Tue, 30 Apr 2024

Package stressor updated to version 0.2.0 with previous version 0.1.0 dated 2024-01-31

Title: Algorithms for Testing Models under Stress
Description: Traditional model evaluation metrics fail to capture model performance under less than ideal conditions. This package employs techniques to evaluate models "under-stress". This includes testing models' extrapolation ability, or testing accuracy on specific sub-samples of the overall model space. Details describing stress-testing methods in this package are provided in Haycock (2023) <doi:10.26076/2am5-9f67>. The other primary contribution of this package is provided to R users access to the 'Python' library 'PyCaret' <https://pycaret.org/> for quick and easy access to auto-tuned machine learning models.
Author: Sam Haycock [aut, cre], Brennan Bean [aut], Utah State University [cph, fnd], Thermo Fisher Scientific Inc. [fnd]
Maintainer: Sam Haycock <haycock.sam@outlook.com>

Diff between stressor versions 0.1.0 dated 2024-01-31 and 0.2.0 dated 2024-04-30

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Package QuantileGH updated to version 0.1.7 with previous version 0.1.6 dated 2024-04-09

Title: Quantile Least Mahalanobis Distance Estimator for Tukey g-&-h Mixture
Description: Functions for simulation, estimation, and model selection of finite mixtures of Tukey g-and-h distributions.
Author: Tingting Zhan [aut, cre, cph] , Inna Chervoneva [ctb, cph]
Maintainer: Tingting Zhan <Tingting.Zhan@jefferson.edu>

Diff between QuantileGH versions 0.1.6 dated 2024-04-09 and 0.1.7 dated 2024-04-30

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Package PDE updated to version 1.4.9 with previous version 1.4.8 dated 2024-01-23

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 1.4.8 dated 2024-01-23 and 1.4.9 dated 2024-04-30

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Package GE updated to version 0.4.4 with previous version 0.4.3 dated 2024-04-06

Title: General Equilibrium Modeling
Description: Some tools for developing general equilibrium models and some general equilibrium models. These models can be used for teaching economic theory and are built by the methods of new structural economics (see <https://www.nse.pku.edu.cn/> and LI Wu, 2019, ISBN: 9787521804225, General Equilibrium and Structural Dynamics: Perspectives of New Structural Economics. Beijing: Economic Science Press). The model form and mathematical methods can be traced back to J. von Neumann (1945, A Model of General Economic Equilibrium. The Review of Economic Studies, 13. pp. 1-9), J. G. Kemeny, O. Morgenstern and G. L. Thompson (1956, A Generalization of the von Neumann Model of an Expanding Economy, Econometrica, 24, pp. 115-135) et al. By the way, J. G. Kemeny is a co-inventor of the computer language BASIC.
Author: LI Wu <liwu@staff.shu.edu.cn>
Maintainer: LI Wu <liwu.shu@qq.com>

Diff between GE versions 0.4.3 dated 2024-04-06 and 0.4.4 dated 2024-04-30

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 GE-0.4.4/GE/NAMESPACE                                                                     |    7 
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 GE-0.4.4/GE/R/sserr.R                                                                     |    2 
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Package psborrow2 updated to version 0.0.3.4 with previous version 0.0.3.3 dated 2024-04-12

Title: Bayesian Dynamic Borrowing Analysis and Simulation
Description: Bayesian dynamic borrowing is an approach to incorporating external data to supplement a randomized, controlled trial analysis in which external data are incorporated in a dynamic way (e.g., based on similarity of outcomes); see Viele 2013 <doi:10.1002/pst.1589> for an overview. This package implements the hierarchical commensurate prior approach to dynamic borrowing as described in Hobbes 2011 <doi:10.1111/j.1541-0420.2011.01564.x>. There are three main functionalities. First, 'psborrow2' provides a user-friendly interface for applying dynamic borrowing on the study results handles the Markov Chain Monte Carlo sampling on behalf of the user. Second, 'psborrow2' provides a simulation framework to compare different borrowing parameters (e.g. full borrowing, no borrowing, dynamic borrowing) and other trial and borrowing characteristics (e.g. sample size, covariates) in a unified way. Third, 'psborrow2' provides a set of functions to generate data for simulation studies, and a [...truncated...]
Author: Matt Secrest [aut, cre] , Isaac Gravestock [aut], Craig Gower-Page [ctb], Manoj Khanal [ctb], Mingyang Shan [ctb], Kexin Jin [ctb], Zhi Yang [ctb], Genentech, Inc. [cph, fnd]
Maintainer: Matt Secrest <secrestm@gene.com>

