Wim Van Der Elst [cre, aut], Florian Stijven [aut], Fenny Ong [aut], Dries De Witte [aut], Paul Meyvisch [aut], Alvaro Poveda [aut], Ariel Alonso [aut], Hannah Ensor [aut], Christoper Weir [aut], Geert Molenberghs [aut]
Maintainer: Wim Van Der Elst <wim.vanderelst@gmail.com>

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Package mrbin updated to version 1.7.5 with previous version 1.7.4 dated 2023-04-10

Title: Metabolomics Data Analysis Functions
Description: A collection of functions for processing and analyzing metabolite data. The namesake function mrbin() converts 1D or 2D Nuclear Magnetic Resonance data into a matrix of values suitable for further data analysis and performs basic processing steps in a reproducible way. Negative values, a common issue in such data, can be replaced by positive values (<doi:10.1021/acs.jproteome.0c00684>). All used parameters are stored in a readable text file and can be restored from that file to enable exact reproduction of the data at a later time. The function fia() ranks features according to their impact on classifier models, especially artificial neural network models.
Author: Matthias Klein [aut, cre]
Maintainer: Matthias Klein <matthias.s.klein@gmx.net>

Diff between mrbin versions 1.7.4 dated 2023-04-10 and 1.7.5 dated 2024-06-12

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Package CGNM updated to version 0.9.0 with previous version 0.8.0 dated 2024-04-12

Title: Cluster Gauss-Newton Method
Description: Find multiple solutions of a nonlinear least squares problem. Cluster Gauss-Newton method does not assume uniqueness of the solution of the nonlinear least squares problem and compute multiple minimizers. Please cite the following paper when this software is used in your research: Aoki et al. (2020) <doi:10.1007/s11081-020-09571-2>. Cluster Gauss–Newton method. Optimization and Engineering, 1-31. Please cite the following paper when profile likelihood plot is drawn with this software and used in your research: Aoki and Sugiyama (2024) <doi:10.1002/psp4.13055>. Cluster Gauss-Newton method for a quick approximation of profile likelihood: With application to physiologically-based pharmacokinetic models. CPT Pharmacometrics Syst Pharmacol.13(1):54-67.
Author: Yasunori Aoki
Maintainer: Yasunori Aoki <yaoki@uwaterloo.ca>

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Package tidybins updated to version 0.1.1 with previous version 0.1.0 dated 2021-10-14

Title: Make Tidy Bins
Description: Multiple ways to bin numeric columns with a tidy output. Wraps a variety of existing binning methods into one function, and includes a new method for binning by equal value, which is useful for sales data. Provides a function to automatically summarize the properties of the binned columns.
Author: Harrison Tietze [aut, cre]
Maintainer: Harrison Tietze <Harrison4192@gmail.com>

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Package PROJ updated to version 0.5.0 with previous version 0.4.5 dated 2023-12-01

Title: Generic Coordinate System Transformations Using 'PROJ'
Description: A wrapper around the generic coordinate transformation software 'PROJ' that transforms coordinates from one coordinate reference system ('CRS') to another. This includes cartographic projections as well as geodetic transformations. The intention is for this package to be used by user-packages such as 'reproj', and that the older 'PROJ.4' and version 5 pathways be provided by the 'proj4' package.
Author: Michael D. Sumner [aut, cre] , Jeroen Ooms [ctb] , Simon Urbanek [cph, ctb] , Dewey Dunnington [ctb] , Anthony North [ctb]
Maintainer: Michael D. Sumner <mdsumner@gmail.com>

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Package dae updated to version 3.2.28 with previous version 3.2.25 dated 2024-04-09

Title: Functions Useful in the Design and ANOVA of Experiments
Description: The content falls into the following groupings: (i) Data, (ii) Factor manipulation functions, (iii) Design functions, (iv) ANOVA functions, (v) Matrix functions, (vi) Projector and canonical efficiency functions, and (vii) Miscellaneous functions. There is a vignette describing how to use the design functions for randomizing and assessing designs available as a vignette called 'DesignNotes'. The ANOVA functions facilitate the extraction of information when the 'Error' function has been used in the call to 'aov'. The package 'dae' can also be installed from <http://chris.brien.name/rpackages/>.
Author: Chris Brien [aut, cre]
Maintainer: Chris Brien <chris.brien@adelaide.edu.au>

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Tue, 11 Jun 2024

Package rSEA updated to version 2.1.2 with previous version 2.1.1 dated 2020-03-23

Title: Simultaneous Enrichment Analysis
Description: SEA performs simultaneous feature-set testing for (gen)omics data. It tests the unified null hypothesis and controls the family-wise error rate for all possible pathways. The unified null hypothesis is defined as: "The proportion of true features in the set is less than or equal to a threshold." Family-wise error rate control is provided through use of closed testing with Simes test. There are some practical functions to play around with the pathways of interest.
Author: Mitra Ebrahimpoor
Maintainer: Mitra Ebrahimpoor<mitra.ebrahimpoor@gmail.com>

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Package phylopath updated to version 1.3.0 with previous version 1.2.1 dated 2024-03-18

Title: Perform Phylogenetic Path Analysis
Description: A comprehensive and easy to use R implementation of confirmatory phylogenetic path analysis as described by Von Hardenberg and Gonzalez-Voyer (2012) <doi:10.1111/j.1558-5646.2012.01790.x>.
Author: Wouter van der Bijl [aut, cre]
Maintainer: Wouter van der Bijl <wouter@zoology.ubc.ca>

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Package swagger updated to version 5.17.14 with previous version 3.33.1 dated 2020-10-02

Title: Dynamically Generates Documentation from a 'Swagger' Compliant API
Description: A collection of 'HTML', 'JavaScript', and 'CSS' assets that dynamically generate beautiful documentation from a 'Swagger' compliant API: <https://swagger.io/specification/>.
Author: Barret Schloerke [aut] , Javier Luraschi [aut], Bruno Tremblay [cre, ctb], RStudio [cph], SmartBear Software [aut, cph]
Maintainer: Bruno Tremblay <cran@neoxone.com>

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Package soilDB updated to version 2.8.3 with previous version 2.8.2 dated 2024-04-22

Title: Soil Database Interface
Description: A collection of functions for reading soil data from U.S. Department of Agriculture Natural Resources Conservation Service (USDA-NRCS) and National Cooperative Soil Survey (NCSS) databases.
Author: Dylan Beaudette [aut], Jay Skovlin [aut], Stephen Roecker [aut], Andrew Brown [aut, cre]
Maintainer: Andrew Brown <andrew.g.brown@usda.gov>

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Package Indicator updated to version 0.1.2 with previous version 0.1.1 dated 2024-06-06

Title: Composite 'Indicator' Construction and Imputation Data
Description: Different functions includes constructing composite indicators, imputing missing data, and evaluating imputation techniques. Additionally, different tools for data normalization. Detailed methodologies of 'Indicator' package are: OECD/European Union/EC-JRC (2008), "Handbook on Constructing Composite Indicators: Methodology and User Guide", OECD Publishing, Paris, <DOI:10.1787/533411815016>, Matteo Mazziotta & Adriano Pareto, (2018) "Measuring Well-Being Over Time: The Adjusted Mazziotta–Pareto Index Versus Other Non-compensatory Indices" <DOI:10.1007/s11205-017-1577-5> and De Muro P., Mazziotta M., Pareto A. (2011), "Composite Indices of Development and Poverty: An Application to MDGs" <DOI:10.1007/s11205-010-9727-z>.
Author: Gianmarco Borrata [aut, cre], Pasquale Pipiciello [aut]
Maintainer: Gianmarco Borrata <gianmarco.borrata@unina.it>

Diff between Indicator versions 0.1.1 dated 2024-06-06 and 0.1.2 dated 2024-06-11

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Package vvconverter updated to version 0.5.10 with previous version 0.5.9 dated 2024-02-13

Title: Apply Transformations to Data
Description: Provides a set of functions for data transformations. Transformations are performed on character and numeric data. As the scope of the package is within Student Analytics, there are functions focused around the academic year.
Author: Tomer Iwan [aut, cre, cph]
Maintainer: Tomer Iwan <t.iwan@vu.nl>

Diff between vvconverter versions 0.5.9 dated 2024-02-13 and 0.5.10 dated 2024-06-11

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Package emdi updated to version 2.2.2 with previous version 2.2.1 dated 2023-11-05

Title: Estimating and Mapping Disaggregated Indicators
Description: Functions that support estimating, assessing and mapping regional disaggregated indicators. So far, estimation methods comprise direct estimation, the model-based unit-level approach Empirical Best Prediction (see "Small area estimation of poverty indicators" by Molina and Rao (2010) <doi:10.1002/cjs.10051>), the area-level model (see "Estimates of income for small places: An application of James-Stein procedures to Census Data" by Fay and Herriot (1979) <doi:10.1080/01621459.1979.10482505>) and various extensions of it (adjusted variance estimation methods, log and arcsin transformation, spatial, robust and measurement error models), as well as their precision estimates. The assessment of the used model is supported by a summary and diagnostic plots. For a suitable presentation of estimates, map plots can be easily created. Furthermore, results can easily be exported to excel. For a detailed description of the package and the methods used see "The R Package emdi for Estima [...truncated...]
Author: Sylvia Harmening [aut], Ann-Kristin Kreutzmann [aut], Soeren Pannier [aut, cre], Felix Skarke [aut], Natalia Rojas-Perilla [aut], Nicola Salvati [aut], Timo Schmid [aut], Matthias Templ [aut], Nikos Tzavidis [aut], Nora Wuerz [aut]
Maintainer: Soeren Pannier <soeren.pannier@fu-berlin.de>

Diff between emdi versions 2.2.1 dated 2023-11-05 and 2.2.2 dated 2024-06-11

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Package coneproj updated to version 1.19 with previous version 1.18 dated 2024-05-30

Title: Primal or Dual Cone Projections with Routines for Constrained Regression
Description: Routines doing cone projection and quadratic programming, as well as doing estimation and inference for constrained parametric regression and shape-restricted regression problems. See Mary C. Meyer (2013)<doi:10.1080/03610918.2012.659820> for more details.
Author: Mary C. Meyer and Xiyue Liao
Maintainer: Xiyue Liao <xliao@sdsu.edu>

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Package nanostringr updated to version 0.4.2 with previous version 0.4.1 dated 2023-08-15

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

Diff between nanostringr versions 0.4.1 dated 2023-08-15 and 0.4.2 dated 2024-06-11

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Package PDE updated to version 1.4.10 with previous version 1.4.9 dated 2024-04-30

Title: Extract Tables and Sentences from PDFs with User Interface
Description: The PDE (Pdf Data Extractor) allows the extraction of information and tables optionally based on search words from PDF (Portable Document Format) files and enables the visualization of the results, both by providing a convenient user-interface.
Author: Erik Stricker [aut, cre]
Maintainer: Erik Stricker <erik.stricker@gmx.com>

Diff between PDE versions 1.4.9 dated 2024-04-30 and 1.4.10 dated 2024-06-11

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Package censored updated to version 0.3.2 with previous version 0.3.1 dated 2024-04-19

Title: 'parsnip' Engines for Survival Models
Description: Engines for survival models from the 'parsnip' package. These include parametric models (e.g., Jackson (2016) <doi:10.18637/jss.v070.i08>), semi-parametric (e.g., Simon et al (2011) <doi:10.18637/jss.v039.i05>), and tree-based models (e.g., Buehlmann and Hothorn (2007) <doi:10.1214/07-STS242>).
Author: Emil Hvitfeldt [aut] , Hannah Frick [aut, cre] , Posit Software, PBC [cph, fnd]
Maintainer: Hannah Frick <hannah@posit.co>

Diff between censored versions 0.3.1 dated 2024-04-19 and 0.3.2 dated 2024-06-11

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Package bigergm updated to version 1.2.0 with previous version 1.1.0 dated 2024-02-16

Title: Fit, Simulate, and Diagnose Hierarchical Exponential-Family Models for Big Networks
Description: A toolbox for analyzing and simulating large networks based on hierarchical exponential-family random graph models (HERGMs).'bigergm' implements the estimation for large networks efficiently building on the 'lighthergm' and 'hergm' packages. Moreover, the package contains tools for simulating networks with local dependence to assess the goodness-of-fit.
Author: Shota Komatsu [aut], Juan Nelson Martinez Dahbura [aut], Takanori Nishida [aut], Angelo Mele [aut], Cornelius Fritz [aut, cre], Michael Schweinberger [aut]
Maintainer: Cornelius Fritz <corneliusfritz2010@gmail.com>

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New package prediction with initial version 0.3.18
Package: prediction
Title: Tidy, Type-Safe 'prediction()' Methods
Description: A one-function package containing prediction(), a type-safe alternative to predict() that always returns a data frame. The summary() method provides a data frame with average predictions, possibly over counterfactual versions of the data (à la the margins command in 'Stata'). Marginal effect estimation is provided by the related package, 'margins' <https://cran.r-project.org/package=margins>. The package currently supports common model types (e.g., lm, glm) from the 'stats' package, as well as numerous other model classes from other add-on packages. See the README file or main package documentation page for a complete listing.
License: MIT + file LICENSE
Version: 0.3.18
URL: https://github.com/bbolker/prediction
BugReports: https://github.com/bbolker/prediction/issues
Depends: R (>= 3.5.0)
Imports: utils, stats, data.table
Suggests: datasets, methods, testthat
Enhances: AER, aod, betareg, biglm, brglm, caret, crch, e1071, earth, ff, gam (>= 1.15), gee, glmnet, glmx, kernlab, lme4, MASS, mclogit, mda, mlogit, MNP, nlme, nnet, ordinal, plm, pscl, quantreg, rpart, sampleSelection, speedglm, survey (>= 3.31-5), survival, truncreg, VGAM
ByteCompile: true
Encoding: UTF-8
NeedsCompilation: no
Packaged: 2024-06-11 13:27:53 UTC; bolker
Author: Thomas J. Leeper [aut] , Carl Ganz [ctb], Vincent Arel-Bundock [ctb] , Ben Bolker [ctb, cre]
Maintainer: Ben Bolker <bolker@mcmaster.ca>
Repository: CRAN
Date/Publication: 2024-06-11 15:20:02 UTC

More information about prediction at CRAN
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Package leontief updated to version 0.3 with previous version 0.2 dated 2020-09-02

Title: Input-Output Analysis
Description: An implementation of the Input-Output model developed by Wassily Leontief that represents the interdependencies between different sectors of a national economy or different regional economies.
Author: Mauricio Vargas Sepulveda [aut, cre] , Central Bank of Chile [dtc], University of Bio-Bio [dtc]
Maintainer: Mauricio Vargas Sepulveda <m.sepulveda@mail.utoronto.ca>

Diff between leontief versions 0.2 dated 2020-09-02 and 0.3 dated 2024-06-11

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 38 files changed, 2943 insertions(+), 2917 deletions(-)

More information about leontief at CRAN
Permanent link

Package lares updated to version 5.2.8 with previous version 5.2.7 dated 2024-04-22

Title: Analytics & Machine Learning Sidekick
Description: Auxiliary package for better/faster analytics, visualization, data mining, and machine learning tasks. With a wide variety of family functions, like Machine Learning, Data Wrangling, Exploratory, API, and Scrapper, it helps the analyst or data scientist to get quick and robust results, without the need of repetitive coding or extensive R programming skills.
Author: Bernardo Lares [aut, cre]
Maintainer: Bernardo Lares <laresbernardo@gmail.com>

Diff between lares versions 5.2.7 dated 2024-04-22 and 5.2.8 dated 2024-06-11

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 276 files changed, 33775 insertions(+), 33379 deletions(-)

More information about lares at CRAN
Permanent link

Package KnockoffHybrid updated to version 1.0.1 with previous version 1.0.0 dated 2023-09-05

Title: Hybrid Analysis of Population and Trio Data with Knockoff Statistics for FDR Control
Description: Identification of putative causal variants in genome-wide association studies using hybrid analysis of both the trio and population designs. The package implements the method in the paper: Yang, Y., Wang, Q., Wang, C., Buxbaum, J., & Ionita-Laza, I. (2024). KnockoffHybrid: A knockoff framework for hybrid analysis of trio and population designs in genome-wide association studies. The American Journal of Human Genetics, in press.
Author: Yi Yang [aut, cre]
Maintainer: Yi Yang <yi.yang@cityu.edu.hk>

Diff between KnockoffHybrid versions 1.0.0 dated 2023-09-05 and 1.0.1 dated 2024-06-11

 DESCRIPTION |    8 ++++----
 MD5         |    2 +-
 2 files changed, 5 insertions(+), 5 deletions(-)

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Package insight updated to version 0.20.1 with previous version 0.20.0 dated 2024-06-04

Title: Easy Access to Model Information for Various Model Objects
Description: A tool to provide an easy, intuitive and consistent access to information contained in various R models, like model formulas, model terms, information about random effects, data that was used to fit the model or data from response variables. 'insight' mainly revolves around two types of functions: Functions that find (the names of) information, starting with 'find_', and functions that get the underlying data, starting with 'get_'. The package has a consistent syntax and works with many different model objects, where otherwise functions to access these information are missing.
Author: Daniel Luedecke [aut, cre] , Dominique Makowski [aut, ctb] , Indrajeet Patil [aut, ctb] , Philip Waggoner [aut, ctb] , Mattan S. Ben-Shachar [aut, ctb] , Brenton M. Wiernik [aut, ctb] , Vincent Arel-Bundock [aut, ctb] , Etienne Bacher [aut, ctb] , Ale [...truncated...]
Maintainer: Daniel Luedecke <d.luedecke@uke.de>

Diff between insight versions 0.20.0 dated 2024-06-04 and 0.20.1 dated 2024-06-11

 DESCRIPTION                           |   45 +++----
 MD5                                   |   24 ++-
 NEWS.md                               |    7 +
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 R/get_datagrid.R                      |   18 +-
 R/utils_compact.R                     |    7 -
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 man/download_model.Rd                 |   19 ++-
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 tests/testthat/download-model-failure |only
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 15 files changed, 276 insertions(+), 178 deletions(-)

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Package cophescan updated to version 1.4.1 with previous version 1.4.0 dated 2024-03-11

Title: Adaptation of the Coloc Method for PheWAS
Description: A Bayesian method for Phenome-wide association studies (PheWAS) that identifies causal associations between genetic variants and traits, while simultaneously addressing confounding due to linkage disequilibrium. For details see Manipur et al (2023) <doi:10.1101/2023.06.29.546856>.
Author: Ichcha Manipur [aut, cre], Chris Wallace [aut]
Maintainer: Ichcha Manipur <im504@cam.ac.uk>

Diff between cophescan versions 1.4.0 dated 2024-03-11 and 1.4.1 dated 2024-06-11

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 inst/doc/IntroductionCoPheScan_01.html |    6 +--
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 11 files changed, 64 insertions(+), 67 deletions(-)

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New package piecewiseSEM with initial version 2.3.0.1
Package: piecewiseSEM
Title: Piecewise Structural Equation Modeling
Version: 2.3.0.1
Date: 2024-06-06
Maintainer: Jon Lefcheck <jslefche@gmail.com>
Description: Implements piecewise structural equation modeling from a single list of structural equations, with new methods for non-linear, latent, and composite variables, standardized coefficients, query-based prediction and indirect effects. See <http://jslefche.github.io/piecewiseSEM/> for more.
Depends: R (>= 4.4.0)
URL: https://github.com/jslefche/
BugReports: https://github.com/jslefche/piecewiseSEM/issues
Imports: car, DiagrammeR, emmeans, igraph, lme4, multcomp, MuMIn, MASS, methods, nlme, performance
License: GPL-3
Encoding: UTF-8
LazyData: true
Suggests: knitr, rmarkdown
VignetteBuilder: knitr
NeedsCompilation: no
Packaged: 2024-06-11 13:10:03 UTC; jslef
Author: Jon Lefcheck [aut, cre], Jarrett Byrnes [aut], James Grace [aut]
Repository: CRAN
Date/Publication: 2024-06-11 14:10:03 UTC

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Package SchoolDataIT updated to version 0.1.2 with previous version 0.1.1 dated 2024-03-28

Title: Retrieve, Harmonise and Map Open Data Regarding the Italian School System
Description: Compiles and displays the available data sets regarding the Italian school system, with a focus on the infrastructural aspects. Input datasets are downloaded from the web, with the aim of updating everything to real time. The functions are divided in four main modules, namely 'Get', to scrape raw data from the web 'Util', various utilities needed to process raw data 'Group', to aggregate data at the municipality or province level 'Map', to visualize the output datasets.
Author: Leonardo Cefalo [aut, cre] , Alessio Pollice [ctb, ths] , Paolo Maranzano [ctb]
Maintainer: Leonardo Cefalo <leonardo.cefalo@uniba.it>

Diff between SchoolDataIT versions 0.1.1 dated 2024-03-28 and 0.1.2 dated 2024-06-11

 DESCRIPTION                          |    6 ++---
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 19 files changed, 115 insertions(+), 107 deletions(-)

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Package YatchewTest updated to version 1.1.0 with previous version 1.0.2 dated 2024-04-26

Title: Yatchew (1997), De Chaisemartin & D'Haultfoeuille (2024) Linearity Test
Description: Test of linearity originally proposed by Yatchew (1997) <doi:10.1016/S0165-1765(97)00218-8> and improved by de Chaisemartin & D'Haultfoeuille (2024) <doi:10.2139/ssrn.4284811> to be robust under heteroskedasticity.
Author: Diego Ciccia [aut, cre], Felix Knau [aut], Doulo Sow [aut], Clement de Chaisemartin [aut], Xavier D'Haultfoeuille [aut]
Maintainer: Diego Ciccia <diego.ciccia@sciencespo.fr>

Diff between YatchewTest versions 1.0.2 dated 2024-04-26 and 1.1.0 dated 2024-06-11

 DESCRIPTION                    |    6 +++---
 MD5                            |    6 +++---
 R/yatchew_test.R               |   38 +++++++++++++++++++++++++++++++++-----
 man/yatchew_test.data.frame.Rd |    4 +++-
 4 files changed, 42 insertions(+), 12 deletions(-)