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Package NoviceDeveloperResources updated to version 1.2.0 with previous version 1.1.0 dated 2024-01-30

Title: Resources to Assist Novice Developers
Description: Assist novice developers when preparing a single package or a set of integrated packages to submit to CRAN. Automate the following individual or batch processing: check local source packages; build local .tar.gz source files; install packages from local .tar.gz files; detect conflicts between function names in the environment.
Author: Barry Zeeberg [aut, cre]
Maintainer: Barry Zeeberg <barryz2013@gmail.com>

Diff between NoviceDeveloperResources versions 1.1.0 dated 2024-01-30 and 1.2.0 dated 2024-04-30

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Package fpc updated to version 2.2-12 with previous version 2.2-11 dated 2023-12-15

Title: Flexible Procedures for Clustering
Description: Various methods for clustering and cluster validation. Fixed point clustering. Linear regression clustering. Clustering by merging Gaussian mixture components. Symmetric and asymmetric discriminant projections for visualisation of the separation of groupings. Cluster validation statistics for distance based clustering including corrected Rand index. Standardisation of cluster validation statistics by random clusterings and comparison between many clustering methods and numbers of clusters based on this. Cluster-wise cluster stability assessment. Methods for estimation of the number of clusters: Calinski-Harabasz, Tibshirani and Walther's prediction strength, Fang and Wang's bootstrap stability. Gaussian/multinomial mixture fitting for mixed continuous/categorical variables. Variable-wise statistics for cluster interpretation. DBSCAN clustering. Interface functions for many clustering methods implemented in R, including estimating the number of clusters with kmeans, pam and clara. Modal [...truncated...]
Author: Christian Hennig <christian.hennig@unibo.it>
Maintainer: Christian Hennig <christian.hennig@unibo.it>

Diff between fpc versions 2.2-11 dated 2023-12-15 and 2.2-12 dated 2024-04-30

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Package XLConnect updated to version 1.0.10 with previous version 1.0.9 dated 2024-04-17

Title: Excel Connector for R
Description: Provides comprehensive functionality to read, write and format Excel data.
Author: Mirai Solutions GmbH [aut], Martin Studer [cre], The Apache Software Foundation [ctb, cph] , Graph Builder [ctb, cph] , Brett Woolridge [ctb, cph]
Maintainer: Martin Studer <martin.studer@mirai-solutions.com>

Diff between XLConnect versions 1.0.9 dated 2024-04-17 and 1.0.10 dated 2024-04-30

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Package webtrackR updated to version 0.3.1 with previous version 0.3.0 dated 2024-04-28

Title: Preprocessing and Analyzing Web Tracking Data
Description: Data structures and methods to work with web tracking data. The functions cover data preprocessing steps, enriching web tracking data with external information and methods for the analysis of digital behavior as used in several academic papers (e.g., Clemm von Hohenberg et al., 2023 <doi:10.17605/OSF.IO/M3U9P>; Stier et al., 2022 <doi:10.1017/S0003055421001222>).
Author: David Schoch [aut, cre] , Bernhard Clemm von Hohenberg [aut] , Frank Mangold [aut] , Sebastian Stier [aut]
Maintainer: David Schoch <david@schochastics.net>

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Package teal.slice updated to version 0.5.1 with previous version 0.5.0 dated 2024-02-06