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New package VAR.spec with initial version 1.0
Package: VAR.spec
Title: Allows Specifying a Bivariate VAR (Vector Autoregression) with Desired Spectral Characteristics
Version: 1.0
Date: 2024-06-7
Description: The spectral characteristics of a bivariate series (Marginal Spectra, Coherency- and Phase-Spectrum) determine whether there is a strong presence of short-, medium-, or long-term fluctuations (components of certain frequencies in the spectral representation of the series) in each one of them. These are induced by strong peaks of the marginal spectra of each series at the corresponding frequencies. The spectral characteristics also determine how strongly these short-, medium-, or long-term fluctuations of the two series are correlated between the two series. Information on this is provided by the Coherency spectrum at the corresponding frequencies. Finally, certain fluctuations of the two series may be lagged to each other. Information on this is provided by the Phase spectrum at the corresponding frequencies. The idea in this package is to define a VAR (Vector autoregression) model with desired spectral characteristics by specifying a number of polynomials, required to define the VAR. [...truncated...]
License: GPL-2
LazyData: true
NeedsCompilation: no
Packaged: 2024-06-10 08:36:15 UTC; Dell
Author: Evangelos Ioannidis [cre, aut, cph], Panagiotis Papastamoulis [aut, cph]
Maintainer: Evangelos Ioannidis <eioannid@aueb.gr>
Depends: R (>= 3.5.0)
Repository: CRAN
Date/Publication: 2024-06-11 11:30:05 UTC

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New package SoilSaltIndex with initial version 0.1.0
Package: SoilSaltIndex
Title: Soil Salinity Indices Generation using Satellite Data
Version: 0.1.0
Depends: R(>= 2.10)
Suggests: knitr, rmarkdown, testthat (>= 3.0.0)
Description: The developed function generates soil salinity indices using satellite data, utilizing multiple spectral bands such as Blue, Green, Red, Near-Infrared (NIR), and Shortwave Infrared (SWIR1, SWIR2). It computes 24 different salinity indices crucial for monitoring and analyzing salt-affected soils efficiently. For more details see, Rani, et al. (2022). <DOI: 10.1007/s12517-022-09682-3>. One of the key features of the developed function is its flexibility. Users can provide any combination of the required spectral bands, and the function will automatically calculate only the relevant indices based on the available data. This dynamic capability ensures that users can maximize the utility of their data without the need for all spectral bands, making the package versatile and user-friendly. Outputs are provided as GeoTIFF file format, facilitating easy integration with GIS workflows.
License: GPL (>= 2.0)
Encoding: UTF-8
Imports: raster, sp
VignetteBuilder: knitr
NeedsCompilation: no
Packaged: 2024-06-11 04:49:23 UTC; Asus
Author: Nirmal Kumar [aut, cph], Nobin Chandra Paul [aut, cre]
Maintainer: Nobin Chandra Paul <nobin.paul@icar.gov.in>
Repository: CRAN
Date/Publication: 2024-06-11 12:40:02 UTC

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New package ppgm with initial version 1.0.3
Package: ppgm
Title: PaleoPhyloGeographic Modeling of Climate Niches and Species Distributions
Version: 1.0.3
Description: Reconstruction of paleoclimate niches using phylogenetic comparative methods and projection reconstructed niches onto paleoclimate maps. The user can specify various models of trait evolution or estimate the best fit model, include fossils, use one or multiple phylogenies for inference, and make animations of shifting suitable habitat through time. This model was first used in Lawing and Polly (2011), and further implemented in Lawing et al (2016) and Rivera et al (2020). Lawing and Polly (2011) <doi:10.1371/journal.pone.0028554> "Pleistocene climate, phylogeny and climate envelope models: An integrative approach to better understand species' response to climate change" Lawing et al (2016) <doi:10.1086/687202> "Including fossils in phylogenetic climate reconstructions: A deep time perspective on the climatic niche evolution and diversification of spiny lizards (Sceloporus)" Rivera et al (2020) <doi:10.1111/jbi.13915> "Reconstructing historical shifts in suitable habit [...truncated...]
Imports: animation, ape, fields, geiger, methods, phangorn, phytools, stringi
Depends: R (>= 4.3.0), R (>= 2.10), sp, sf
License: GPL (>= 3)
Encoding: UTF-8
LazyData: true
LazyDataCompression: xz
Suggests: testthat (>= 3.0.0)
NeedsCompilation: no
Packaged: 2024-06-11 11:02:02 UTC; alexa
Author: A. Michelle Lawing [aut, cph], Alexandra Howard [aut, cre], Maria-Aleja Hurtado-Materon [aut]
Maintainer: Alexandra Howard <alexandra.howard@ag.tamu.edu>
Repository: CRAN
Date/Publication: 2024-06-11 12:20:01 UTC

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Package paradox updated to version 1.0.0 with previous version 0.11.1 dated 2023-03-17

Title: Define and Work with Parameter Spaces for Complex Algorithms
Description: Define parameter spaces, constraints and dependencies for arbitrary algorithms, to program on such spaces. Also includes statistical designs and random samplers. Objects are implemented as 'R6' classes.
Author: Michel Lang [aut] , Bernd Bischl [aut] , Jakob Richter [aut] , Xudong Sun [aut] , Martin Binder [aut, cre], Marc Becker [ctb]
Maintainer: Martin Binder <mlr.developer@mb706.com>

Diff between paradox versions 0.11.1 dated 2023-03-17 and 1.0.0 dated 2024-06-11

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New package numberize with initial version 1.0.0
Package: numberize
Title: Convert Words to Numbers in Multiple Languages
Version: 1.0.0
Description: Converts written out numbers into their equivalent numbers. Supports numbers written out in English, French, or Spanish.
License: MIT + file LICENSE
URL: https://github.com/epiverse-trace/numberize
BugReports: https://github.com/epiverse-trace/numberize/issues
Depends: R (>= 3.5.0)
Suggests: spelling, testthat (>= 3.0.0)
Encoding: UTF-8
Language: en-US
NeedsCompilation: no
Packaged: 2024-06-10 18:28:47 UTC; bahadzie
Author: Chris Hartgerink [rev] , Joshua W. Lambert [ctb] , Karim Mane [ctb] , Hugo Gruson [aut] , Bankole Ahadzie [aut, cre, cph]
Maintainer: Bankole Ahadzie <bankole.ahadzie@lshtm.ac.uk>
Repository: CRAN
Date/Publication: 2024-06-11 12:30:06 UTC

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New package multinma with initial version 0.7.1
Package: multinma
Title: Bayesian Network Meta-Analysis of Individual and Aggregate Data
Version: 0.7.1
Description: Network meta-analysis and network meta-regression models for aggregate data, individual patient data, and mixtures of both individual and aggregate data using multilevel network meta-regression as described by Phillippo et al. (2020) <doi:10.1111/rssa.12579>. Models are estimated in a Bayesian framework using 'Stan'.
License: GPL-3
Encoding: UTF-8
LazyData: true
Biarch: true
Depends: R (>= 3.4.0)
Imports: methods, stats, graphics, survival, Rcpp (>= 0.12.0), RcppParallel (>= 5.0.1), rstan (>= 2.26.0), rstantools (>= 2.0.0), Rdpack (>= 0.7), tibble (>= 2.1.3), dplyr (>= 1.0.0), rlang, purrr, forcats, glue, randtoolbox, copula, tidyr (>= 1.0.0), stringr, Matrix, igraph, ggraph, ggplot2 (>= 3.3.0), ggdist (>= 2.1.1), truncdist, bayesplot
LinkingTo: BH (>= 1.66.0), Rcpp (>= 0.12.0), RcppEigen (>= 0.3.3.3.0), RcppParallel (>= 5.0.1), rstan (>= 2.26.0), StanHeaders (>= 2.32.9)
SystemRequirements: GNU make
Suggests: testthat (>= 2.1.0), vdiffr, withr, knitr, rmarkdown, parallel, R.rsp, rprojroot, loo (>= 2.0.0), logitnorm, crayon, tidygraph, pkgdown, splines2 (>= 0.5.0), flexsurv, rstpm2
URL: https://dmphillippo.github.io/multinma/, https://github.com/dmphillippo/multinma
BugReports: https://github.com/dmphillippo/multinma/issues
VignetteBuilder: knitr, R.rsp
NeedsCompilation: yes
Packaged: 2024-06-10 17:59:50 UTC; dp14189
Author: David M. Phillippo [aut, cre]
Maintainer: David M. Phillippo <david.phillippo@bristol.ac.uk>
Repository: CRAN
Date/Publication: 2024-06-11 12:20:06 UTC

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Package modelbased updated to version 0.8.8 with previous version 0.8.7 dated 2024-02-15

Title: Estimation of Model-Based Predictions, Contrasts and Means
Description: Implements a general interface for model-based estimations for a wide variety of models, used in the computation of marginal means, contrast analysis and predictions. For a list of supported models, see 'insight::supported_models()'.
Author: Dominique Makowski [aut, cre] , Daniel Luedecke [aut] , Mattan S. Ben-Shachar [aut] , Indrajeet Patil [aut]
Maintainer: Dominique Makowski <dom.makowski@gmail.com>

Diff between modelbased versions 0.8.7 dated 2024-02-15 and 0.8.8 dated 2024-06-11

 DESCRIPTION                                    |   29 +--
 MD5                                            |   92 +++++-----
 R/estimate_contrasts.R                         |   64 ++++---
 R/estimate_grouplevel.R                        |   55 ++----
 R/estimate_means.R                             |   38 ++--
 R/estimate_predicted.R                         |    7 
 R/estimate_slopes.R                            |   66 ++++---
 R/get_emcontrasts.R                            |   49 +++--
 R/get_emmeans.R                                |  122 +++++++-------
 R/get_emtrends.R                               |   50 +++--
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 R/get_marginaleffects.R                        |   28 ++-
 R/get_marginalmeans.R                          |   79 ++++-----
 R/visualisation_matrix.R                       |   39 ++--
 R/visualisation_recipe.estimate_grouplevel.R   |   40 ++--
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 R/visualisation_recipe.estimate_predicted.R    |  180 ++++++++++-----------
 R/visualisation_recipe.estimate_slopes.R       |   34 +---
 README.md                                      |   21 +-
 man/estimate_contrasts.Rd                      |   13 -
 man/estimate_expectation.Rd                    |    5 
 man/estimate_grouplevel.Rd                     |   43 ++---
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 tests/testthat/test-attributes_visualisation.R |   16 -
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 tests/testthat/test-estimate_contrasts.R       |   81 ++++-----
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More information about modelbased at CRAN
Permanent link

New package mcstatsim with initial version 0.1.0
Package: mcstatsim
Title: Monte Carlo Statistical Simulation Tools Using a Functional Approach
Version: 0.1.0
Description: A lightweight, dependency-free tool designed to facilitate statistical simulations through functional programming. It centralizes the simulation process into a single higher-order function, enhancing manageability and usability without adding overhead from external dependencies. The package includes ready-to-use functions for common simulation targets and processes. A detailed example can be found on <https://github.com/ielbadisy/mcstatsim>.
License: AGPL (>= 3)
Encoding: UTF-8
Suggests: testthat (>= 3.0.0)
URL: https://github.com/ielbadisy/mcstatsim
NeedsCompilation: no
Packaged: 2024-06-11 12:36:13 UTC; x13
Author: Imad EL BADISY [aut, cre, cph]
Maintainer: Imad EL BADISY <elbadisyimad@gmail.com>
Repository: CRAN
Date/Publication: 2024-06-11 12:50:02 UTC

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New package mauricer with initial version 2.5.4
Package: mauricer
Title: Work with 'BEAST2' Packages
Version: 2.5.4
Maintainer: Richel J.C. Bilderbeek <rjcbilderbeek@gmail.com>
Description: 'BEAST2' (<https://www.beast2.org>) is a widely used Bayesian phylogenetic tool, that uses DNA/RNA/protein data and many model priors to create a posterior of jointly estimated phylogenies and parameters. 'BEAST2' is commonly accompanied by 'BEAUti 2' (<https://www.beast2.org>), which, among others, allows one to install 'BEAST2' package. This package allows to work with 'BEAST2' packages from 'R'.
License: GPL-3
Encoding: UTF-8
Imports: stringr, beastier (>= 2.5)
Suggests: beautier (>= 2.6.11), curl, knitr, rmarkdown, testthat (>= 2.1.0), tracerer
VignetteBuilder: knitr
URL: https://docs.ropensci.org/mauricer/ (website) https://github.com/ropensci/mauricer
BugReports: https://github.com/ropensci/mauricer/issues
SystemRequirements: BEAST2 (https://www.beast2.org/)
NeedsCompilation: no
Packaged: 2024-06-10 15:47:03 UTC; richel
Author: Richel J.C. Bilderbeek [aut, cre] , Olivier Roy [ctb]
Repository: CRAN
Date/Publication: 2024-06-11 12:10:02 UTC

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Package frscore updated to version 0.4.1 with previous version 0.4.0 dated 2024-04-25

Title: Functions for Calculating Fit-Robustness of CNA-Solutions
Description: Functions for automatically performing a reanalysis series on a data set using CNA, and for calculating the fit-robustness of the resulting models, as described in Parkkinen and Baumgartner (2021) <doi:10.1177/0049124120986200>.
Author: Veli-Pekka Parkkinen [aut, cre, cph], Michael Baumgartner [aut, cph], Mathias Ambuehl [aut, cph]
Maintainer: Veli-Pekka Parkkinen <parkkinenv@gmail.com>

Diff between frscore versions 0.4.0 dated 2024-04-25 and 0.4.1 dated 2024-06-11

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Package ebvcube updated to version 0.2.1 with previous version 0.1.7 dated 2024-02-21

Title: Working with netCDF for Essential Biodiversity Variables
Description: The concept of Essential Biodiversity Variables (EBV, <https://geobon.org/ebvs/what-are-ebvs/>) comes with a data structure based on the Network Common Data Form (netCDF). The 'ebvcube' 'R' package provides functionality to easily create, access and visualise this data. The EBV netCDFs can be downloaded from the EBV Data Portal: Christian Langer/ iDiv (2020) <https://portal.geobon.org/>.
Author: Luise Quoss [aut, cre] , Nestor Fernandez [aut] , Christian Langer [aut] , Jose Valdez [aut] , Henrique Miguel Pereira [aut]
Maintainer: Luise Quoss <luise.quoss@idiv.de>

Diff between ebvcube versions 0.1.7 dated 2024-02-21 and 0.2.1 dated 2024-06-11

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 ebvcube-0.2.1/ebvcube/R/ebv_analyse.R                           |  428 +
 ebvcube-0.2.1/ebvcube/R/ebv_attribute.R                         | 1020 ++--
 ebvcube-0.2.1/ebvcube/R/ebv_create.R                            | 2160 +++++-----
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 ebvcube-0.2.1/ebvcube/R/ebv_map.R                               |  774 +--
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 ebvcube-0.2.1/ebvcube/R/ebv_read.R                              |  528 +-
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 ebvcube-0.2.1/ebvcube/tests/testthat/test-ebv_manipulate.R      |   99 
 ebvcube-0.2.1/ebvcube/tests/testthat/test-ebv_properties.R      |  193 
 ebvcube-0.2.1/ebvcube/tests/testthat/test-ebv_utils.R           |  319 +
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New package colocPropTest with initial version 0.9.1
Package: colocPropTest
Title: Proportional Testing for Colocalisation Analysis
Version: 0.9.1
Description: Colocalisation analysis tests whether two traits share a causal genetic variant in a specified genomic region. Proportional testing for colocalisation has been previously proposed [Wallace (2013) <doi:10.1002/gepi.21765>], but is reimplemented here to overcome barriers to its adoption. Its use is complementary to the fine- mapping based colocalisation method in the 'coloc' package, and may be used in particular to identify false "H3" conclusions in 'coloc'.
License: GPL (>= 3)
Encoding: UTF-8
VignetteBuilder: knitr
Depends: magrittr, data.table
Imports: car, coloc, graphics, stats, utils
Suggests: knitr, plotrix, testthat (>= 3.0.0)
NeedsCompilation: no
Packaged: 2024-06-10 06:58:47 UTC; cw029707
Author: Chris Wallace [aut, cre]
Maintainer: Chris Wallace <chris.x.wallace@gsk.com>
Repository: CRAN
Date/Publication: 2024-06-11 11:30:02 UTC

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New package catregs with initial version 0.2.0
Package: catregs
Title: Post-Estimation Functions for Generalized Linear Mixed Models
Version: 0.2.0
Description: Several functions for working with mixed effects regression models for limited dependent variables. The functions facilitate post-estimation of model predictions or margins, and comparisons between model predictions for assessing or probing moderation. Additional helper functions facilitate model comparisons and implements simulation-based inference for model predictions of alternative-specific outcome models. See also, Melamed and Doan (2024, ISBN: 978-1032509518).
Depends: R (>= 3.5.0)
License: GPL-2 | GPL-3
Encoding: UTF-8
LazyData: true
Imports: methods
Suggests: tidyverse, ggplot2, MASS, emmeans, pscl, nnet, marginaleffects, ggpubr, knitr, rmarkdown, Epi, dplyr, ordinal, nlme, lme4
VignetteBuilder: knitr
NeedsCompilation: no
Packaged: 2024-06-10 19:34:25 UTC; melamed.9
Author: David Melamed [aut, cre]
Maintainer: David Melamed <dmmelamed@gmail.com>
Repository: CRAN
Date/Publication: 2024-06-11 12:30:10 UTC

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New package birdie with initial version 0.6.1
Package: birdie
Title: Bayesian Instrumental Regression for Disparity Estimation
Version: 0.6.1
Description: Bayesian models for accurately estimating conditional distributions by race, using Bayesian Improved Surname Geocoding (BISG) probability estimates of individual race. Implements the methods described in McCartan, Fisher, Goldin, Ho and Imai (2024) <doi:10.3386/w32373>.
Depends: R (>= 3.5.0)
Imports: rlang (>= 0.1.2), Rcpp (>= 0.12.0), cli, vctrs, generics, dplyr, methods, stringi, stringr, RcppParallel (>= 5.0.1), SQUAREM
Suggests: daarem, easycensus, wru, knitr, roxygen2, rmarkdown, testthat (>= 3.0.0)
LinkingTo: Rcpp (>= 0.12.0), cli, BH (>= 1.66.0), RcppEigen (>= 0.3.3.3.0), RcppParallel (>= 5.0.1), RcppThread, StanHeaders (>= 2.18.0)
License: GPL (>= 3)
Encoding: UTF-8
VignetteBuilder: knitr
SystemRequirements: GNU make, C++17
Biarch: true
LazyData: true
URL: https://github.com/CoryMcCartan/birdie, https://corymccartan.com/birdie/
BugReports: https://github.com/CoryMcCartan/birdie/issues
NeedsCompilation: yes
Packaged: 2024-06-10 17:23:19 UTC; cmccartan
Author: Cory McCartan [aut, cre], Kosuke Imai [ctb], Daniel Ho [ctb], Jacob Goldin [ctb], Robin Fisher [ctb], The Stan Development Team [cph]
Maintainer: Cory McCartan <mccartan@psu.edu>
Repository: CRAN
Date/Publication: 2024-06-11 12:10:08 UTC

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Package ANSM5 updated to version 1.1.0 with previous version 1.0.1 dated 2024-06-04

Title: Functions and Data for the Book "Applied Nonparametric Statistical Methods", 5th Edition
Description: Functions and data to accompany the 5th edition of the book "Applied Nonparametric Statistical Methods" (4th edition: Sprent & Smeeton, 2024, ISBN:158488701X), the revisions from the 4th edition including a move from describing the output from a miscellany of statistical software packages to using R. While the output from many of the functions can also be obtained using a range of other R functions, this package provides functions in a unified setting and give output using both p-values and confidence intervals, exemplifying the book's approach of treating p-values as a guide to statistical importance and not an end product in their own right.
Author: Neil Spencer [aut, cre, cph]
Maintainer: Neil Spencer <neilhspencer@gmail.com>

Diff between ANSM5 versions 1.0.1 dated 2024-06-04 and 1.1.0 dated 2024-06-11

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New package PAMscapes with initial version 0.5.8
Package: PAMscapes
Title: Tools for Summarising and Analysing Soundscape Data
Version: 0.5.8
Description: A variety of tools relevant to the analysis of marine soundscape data. There are tools for downloading AIS (automatic identification system) data from Marine Cadastre <https://marinecadastre.gov/ais/>, connecting AIS data to GPS coordinates, plotting summaries of various soundscape measurements, and downloading relevant environmental variables (wind, swell height) from the National Center for Atmospheric Research data server <https://rda.ucar.edu/datasets/ds084.1/>. Most tools were developed to work well with output from 'Triton' software, but can be adapted to work with any similar measurements.
License: GNU General Public License
Encoding: UTF-8
Depends: R (>= 3.5.0)
Imports: dplyr, rlang, ggplot2, lubridate, scales, magrittr, tidyr, readr, httr, data.table, geosphere, sf, PAMmisc, ncdf4, tdigest, purrr
Suggests: testthat
NeedsCompilation: no
Packaged: 2024-06-10 21:25:54 UTC; tnsak
Author: Taiki Sakai [aut, cre], Anne Simonis [ctb], Shannon Rankin [ctb], Megan McKenna [ctb], Kaitlin Palmer [ctb]
Maintainer: Taiki Sakai <taiki.sakai@noaa.gov>
Repository: CRAN
Date/Publication: 2024-06-11 11:00:02 UTC

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New package qlcVisualize with initial version 0.3
Package: qlcVisualize
Title: Visualization for Quantitative Language Comparison
Description: Collection of visualizations as used in quantitative language comparison. Currently implemented are visualisations dealing nominal data with multiple levels ("level map" and "factor map"), and assistance for making weighted geographical Voronoi-maps ("weighted map").
Version: 0.3
Date: 2024-06-07
License: GPL-3
Encoding: UTF-8
Depends: R (>= 3.5.0)
Imports: fields, MASS, qlcMatrix, seriation, spatstat.geom, spatstat.random, maps, mapplots, geodata, methods, sp, sf, alphahull, RSpectra, concaveman, cartogramR
Suggests: rnaturalearth, mapdata, lingtypology
NeedsCompilation: no
Packaged: 2024-06-11 08:57:35 UTC; cysouw
Author: Michael Cysouw [aut, cre]
Maintainer: Michael Cysouw <cysouw@mac.com>
Repository: CRAN
Date/Publication: 2024-06-11 09:20:02 UTC

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New package multilevelcoda with initial version 1.3.0
Package: multilevelcoda
Title: Estimate Bayesian Multilevel Models for Compositional Data
Version: 1.3.0
Date: 2024-6-10
URL: https://florale.github.io/multilevelcoda/, https://github.com/florale/multilevelcoda
BugReports: https://github.com/florale/multilevelcoda/issues
Description: Implement Bayesian Multilevel Modelling for compositional data in a multilevel framework. Compute multilevel compositional data and Isometric log ratio (ILR) at between and within-person levels, fit Bayesian multilevel models for compositional predictors and outcomes, and run post-hoc analyses such as isotemporal substitution models.
License: GPL (>= 3)
Encoding: UTF-8
LazyData: true
Depends: R (>= 4.0.0)
Imports: stats, data.table (>= 1.12.0), compositions, brms, bayestestR, extraoperators, ggplot2, foreach, future, doFuture, abind, graphics, shiny, shinystan, plotly, hrbrthemes, bslib, DT, loo, bayesplot, insight
Suggests: testthat (>= 3.0.0), covr, withr, knitr, rmarkdown, lme4, cmdstanr (>= 0.5.0)
Additional_repositories: https://mc-stan.org/r-packages/
VignetteBuilder: knitr
NeedsCompilation: no
Packaged: 2024-06-10 16:17:22 UTC; florale
Author: Flora Le [aut, cre] , Joshua F. Wiley [aut]
Maintainer: Flora Le <13florale@gmail.com>
Repository: CRAN
Date/Publication: 2024-06-11 09:30:02 UTC

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New package ecochange with initial version 2.9.3.2
Package: ecochange
Title: Integrating Ecosystem Remote Sensing Products to Derive EBV Indicators
Version: 2.9.3.2
Date: 2024-06-10
Maintainer: Wilson Lara Henao <wilarhen@gmail.com>
Description: Essential Biodiversity Variables (EBV) are state variables with dimensions on time, space, and biological organization that document biodiversity change. Freely available ecosystem remote sensing products (ERSP) are downloaded and integrated with data for national or regional domains to derive indicators for EBV in the class ecosystem structure (Pereira et al., 2013) <doi:10.1126/science.1229931>, including horizontal ecosystem extents, fragmentation, and information-theory indices. To process ERSP, users must provide a polygon or geographic administrative data map. Downloadable ERSP include Global Surface Water (Peckel et al., 2016) <doi:10.1038/nature20584>, Forest Change (Hansen et al., 2013) <doi:10.1126/science.1244693>, and Continuous Tree Cover data (Sexton et al., 2013) <doi:10.1080/17538947.2013.786146>.
License: GPL-3
Depends: R (>= 3.5.0), raster, sf, parallel, rasterVis
Imports: sp,ggplot2,landscapemetrics,tibble,utils,httr,getPass,methods,rlang,lattice,rasterDT,stats
Suggests: knitr, rmarkdown, curl, xml2, rvest, viridis
VignetteBuilder: knitr
Encoding: UTF-8
NeedsCompilation: no
Packaged: 2024-06-10 18:51:25 UTC; wihe
Author: Wilson Lara Henao [aut, cre] , Victor Gutierrez-Velez [aut] , Ivan Gonzalez [ctb] , Maria C. Londono [ctb]
Repository: CRAN
Date/Publication: 2024-06-11 09:30:08 UTC

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Package archiveRetriever updated to version 0.4.0 with previous version 0.3.1 dated 2022-12-23

Title: Retrieve Archived Web Pages from the 'Internet Archive'
Description: Scraping content from archived web pages stored in the 'Internet Archive' (<https://archive.org>) using a systematic workflow. Get an overview of the mementos available from the respective homepage, retrieve the Urls and links of the page and finally scrape the content. The final output is stored in tibbles, which can be then easily used for further analysis.
Author: Lukas Isermann [aut, cre] , Konstantin Gavras [aut]
Maintainer: Lukas Isermann <lukas.isermann@uni-mannheim.de>

Diff between archiveRetriever versions 0.3.1 dated 2022-12-23 and 0.4.0 dated 2024-06-11

 DESCRIPTION                            |   26 
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 NAMESPACE                              |    1 
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Package mFLICA updated to version 0.1.6 with previous version 0.1.5 dated 2022-01-24

Title: Leadership-Inference Framework for Multivariate Time Series
Description: A leadership-inference framework for multivariate time series. The framework for multiple-faction-leadership inference from coordinated activities or 'mFLICA' uses a notion of a leader as an individual who initiates collective patterns that everyone in a group follows. Given a set of time series of individual activities, our goal is to identify periods of coordinated activity, find factions of coordination if more than one exist, as well as identify leaders of each faction. For each time step, the framework infers following relations between individual time series, then identifying a leader of each faction whom many individuals follow but it follows no one. A faction is defined as a group of individuals that everyone follows the same leader. 'mFLICA' reports following relations, leaders of factions, and members of each faction for each time step. Please see Chainarong Amornbunchornvej and Tanya Berger-Wolf (2018) <doi:10.1137/1.9781611975321.62> for methodology and Chainarong Amo [...truncated...]
Author: Chainarong Amornbunchornvej [aut, cre] , Namrata Banerji [ctb]
Maintainer: Chainarong Amornbunchornvej <grandca@gmail.com>

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Package JFE updated to version 2.5.7 with previous version 2.5.6 dated 2024-01-15

Title: Tools for Analyzing Time Series Data of Just Finance and Econometrics
Description: Offers procedures to support financial-economic time series modelling and enhanced procedures for computing the investment performance indices of Bacon (2004) <DOI:10.1002/9781119206309>.
Author: Ho Tsung-wu
Maintainer: Ho Tsung-wu <tsungwu@ntnu.edu.tw>

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Package reproj updated to version 0.7.0 with previous version 0.4.3 dated 2022-10-28

Title: Coordinate System Transformations for Generic Map Data
Description: Transform coordinates from a specified source to a specified target map projection. This uses the 'PROJ' library directly, by wrapping the 'PROJ' package which leverages 'libproj', otherwise the 'proj4' package. The 'reproj()' function is generic, methods may be added to remove the need for an explicit source definition. If 'proj4' is in use 'reproj()' handles the requirement for conversion of angular units where necessary. This is for use primarily to transform generic data formats and direct leverage of the underlying 'PROJ' library. (There are transformations that aren't possible with 'PROJ' and that are provided by the 'GDAL' library, a limitation which users of this package should be aware of.) The 'PROJ' library is available at <https://proj.org/>.
Author: Michael D. Sumner [aut, cre]
Maintainer: Michael D. Sumner <mdsumner@gmail.com>

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Package PatientProfiles updated to version 1.1.0 with previous version 1.0.0 dated 2024-05-16

Title: Identify Characteristics of Patients in the OMOP Common Data Model
Description: Identify the characteristics of patients in data mapped to the Observational Medical Outcomes Partnership (OMOP) common data model.
Author: Marti Catala [aut, cre] , Yuchen Guo [aut] , Mike Du [aut] , Kim Lopez-Guell [aut] , Edward Burn [aut] , Nuria Mercade-Besora [aut] , Xintong Li [ctb] , Xihang Chen [ctb]
Maintainer: Marti Catala <marti.catalasabate@ndorms.ox.ac.uk>

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Mon, 10 Jun 2024

Package wnominate updated to version 1.5 with previous version 1.4 dated 2023-04-26

Title: Roll Call Analysis Software
Description: Estimates Poole and Rosenthal's (1985 <doi:10.2307/2111172>, 1991 <doi:10.2307/2111445>) W-NOMINATE scores from roll call votes supplied though a 'rollcall' object from the 'pscl' package.
Author: Keith Poole <ktpoole@uga.edu>, Jeffrey Lewis <jblewis@ucla.edu>, James Lo <lojames@usc.edu> and Royce Carroll <rcarroll@rice.edu>
Maintainer: Jeffrey B. Lewis <jblewis@ucla.edu>

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Package oceanic updated to version 0.1.7 with previous version 0.1.6 dated 2023-05-09

Title: Location Identify Tool
Description: Determine the sea area where the fishing boat operates. The latitude and longitude of geographic coordinates are used to match oceanic areas and economic sea areas. You can plot the distribution map with dotplot() function. Please refer to Flanders Marine Institute (2020) <doi:10.14284/403>.
Author: shiao chih hao [aut, cre, ctb], chang shu ting [aut, ctb], wang shyh jiun [aut, ctb]
Maintainer: shiao chih hao <chihhao@ofdc.org.tw>

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Package BranchGLM updated to version 2.1.6 with previous version 2.1.5 dated 2024-04-07

Title: Efficient Best Subset Selection for GLMs via Branch and Bound Algorithms
Description: Performs efficient and scalable glm best subset selection using a novel implementation of a branch and bound algorithm. To speed up the model fitting process, a range of optimization methods are implemented in 'RcppArmadillo'. Parallel computation is available using 'OpenMP'.
Author: Jacob Seedorff [aut, cre]
Maintainer: Jacob Seedorff <jacob-seedorff@uiowa.edu>

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Package PAMmisc updated to version 1.12.1 with previous version 1.12.0 dated 2024-05-30

Title: Miscellaneous Functions for Passive Acoustic Analysis
Description: A collection of miscellaneous functions for passive acoustics. Much of the content here is adapted to R from code written by other people. If you have any ideas of functions to add, please contact Taiki Sakai.
Author: Taiki Sakai [aut, cre], Jay Barlow [ctb], Julie Oswald [ctb], Val Schmidt [ctb]
Maintainer: Taiki Sakai <taiki.sakai@noaa.gov>

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Package handwriter updated to version 3.1.0 with previous version 3.0.0 dated 2024-03-08

Title: Handwriting Analysis in R
Description: Perform statistical writership analysis of scanned handwritten documents. Webpage provided at: <https://github.com/CSAFE-ISU/handwriter>.
Author: Iowa State University of Science and Technology on behalf of its Center for Statistics and Applications in Forensic Evidence [aut, cph, fnd], Nick Berry [aut], Stephanie Reinders [aut, cre], James Taylor [aut], Felix Baez-Santiago [ctb], Jon Gonzalez [...truncated...]
Maintainer: Stephanie Reinders <srein@iastate.edu>

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 handwriter-3.1.0/handwriter/man/processHandwriting.Rd                                              |   11 
 handwriter-3.1.0/handwriter/man/process_batch_dir.Rd                                               |    2 
 handwriter-3.1.0/handwriter/man/process_batch_list.Rd                                              |    2 
 handwriter-3.1.0/handwriter/man/readPNGBinary.Rd                                                   |    2 
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 handwriter-3.1.0/handwriter/tests/testthat/test-ClusterModeling_datafunctions.R                    |    2 
 handwriter-3.1.0/handwriter/tests/testthat/test-ClusterModeling_modelfunctions.R                   |   26 -
 handwriter-3.1.0/handwriter/tests/testthat/test-processBatch.R                                     |   52 ++
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 handwriter-3.1.0/handwriter/tests/testthat/test_ThinText.R                                         |   65 ---
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Package mapSpain updated to version 0.9.1 with previous version 0.9.0 dated 2024-01-23

Title: Administrative Boundaries of Spain
Description: Administrative Boundaries of Spain at several levels (Autonomous Communities, Provinces, Municipalities) based on the 'GISCO' 'Eurostat' database <https://ec.europa.eu/eurostat/web/gisco> and 'CartoBase SIANE' from 'Instituto Geografico Nacional' <https://www.ign.es/>. It also provides a 'leaflet' plugin and the ability of downloading and processing static tiles.
Author: Diego Hernangomez [aut, cre, cph]
Maintainer: Diego Hernangomez <diego.hernangomezherrero@gmail.com>

Diff between mapSpain versions 0.9.0 dated 2024-01-23 and 0.9.1 dated 2024-06-10

 DESCRIPTION                               |   13 
 MD5                                       |  178 ++++----
 NEWS.md                                   |   38 +
 R/addProviderEspTiles.R                   |   57 +-
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 R/esp_get_grid_ESDAC.R                    |   14 
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 R/esp_get_gridmap.R                       |   15 
 R/esp_get_hydrobasin.R                    |   37 -
 R/esp_get_hypsobath.R                     |   47 --
 R/esp_get_munic.R                         |  180 ++------
 R/esp_get_nuts.R                          |   83 +---
 R/esp_get_prov.R                          |   82 +---
 R/esp_get_railway.R                       |   24 -
 R/esp_get_rivers.R                        |   75 +--
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 man/esp_get_roads.Rd                      |   17 
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Package HDSinRdata updated to version 0.1.2 with previous version 0.1.1 dated 2024-02-26

Title: Data for the 'Mastering Health Data Science Using R' Online Textbook
Description: Contains ten datasets used in the chapters and exercises of Paul, Alice (2023) "Health Data Science in R" <https://alicepaul.github.io/health-data-science-using-r/>.
Author: Alice Paul [aut, cre], Hannah Eglinton [aut], Jialin Liu [ctb], Joanna Walsh [aut], Xinbei Yu [ctb]
Maintainer: Alice Paul <alice_paul@brown.edu>

Diff between HDSinRdata versions 0.1.1 dated 2024-02-26 and 0.1.2 dated 2024-06-10

 DESCRIPTION               |   16 ++++++++--------
 MD5                       |   21 ++++++++++++---------
 NEWS.md                   |    5 +++--
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 13 files changed, 31 insertions(+), 26 deletions(-)

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New package qlcData with initial version 0.3
Package: qlcData
Title: Processing Data for Quantitative Language Comparison
Description: Functionality to read, recode, and transcode data as used in quantitative language comparison, specifically to deal with multilingual orthographic variation (Moran & Cysouw (2018) <doi:10.5281/zenodo.1296780>) and with the recoding of nominal data.
Version: 0.3
Date: 2024-06-07
License: GPL-3
Encoding: UTF-8
Depends: R (>= 3.5.0)
Imports: stringi (>= 0.2-5), yaml (>= 2.1.11), shiny, docopt, data.tree, phytools, ape
Suggests: knitr, rmarkdown, DiagrammeR
VignetteBuilder: knitr
LazyData: true
NeedsCompilation: no
Packaged: 2024-06-08 08:52:02 UTC; cysouw
Author: Michael Cysouw [aut, cre]
Maintainer: Michael Cysouw <cysouw@mac.com>
Repository: CRAN
Date/Publication: 2024-06-10 17:10:01 UTC

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New package ncdfCF with initial version 0.1.1
Package: ncdfCF
Title: Easy Access to NetCDF Files with CF Metadata Conventions
Version: 0.1.1
Description: Network Common Data Form (NetCDF) files are widely used for scientific data. Library-level access in R is provided through packages 'RNetCDF' and 'ncdf4'. Package 'ncdfCF' is built on top of 'RNetCDF' and makes the data and its attributes available as a set of S4 classes that are informed by the Climate and Forecasting Metadata Conventions. Access to the data uses standard R subsetting operators and common function forms.
License: MIT + file LICENSE
Encoding: UTF-8
Imports: CFtime, methods, RNetCDF, stringr
Suggests: knitr, rmarkdown
VignetteBuilder: knitr
NeedsCompilation: no
Packaged: 2024-06-08 11:09:01 UTC; patrickvanlaake
Author: Patrick Van Laake [aut, cre, cph]
Maintainer: Patrick Van Laake <patrick@vanlaake.net>
Repository: CRAN
Date/Publication: 2024-06-10 17:20:02 UTC

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New package lakhesis with initial version 0.0.1
Package: lakhesis
Title: Consensus Seriation for Binary Data
Version: 0.0.1
Description: Determining consensus seriations for binary incidence matrices, using a two-step process of Procrustes-fit correspondence analysis for heuristic selection of partial seriations and iterative regression to establish a single consensus. Contains the Lakhesis Calculator, a graphical platform for identifying seriated sequences. Collins-Elliott (2024) <https://volweb.utk.edu/~scolli46/sceLakhesis.pdf>.
License: GPL (>= 3)
Imports: stats, readr, ca, ggplot2, Rdpack, shiny, shinydashboard, bslib
Encoding: UTF-8
Depends: R (>= 2.10)
LazyData: true
NeedsCompilation: no
Packaged: 2024-06-08 07:03:42 UTC; tennessee10
Author: Stephen A. Collins-Elliott [aut, cre]
Maintainer: Stephen A. Collins-Elliott <sce@utk.edu>
Repository: CRAN
Date/Publication: 2024-06-10 17:10:05 UTC

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New package jstager with initial version 0.0.2
Package: jstager
Title: Retrieve Information Published on J-STAGE
Version: 0.0.2
Description: Provides tools to access the J-STAGE WebAPI and retrieve information published on J-STAGE <https://www.jstage.jst.go.jp/browse/-char/ja>.
License: MIT + file LICENSE
Encoding: UTF-8
Depends: R (>= 2.10)
Imports: httr, xml2, rvest, tibble, dplyr, openxlsx
Suggests: testthat (>= 3.0.0)
URL: https://github.com/takeshinishimura/jstager
BugReports: https://github.com/takeshinishimura/jstager/issues
NeedsCompilation: no
Packaged: 2024-06-09 06:38:40 UTC; takeshinishimura
Author: Takeshi Nishimura [aut, cph, cre]
Maintainer: Takeshi Nishimura <takenishi@gmail.com>
Repository: CRAN
Date/Publication: 2024-06-10 17:30:02 UTC

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New package igraphwalshdata with initial version 0.1.0
Package: igraphwalshdata
Title: 'igraph' Datasets from Melanie Walsh
Version: 0.1.0
Description: Interesting 'igraph' datasets from Melanie Walsh's sample social network datasets repository <https://github.com/melaniewalsh/sample-social-network-datasets>.
Depends: R (>= 4.1.0)
Imports: igraph
License: CC BY 4.0
Encoding: UTF-8
LazyData: true
URL: https://github.com/benyamindsmith/igraphwalshdata
BugReports: https://github.com/benyamindsmith/igraphwalshdata/issues
NeedsCompilation: no
Packaged: 2024-06-09 19:20:37 UTC; ben29
Author: Benjamin Smith [aut, cre]
Maintainer: Benjamin Smith <benyamin.smith@mail.utoronto.ca>
Repository: CRAN
Date/Publication: 2024-06-10 17:40:02 UTC

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New package gwzinbr with initial version 0.1.0
Package: gwzinbr
Title: Geographically Weighted Zero Inflated Negative Binomial Regression
Version: 0.1.0
Maintainer: Jessica Vasconcelos <jehh.vasconcelosabreu@gmail.com>
Description: Fits a geographically weighted regression model using zero inflated probability distributions. Has the zero inflated negative binomial distribution (zinb) as default, but also accepts the zero inflated Poisson (zip), negative binomial (negbin) and Poisson distributions. Can also fit the global versions of each regression model. Da Silva, A. R. & De Sousa, M. D. R. (2023). "Geographically weighted zero-inflated negative binomial regression: A general case for count data", Spatial Statistics <doi:10.1016/j.spasta.2023.100790>. Brunsdon, C., Fotheringham, A. S., & Charlton, M. E. (1996). "Geographically weighted regression: a method for exploring spatial nonstationarity", Geographical Analysis, <doi:10.1111/j.1538-4632.1996.tb00936.x>. Yau, K. K. W., Wang, K., & Lee, A. H. (2003). "Zero-inflated negative binomial mixed regression modeling of over-dispersed count data with extra zeros", Biometrical Journal, <doi:10.1002/bimj.200390024>.
License: GPL-3
Encoding: UTF-8
Imports: sp
LazyData: true
NeedsCompilation: no
Packaged: 2024-06-08 19:07:35 UTC; Juliana Rosa
Author: Jessica Vasconcelos [aut, cre], Juliana Rosa [aut], Alan da Silva [aut]
Depends: R (>= 3.5.0)
Repository: CRAN
Date/Publication: 2024-06-10 17:20:06 UTC

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New package cassandRa with initial version 0.2.0
Package: cassandRa
Title: Finds Missing Links and Metric Confidence Intervals in Ecological Bipartite Networks
Version: 0.2.0
Description: Provides methods to deal with under sampling in ecological bipartite networks from Terry and Lewis (2020) Ecology <doi:10.1002/ecy.3047> Includes tools to fit a variety of statistical network models and sample coverage estimators to highlight most likely missing links. Also includes simple functions to resample from observed networks to generate confidence intervals for common ecological network metrics.
License: GPL-3
Encoding: UTF-8
Imports: bipartite (>= 2.11), reshape2 (>= 1.4.3), magrittr (>= 1.5), vegan (>= 2.5-3), purrr (>= 0.2.5), dplyr, tidyr (>= 0.8), ggplot2 (>= 3.1.0), boot, stats, rlang
Suggests: knitr (>= 1.20), rmarkdown (>= 1.10), pROC (>= 1.13.0), lattice
VignetteBuilder: knitr
NeedsCompilation: no
Packaged: 2024-06-07 11:26:49 UTC; pemb4504
Author: Chris Terry [aut, cre, cph]
Maintainer: Chris Terry <christerry3@btinternet.com>
Repository: CRAN
Date/Publication: 2024-06-10 17:10:09 UTC

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New package bcc with initial version 1.5
Package: bcc
Title: Beta Control Charts
Version: 1.5
Description: Applies Beta Control Charts to defined values. The Beta Chart presents control limits based on the Beta probability distribution, making it suitable for monitoring fraction data from a Binomial distribution as a replacement for p-Charts. The Beta Chart has been applied in three real studies and compared with control limits from three different schemes. The comparative analysis showed that: (i) the Beta approximation to the Binomial distribution is more appropriate for values confined within the [0, 1] interval; and (ii) the proposed charts are more sensitive to the average run length (ARL) in both in-control and out-of-control process monitoring. Overall, the Beta Charts outperform the Shewhart control charts in monitoring fraction data. For more details, see Ângelo Márcio Oliveira Sant’Anna and Carla Schwengber ten Caten (2012) <doi:10.1016/j.eswa.2012.02.146>.
License: GPL-3
Encoding: UTF-8
NeedsCompilation: no
Packaged: 2024-06-09 18:47:29 UTC; danie
Author: Ângelo Santanna [aut], Daniel Cerqueira [aut, cre]
Maintainer: Daniel Cerqueira <danielcerqueira@live.com>
Repository: CRAN
Date/Publication: 2024-06-10 17:40:06 UTC

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New package rsides with initial version 0.1
Package: rsides
Title: SIDES-Based Subgroup Search Algorithms
Description: R implementation of SIDES-based subgroup search algorithms (Lipkovich et al. (2017) <doi:10.1002/sim.7064>).
License: GPL (>= 2)
Version: 0.1
Date: 2024-05-27
Packaged: 2024-06-07 15:16:58 UTC; vic
Date/Publication: 2024-06-10 17:00:02 UTC
Repository: CRAN
Author: Alex Dmitrienko [aut, cre]
Maintainer: Alex Dmitrienko <admitrienko@mediana.us>
Depends: R (>= 3.1.2)
Imports: Rcpp (>= 0.12.10), survival, xml2, foreach, parallel, doParallel, doRNG, officer, flextable
Suggests: testthat (>= 3.0.0)
LinkingTo: Rcpp, RcppEigen, BH
NeedsCompilation: yes
Encoding: UTF-8
LazyLoad: yes
LazyData: true

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New package PredictorSelect with initial version 0.1.0
Package: PredictorSelect
Title: Out-of-Sample Predictability in Predictive Regressions with Many Predictor Candidates
Version: 0.1.0
Description: Consider a linear predictive regression setting with a potentially large set of candidate predictors. This work is concerned with detecting the presence of out of sample predictability based on out of sample mean squared error comparisons given in Gonzalo and Pitarakis (2023) <doi:10.1016/j.ijforecast.2023.10.005>.
License: GPL
Encoding: UTF-8
NeedsCompilation: no
Packaged: 2024-06-07 16:08:11 UTC; rp1e23
Author: Rong Peng [aut, cre]
Maintainer: Rong Peng <r.peng@soton.ac.uk>
Repository: CRAN
Date/Publication: 2024-06-10 17:00:11 UTC

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Package nnlib2Rcpp updated to version 0.2.8 with previous version 0.2.7 dated 2024-04-28

Title: A Tool for Creating Custom Neural Networks in C++ and using Them in R
Description: Contains a module to define neural networks from custom components and versions of Autoencoder, BP, LVQ, MAM NN.
Author: Vasilis Nikolaidis [aut, cph, cre]
Maintainer: Vasilis Nikolaidis <v.nikolaidis@uop.gr>

Diff between nnlib2Rcpp versions 0.2.7 dated 2024-04-28 and 0.2.8 dated 2024-06-10

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 11 files changed, 25 insertions(+), 15 deletions(-)

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New package ICompELM with initial version 0.1.0
Package: ICompELM
Title: Independent Component Analysis Based Extreme Learning Machine
Version: 0.1.0
Description: Single Layer Feed-forward Neural networks (SLFNs) have many applications in various fields of statistical modelling, especially for time-series forecasting. However, there are some major disadvantages of training such networks via the widely accepted 'gradient-based backpropagation' algorithm, such as convergence to local minima, dependencies on learning rate and large training time. These concerns were addressed by Huang et al. (2006) <doi:10.1016/j.neucom.2005.12.126>, wherein they introduced the Extreme Learning Machine (ELM), an extremely fast learning algorithm for SLFNs which randomly chooses the weights connecting input and hidden nodes and analytically determines the output weights of SLFNs. It shows good generalized performance, but is still subject to a high degree of randomness. To mitigate this issue, this package uses a dimensionality reduction technique given in Hyvarinen (1999) <doi:10.1109/72.761722>, namely, the Independent Component Analysis (ICA) to deter [...truncated...]
Imports: stats, tsutils, ica
Suggests: forecast
Depends: R (>= 3.5.0)
License: GPL-3
Encoding: UTF-8
LazyData: true
NeedsCompilation: no
Packaged: 2024-06-07 19:53:01 UTC; Saikath
Author: Saikath Das [aut, cre], Ranjit Kumar Paul [aut], Md Yeasin [aut], Amrit Kumar Paul [aut]
Maintainer: Saikath Das <saikathdas007@gmail.com>
Repository: CRAN
Date/Publication: 2024-06-10 17:00:14 UTC

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New package gmtFD with initial version 0.1.0
Package: gmtFD
Title: General Multiple Tests for Univariate and Multivariate Functional Data
Version: 0.1.0
Date: 2024-06-05
Description: The multiple contrast tests for univariate were proposed by Munko, Ditzhaus, Pauly, Smaga, and Zhang (2023) <doi:10.48550/arXiv.2306.15259>. Recently, they were extended to the multivariate functional data in Munko, Ditzhaus, Pauly, and Smaga (2024) <doi:10.48550/arXiv.2406.01242>. These procedures enable us to evaluate the overall hypothesis regarding equality, as well as specific hypotheses defined by contrasts. In particular, we can perform post hoc tests to examine particular comparisons of interest. Different experimental designs are supported, e.g., one-way and multi-way analysis of variance for functional data.
License: LGPL-2 | LGPL-3 | GPL-2 | GPL-3
Imports: Rcpp (>= 1.0.11), doParallel, MASS, foreach, Matrix, GFDmcv, fda
LinkingTo: Rcpp, RcppArmadillo
Encoding: UTF-8
NeedsCompilation: yes
Packaged: 2024-06-07 14:19:57 UTC; ls
Author: Marc Ditzhaus [aut], Merle Munko [aut], Markus Pauly [aut], Lukasz Smaga [aut, cre]
Maintainer: Lukasz Smaga <ls@amu.edu.pl>
Repository: CRAN
Date/Publication: 2024-06-10 16:50:02 UTC

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New package arrowheadr with initial version 1.0.1
Package: arrowheadr
Title: Make Custom Arrowheads
Version: 1.0.1
Description: The 'ggarrow' package is a 'ggplot2' extension that plots a variety of different arrow segments with many options to customize. The 'arrowheadr' package makes it easy to create custom arrowheads and fins within the parameters that 'ggarrow' functions expect. It has preset arrowheads and a collection of functions to create and transform data for customizing arrows.
License: CC0
URL: https://github.com/wjschne/arrowheadr, https://wjschne.github.io/arrowheadr/
BugReports: https://github.com/wjschne/arrowheadr/issues
Depends: R (>= 2.10)
Imports: bezier, graphics, grDevices, purrr, stats
Suggests: ggarrow, testthat (>= 3.0.0)
Encoding: UTF-8
NeedsCompilation: no
Packaged: 2024-06-07 14:49:54 UTC; renee
Author: W. Joel Schneider [aut, cre]
Maintainer: W. Joel Schneider <w.joel.schneider@gmail.com>
Repository: CRAN
Date/Publication: 2024-06-10 17:00:05 UTC

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Package FaaSr updated to version 1.3.0 with previous version 1.2.1 dated 2024-05-10

Title: FaaS (Function as a Service) Package
Description: Allows users to create and deploy the workflow with multiple functions in Function-as-a-Service (FaaS) cloud computing platforms. The 'FaaSr' package makes it simpler for R developers to use FaaS platforms by providing the following functionality: 1) Parsing and validating a JSON-based payload compliant to 'FaaSr' schema supporting multiple FaaS platforms 2) Invoking user functions written in R in a Docker container (derived from rocker), using a list generated from the parser as argument 3) Downloading/uploading of files from/to S3 buckets using simple primitives 4) Logging to files in S3 buckets 5) Triggering downstream actions supporting multiple FaaS platforms 6) Generating FaaS-specific API calls to simplify the registering of a user's workflow with a FaaS platform Supported FaaS platforms: Apache OpenWhisk <https://openwhisk.apache.org/> GitHub Actions <https://github.com/features/actions> Amazon Web Services (AWS) Lambda <https://aws.amazon.com/lambda/> Support [...truncated...]
Author: Figueiredo Renato [aut, cre, ths, cph] , Park Sungjae [aut] , Mu Nan [ctb], Ku Yun-Jung [ctb], Daneshmand Vahid [ctb], Thomas R. Quinn [aut], Carey Cayelan [ctb]
Maintainer: Figueiredo Renato <renatof@ufl.edu>

Diff between FaaSr versions 1.2.1 dated 2024-05-10 and 1.3.0 dated 2024-06-10

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More information about FaaSr at CRAN
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Package spdep updated to version 1.3-5 with previous version 1.3-4 dated 2024-05-31

Title: Spatial Dependence: Weighting Schemes, Statistics
Description: A collection of functions to create spatial weights matrix objects from polygon 'contiguities', from point patterns by distance and tessellations, for summarizing these objects, and for permitting their use in spatial data analysis, including regional aggregation by minimum spanning tree; a collection of tests for spatial 'autocorrelation', including global 'Morans I' and 'Gearys C' proposed by 'Cliff' and 'Ord' (1973, ISBN: 0850860369) and (1981, ISBN: 0850860814), 'Hubert/Mantel' general cross product statistic, Empirical Bayes estimates and 'Assunção/Reis' (1999) <doi:10.1002/(SICI)1097-0258(19990830)18:16%3C2147::AID-SIM179%3E3.0.CO;2-I> Index, 'Getis/Ord' G ('Getis' and 'Ord' 1992) <doi:10.1111/j.1538-4632.1992.tb00261.x> and multicoloured join count statistics, 'APLE' ('Li 'et al.' ) <doi:10.1111/j.1538-4632.2007.00708.x>, local 'Moran's I', 'Gearys C' ('Anselin' 1995) <doi:10.1111/j.1538-4632.1995.tb00338.x> and 'Getis/Ord' G ('Ord' and 'Getis' 1995) < [...truncated...]
Author: Roger Bivand [cre, aut] , Micah Altman [ctb], Luc Anselin [ctb], Renato Assuncao [ctb], Anil Bera [ctb], Olaf Berke [ctb], F. Guillaume Blanchet [ctb], Marilia Carvalho [ctb], Bjarke Christensen [ctb], Yongwan Chun [ctb], Carsten Dormann [ctb], Steph [...truncated...]
Maintainer: Roger Bivand <Roger.Bivand@nhh.no>

Diff between spdep versions 1.3-4 dated 2024-05-31 and 1.3-5 dated 2024-06-10

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More information about spdep at CRAN
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Package kit updated to version 0.0.18 with previous version 0.0.17 dated 2024-05-04

Title: Data Manipulation Functions Implemented in C
Description: Basic functions, implemented in C, for large data manipulation. Fast vectorised ifelse()/nested if()/switch() functions, psum()/pprod() functions equivalent to pmin()/pmax() plus others which are missing from base R. Most of these functions are callable at C level.
Author: Morgan Jacob [aut, cre, cph], Sebastian Krantz [ctb]
Maintainer: Morgan Jacob <morgan.emailbox@gmail.com>

Diff between kit versions 0.0.17 dated 2024-05-04 and 0.0.18 dated 2024-06-10

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More information about kit at CRAN
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Package evaluate updated to version 0.24.0 with previous version 0.23 dated 2023-11-01

Title: Parsing and Evaluation Tools that Provide More Details than the Default
Description: Parsing and evaluation tools that make it easy to recreate the command line behaviour of R.
Author: Hadley Wickham [aut, cre], Yihui Xie [aut] , Michael Lawrence [ctb], Thomas Kluyver [ctb], Jeroen Ooms [ctb], Barret Schloerke [ctb], Adam Ryczkowski [ctb], Hiroaki Yutani [ctb], Michel Lang [ctb], Karolis Koncevicius [ctb], Posit Software, PBC [cph, [...truncated...]
Maintainer: Hadley Wickham <hadley@posit.co>

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More information about evaluate at CRAN
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Package spgwr updated to version 0.6-37 with previous version 0.6-36 dated 2023-06-13

Title: Geographically Weighted Regression
Description: Functions for computing geographically weighted regressions are provided, based on work by Chris Brunsdon, Martin Charlton and Stewart Fotheringham.
Author: Roger Bivand [cre, aut] , Danlin Yu [aut] , Tomoki Nakaya [ctb], Miquel-Angel Garcia-Lopez [ctb]
Maintainer: Roger Bivand <Roger.Bivand@nhh.no>

Diff between spgwr versions 0.6-36 dated 2023-06-13 and 0.6-37 dated 2024-06-10

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Package spatialreg updated to version 1.3-4 with previous version 1.3-3 dated 2024-05-31

Title: Spatial Regression Analysis
Description: A collection of all the estimation functions for spatial cross-sectional models (on lattice/areal data using spatial weights matrices) contained up to now in 'spdep'. These model fitting functions include maximum likelihood methods for cross-sectional models proposed by 'Cliff' and 'Ord' (1973, ISBN:0850860369) and (1981, ISBN:0850860814), fitting methods initially described by 'Ord' (1975) <doi:10.1080/01621459.1975.10480272>. The models are further described by 'Anselin' (1988) <doi:10.1007/978-94-015-7799-1>. Spatial two stage least squares and spatial general method of moment models initially proposed by 'Kelejian' and 'Prucha' (1998) <doi:10.1023/A:1007707430416> and (1999) <doi:10.1111/1468-2354.00027> are provided. Impact methods and MCMC fitting methods proposed by 'LeSage' and 'Pace' (2009) <doi:10.1201/9781420064254> are implemented for the family of cross-sectional spatial regression models. Methods for fitting the log determinant term in maximu [...truncated...]
Author: Roger Bivand [cre, aut] , Gianfranco Piras [aut], Luc Anselin [ctb], Andrew Bernat [ctb], Eric Blankmeyer [ctb], Yongwan Chun [ctb], Virgilio Gomez-Rubio [ctb], Daniel Griffith [ctb], Martin Gubri [ctb], Rein Halbersma [ctb], James LeSage [ctb], Ange [...truncated...]
Maintainer: Roger Bivand <Roger.Bivand@nhh.no>

Diff between spatialreg versions 1.3-3 dated 2024-05-31 and 1.3-4 dated 2024-06-10

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More information about spatialreg at CRAN
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Package Rsmlx updated to version 2024.1.0 with previous version 2023.1.5 dated 2023-10-17

Title: R Speaks 'Monolix'
Description: Provides methods for model building and model evaluation of mixed effects models using 'Monolix' <https://monolix.lixoft.com>. 'Monolix' is a software tool for nonlinear mixed effects modeling that must have been installed in order to use 'Rsmlx'. Among other tasks, 'Rsmlx' provides a powerful tool for automatic PK model building, performs statistical tests for model assessment, bootstrap simulation and likelihood profiling for computing confidence intervals. 'Rsmlx' also proposes several automatic covariate search methods for mixed effects models.
Author: Chloe Bracis [ctb, cre], Frano Mihaljevic [aut], Marc Lavielle [aut], Jonathan Chauvin [ctb], Clemence Pinaud [ctb]
Maintainer: Chloe Bracis <support@lixoft.com>

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Package leaflet.extras updated to version 2.0.0 with previous version 1.0.0 dated 2018-04-21

Title: Extra Functionality for 'leaflet' Package
Description: The 'leaflet' JavaScript library provides many plugins some of which are available in the core 'leaflet' package, but there are many more. It is not possible to support them all in the core 'leaflet' package. This package serves as an add-on to the 'leaflet' package by providing extra functionality via 'leaflet' plugins.
Author: Sebastian Gatscha [aut, cre], Bhaskar Karambelkar [aut], Barret Schloerke [aut], Bangyou Zheng [ctb] , Robin Cura [ctb] , Markus Voge [ctb] , Markus Dumke [ctb] , Mapbox [ctb, cph] , Henry Thasler [ctb, cph] , Dennis Wilhelm [ctb, cph] , Kirollos Ris [...truncated...]
Maintainer: Sebastian Gatscha <sebastian_gatscha@gmx.at>

Diff between leaflet.extras versions 1.0.0 dated 2018-04-21 and 2.0.0 dated 2024-06-10

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 leaflet.extras-1.0.0/leaflet.extras/man/addGeodesicPolylines.Rd                                                    |only
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 leaflet.extras-2.0.0/leaflet.extras/DESCRIPTION                                                                    |   26 
 leaflet.extras-2.0.0/leaflet.extras/LICENSE                                                                        | 1348 +++----
 leaflet.extras-2.0.0/leaflet.extras/LICENSE.note                                                                   | 1719 ++++------
 leaflet.extras-2.0.0/leaflet.extras/MD5                                                                            |  373 +-
 leaflet.extras-2.0.0/leaflet.extras/NAMESPACE                                                                      |  178 -
 leaflet.extras-2.0.0/leaflet.extras/NEWS.md                                                                        |   42 
 leaflet.extras-2.0.0/leaflet.extras/R/TileLayer.PouchDBCached.R                                                    |   48 
 leaflet.extras-2.0.0/leaflet.extras/R/bounceMarker.R                                                               |   97 
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 leaflet.extras-2.0.0/leaflet.extras/R/drawOptions.R                                                                |  617 ++-
 leaflet.extras-2.0.0/leaflet.extras/R/fullscreen.R                                                                 |   56 
 leaflet.extras-2.0.0/leaflet.extras/R/geodesic.R                                                                   |  353 +-
 leaflet.extras-2.0.0/leaflet.extras/R/gps.R                                                                        |  179 -
 leaflet.extras-2.0.0/leaflet.extras/R/hash.R                                                                       |   41 
 leaflet.extras-2.0.0/leaflet.extras/R/heatmap.R                                                                    |  492 +-
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 leaflet.extras-2.0.0/leaflet.extras/R/leafletDependencies.R                                                        |  110 
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 leaflet.extras-2.0.0/leaflet.extras/R/measure-path.R                                                               |  230 -
 leaflet.extras-2.0.0/leaflet.extras/R/omnivore.R                                                                   | 1345 +++----
 leaflet.extras-2.0.0/leaflet.extras/R/pulseIcon.R                                                                  |  366 --
 leaflet.extras-2.0.0/leaflet.extras/R/search.R                                                                     |  830 ++--
 leaflet.extras-2.0.0/leaflet.extras/R/sharamov.R                                                                   |   94 
 leaflet.extras-2.0.0/leaflet.extras/R/sleep.R                                                                      |   99 
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 leaflet.extras-2.0.0/leaflet.extras/R/weatherMarkers.R                                                             |  421 +-
 leaflet.extras-2.0.0/leaflet.extras/R/webGLHeatmap.R                                                               |  650 +--
 leaflet.extras-2.0.0/leaflet.extras/R/wms-legend.R                                                                 |  109 
 leaflet.extras-2.0.0/leaflet.extras/inst/examples/CSV.R                                                            |   72 
 leaflet.extras-2.0.0/leaflet.extras/inst/examples/GPX.R                                                            |   54 
 leaflet.extras-2.0.0/leaflet.extras/inst/examples/KML.R                                                            |  120 
 leaflet.extras-2.0.0/leaflet.extras/inst/examples/TileLayer-Caching.R                                              |   66 
 leaflet.extras-2.0.0/leaflet.extras/inst/examples/TopoJSON.R                                                       |  143 
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 leaflet.extras-2.0.0/leaflet.extras/inst/examples/draw.R                                                           |  171 
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 leaflet.extras-2.0.0/leaflet.extras/inst/examples/geojsonv2.R                                                      |  544 +--
 leaflet.extras-2.0.0/leaflet.extras/inst/examples/heatmaps.R                                                       |  183 -
 leaflet.extras-2.0.0/leaflet.extras/inst/examples/measurePath.R                                                    |  151 
 leaflet.extras-2.0.0/leaflet.extras/inst/examples/pulseIcon.R                                                      |   94 
 leaflet.extras-2.0.0/leaflet.extras/inst/examples/search.R                                                         |  403 +-
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 leaflet.extras-2.0.0/leaflet.extras/inst/examples/sleep.R                                                          |   31 
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 leaflet.extras-2.0.0/leaflet.extras/inst/examples/weatherIcons.R                                                   |  139 
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 leaflet.extras-2.0.0/leaflet.extras/inst/examples/wmsLegend.R                                                      |   43 
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 leaflet.extras-2.0.0/leaflet.extras/man/TileCaching.Rd                                                             |   44 
 leaflet.extras-2.0.0/leaflet.extras/man/addAwesomeMarkersDependencies.Rd                                           |   32 
 leaflet.extras-2.0.0/leaflet.extras/man/addBingTiles.Rd                                                            |   67 
 leaflet.extras-2.0.0/leaflet.extras/man/addBootstrapDependency.Rd                                                  |   28 
 leaflet.extras-2.0.0/leaflet.extras/man/addBounceMarkers.Rd                                                        |  120 
 leaflet.extras-2.0.0/leaflet.extras/man/addResetMapButton.Rd                                                       |   38 
 leaflet.extras-2.0.0/leaflet.extras/man/debugMap.Rd                                                                |   28 
 leaflet.extras-2.0.0/leaflet.extras/man/draw-options.Rd                                                            |  316 +
 leaflet.extras-2.0.0/leaflet.extras/man/draw.Rd                                                                    |  188 -
 leaflet.extras-2.0.0/leaflet.extras/man/fullscreen.Rd                                                              |   46 
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 leaflet.extras-2.0.0/leaflet.extras/man/gps.Rd                                                                     |  113 
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 leaflet.extras-2.0.0/leaflet.extras/man/leaflethash.Rd                                                             |   38 
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Package espadon updated to version 1.7.2 with previous version 1.7.0 dated 2024-04-19

Title: Easy Study of Patient DICOM Data in Oncology
Description: Exploitation, processing and 2D-3D visualization of DICOM-RT files (structures, dosimetry, imagery) for medical physics and clinical research, in a patient-oriented perspective.
Author: Cathy Fontbonne [aut, cre] , Jean-Marc Fontbonne [aut] , Nathan Azemar [ctb]
Maintainer: Cathy Fontbonne <contact.espadon@lpccaen.in2p3.fr>

Diff between espadon versions 1.7.0 dated 2024-04-19 and 1.7.2 dated 2024-06-10

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Package RsSimulx updated to version 2024.1 with previous version 2023.1 dated 2023-04-20

Title: Extension of 'lixoftConnectors' for 'Simulx'
Description: Provides useful tools which supplement the use of 'Simulx' software and 'R' connectors ('Monolix Suite'). 'Simulx' is an easy, efficient and flexible application for clinical trial simulations. You need 'Simulx' software to be installed in order to use 'RsSimulx' package. Among others tasks, 'RsSimulx' provides the same functions as package 'mlxR' does with a compatibility with 'Simulx' software.
Author: Clemence Pinaud [aut], Jonathan Chauvin [aut], Marc Lavielle [aut], Frano Mihaljevic [aut], Chloe Bracis [aut, cre]
Maintainer: Chloe Bracis <support@lixoft.com>

Diff between RsSimulx versions 2023.1 dated 2023-04-20 and 2024.1 dated 2024-06-10

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Package gRim updated to version 0.3.2 with previous version 0.3.1 dated 2024-06-07

Title: Graphical Interaction Models
Description: Provides the following types of models: Models for contingency tables (i.e. log-linear models) Graphical Gaussian models for multivariate normal data (i.e. covariance selection models) Mixed interaction models. Documentation about 'gRim' is provided by vignettes included in this package and the book by Højsgaard, Edwards and Lauritzen (2012, <doi:10.1007/978-1-4614-2299-0>); see 'citation("gRim")' for details.
Author: Soeren Hoejsgaard <sorenh@math.aau.dk>
Maintainer: Soeren Hoejsgaard <sorenh@math.aau.dk>

Diff between gRim versions 0.3.1 dated 2024-06-07 and 0.3.2 dated 2024-06-10

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Package NTSS updated to version 0.1.3 with previous version 0.1.2 dated 2023-05-20

Title: Nonparametric Tests in Spatial Statistics
Description: Nonparametric test of independence between a pair of spatial objects (random fields, point processes) based on random shifts with torus or variance correction. See Mrkvička et al. (2021) <doi:10.1016/j.spasta.2020.100430>, Dvořák et al. (2022) <doi:10.1111/insr.12503>, Dvořák and Mrkvička (2024) <doi:10.1080/10618600.2024.2357626>.
Author: Jiri Dvorak [aut, cre] , Tomas Mrkvicka [ctb]
Maintainer: Jiri Dvorak <dvorak@karlin.mff.cuni.cz>

Diff between NTSS versions 0.1.2 dated 2023-05-20 and 0.1.3 dated 2024-06-10

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Package savvyr updated to version 0.1.1 with previous version 0.1.0 dated 2024-02-20

Title: Survival Analysis for AdVerse Events with VarYing Follow-Up Times
Description: The SAVVY (Survival Analysis for AdVerse Events with VarYing Follow-Up Times) project is a consortium of academic and pharmaceutical industry partners that aims to improve the analyses of adverse event (AE) data in clinical trials through the use of survival techniques appropriately dealing with varying follow-up times and competing events, see Stegherr, Schmoor, Beyersmann, et al. (2021) <doi:10.1186/s13063-021-05354-x>. Although statistical methodologies have advanced, in AE analyses often the incidence proportion, the incidence density or a non-parametric Kaplan-Meier estimator are used, which either ignore censoring or competing events. This package contains functions to easily conduct the proposed improved AE analyses.
Author: Thomas Kuenzel [aut, cre], Kaspar Rufibach [aut], Regina Stegherr [aut], Daniel Sabanes Bove [aut], F. Hoffmann-La Roche AG [cph, fnd], Universitaet Ulm [cph, fnd]
Maintainer: Thomas Kuenzel <thomas.kuenzel@roche.com>

Diff between savvyr versions 0.1.0 dated 2024-02-20 and 0.1.1 dated 2024-06-10

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Permanent link

Package downlit updated to version 0.4.4 with previous version 0.4.3 dated 2023-06-29

Title: Syntax Highlighting and Automatic Linking
Description: Syntax highlighting of R code, specifically designed for the needs of 'RMarkdown' packages like 'pkgdown', 'hugodown', and 'bookdown'. It includes linking of function calls to their documentation on the web, and automatic translation of ANSI escapes in output to the equivalent HTML.
Author: Hadley Wickham [aut, cre], Posit Software, PBC [cph, fnd]
Maintainer: Hadley Wickham <hadley@posit.co>

Diff between downlit versions 0.4.3 dated 2023-06-29 and 0.4.4 dated 2024-06-10

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More information about downlit at CRAN
Permanent link

Package khisr updated to version 1.0.4 with previous version 1.0.3 dated 2024-06-08

Title: An R Client to Retrieve Data from DHIS2
Description: Provides a user-friendly interface for interacting with the District Health Information Software 2 (DHIS2) instance. It streamlines data retrieval, empowering researchers, analysts, and healthcare professionals to obtain and utilize data efficiently.
Author: David Kariuki [aut, cre, cph]
Maintainer: David Kariuki <hello@damurka.com>

Diff between khisr versions 1.0.3 dated 2024-06-08 and 1.0.4 dated 2024-06-10

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New package geodata with initial version 0.6-2
Package: geodata
Title: Download Geographic Data
Version: 0.6-2
Date: 2024-06-06
Depends: R (>= 3.5.0), terra (>= 1.6.41)
Encoding: UTF-8
Suggests: jsonlite, R.utils, httr, archive
Author: Robert J. Hijmans [cre, aut], Marcia Barbosa [ctb], Aniruddha Ghosh [ctb], Alex Mandel [ctb]
Maintainer: Robert J. Hijmans <r.hijmans@gmail.com>
Description: Functions for downloading of geographic data for use in spatial analysis and mapping. The package facilitates access to climate, crops, elevation, land use, soil, species occurrence, accessibility, administrative boundaries and other data.
License: GPL (>= 3)
BugReports: https://github.com/rspatial/geodata/issues/
NeedsCompilation: no
Packaged: 2024-06-06 07:55:39 UTC; rhijm
Repository: CRAN
Date/Publication: 2024-06-10 09:00:02 UTC

More information about geodata at CRAN
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Package disprofas updated to version 0.2.0 with previous version 0.1.3 dated 2021-12-08

Title: Non-Parametric Dissolution Profile Analysis
Description: Similarity of dissolution profiles is assessed using the similarity factor f2 according to the EMA guideline (European Medicines Agency 2010) "On the investigation of bioequivalence". Dissolution profiles are regarded as similar if the f2 value is between 50 and 100. For the applicability of the similarity factor f2, the variability between profiles needs to be within certain limits. Often, this constraint is violated. One possibility in this situation is to resample the measured profiles in order to obtain a bootstrap estimate of f2 (Shah et al. (1998) <doi:10.1023/A:1011976615750>). Other alternatives are the model-independent non-parametric multivariate confidence region (MCR) procedure (Tsong et al. (1996) <doi:10.1177/009286159603000427>) or the T2-test for equivalence procedure (Hoffelder (2016) <https://www.ecv.de/suse_item.php?suseId=Z|pi|8430>). Functions for estimation of f1, f2, bootstrap f2, MCR / T2-test for equivalence procedure are implemented.
Author: Pius Dahinden [aut, cre], Tillotts Pharma AG [cph, fnd]
Maintainer: Pius Dahinden <pius.dahinden@tillotts.com>

Diff between disprofas versions 0.1.3 dated 2021-12-08 and 0.2.0 dated 2024-06-10

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Package GauPro updated to version 0.2.12 with previous version 0.2.11 dated 2023-04-11

Title: Gaussian Process Fitting
Description: Fits a Gaussian process model to data. Gaussian processes are commonly used in computer experiments to fit an interpolating model. The model is stored as an 'R6' object and can be easily updated with new data. There are options to run in parallel, and 'Rcpp' has been used to speed up calculations. For more info about Gaussian process software, see Erickson et al. (2018) <doi:10.1016/j.ejor.2017.10.002>.
Author: Collin Erickson
Maintainer: Collin Erickson <collinberickson@gmail.com>

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Package saeTrafo updated to version 1.0.4 with previous version 1.0.3 dated 2024-05-23

Title: Transformations for Unit-Level Small Area Models
Description: The aim of this package is to offer new methodology for unit-level small area models under transformations and limited population auxiliary information. In addition to this new methodology, the widely used nested error regression model without transformations (see "An Error-Components Model for Prediction of County Crop Areas Using Survey and Satellite Data" by Battese, Harter and Fuller (1988) <doi:10.1080/01621459.1988.10478561>) and its well-known uncertainty estimate (see "The estimation of the mean squared error of small-area estimators" by Prasad and Rao (1990) <doi:10.1080/01621459.1995.10476570>) are provided. In this package, the log transformation and the data-driven log-shift transformation are provided. If a transformation is selected, an appropriate method is chosen depending on the respective input of the population data: Individual population data (see "Empirical best prediction under a nested error model with log transformation" by Molina and Martín (2018) & [...truncated...]
Author: Nora Wuerz [aut]
Maintainer: Nora Wuerz <nora.wuerz@uni-bamberg.de>

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Package leaps updated to version 3.2 with previous version 3.1 dated 2020-01-16

Title: Regression Subset Selection
Description: Regression subset selection, including exhaustive search.
Author: Thomas Lumley based on Fortran code by Alan Miller
Maintainer: Thomas Lumley <t.lumley@auckland.ac.nz>

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Package gwid updated to version 0.2.0 with previous version 0.1.0 dated 2023-12-14

Title: Genome-Wide Identity-by-Descent
Description: Methods and tools for the analysis of Genome Wide Identity-by-Descent ('gwid') mapping data, focusing on testing whether there is a higher occurrence of Identity-By-Descent (IBD) segments around potential causal variants in cases compared to controls, which is crucial for identifying rare variants. To enhance its analytical power, 'gwid' incorporates a Sliding Window Approach, allowing for the detection and analysis of signals from multiple Single Nucleotide Polymorphisms (SNPs).
Author: Soroush Mahmoudiandehkordi [aut, cre], Steven J Schrodi [aut], Mehdi Maadooliat [aut]
Maintainer: Soroush Mahmoudiandehkordi <soroushmdg@gmail.com>

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Sun, 09 Jun 2024

Package spaMM updated to version 4.5.0 with previous version 4.4.16 dated 2023-12-20

Title: Mixed-Effect Models, with or without Spatial Random Effects
Description: Inference based on models with or without spatially-correlated random effects, multivariate responses, or non-Gaussian random effects (e.g., Beta). Variation in residual variance (heteroscedasticity) can itself be represented by a mixed-effect model. Both classical geostatistical models (Rousset and Ferdy 2014 <doi:10.1111/ecog.00566>), and Markov random field models on irregular grids (as considered in the 'INLA' package, <https://www.r-inla.org>), can be fitted, with distinct computational procedures exploiting the sparse matrix representations for the latter case and other autoregressive models. Laplace approximations are used for likelihood or restricted likelihood. Penalized quasi-likelihood and other variants discussed in the h-likelihood literature (Lee and Nelder 2001 <doi:10.1093/biomet/88.4.987>) are also implemented.
Author: Francois Rousset [aut, cre, cph] , Jean-Baptiste Ferdy [aut, cph], Alexandre Courtiol [aut]
Maintainer: Francois Rousset <francois.rousset@umontpellier.fr>

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Package rsm updated to version 2.10.5 with previous version 2.10.4 dated 2023-09-20

Title: Response-Surface Analysis
Description: Provides functions to generate response-surface designs, fit first- and second-order response-surface models, make surface plots, obtain the path of steepest ascent, and do canonical analysis. A good reference on these methods is Chapter 10 of Wu, C-F J and Hamada, M (2009) "Experiments: Planning, Analysis, and Parameter Design Optimization" ISBN 978-0-471-69946-0. An early version of the package is documented in Journal of Statistical Software <doi:10.18637/jss.v032.i07>.
Author: Russell Lenth [aut, cre]
Maintainer: Russell Lenth <russell-lenth@uiowa.edu>

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Package rdecision updated to version 1.2.1 with previous version 1.2.0 dated 2024-01-10

Title: Decision Analytic Modelling in Health Economics
Description: Classes and functions for modelling health care interventions using decision trees and semi-Markov models. Mechanisms are provided for associating an uncertainty distribution with each source variable and for ensuring transparency of the mathematical relationships between variables. The package terminology follows Briggs "Decision Modelling for Health Economic Evaluation" (2006, ISBN:978-0-19-852662-9).
Author: Andrew Sims [aut, cre] , Kim Fairbairn [aut] , Paola Cognigni [aut]
Maintainer: Andrew Sims <andrew.sims@newcastle.ac.uk>

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Package ETASbootstrap updated to version 0.2.0 with previous version 0.1.0 dated 2023-05-17

Title: Bootstrap Confidence Interval Estimation for 'ETAS' Model Parameters
Description: The 2-D spatial and temporal Epidemic Type Aftershock Sequence ('ETAS') Model is widely used to 'decluster' earthquake data catalogs. Usually, the calculation of standard errors of the 'ETAS' model parameter estimates is based on the Hessian matrix derived from the log-likelihood function of the fitted model. However, when an 'ETAS' model is fitted to a local data set over a time period that is limited or short, the standard errors based on the Hessian matrix may be inaccurate. It follows that the asymptotic confidence intervals for parameters may not always be reliable. As an alternative, this package allows for the construction of bootstrap confidence intervals based on empirical quantiles for the parameters of the 2-D spatial and temporal 'ETAS' model. This version improves on Version 0.1.0 of the package by enabling the study space window (renamed 'study region') to be polygonal rather than merely rectangular. A Japan earthquake data catalog is used in a second example to illustrat [...truncated...]
Author: Renjie Peng [aut, cre], Pierre Dutilleul [aut] , Christian Genest [aut]
Maintainer: Renjie Peng <renjie.peng@mail.mcgill.ca>

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Package SINRELEF.LD updated to version 1.1.0 with previous version 1.0.4 dated 2024-04-07

Title: Reliability and Relative Efficiency in Locally-Dependent Measures
Description: Implements an approach aimed at assessing the accuracy and effectiveness of raw scores obtained in scales that contain locally dependent items. The program uses as input the calibration (structural) item estimates obtained from fitting extended unidimensional factor-analytic solutions in which the existing local dependencies are included. Measures of reliability (Omega) and information are proposed at three levels: (a) total score, (b) bivariate-doublet, and (c) item-by-item deletion, and are compared to those that would be obtained if all the items had been locally independent. All the implemented procedures can be obtained from: (a) linear factor-analytic solutions in which the item scores are treated as approximately continuous, and (b) non-linear solutions in which the item scores are treated as ordered-categorical. A detailed guide can be obtained at the following url.
Author: David Navarro-Gonzalez [aut, cre], Fabia Morales-Vives [aut], Pere J. Ferrando [aut]
Maintainer: David Navarro-Gonzalez <david.navarro@udl.cat>

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Package blavaan updated to version 0.5-5 with previous version 0.5-4 dated 2024-04-15

Title: Bayesian Latent Variable Analysis
Description: Fit a variety of Bayesian latent variable models, including confirmatory factor analysis, structural equation models, and latent growth curve models. References: Merkle & Rosseel (2018) <doi:10.18637/jss.v085.i04>; Merkle et al. (2021) <doi:10.18637/jss.v100.i06>.
Author: Edgar Merkle [aut, cre] , Yves Rosseel [aut], Ben Goodrich [aut], Mauricio Garnier-Villarreal [ctb] , Terrence D. Jorgensen [ctb] , Huub Hoofs [ctb] , Rens van de Schoot [ctb] , Andrew Johnson [ctb] , Matthew Emery [ctb]
Maintainer: Edgar Merkle <merklee@missouri.edu>

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New package blandr with initial version 0.6.0
Package: blandr
Title: Bland-Altman Method Comparison
Version: 0.6.0
Date: 2024-06-09
Description: Carries out Bland Altman analyses (also known as a Tukey mean-difference plot) as described by JM Bland and DG Altman in 1986 <doi:10.1016/S0140-6736(86)90837-8>. This package was created in 2015 as existing Bland-Altman analysis functions did not calculate confidence intervals. This package was created to rectify this, and create reproducible plots. This package is also available as a module for the 'jamovi' statistical spreadsheet (see <https://www.jamovi.org> for more information).
Depends: R (>= 3.2.0)
License: GPL-3
Encoding: UTF-8
LazyData: true
URL: https://github.com/deepankardatta/blandr/
BugReports: https://github.com/deepankardatta/blandr/issues
Imports: glue, ggplot2, knitr, stringr, jmvcore (>= 0.8.5), markdown, rmarkdown
Suggests: testthat
SystemRequirements: pandoc (>=1.12.3)
VignetteBuilder: knitr
Language: en-GB
NeedsCompilation: no
Packaged: 2024-06-09 11:49:37 UTC; deepankardatta
Author: Deepankar Datta [aut, cre], Jonathon Love [ctb]
Maintainer: Deepankar Datta <deepankar.datta@gmail.com>
Repository: CRAN
Date/Publication: 2024-06-09 20:40:02 UTC

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Package ggfoundry updated to version 0.2.0 with previous version 0.1.1 dated 2024-05-28

Title: Shape Foundry & Geom for 'ggplot2'
Description: A 'ggplot2' extension that supports arbitrary hand-crafted colourable & fillable shapes. New shapes may be feature requested via a Github issue.
Author: Carl Goodwin [aut, cre, cph]
Maintainer: Carl Goodwin <carl.goodwin@quantumjitter.com>

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Package dfms updated to version 0.2.2 with previous version 0.2.1 dated 2023-04-03

Title: Dynamic Factor Models
Description: Efficient estimation of Dynamic Factor Models using the Expectation Maximization (EM) algorithm or Two-Step (2S) estimation, supporting datasets with missing data. The estimation options follow advances in the econometric literature: either running the Kalman Filter and Smoother once with initial values from PCA - 2S estimation as in Doz, Giannone and Reichlin (2011) <doi:10.1016/j.jeconom.2011.02.012> - or via iterated Kalman Filtering and Smoothing until EM convergence - following Doz, Giannone and Reichlin (2012) <doi:10.1162/REST_a_00225> - or using the adapted EM algorithm of Banbura and Modugno (2014) <doi:10.1002/jae.2306>, allowing arbitrary patterns of missing data. The implementation makes heavy use of the 'Armadillo' 'C++' library and the 'collapse' package, providing for particularly speedy estimation. A comprehensive set of methods supports interpretation and visualization of the model as well as forecasting. Information criteria to choose the number of f [...truncated...]
Author: Sebastian Krantz [aut, cre], Rytis Bagdziunas [aut]
Maintainer: Sebastian Krantz <sebastian.krantz@graduateinstitute.ch>

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Package cucumber updated to version 1.0.3 with previous version 1.0.2 dated 2024-04-09

Title: Behavior-Driven Development for R
Description: Write executable specifications in a natural language that describes how your code should behave. Write specifications in feature files using 'Gherkin' language and execute them using functions implemented in R. Use them as an extension to your 'testthat' tests to provide a high level description of how your code works.
Author: Jakub Sobolewski [aut, cre]
Maintainer: Jakub Sobolewski <jakupsob@gmail.com>

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Package BioM2 updated to version 1.0.7 with previous version 1.0.6 dated 2024-05-16

Title: Biologically Explainable Machine Learning Framework
Description: Biologically Explainable Machine Learning Framework for Phenotype Prediction using omics data described in Chen and Schwarz (2017) <doi:10.48550/arXiv.1712.00336>.Identifying reproducible and interpretable biological patterns from high-dimensional omics data is a critical factor in understanding the risk mechanism of complex disease. As such, explainable machine learning can offer biological insight in addition to personalized risk scoring.In this process, a feature space of biological pathways will be generated, and the feature space can also be subsequently analyzed using WGCNA (Described in Horvath and Zhang (2005) <doi:10.2202/1544-6115.1128> and Langfelder and Horvath (2008) <doi:10.1186/1471-2105-9-559> ) methods.
Author: Shunjie Zhang and Junfang Chen
Maintainer: Shunjie Zhang <zhang.shunjie@qq.com>

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Package SpatialGEV updated to version 1.0.1 with previous version 1.0.0 dated 2022-04-05

Title: Fit Spatial Generalized Extreme Value Models
Description: Fit latent variable models with the GEV distribution as the data likelihood and the GEV parameters following latent Gaussian processes. The models in this package are built using the template model builder 'TMB' in R, which has the fast ability to integrate out the latent variables using Laplace approximation. This package allows the users to choose in the fit function which GEV parameter(s) is considered as a spatially varying random effect following a Gaussian process, so the users can fit spatial GEV models with different complexities to their dataset without having to write the models in 'TMB' by themselves. This package also offers methods to sample from both fixed and random effects posteriors as well as the posterior predictive distributions at different spatial locations. Methods for fitting this class of models are described in Chen, Ramezan, and Lysy (2024) <doi:10.48550/arXiv.2110.07051>.
Author: Meixi Chen [aut, cre], Martin Lysy [aut], Reza Ramezan [ctb]
Maintainer: Meixi Chen <meixi.chen@uwaterloo.ca>

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Package smicd updated to version 1.1.5 with previous version 1.1.4 dated 2024-06-07

Title: Statistical Methods for Interval-Censored Data
Description: Functions that provide statistical methods for interval-censored (grouped) data. The package supports the estimation of linear and linear mixed regression models with interval-censored dependent variables. Parameter estimates are obtained by a stochastic expectation maximization algorithm. Furthermore, the package enables the direct (without covariates) estimation of statistical indicators from interval-censored data via an iterative kernel density algorithm. Survey and Organisation for Economic Co-operation and Development (OECD) weights can be included into the direct estimation (see, Walter, P. (2019) <doi:10.17169/refubium-1621>).
Author: Paul Walter
Maintainer: Paul Walter <paul.w@gmx.net>

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Permanent link

Package nimble updated to version 1.2.0 with previous version 1.1.0 dated 2024-01-31

Title: MCMC, Particle Filtering, and Programmable Hierarchical Modeling
Description: A system for writing hierarchical statistical models largely compatible with 'BUGS' and 'JAGS', writing nimbleFunctions to operate models and do basic R-style math, and compiling both models and nimbleFunctions via custom-generated C++. 'NIMBLE' includes default methods for MCMC, Laplace Approximation, Monte Carlo Expectation Maximization, and some other tools. The nimbleFunction system makes it easy to do things like implement new MCMC samplers from R, customize the assignment of samplers to different parts of a model from R, and compile the new samplers automatically via C++ alongside the samplers 'NIMBLE' provides. 'NIMBLE' extends the 'BUGS'/'JAGS' language by making it extensible: New distributions and functions can be added, including as calls to external compiled code. Although most people think of MCMC as the main goal of the 'BUGS'/'JAGS' language for writing models, one can use 'NIMBLE' for writing arbitrary other kinds of model-generic algorithms as well. A full User Manual [...truncated...]
Author: Perry de Valpine [aut], Christopher Paciorek [aut, cre], Daniel Turek [aut], Nick Michaud [aut], Cliff Anderson-Bergman [aut], Fritz Obermeyer [aut], Claudia Wehrhahn Cortes [aut] , Abel Rodriguez [aut] , Duncan Temple Lang [aut] , Wei Zhang [aut] , [...truncated...]
Maintainer: Christopher Paciorek <paciorek@stat.berkeley.edu>

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Permanent link

New package cryptotrackr with initial version 1.3.3
Package: cryptotrackr
Title: An Interface to Crypto Data Sources
Version: 1.3.3
Maintainer: Trevor French <FrenchTrevor@outlook.com>
Description: Allows you to connect to data sources across the crypto ecosystem. This data can enable a range of activity such as portfolio tracking, programmatic trading, or industry analysis. The package is described in French (2024) <https://github.com/TrevorFrench/cryptotrackr/wiki>.
License: MIT + file LICENSE
Encoding: UTF-8
Imports: httr, jsonlite, stringi, openssl, utils, digest
Suggests: testthat (>= 3.0.0)
NeedsCompilation: no
Packaged: 2024-06-09 00:53:33 UTC; Trevor French
Author: Trevor French [aut, cre]
Repository: CRAN
Date/Publication: 2024-06-09 06:20:05 UTC

More information about cryptotrackr at CRAN
Permanent link

Sat, 08 Jun 2024

Package quarks updated to version 1.1.4 with previous version 1.1.3 dated 2022-08-31

Title: Simple Methods for Calculating and Backtesting Value at Risk and Expected Shortfall
Description: Enables the user to calculate Value at Risk (VaR) and Expected Shortfall (ES) by means of various types of historical simulation. Currently plain-, age-, volatility-weighted- and filtered historical simulation are implemented in this package. Volatility weighting can be carried out via an exponentially weighted moving average model (EWMA) or other GARCH-type models. The performance can be assessed via Traffic Light Test, Coverage Tests and Loss Functions. The methods of the package are described in Gurrola-Perez, P. and Murphy, D. (2015) <https://EconPapers.repec.org/RePEc:boe:boeewp:0525> as well as McNeil, J., Frey, R., and Embrechts, P. (2015) <https://ideas.repec.org/b/pup/pbooks/10496.html>.
Author: Sebastian Letmathe [aut, cre]
Maintainer: Sebastian Letmathe <sebastian.let@t-online.de>

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More information about quarks at CRAN
Permanent link

Package performance updated to version 0.12.0 with previous version 0.11.0 dated 2024-03-22

Title: Assessment of Regression Models Performance
Description: Utilities for computing measures to assess model quality, which are not directly provided by R's 'base' or 'stats' packages. These include e.g. measures like r-squared, intraclass correlation coefficient (Nakagawa, Johnson & Schielzeth (2017) <doi:10.1098/rsif.2017.0213>), root mean squared error or functions to check models for overdispersion, singularity or zero-inflation and more. Functions apply to a large variety of regression models, including generalized linear models, mixed effects models and Bayesian models. References: Lüdecke et al. (2021) <doi:10.21105/joss.03139>.
Author: Daniel Luedecke [aut, cre] , Dominique Makowski [aut, ctb] , Mattan S. Ben-Shachar [aut, ctb] , Indrajeet Patil [aut, ctb] , Philip Waggoner [aut, ctb] , Brenton M. Wiernik [aut, ctb] , Remi Theriault [aut, ctb] , Vincent Arel-Bundock [ctb] , Martin J [...truncated...]
Maintainer: Daniel Luedecke <d.luedecke@uke.de>

Diff between performance versions 0.11.0 dated 2024-03-22 and 0.12.0 dated 2024-06-08

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Package PAGFL updated to version 1.1.0 with previous version 1.0.1 dated 2024-02-17

Title: Joint Estimation of Latent Groups and Group-Specific Coefficients in Panel Data Models
Description: Latent group structures are a common challenge in panel data analysis. Disregarding group-level heterogeneity can introduce bias. Conversely, estimating individual coefficients for each cross-sectional unit is inefficient and may lead to high uncertainty. This package addresses the issue of unobservable group structures by implementing the pairwise adaptive group fused Lasso (PAGFL) by Mehrabani (2023) <doi:10.1016/j.jeconom.2022.12.002>. PAGFL identifies latent group structures and group-specific coefficients in a single step. On top of that, we extend the PAGFL to time-varying coefficient functions.
Author: Paul Haimerl [aut, cre] , Stephan Smeekes [ctb] , Ines Wilms [ctb] , Ali Mehrabani [ctb]
Maintainer: Paul Haimerl <p.haimerl@student.maastrichtuniversity.nl>

Diff between PAGFL versions 1.0.1 dated 2024-02-17 and 1.1.0 dated 2024-06-08

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Package lsm updated to version 0.2.1.4 with previous version 0.2.1.2 dated 2022-02-03

Title: Estimation of the log Likelihood of the Saturated Model
Description: When the values of the outcome variable Y are either 0 or 1, the function lsm() calculates the estimation of the log likelihood in the saturated model. This model is characterized by Llinas (2006, ISSN:2389-8976) in section 2.3 through the assumptions 1 and 2. The function LogLik() works (almost perfectly) when the number of independent variables K is high, but for small K it calculates wrong values in some cases. For this reason, when Y is dichotomous and the data are grouped in J populations, it is recommended to use the function lsm() because it works very well for all K.
Author: Jorge Villalba [aut, cre] , Humberto Llinas [aut] , Omar Fabregas [aut]
Maintainer: Jorge Villalba <jvillalba@utb.edu.co>

Diff between lsm versions 0.2.1.2 dated 2022-02-03 and 0.2.1.4 dated 2024-06-08

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More information about lsm at CRAN
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Package loggit2 updated to version 2.3.0 with previous version 2.2.2 dated 2024-05-03

Title: Easy-to-Use, Dependencyless Logger
Description: An easy-to-use 'ndjson' (newline-delimited 'JSON') logger. It provides a set of wrappings for base R's message(), warning(), and stop() functions that maintain identical functionality, but also log the handler message to an 'ndjson' log file. No change in existing code is necessary to use this package, and should only require additions to fully leverage the power of the logging system.
Author: Matthias Ollech [cre, aut], Ryan Price [fnd, aut]
Maintainer: Matthias Ollech <ollech@gmx.com>

Diff between loggit2 versions 2.2.2 dated 2024-05-03 and 2.3.0 dated 2024-06-08

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Package khisr updated to version 1.0.3 with previous version 1.0.2 dated 2024-04-14

Title: An R Client to Retrieve Data from DHIS2
Description: Provides a user-friendly interface for interacting with the District Health Information Software 2 (DHIS2) instance. It streamlines data retrieval, empowering researchers, analysts, and healthcare professionals to obtain and utilize data efficiently.
Author: David Kariuki [aut, cre, cph]
Maintainer: David Kariuki <hello@damurka.com>

Diff between khisr versions 1.0.2 dated 2024-04-14 and 1.0.3 dated 2024-06-08

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Permanent link

Package avotrex updated to version 1.2.0 with previous version 1.1.0 dated 2024-05-31

Title: A Global Dataset of Anthropogenic Extinct Birds and their Traits: Phylogeny Builder
Description: Grafts the extinct bird species from the 'Avotrex' database (Sayol et al., in review) on to the 'BirdTree' phylogenies <https://birdtree.org>, using a set of different commands.
Author: Joseph Wayman [aut, cre] , Thomas J. Matthews [aut] , Paul Dufour [ctb], Ferran Sayol [ctb], Pedro Cardoso [ctb]
Maintainer: Joseph Wayman <j.wayman@bham.ac.uk>

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Package wordnet updated to version 0.1-17 with previous version 0.1-16 dated 2023-01-31

Title: WordNet Interface
Description: An interface to WordNet using the Jawbone Java API to WordNet. WordNet (<https://wordnet.princeton.edu/>) is a large lexical database of English. Nouns, verbs, adjectives and adverbs are grouped into sets of cognitive synonyms (synsets), each expressing a distinct concept. Synsets are interlinked by means of conceptual-semantic and lexical relations. Please note that WordNet(R) is a registered tradename. Princeton University makes WordNet available to research and commercial users free of charge provided the terms of their license (<https://wordnet.princeton.edu/license-and-commercial-use>) are followed, and proper reference is made to the project using an appropriate citation (<https://wordnet.princeton.edu/citing-wordnet>). The WordNet database files need to be made available separately, either via package 'wordnetDicts' from <https://datacube.wu.ac.at>, installing system packages where available, or direct download from <https://wordnetcode.princeton.ed [...truncated...]
Author: Ingo Feinerer [aut], Kurt Hornik [aut, cre] , Mike Wallace [ctb, cph]
Maintainer: Kurt Hornik <Kurt.Hornik@R-project.org>

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Package badger updated to version 0.2.4 with previous version 0.2.3 dated 2023-01-28

Title: Badge for R Package
Description: Query information and generate badge for using in README and GitHub Pages.
Author: Guangchuang Yu [aut, cre] , Gregor de Cillia [ctb], Dirk Eddelbuettel [ctb], Maelle Salmon [ctb], Robrecht Cannoodt [ctb] , Alexander Rossell Hayes [ctb] , Waldir Leoncio [ctb], Matthew Schuelke [ctb]
Maintainer: Guangchuang Yu <guangchuangyu@gmail.com>

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Package tidyterra updated to version 0.6.1 with previous version 0.6.0 dated 2024-04-22

Title: 'tidyverse' Methods and 'ggplot2' Helpers for 'terra' Objects
Description: Extension of the 'tidyverse' for 'SpatRaster' and 'SpatVector' objects of the 'terra' package. It includes also new 'geom_' functions that provide a convenient way of visualizing 'terra' objects with 'ggplot2'.
Author: Diego Hernangomez [aut, cre, cph] , Dewey Dunnington [ctb] , ggplot2 authors [cph]
Maintainer: Diego Hernangomez <diego.hernangomezherrero@gmail.com>

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Package cpmr updated to version 0.0.9 with previous version 0.0.8 dated 2024-03-14

Title: Connectome Predictive Modelling in R
Description: Connectome Predictive Modelling (CPM) (Shen et al. (2017) <doi:10.1038/nprot.2016.178>) is a method to predict individual differences in behaviour from brain functional connectivity. 'cpmr' provides a simple yet efficient implementation of this method.
Author: Liang Zhang [aut, cre]
Maintainer: Liang Zhang <psychelzh@outlook.com>

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Package osqp updated to version 0.6.3.3 with previous version 0.6.3.2 dated 2023-10-20

Title: Quadratic Programming Solver using the 'OSQP' Library
Description: Provides bindings to the 'OSQP' solver. The 'OSQP' solver is a numerical optimization package or solving convex quadratic programs written in 'C' and based on the alternating direction method of multipliers. See <doi:10.48550/arXiv.1711.08013> for details.
Author: Bartolomeo Stellato [aut, ctb, cph], Goran Banjac [aut, ctb, cph], Paul Goulart [aut, ctb, cph], Stephen Boyd [aut, ctb, cph], Eric Anderson [ctb], Vineet Bansal [aut, ctb], Balasubramanian Narasimhan [cre, ctb]
Maintainer: Balasubramanian Narasimhan <naras@stanford.edu>

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Fri, 07 Jun 2024

Package fmeffects updated to version 0.1.3 with previous version 0.1.2 dated 2024-03-07

Title: Model-Agnostic Interpretations with Forward Marginal Effects
Description: Create local, regional, and global explanations for any machine learning model with forward marginal effects. You provide a model and data, and 'fmeffects' computes feature effects. The package is based on the theory in: C. A. Scholbeck, G. Casalicchio, C. Molnar, B. Bischl, and C. Heumann (2022) <doi:10.48550/arXiv.2201.08837>.
Author: Holger Loewe [cre, aut], Christian Scholbeck [aut], Christian Heumann [rev], Bernd Bischl [rev], Giuseppe Casalicchio [rev]
Maintainer: Holger Loewe <hbj.loewe@gmail.com>

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Package copent updated to version 0.5 with previous version 0.4 dated 2023-08-11

Title: Estimating Copula Entropy and Transfer Entropy
Description: The nonparametric methods for estimating copula entropy, transfer entropy, and the statistics for multivariate normality test and two-sample test are implemented. The methods for estimating transfer entropy and the statistics for multivariate normality test and two-sample test are based on the method for estimating copula entropy. The method for change point detection with copula entropy based two-sample test is also implemented. Please refer to Ma and Sun (2011) <doi:10.1016/S1007-0214(11)70008-6>, Ma (2019) <doi:10.48550/arXiv.1910.04375>, Ma (2022) <doi:10.48550/arXiv.2206.05956>, Ma (2023) <doi:10.48550/arXiv.2307.07247>, and Ma (2024) <doi:10.48550/arXiv.2403.07892> for more information.
Author: MA Jian [aut, cre]
Maintainer: MA Jian <majian03@gmail.com>

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Package mlrintermbo updated to version 0.5.1-1 with previous version 0.5.1 dated 2024-05-27

Title: Model-Based Optimization for 'mlr3' Through 'mlrMBO'
Description: The 'mlrMBO' package can ordinarily not be used for optimization within 'mlr3', because of incompatibilities of their respective class systems. 'mlrintermbo' offers a compatibility interface that provides 'mlrMBO' as an 'mlr3tuning' 'Tuner' object, for tuning of machine learning algorithms within 'mlr3', as well as a 'bbotk' 'Optimizer' object for optimization of general objective functions using the 'bbotk' black box optimization framework. The control parameters of 'mlrMBO' are faithfully reproduced as a 'paradox' 'ParamSet'.
Author: Martin Binder [aut, cre]
Maintainer: Martin Binder <developer.mb706@doublecaret.com>

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Package AMCP updated to version 1.0.2 with previous version 1.0.1 dated 2020-07-24

Title: A Model Comparison Perspective
Description: Accompanies the book "Designing experiments and analyzing data: A model comparison perspective" (3rd ed.) by Maxwell, Delaney, & Kelley (2018; Routledge). Contains all of the data sets in the book's chapters and end-of-chapter exercises. Information about the book is available at <https://designingexperiments.com/>.
Author: Scott Maxwell [aut], Harold Delaney [aut], Ken Kelley [aut, cre]
Maintainer: Ken Kelley <kkelley@nd.edu>

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Package miesmuschel updated to version 0.0.4-1 with previous version 0.0.4 dated 2024-05-15

Title: Mixed Integer Evolution Strategies
Description: Evolutionary black box optimization algorithms building on the 'bbotk' package. 'miesmuschel' offers both ready-to-use optimization algorithms, as well as their fundamental building blocks that can be used to manually construct specialized optimization loops. The Mixed Integer Evolution Strategies as described by Li et al. (2013) <doi:10.1162/EVCO_a_00059> can be implemented, as well as the multi-objective optimization algorithms NSGA-II by Deb, Pratap, Agarwal, and Meyarivan (2002) <doi:10.1109/4235.996017>.
Author: Martin Binder [aut, cre], Lennart Schneider [ctb] , Susanne Dandl [ctb] , Andreas Hofheinz [ctb]
Maintainer: Martin Binder <mlr.developer@mb706.com>

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Package lotterybr updated to version 0.2.0 with previous version 0.1.0 dated 2024-05-07

Title: Lottery Datasets from Caixa Economica Federal
Description: A collection of functions designed to streamline the retrieval of data from Brazilian lottery games operated by Caixa Econômica Federal, accessible through the official website at <https://loterias.caixa.gov.br/Paginas/default.aspx/>. Datasets for each game are conveniently stored on the GitHub page at <https://github.com/tomasbp2/LotteryBrasilDATA/>. Each game within this repository consists of two primary datasets: the winners dataset and the numbers dataset. The winners dataset includes crucial information such as the draw date, game type, potential matches, winners for each match, and corresponding prize amounts. Meanwhile, the numbers dataset provides essential details including the draw date, game type, and the numbers drawn during the respective lottery event. By offering easy access to these datasets, the package facilitates efficient data retrieval and analysis for researchers, analysts, and enthusiasts interested in exploring the dynamics and outcomes of Brazilian [...truncated...]
Author: Tomas Bernardes [aut, cre, cph], Salvador Netto [aut], Fabio Demarqui [aut, cph]
Maintainer: Tomas Bernardes <tomasbp@ufmg.br>

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Package FIESTA updated to version 3.6.4 with previous version 3.6.3 dated 2024-05-20

Title: Forest Inventory Estimation and Analysis
Description: A research estimation tool for analysts that work with sample-based inventory data from the U.S. Department of Agriculture, Forest Service, Forest Inventory and Analysis (FIA) Program.
Author: Tracey Frescino [aut], Gretchen Moisen [aut], Paul Patterson [aut], Chris Toney [aut], Grayson White [aut, cre] , Joshua Yamamoto [aut]
Maintainer: Grayson White <graysonwhite13@gmail.com>

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Package streetscape updated to version 1.0.2 with previous version 1.0.1 dated 2024-05-07

Title: Collect And Investigate Street Views For Urban Science
Description: A collection of functions to search and download street view imagery ('Mapilary' <https://www.mapillary.com/developer/api-documentation>) and to extract, quantify, and visualize visual features. Moreover, there are functions provided to generate Qualtrics survey in TXT format using the collection of street views for various research purposes.
Author: Xiaohao Yang [aut, cre, cph], Derek Van Berkel [aut], Mark Lindquist [aut]
Maintainer: Xiaohao Yang <xiaohaoy@umich.edu>

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Package psm3mkv updated to version 0.3.2 with previous version 0.3.1 dated 2024-05-07

Title: Evaluate Partitioned Survival and State Transition Models
Description: Fits and evaluates three-state partitioned survival analyses (PartSAs) and Markov models (clock forward or clock reset) to progression and overall survival data typically collected in oncology clinical trials. These model structures are typically considered in cost-effectiveness modeling in advanced/metastatic cancer indications. Muston (2024). "Informing structural assumptions for three state oncology cost-effectiveness models through model efficiency and fit". Applied Health Economics and Health Policy.
Author: Dominic Muston [aut, cre] , Merck & Co., Inc., Rahway, NJ, USA and its affiliates [cph, fnd]
Maintainer: Dominic Muston <dominic.muston@merck.com>

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Package Holomics updated to version 1.1.1 with previous version 1.1.0 dated 2024-03-07

Title: An User-Friendly R 'shiny' Application for Multi-Omics Data Integration and Analysis
Description: A 'shiny' application, which allows you to perform single- and multi-omics analyses using your own omics datasets. After the upload of the omics datasets and a metadata file, single-omics is performed for feature selection and dataset reduction. These datasets are used for pairwise- and multi-omics analyses, where automatic tuning is done to identify correlations between the datasets - the end goal of the recommended 'Holomics' workflow. Methods used in the package were implemented in the package 'mixomics' by Florian Rohart,Benoît Gautier,Amrit Singh,Kim-Anh Lê Cao (2017) <doi:10.1371/journal.pcbi.1005752> and are described there in further detail.
Author: Katharina Munk [aut, cre], Eva M. Molin [aut, ctb], Guenter Brader [ctb], Lisa Ziemba [ctb], AIT Austrian Institute of Technology GmbH [cph]
Maintainer: Katharina Munk <katharinamunk@yahoo.de>

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Package scimo updated to version 0.0.2 with previous version 0.0.1 dated 2024-04-03

Title: Extra Recipes Steps for Dealing with Omics Data
Description: Omics data (e.g. transcriptomics, proteomics, metagenomics...) offer a detailed and multi-dimensional perspective on the molecular components and interactions within complex biological (eco)systems. Analyzing these data requires adapted procedures, which are implemented as steps according to the 'recipes' package.
Author: Antoine BICHAT [aut, cre] , Julie AUBERT [ctb]
Maintainer: Antoine BICHAT <antoine.bichat@proton.me>

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Package Luminescence updated to version 0.9.24 with previous version 0.9.23 dated 2023-11-03

Title: Comprehensive Luminescence Dating Data Analysis
Description: A collection of various R functions for the purpose of Luminescence dating data analysis. This includes, amongst others, data import, export, application of age models, curve deconvolution, sequence analysis and plotting of equivalent dose distributions.
Author: Sebastian Kreutzer [aut, trl, cre, dtc] , Christoph Burow [aut, trl, dtc] , Michael Dietze [aut] , Margret C. Fuchs [aut] , Christoph Schmidt [aut] , Manfred Fischer [aut, trl], Johannes Friedrich [aut] , Norbert Mercier [aut] , Rachel K. Smedley [ct [...truncated...]
Maintainer: Sebastian Kreutzer <sebastian.kreutzer@uni-heidelberg.de>

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More information about Luminescence at CRAN
Permanent link

Package admiral updated to version 1.1.0 with previous version 1.0.2 dated 2024-03-05

Title: ADaM in R Asset Library
Description: A toolbox for programming Clinical Data Interchange Standards Consortium (CDISC) compliant Analysis Data Model (ADaM) datasets in R. ADaM datasets are a mandatory part of any New Drug or Biologics License Application submitted to the United States Food and Drug Administration (FDA). Analysis derivations are implemented in accordance with the "Analysis Data Model Implementation Guide" (CDISC Analysis Data Model Team, 2021, <https://www.cdisc.org/standards/foundational/adam>).
Author: Ben Straub [aut, cre], Stefan Bundfuss [aut], Jeffrey Dickinson [aut], Ross Farrugia [aut], Fanny Gautier [aut], G Gayatri [aut], Asha Chakma [aut], Dinakar Kulkarni [aut], Edoardo Mancini [aut], Sadchla Mascary [aut], Gordon Miller [aut], Lina Patil [...truncated...]
Maintainer: Ben Straub <ben.x.straub@gsk.com>

Diff between admiral versions 1.0.2 dated 2024-03-05 and 1.1.0 dated 2024-06-07

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More information about admiral at CRAN
Permanent link

Package valse (with last version 0.1-0) was removed from CRAN

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

2021-05-31 0.1-0

Permanent link
Package TreeTools updated to version 1.11.1 with previous version 1.11.0 dated 2024-06-05

Title: Create, Modify and Analyse Phylogenetic Trees
Description: Efficient implementations of functions for the creation, modification and analysis of phylogenetic trees. Applications include: generation of trees with specified shapes; tree rearrangement; analysis of tree shape; rooting of trees and extraction of subtrees; calculation and depiction of split support; plotting the position of rogue taxa (Klopfstein & Spasojevic 2019) <doi:10.1371/journal.pone.0212942>; calculation of ancestor-descendant relationships, of 'stemwardness' (Asher & Smith, 2022) <doi:10.1093/sysbio/syab072>, and of tree balance (Mir et al. 2013) <doi:10.1016/j.mbs.2012.10.005>; artificial extinction (Asher & Smith, 2022) <doi:10.1093/sysbio/syab072>; import and export of trees from Newick, Nexus (Maddison et al. 1997) <doi:10.1093/sysbio/46.4.590>, and TNT <https://www.lillo.org.ar/phylogeny/tnt/> formats; and analysis of splits and cladistic information.
Author: Martin R. Smith [aut, cre, cph] , Emmanuel Paradis [cph]
Maintainer: Martin R. Smith <martin.smith@durham.ac.uk>

Diff between TreeTools versions 1.11.0 dated 2024-06-05 and 1.11.1 dated 2024-06-07

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More information about TreeTools at CRAN
Permanent link

Package pldamixture updated to version 0.1.1 with previous version 0.1.0 dated 2024-03-05

Title: Post-Linkage Data Analysis Based on Mixture Modelling
Description: Perform inference in the secondary analysis setting with linked data potentially containing mismatch errors. Only the linked data file may be accessible and information about the record linkage process may be limited or unavailable. Implements the 'General Framework for Regression with Mismatched Data' developed by Slawski et al. (2023) <doi:10.48550/arXiv.2306.00909>. The framework uses a mixture model for pairs of linked records whose two components reflect distributions conditional on match status, i.e., correct match or mismatch. Inference is based on composite likelihood and the Expectation-Maximization (EM) algorithm. The package currently supports Cox Proportional Hazards Regression (right-censored data only) and Generalized Linear Regression Models (Gaussian, Gamma, Poisson, and Logistic (binary models only)). Information about the underlying record linkage process can be incorporated into the method if available (e.g., assumed overall mismatch rate, safe matches, predict [...truncated...]
Author: Priyanjali Bukke [aut, cre], Zhenbang Wang [aut], Martin Slawski [aut] , Brady T. West [aut], Emanuel Ben-David [aut], Guoqing Diao [aut]
Maintainer: Priyanjali Bukke <pbukke@gmu.edu>

Diff between pldamixture versions 0.1.0 dated 2024-03-05 and 0.1.1 dated 2024-06-07

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Package Kira updated to version 1.0.3 with previous version 1.0.2 dated 2024-05-31

Title: Machine Learning
Description: Machine learning, containing several algorithms for supervised and unsupervised classification, in addition to a function that plots the Receiver Operating Characteristic (ROC) and Precision-Recall (PRC) curve graphs, and also a function that returns several metrics used for model evaluation, the latter can be used in ranking results from other packs.
Author: Paulo Cesar Ossani [aut, cre]
Maintainer: Paulo Cesar Ossani <ossanipc@hotmail.com>

Diff between Kira versions 1.0.2 dated 2024-05-31 and 1.0.3 dated 2024-06-07

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Package cna updated to version 3.6.0 with previous version 3.5.6 dated 2023-12-21

Title: Causal Modeling with Coincidence Analysis
Description: Provides comprehensive functionalities for causal modeling with Coincidence Analysis (CNA), which is a configurational comparative method of causal data analysis that was first introduced in Baumgartner (2009) <doi:10.1177/0049124109339369>, and generalized in Baumgartner & Ambuehl (2018) <doi:10.1017/psrm.2018.45>. CNA is designed to recover INUS-causation from data, which is particularly relevant for analyzing processes featuring conjunctural causation (component causation) and equifinality (alternative causation). CNA is currently the only method for INUS-discovery that allows for multiple effects (outcomes/endogenous factors), meaning it can analyze common-cause and causal chain structures.
Author: Mathias Ambuehl [aut, cre, cph], Michael Baumgartner [aut, cph], Ruedi Epple [ctb], Veli-Pekka Parkkinen [ctb], Alrik Thiem [ctb]
Maintainer: Mathias Ambuehl <mathias.ambuehl@consultag.ch>

Diff between cna versions 3.5.6 dated 2023-12-21 and 3.6.0 dated 2024-06-07

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Package clubpro updated to version 0.6.2 with previous version 0.6.1 dated 2024-04-16

Title: Classification Using Binary Procrustes Rotation
Description: Implements a classification method described by Grice (2011, ISBN:978-0-12-385194-9) using binary procrustes rotation; a simplified version of procrustes rotation.
Author: Timothy Beechey [aut, cre]
Maintainer: Timothy Beechey <tim.beechey@proton.me>

Diff between clubpro versions 0.6.1 dated 2024-04-16 and 0.6.2 dated 2024-06-07

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New package winputall with initial version 1.0.1
Package: winputall
Title: Variable Input Allocation Among Crops
Version: 1.0.1
Description: Using a time-varying random parameters model developed in Koutchade et al., (2024) <https://hal.science/hal-04318163>, this package allows allocating variable input costs among crops produced by farmers based on panel data including information on input expenditure aggregated at the farm level and acreage shares. It also considers in fairly way the weighting data and can allow integrating time-varying and time-constant control variables.
License: GPL (>= 3)
Depends: R (>= 3.4.0)
Imports: dplyr, future, future.apply, graphics, ks, LearnBayes, MASS, Matrix, matrixcalc, matrixStats, methods, plm, Rcpp (>= 0.12.0), RcppParallel (>= 5.0.1), rstan (>= 2.18.1), rstantools (>= 2.4.0), stats, utils
Suggests: spelling, testthat (>= 3.0.0)
LinkingTo: BH (>= 1.66.0), Rcpp (>= 0.12.0), RcppEigen (>= 0.3.3.3.0), RcppParallel (>= 5.0.1), rstan (>= 2.18.1), StanHeaders (>= 2.18.0)
Biarch: true
Encoding: UTF-8
LazyData: true
SystemRequirements: GNU make
Language: en-US
NeedsCompilation: yes
Packaged: 2024-06-07 11:03:14 UTC; opkoutchade
Author: Obafemi Philippe Koutchade [aut, cre, cph] , Fabienne Femenia [aut], Alain Carpentier [aut]
Maintainer: Obafemi Philippe Koutchade <obafemi-philippe.koutchade@inrae.fr>
Repository: CRAN
Date/Publication: 2024-06-07 14:40:02 UTC

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New package TidyConsultant with initial version 0.1.1
Package: TidyConsultant
Title: Tidy Consultant Universe
Version: 0.1.1
Maintainer: Harrison Tietze <Harrison4192@gmail.com>
Description: Loads the 5 packages in the Tidy Consultant Universe. This collection of packages is useful for anyone doing data science, data analysis, or quantitative consulting. The functions in these packages range from data cleaning, data validation, data binning, statistical modeling, and file exporting.
License: MIT + file LICENSE
Encoding: UTF-8
URL: https://harrison4192.github.io/TidyConsultant/, https://github.com/Harrison4192/TidyConsultant
BugReports: https://github.com/Harrison4192/TidyConsultant/issues
Imports: badger, pacman, framecleaner, validata, presenter, autostats, tidybins, Ckmeans.1d.dp
Depends: R (>= 2.10)
LazyData: true
Suggests: rmarkdown, knitr, yardstick, ggstance, broom.mixed, EIX, tidyverse, DiagrammeR
VignetteBuilder: knitr
NeedsCompilation: no
Packaged: 2024-06-06 23:11:04 UTC; harrisontietze
Author: Harrison Tietze [aut, cre]
Repository: CRAN
Date/Publication: 2024-06-07 14:40:16 UTC

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New package TBox with initial version 0.1.0
Package: TBox
Title: Useful Functions for Programming and Generating Documents
Version: 0.1.0
Description: Tools to help developers and producers manipulate R objects and outputs. It includes tools for displaying results and objects, and for formatting them in the correct format.
License: MIT + file LICENSE
Encoding: UTF-8
Imports: clipr, rmarkdown, utils
NeedsCompilation: no
Packaged: 2024-06-07 08:39:49 UTC; UTZK0M
Author: Tanguy Barthelemy [aut, cre]
Maintainer: Tanguy Barthelemy <tanguy.barthelemy@insee.fr>
Repository: CRAN
Date/Publication: 2024-06-07 14:40:19 UTC

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New package RankPCA with initial version 0.1.0
Package: RankPCA
Title: Rank of Variables Based on Principal Component Analysis for Mixed Data Types
Version: 0.1.0
Author: Dr. Sandip Garai [aut, cre, cph]
Maintainer: Dr. Sandip Garai <sandipnicksandy@gmail.com>
Description: Principal Component Analysis (PCA) is a statistical technique used to reduce the dimensionality of a dataset while preserving as much variability as possible. By transforming the original variables into a new set of uncorrelated variables called principal components, PCA helps in identifying patterns and simplifying the complexity of high-dimensional data. The 'RankPCA' package provides a streamlined workflow for performing PCA on datasets containing both categorical and continuous variables. It facilitates data preprocessing, encoding of categorical variables, and computes PCA to determine the optimal number of principal components based on a specified variance threshold. The package also computes composite indices for ranking observations, which can be useful for various analytical purposes. Garai, S., & Paul, R. K. (2023) <doi:10.1016/j.iswa.2023.200202>.
License: GPL-3
Encoding: UTF-8
Imports: stats, caret
NeedsCompilation: no
Packaged: 2024-06-07 06:03:50 UTC; Administrator
Repository: CRAN
Date/Publication: 2024-06-07 14:20:06 UTC

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New package quaxnat with initial version 1.0.0
Package: quaxnat
Title: Estimation of Natural Regeneration Potential
Version: 1.0.0
Description: Functions for estimating the potential dispersal of tree species using regeneration densities and dispersal distances to nearest seed trees. A quantile regression is implemented to determine the dispersal potential. Spatial prediction can be used to identify natural regeneration potential for forest restoration as described in Axer et al. (2021) <doi:10.1016/j.foreco.2020.118802>.
License: GPL (>= 2)
URL: https://github.com/MaximilianAxer/quaxnat
BugReports: https://github.com/MaximilianAxer/quaxnat/issues
Encoding: UTF-8
Depends: R (>= 3.5.0)
Imports: stats, terra
NeedsCompilation: no
Packaged: 2024-06-06 19:11:38 UTC; rnuske
Author: Maximilian Axer [aut, cre] , Robert Schlicht [aut], Robert Nuske [ctb] , Nordwestdeutsche Forstliche Versuchsanstalt [fnd], Staatsbetrieb Sachsenforst [fnd], Technische Universitaet Dresden [fnd, cph]
Maintainer: Maximilian Axer <maximilian.axer@nw-fva.de>
Repository: CRAN
Date/Publication: 2024-06-07 14:40:06 UTC

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New package nichetools with initial version 0.2.0
Package: nichetools
Title: Complementary Package to 'nicheROVER' and 'SIBER'
Version: 0.2.0
Description: Provides functions complementary to packages 'nicheROVER' and 'SIBER' allowing the user to extract Bayesian estimates from data objects created by the packages 'nicheROVER and 'SIBER'. Please see the following publications for detailed methods on 'nicheROVER' and 'SIBER' Hansen et al. (2015) <doi:10.1890/14-0235.1> and 'SIBER', Jackson et al. (2011) <doi:10.1111/j.1365-2656.2011.01806.x>, respectfully.
Depends: R (>= 2.10)
Imports: cli, dplyr, ellipse, lifecycle, nicheROVER, purrr, rlang, tibble, tidyr
License: CC0
Encoding: UTF-8
LazyData: true
URL: https://benjaminhlina.github.io/nichetools/
Suggests: ggplot2, ggtext, ggh4x, janitor, knitr, patchwork, rmarkdown, SIBER, stringr, testthat (>= 3.0.0)
VignetteBuilder: knitr
NeedsCompilation: no
Packaged: 2024-06-06 19:38:41 UTC; benhlina
Author: Benjamin L. Hlina [aut, cre]
Maintainer: Benjamin L. Hlina <benjamin.hlina@gmail.com>
Repository: CRAN
Date/Publication: 2024-06-07 14:20:02 UTC

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New package MetaHD with initial version 0.1.0
Package: MetaHD
Title: A Multivariate Meta-Analysis Model for Metabolomics Data
Version: 0.1.0
Maintainer: Jayamini Liyanage <j.liyanage@latrobe.edu.au>
Author: Jayamini Liyanage [aut, cre], Alysha De Livera [aut]
Description: Performs multivariate meta-analysis for high-dimensional metabolomics data for integrating and collectively analysing individual-level metabolomics data generated from multiple studies as well as for combining summary estimates. This approach accounts for correlation between metabolites, considers variability within and between studies, handles missing values and uses shrinkage estimation to allow for high dimensionality.
License: GPL-3
Encoding: UTF-8
LazyData: true
Imports: corpcor, Matrix, matrixcalc, Rcpp (>= 1.0.0)
LinkingTo: Rcpp, RcppArmadillo
NeedsCompilation: yes
Packaged: 2024-06-07 04:20:33 UTC; 21460438
Depends: R (>= 3.5.0)
Repository: CRAN
Date/Publication: 2024-06-07 14:20:09 UTC

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New package futureverse with initial version 0.1.0
Package: futureverse
Title: Easily Install and Load the 'Futureverse'
Version: 0.1.0
Imports: future, future.apply, furrr, doFuture, progressr
Suggests: future.batchtools, future.callr, future.mirai
Description: The 'Futureverse' is a set of packages for parallel and distributed process with the 'future' package at its core, cf. Bengtsson (2021) <doi:10.32614/RJ-2021-048>. This package is designed to make it easy to install and load multiple 'Futureverse' packages in a single step. This package is intended for end-users, interactive use, and R scripts. Packages must not list it as a dependency - instead, explicitly declare each 'Futureverse' package as a dependency as needed.
URL: https://www.futureverse.org
License: MIT + file LICENSE
Encoding: UTF-8
NeedsCompilation: no
Packaged: 2024-06-06 17:23:45 UTC; henrik
Author: Henrik Bengtsson [aut, cre, cph]
Maintainer: Henrik Bengtsson <henrikb@braju.com>
Repository: CRAN
Date/Publication: 2024-06-07 14:10:22 UTC

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Package cba updated to version 0.2-24 with previous version 0.2-23 dated 2022-12-07

Title: Clustering for Business Analytics
Description: Implements clustering techniques such as Proximus and Rock, utility functions for efficient computation of cross distances and data manipulation.
Author: Christian Buchta and Michael Hahsler
Maintainer: Christian Buchta <christian.buchta@wu.ac.at>

Diff between cba versions 0.2-23 dated 2022-12-07 and 0.2-24 dated 2024-06-07

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New package bespatial with initial version 0.1.2
Package: bespatial
Title: Boltzmann Entropy for Spatial Data
Version: 0.1.2
Description: Calculates several entropy metrics for spatial data inspired by Boltzmann's entropy formula. It includes metrics introduced by Cushman for landscape mosaics (Cushman (2015) <doi:10.1007/s10980-015-0305-2>), and landscape gradients and point patterns (Cushman (2021) <doi:10.3390/e23121616>); by Zhao and Zhang for landscape mosaics (Zhao and Zhang (2019) <doi:10.1007/s10980-019-00876-x>); and by Gao et al. for landscape gradients (Gao et al. (2018) <doi:10.1111/tgis.12315>; Gao and Li (2019) <doi:10.1007/s10980-019-00854-3>).
License: MIT + file LICENSE
Encoding: UTF-8
Depends: R (>= 3.1)
LinkingTo: comat (>= 0.9.2), Rcpp, RcppArmadillo
Imports: belg, comat, Rcpp, terra (>= 1.5-13), tibble, landscapemetrics
Suggests: covr, testthat (>= 3.0.0)
URL: https://jakubnowosad.com/bespatial/
BugReports: https://github.com/Nowosad/bespatial/issues
NeedsCompilation: yes
Packaged: 2024-06-07 12:53:48 UTC; jn
Author: Jakub Nowosad [aut, cre]
Maintainer: Jakub Nowosad <nowosad.jakub@gmail.com>
Repository: CRAN
Date/Publication: 2024-06-07 15:00:02 UTC

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New package adoptr with initial version 1.0.1
Package: adoptr
Title: Adaptive Optimal Two-Stage Designs
Version: 1.0.1
Description: Optimize one or two-arm, two-stage designs for clinical trials with respect to several implemented objective criteria or custom objectives. Optimization under uncertainty and conditional (given stage-one outcome) constraints are supported. See Pilz et al. (2019) <doi:10.1002/sim.8291> and Kunzmann et al. (2021) <doi:10.18637/jss.v098.i09> for details.
License: MIT + file LICENSE
Encoding: UTF-8
Suggests: knitr, rmarkdown, testthat, covr, rpact, vdiffr, pwr, dplyr, ggplot2, tidyr, gridExtra, bookdown
Imports: nloptr, methods, glue
VignetteBuilder: knitr
BugReports: https://github.com/optad/adoptr/issues
URL: https://github.com/optad/adoptr, https://optad.github.io/adoptr/
NeedsCompilation: no
Packaged: 2024-06-07 09:23:25 UTC; pilz
Author: Kevin Kunzmann [aut, cph] , Maximilian Pilz [aut, cre] , Jan Meis [aut] , Nico Bruder [aut]
Maintainer: Maximilian Pilz <maximilian.pilz@itwm.fraunhofer.de>
Repository: CRAN
Date/Publication: 2024-06-07 14:40:11 UTC

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Package Rlabkey updated to version 3.2.2 with previous version 3.2.1 dated 2024-04-05

Title: Data Exchange Between R and 'LabKey' Server
Description: The 'LabKey' client library for R makes it easy for R users to load live data from a 'LabKey' Server, <https://www.labkey.com/>, into the R environment for analysis, provided users have permissions to read the data. It also enables R users to insert, update, and delete records stored on a 'LabKey' Server, provided they have appropriate permissions to do so.
Author: Peter Hussey
Maintainer: Cory Nathe <cnathe@labkey.com>

Diff between Rlabkey versions 3.2.1 dated 2024-04-05 and 3.2.2 dated 2024-06-07

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Package tiledb updated to version 0.28.0 with previous version 0.27.0 dated 2024-05-09

Title: Modern Database Engine for Complex Data Based on Multi-Dimensional Arrays
Description: The modern database 'TileDB' introduces a powerful on-disk format for storing and accessing any complex data based on multi-dimensional arrays. It supports dense and sparse arrays, dataframes and key-values stores, cloud storage ('S3', 'GCS', 'Azure'), chunked arrays, multiple compression, encryption and checksum filters, uses a fully multi-threaded implementation, supports parallel I/O, data versioning ('time travel'), metadata and groups. It is implemented as an embeddable cross-platform C++ library with APIs from several languages, and integrations. This package provides the R support.
Author: TileDB, Inc. [aut, cph], Dirk Eddelbuettel [cre]
Maintainer: Dirk Eddelbuettel <dirk@tiledb.com>

Diff between tiledb versions 0.27.0 dated 2024-05-09 and 0.28.0 dated 2024-06-07

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Package REDCapCAST updated to version 24.6.1 with previous version 24.2.1 dated 2024-02-28

Title: REDCap Castellated Data Handling
Description: Originally forked from the R part of 'REDCapRITS' by Paul Egeler. See <https://github.com/pegeler/REDCapRITS>. 'REDCap' database casting and handling of castellated data when using repeated instruments and longitudinal projects. Keeps a focused data export approach, by allowing to only export required data from the database. 'REDCap' (Research Electronic Data Capture) is a secure, web-based software platform designed to support data capture for research studies, providing 1) an intuitive interface for validated data capture; 2) audit trails for tracking data manipulation and export procedures; 3) automated export procedures for seamless data downloads to common statistical packages; and 4) procedures for data integration and interoperability with external sources (Harris et al (2009) <doi:10.1016/j.jbi.2008.08.010>; Harris et al (2019) <doi:10.1016/j.jbi.2019.103208>).
Author: Andreas Gammelgaard Damsbo [aut, cre] , Paul Egeler [aut]
Maintainer: Andreas Gammelgaard Damsbo <agdamsbo@clin.au.dk>

Diff between REDCapCAST versions 24.2.1 dated 2024-02-28 and 24.6.1 dated 2024-06-07

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Package openaistream updated to version 0.3.0 with previous version 0.2.0 dated 2024-01-23

Title: Streaming Capabilities for 'OpenAI API' Interactions
Description: Based on the 'httr2' framework, the 'OpenAI' interface supports streaming calls and model training. For more details on the API methods implemented, see the 'OpenAI' platform documentation at <https://platform.openai.com/docs/api-reference>.
Author: Li Gen [aut, cre]
Maintainer: Li Gen <libingfei@sina.com>

Diff between openaistream versions 0.2.0 dated 2024-01-23 and 0.3.0 dated 2024-06-07

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 openaistream-0.3.0/openaistream/MD5                                 |   56 ++----
 openaistream-0.3.0/openaistream/R/api_config.R                      |    6 
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 openaistream-0.3.0/openaistream/R/audio.R                           |    2 
 openaistream-0.3.0/openaistream/R/base_api.R                        |    1 
 openaistream-0.3.0/openaistream/R/batch.R                           |only
 openaistream-0.3.0/openaistream/R/chatstream.R                      |   48 +++--
 openaistream-0.3.0/openaistream/R/fine_tuning.R                     |   17 +
 openaistream-0.3.0/openaistream/R/messages.R                        |   37 +---
 openaistream-0.3.0/openaistream/R/openai.R                          |   12 +
 openaistream-0.3.0/openaistream/R/runs.R                            |   75 +++++---
 openaistream-0.3.0/openaistream/R/threads.R                         |    8 
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 openaistream-0.3.0/openaistream/tests/testthat/test_messages.R      |   27 +-
 openaistream-0.3.0/openaistream/tests/testthat/test_models.R        |    1 
 openaistream-0.3.0/openaistream/tests/testthat/test_run.R           |   92 ++++++----
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More information about openaistream at CRAN
Permanent link

Package lavaan updated to version 0.6-18 with previous version 0.6-17 dated 2023-12-20

Title: Latent Variable Analysis
Description: Fit a variety of latent variable models, including confirmatory factor analysis, structural equation modeling and latent growth curve models.
Author: Yves Rosseel [aut, cre] , Terrence D. Jorgensen [aut] , Luc De Wilde [aut], Daniel Oberski [ctb], Jarrett Byrnes [ctb], Leonard Vanbrabant [ctb], Victoria Savalei [ctb], Ed Merkle [ctb], Michael Hallquist [ctb], Mijke Rhemtulla [ctb], Myrsini Katsika [...truncated...]
Maintainer: Yves Rosseel <Yves.Rosseel@UGent.be>

Diff between lavaan versions 0.6-17 dated 2023-12-20 and 0.6-18 dated 2024-06-07

 lavaan-0.6-17/lavaan/man/lavParTable.Rd                    |only
 lavaan-0.6-18/lavaan/DESCRIPTION                           |   14 
 lavaan-0.6-18/lavaan/MD5                                   |  411 
 lavaan-0.6-18/lavaan/NAMESPACE                             |    6 
 lavaan-0.6-18/lavaan/R/00class.R                           |  228 
 lavaan-0.6-18/lavaan/R/00generic.R                         |  125 
 lavaan-0.6-18/lavaan/R/ctr_estfun.R                        |  374 
 lavaan-0.6-18/lavaan/R/ctr_informative_testing.R           |  476 -
 lavaan-0.6-18/lavaan/R/ctr_modelcov.R                      |    4 
 lavaan-0.6-18/lavaan/R/ctr_mplus2lavaan.R                  |  924 +-
 lavaan-0.6-18/lavaan/R/ctr_pairwise_fit.R                  |  276 
 lavaan-0.6-18/lavaan/R/ctr_pairwise_table.R                |  253 
 lavaan-0.6-18/lavaan/R/ctr_pml_doubly_robust_utils.R       |  627 -
 lavaan-0.6-18/lavaan/R/ctr_pml_plrt.R                      |  584 -
 lavaan-0.6-18/lavaan/R/ctr_pml_plrt2.R                     |  389 
 lavaan-0.6-18/lavaan/R/ctr_pml_plrt_nested.R               |  944 +-
 lavaan-0.6-18/lavaan/R/ctr_pml_utils.R                     |  520 -
 lavaan-0.6-18/lavaan/R/lav_bootstrap.R                     | 1105 +-
 lavaan-0.6-18/lavaan/R/lav_bootstrap_lrt.R                 |  757 -
 lavaan-0.6-18/lavaan/R/lav_bvmix.R                         |  857 +-
 lavaan-0.6-18/lavaan/R/lav_bvord.R                         | 1355 +--
 lavaan-0.6-18/lavaan/R/lav_bvreg.R                         |  913 +-
 lavaan-0.6-18/lavaan/R/lav_cfa_1fac.R                      |  338 
 lavaan-0.6-18/lavaan/R/lav_cfa_bentler1982.R               |  583 -
 lavaan-0.6-18/lavaan/R/lav_cfa_fabin.R                     |  342 
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 lavaan-0.6-18/lavaan/R/lav_cfa_jamesstein.R                |  492 -
 lavaan-0.6-18/lavaan/R/lav_cfa_utils.R                     |  324 
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 lavaan-0.6-18/lavaan/R/lav_data.R                          | 2276 ++---
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 lavaan-0.6-18/lavaan/R/lav_data_update.R                   |  288 
 lavaan-0.6-18/lavaan/R/lav_dataframe.R                     |  148 
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 lavaan-0.6-18/lavaan/R/lav_efa_pace.R                      |  337 
 lavaan-0.6-18/lavaan/R/lav_efa_print.R                     |  447 -
 lavaan-0.6-18/lavaan/R/lav_efa_summary.R                   |  831 +
 lavaan-0.6-18/lavaan/R/lav_efa_utils.R                     |   70 
 lavaan-0.6-18/lavaan/R/lav_export.R                        |  314 
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 lavaan-0.6-18/lavaan/R/lav_export_estimation.R             |only
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 lavaan-0.6-18/lavaan/R/lav_fit.R                           |  173 
 lavaan-0.6-18/lavaan/R/lav_fit_aic.R                       |  215 
 lavaan-0.6-18/lavaan/R/lav_fit_cfi.R                       | 1150 +-
 lavaan-0.6-18/lavaan/R/lav_fit_gfi.R                       |  182 
 lavaan-0.6-18/lavaan/R/lav_fit_measures.R                  | 2391 +++--
 lavaan-0.6-18/lavaan/R/lav_fit_other.R                     |   38 
 lavaan-0.6-18/lavaan/R/lav_fit_rmsea.R                     |  711 -
 lavaan-0.6-18/lavaan/R/lav_fit_srmr.R                      |  506 -
 lavaan-0.6-18/lavaan/R/lav_fit_utils.R                     |  533 -
 lavaan-0.6-18/lavaan/R/lav_fsr.R                           |  271 
 lavaan-0.6-18/lavaan/R/lav_func_deriv.R                    |  421 -
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 lavaan-0.6-18/lavaan/R/lav_h1_implied.R                    |  343 
 lavaan-0.6-18/lavaan/R/lav_h1_logl.R                       |  165 
 lavaan-0.6-18/lavaan/R/lav_integrate.R                     |  406 
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 lavaan-0.6-18/lavaan/R/lav_lavaanList_methods.R            |  379 
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 lavaan-0.6-18/lavaan/R/lav_matrix.R                        | 2477 +++--
 lavaan-0.6-18/lavaan/R/lav_matrix_rotate.R                 | 1432 +--
 lavaan-0.6-18/lavaan/R/lav_matrix_rotate_methods.R         |  902 +-
 lavaan-0.6-18/lavaan/R/lav_matrix_rotate_utils.R           |  160 
 lavaan-0.6-18/lavaan/R/lav_model.R                         |  938 +-
 lavaan-0.6-18/lavaan/R/lav_model_compute.R                 | 1351 +--
 lavaan-0.6-18/lavaan/R/lav_model_efa.R                     |  702 -
 lavaan-0.6-18/lavaan/R/lav_model_estimate.R                | 1819 ++--
 lavaan-0.6-18/lavaan/R/lav_model_gradient.R                | 2443 +++--
 lavaan-0.6-18/lavaan/R/lav_model_gradient_mml.R            |  655 -
 lavaan-0.6-18/lavaan/R/lav_model_gradient_pml.R            | 1494 +--
 lavaan-0.6-18/lavaan/R/lav_model_h1_information.R          | 1838 ++--
 lavaan-0.6-18/lavaan/R/lav_model_h1_omega.R                |  212 
 lavaan-0.6-18/lavaan/R/lav_model_hessian.R                 |  266 
 lavaan-0.6-18/lavaan/R/lav_model_implied.R                 |  206 
 lavaan-0.6-18/lavaan/R/lav_model_information.R             | 1102 +-
 lavaan-0.6-18/lavaan/R/lav_model_lik.R                     |  333 
 lavaan-0.6-18/lavaan/R/lav_model_loglik.R                  |  395 
 lavaan-0.6-18/lavaan/R/lav_model_objective.R               |  801 +
 lavaan-0.6-18/lavaan/R/lav_model_properties.R              |  186 
 lavaan-0.6-18/lavaan/R/lav_model_utils.R                   |  422 -
 lavaan-0.6-18/lavaan/R/lav_model_vcov.R                    | 1292 +--
 lavaan-0.6-18/lavaan/R/lav_model_wls.R                     |  175 
 lavaan-0.6-18/lavaan/R/lav_modification.R                  |  597 -
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 lavaan-0.6-18/lavaan/R/lav_mvnorm_cluster.R                | 3586 ++++----
 lavaan-0.6-18/lavaan/R/lav_mvnorm_cluster_missing.R        | 1712 ++--
 lavaan-0.6-18/lavaan/R/lav_mvnorm_h1.R                     |  931 +-
 lavaan-0.6-18/lavaan/R/lav_mvnorm_missing.R                | 2611 +++---
 lavaan-0.6-18/lavaan/R/lav_mvnorm_missing_h1.R             |  447 -
 lavaan-0.6-18/lavaan/R/lav_mvreg.R                         |  935 +-
 lavaan-0.6-18/lavaan/R/lav_mvreg_cluster.R                 | 2042 ++--
 lavaan-0.6-18/lavaan/R/lav_norm.R                          |   63 
 lavaan-0.6-18/lavaan/R/lav_object_generate.R               |  874 +-
 lavaan-0.6-18/lavaan/R/lav_object_inspect.R                | 5402 ++++++-------
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 lavaan-0.6-18/lavaan/R/lav_object_post_check.R             |  129 
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More information about lavaan at CRAN
Permanent link

Package GeoModels updated to version 2.0.3 with previous version 2.0.2 dated 2024-05-16

Title: Procedures for Gaussian and Non Gaussian Geostatistical (Large) Data Analysis
Description: Functions for Gaussian and Non Gaussian (bivariate) spatial and spatio-temporal data analysis are provided for a) (fast) simulation of random fields, b) inference for random fields using standard likelihood and a likelihood approximation method called weighted composite likelihood based on pairs and b) prediction using (local) best linear unbiased prediction. Weighted composite likelihood can be very efficient for estimating massive datasets. Both regression and spatial (temporal) dependence analysis can be jointly performed. Flexible covariance models for spatial and spatial-temporal data on Euclidean domains and spheres are provided. There are also many useful functions for plotting and performing diagnostic analysis. Different non Gaussian random fields can be considered in the analysis. Among them, random fields with marginal distributions such as Skew-Gaussian, Student-t, Tukey-h, Sin-Arcsin, Two-piece, Weibull, Gamma, Log-Gaussian, Binomial, Negative Binomial and Poisson. Se [...truncated...]
Author: Moreno Bevilacqua [aut, cre] , Victor Morales-Onate [aut] , Christian Caamano-Carrillo [aut]
Maintainer: Moreno Bevilacqua <moreno.bevilacqua89@gmail.com>

Diff between GeoModels versions 2.0.2 dated 2024-05-16 and 2.0.3 dated 2024-06-07

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New package DynNom with initial version 5.1
Package: DynNom
Title: Visualising Statistical Models using Dynamic Nomograms
Version: 5.1
Author: Amirhossein Jalali, Davood Roshan, Alberto Alvarez-Iglesias, John Newell
Maintainer: Amirhossein Jalali <amir.jalali@ul.ie>
Description: Demonstrate the results of a statistical model object as a dynamic nomogram in an RStudio panel or web browser. The package provides two generics functions: DynNom, which display statistical model objects as a dynamic nomogram; DNbuilder, which builds required scripts to publish a dynamic nomogram on a web server such as the <https://www.shinyapps.io/>. Current version of 'DynNom' supports stats::lm, stats::glm, survival::coxph, rms::ols, rms::Glm, rms::lrm, rms::cph, and mgcv::gam model objects.
License: GPL-2
Imports: magrittr, shiny, ggplot2 (> 2.1.0), plotly, stargazer, dplyr, compare, BBmisc, broom, rms, survival
Suggests: mgcv
NeedsCompilation: no
Packaged: 2024-06-07 11:10:15 UTC; amirjalali
Repository: CRAN
Date/Publication: 2024-06-07 12:20:21 UTC

More information about DynNom at CRAN
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New package dotwhisker with initial version 0.8.2
Package: dotwhisker
Title: Dot-and-Whisker Plots of Regression Results
Version: 0.8.2
Maintainer: Yue Hu <yuehu@tsinghua.edu.cn>
Description: Quick and easy dot-and-whisker plots of regression results.
Encoding: UTF-8
URL: https://fsolt.org/dotwhisker/
BugReports: https://github.com/fsolt/dotwhisker/issues
Depends: R (>= 3.2.0), ggplot2 (>= 2.2.1),
Imports: grid, gtable, gridExtra, stats, parameters, performance, patchwork, dplyr, stringr, ggstance, rlang, purrr
Suggests: ordinal, tibble, knitr, rmarkdown, broom
License: MIT + file LICENSE
VignetteBuilder: knitr
NeedsCompilation: no
Packaged: 2024-06-07 06:29:30 UTC; yuehu
Author: Frederick Solt [aut], Yue Hu [aut, cre], Os Keyes [ctb], Ben Bolker [ctb], Stefan Mueller [ctb], Thomas Leeper [ctb], Chris Wallace [ctb], Christopher Warshaw [ctb]
Repository: CRAN
Date/Publication: 2024-06-07 12:20:06 UTC

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Package crm12Comb updated to version 0.1.6 with previous version 0.1.5 dated 2024-06-04

Title: Phase I/II CRM Based Drug Combination Design
Description: Implements the adaptive designs for integrated phase I/II trials of drug combinations via continual reassessment method (CRM) to evaluate toxicity and efficacy simultaneously for each enrolled patient cohort based on Bayesian inference. It supports patients assignment guidance in a single trial using current enrolled data, as well as conducting extensive simulation studies to evaluate operating characteristics before the trial starts. It includes various link functions such as empiric, one-parameter logistic, two-parameter logistic, and hyperbolic tangent, as well as considering multiple prior distributions of the parameters like normal distribution, gamma distribution and exponential distribution to accommodate diverse clinical scenarios. Method using Bayesian framework with empiric link function is described in: Wages and Conaway (2014) <doi:10.1002/sim.6097>.
Author: Junying Wang [cre, aut], Song Wu [aut], Jie Yang [aut]
Maintainer: Junying Wang <junying.wang@stonybrook.edu>

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Package dimensio updated to version 0.8.0 with previous version 0.7.0 dated 2024-04-09

Title: Multivariate Data Analysis
Description: Simple Principal Components Analysis (PCA) and (Multiple) Correspondence Analysis (CA) based on the Singular Value Decomposition (SVD). This package provides S4 classes and methods to compute, extract, summarize and visualize results of multivariate data analysis. It also includes methods for partial bootstrap validation described in Greenacre (1984, ISBN: 978-0-12-299050-2) and Lebart et al. (2006, ISBN: 978-2-10-049616-7).
Author: Nicolas Frerebeau [aut, cre] , Jean-Baptiste Fourvel [ctb] , Brice Lebrun [ctb] , Universite Bordeaux Montaigne [fnd], CNRS [fnd]
Maintainer: Nicolas Frerebeau <nicolas.frerebeau@u-bordeaux-montaigne.fr>

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Package biblio updated to version 0.0.10 with previous version 0.0.9 dated 2024-04-16

Title: Interacting with BibTeX Databases
Description: Reading and writing BibTeX files using data frames in R sessions.
Author: Miguel Alvarez [aut, cre]
Maintainer: Miguel Alvarez <kamapu78@gmail.com>

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Package smicd updated to version 1.1.4 with previous version 1.1.3 dated 2023-11-19

Title: Statistical Methods for Interval-Censored Data
Description: Functions that provide statistical methods for interval-censored (grouped) data. The package supports the estimation of linear and linear mixed regression models with interval-censored dependent variables. Parameter estimates are obtained by a stochastic expectation maximization algorithm. Furthermore, the package enables the direct (without covariates) estimation of statistical indicators from interval-censored data via an iterative kernel density algorithm. Survey and Organisation for Economic Co-operation and Development (OECD) weights can be included into the direct estimation (see, Walter, P. (2019) <doi:10.17169/refubium-1621>).
Author: Paul Walter
Maintainer: Paul Walter <paul.w@gmx.net>

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Package uavRmp updated to version 0.7 with previous version 0.6.2 dated 2023-01-29

Title: UAV Mission Planner
Description: The Unmanned Aerial Vehicle Mission Planner provides an easy to use work flow for planning autonomous obstacle avoiding surveys of ready to fly unmanned aerial vehicles to retrieve aerial or spot related data. It creates either intermediate flight control files for the DJI-Litchi supported series or ready to upload control files for the pixhawk-based flight controller. Additionally it contains some useful tools for digitizing and data manipulation.
Author: Chris Reudenbach [cre, aut], Marvin Ludwig [ctb], Sebastian Richter [ctb], Florian Detsch [ctb], Hanna Meyer [ctb]
Maintainer: Chris Reudenbach <reudenbach@uni-marburg.de>

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Package surveyexplorer updated to version 0.2.0 with previous version 0.1.0 dated 2023-12-21

Title: Quickly Explore Complex Survey Data
Description: Visualize and tabulate single-choice, multiple-choice, matrix-style questions from survey data. Includes ability to group cross-tabulations, frequency distributions, and plots by categorical variables and to integrate survey weights. Ideal for quickly uncovering descriptive patterns in survey data.
Author: Liam Haller [aut, cre, cph]
Maintainer: Liam Haller <liamhllr2@gmail.com>

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Package QuickJSR updated to version 1.2.2 with previous version 1.2.0 dated 2024-05-31

Title: Interface for the 'QuickJS' Lightweight 'JavaScript' Engine
Description: An 'R' interface to the 'QuickJS' portable 'JavaScript' engine. The engine and all 'R' to 'JavaScript' interoperability is bundled within the package, requiring no dependencies beyond a 'C' compiler.
Author: Andrew R. Johnson [aut, cre] , Fabrice Bellard [cph] , Charlie Gordon [cph]
Maintainer: Andrew R. Johnson <andrew.johnson@arjohnsonau.com>

Diff between QuickJSR versions 1.2.0 dated 2024-05-31 and 1.2.2 dated 2024-06-07

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Package jarbes updated to version 2.2.1 with previous version 2.0.0 dated 2022-03-10

Title: Just a Rather Bayesian Evidence Synthesis
Description: Provides a new class of Bayesian meta-analysis models that incorporates a model for internal and external validity bias. In this way, it is possible to combine studies of diverse quality and different types. For example, we can combine the results of randomized control trials (RCTs) with the results of observational studies (OS).
Author: Pablo Emilio Verde [aut, cre]
Maintainer: Pablo Emilio Verde <pabloemilio.verde@hhu.de>

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Package explore updated to version 1.3.1 with previous version 1.3.0 dated 2024-04-15

Title: Simplifies Exploratory Data Analysis
Description: Interactive data exploration with one line of code, automated reporting or use an easy to remember set of tidy functions for low code exploratory data analysis.
Author: Roland Krasser [aut, cre]
Maintainer: Roland Krasser <roland.krasser@gmail.com>

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Package parcr updated to version 0.5.2 with previous version 0.5.1 dated 2024-01-31

Title: Construct Parsers for Structured Text Files
Description: Construct parser combinator functions, higher order functions that parse input. Construction of such parsers is transparent and easy. Their main application is the parsing of structured text files like those generated by laboratory instruments. Based on a paper by Hutton (1992) <doi:10.1017/S0956796800000411>.
Author: Douwe Molenaar [aut, cre, cph]
Maintainer: Douwe Molenaar <d.molenaar@vu.nl>

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Package ttservice updated to version 0.4.1 with previous version 0.4.0 dated 2023-11-01

Title: A Service for Tidy Transcriptomics Software Suite
Description: It provides generic methods that are used by more than one package, avoiding conflicts. This package will be imported by 'tidySingleCellExperiment' and 'tidyseurat'.
Author: Stefano Mangiola [aut, cre]
Maintainer: Stefano Mangiola <mangiolastefano@gmail.com>

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Package gRim updated to version 0.3.1 with previous version 0.3.0 dated 2023-10-01

Title: Graphical Interaction Models
Description: Provides the following types of models: Models for contingency tables (i.e. log-linear models) Graphical Gaussian models for multivariate normal data (i.e. covariance selection models) Mixed interaction models. Documentation about 'gRim' is provided by vignettes included in this package and the book by Højsgaard, Edwards and Lauritzen (2012, <doi:10.1007/978-1-4614-2299-0>); see 'citation("gRim")' for details.
Author: Soeren Hoejsgaard <sorenh@math.aau.dk>
Maintainer: Soeren Hoejsgaard <sorenh@math.aau.dk>

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Thu, 06 Jun 2024

Package nlme updated to version 3.1-165 with previous version 3.1-164 dated 2023-11-27

Title: Linear and Nonlinear Mixed Effects Models
Description: Fit and compare Gaussian linear and nonlinear mixed-effects models.
Author: Jose Pinheiro [aut] , Douglas Bates [aut] , Saikat DebRoy [ctb] , Deepayan Sarkar [ctb] , EISPACK authors [ctb] , Siem Heisterkamp [ctb] , Bert Van Willigen [ctb] , Johannes Ranke [ctb] ), R Core Team [aut, cre]
Maintainer: R Core Team <R-core@R-project.org>

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