Title: Filter Module for 'teal' Applications
Description: Data filtering module for 'teal' applications. Allows for interactive filtering of data stored in 'data.frame' and 'MultiAssayExperiment' objects. Also displays filtered and unfiltered observation counts.
Author: Dawid Kaledkowski [aut, cre] , Pawel Rucki [aut], Aleksander Chlebowski [aut] , Andre Verissimo [aut] , Kartikeya Kirar [aut], Marcin Kosinski [aut], Chendi Liao [rev], Dony Unardi [rev], Andrew Bates [aut], Mahmoud Hallal [aut], Nikolas Burkoff [aut [...truncated...]
Maintainer: Dawid Kaledkowski <dawid.kaledkowski@roche.com>

Diff between teal.slice versions 0.5.0 dated 2024-02-06 and 0.5.1 dated 2024-04-30

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Package teal.data updated to version 0.6.0 with previous version 0.5.0 dated 2024-02-13

Title: Data Model for 'teal' Applications
Description: Provides a 'teal_data' class as a unified data model for 'teal' applications focusing on reproducibility and relational data.
Author: Dawid Kaledkowski [aut, cre] , Aleksander Chlebowski [aut] , Marcin Kosinski [aut], Andre Verissimo [aut] , Pawel Rucki [aut], Mahmoud Hallal [aut], Nikolas Burkoff [aut], Maciej Nasinski [aut], Konrad Pagacz [aut], Junlue Zhao [aut], Chendi Liao [re [...truncated...]
Maintainer: Dawid Kaledkowski <dawid.kaledkowski@roche.com>

Diff between teal.data versions 0.5.0 dated 2024-02-13 and 0.6.0 dated 2024-04-30

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Package sparkxgb updated to version 0.2.0 with previous version 0.1.1 dated 2021-02-23

Title: Interface for 'XGBoost' on 'Apache Spark'
Description: A 'sparklyr' <https://spark.posit.co/> extension that provides an R interface for 'XGBoost' <https://github.com/dmlc/xgboost> on 'Apache Spark'. 'XGBoost' is an optimized distributed gradient boosting library.
Author: Kevin Kuo [aut] , Yitao Li [aut] , Edgar Ruiz [aut, cre]
Maintainer: Edgar Ruiz <edgar@posit.co>

Diff between sparkxgb versions 0.1.1 dated 2021-02-23 and 0.2.0 dated 2024-04-30

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Package secsse updated to version 3.1.0 with previous version 3.0.2 dated 2023-10-21

Title: Several Examined and Concealed States-Dependent Speciation and Extinction
Description: Simultaneously infers state-dependent diversification across two or more states of a single or multiple traits while accounting for the role of a possible concealed trait. See Herrera-Alsina et al. (2019) <doi:10.1093/sysbio/syy057>.
Author: Leonel Herrera Alsina [aut] , Paul van Els [aut] , Thijs Janzen [ctb] , Hanno Hildenbrandt [ctb] , Pedro Santos Neves [ctb] , Rampal S. Etienne [cre, aut]
Maintainer: Rampal S. Etienne <r.s.etienne@rug.nl>

Diff between secsse versions 3.0.2 dated 2023-10-21 and 3.1.0 dated 2024-04-30

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Package negligible updated to version 0.1.8 with previous version 0.1.7 dated 2024-04-30

Title: A Collection of Functions for Negligible Effect/Equivalence Testing
Description: Researchers often want to evaluate whether there is a negligible relationship among variables. The 'negligible' package provides functions that are useful for conducting negligible effect testing (also called equivalence testing). For example, there are functions for evaluating the equivalence of means or the presence of a negligible association (correlation or regression). Beribisky, N., Mara, C., & Cribbie, R. A. (2020) <doi:10.20982/tqmp.16.4.p424>. Beribisky, N., Davidson, H., Cribbie, R. A. (2019) <doi:10.7717/peerj.6853>. Shiskina, T., Farmus, L., & Cribbie, R. A. (2018) <doi:10.20982/tqmp.14.3.p167>. Mara, C. & Cribbie, R. A. (2017) <doi:10.1080/00220973.2017.1301356>. Counsell, A. & Cribbie, R. A. (2015) <doi:10.1111/bmsp.12045>. van Wieringen, K. & Cribbie, R. A. (2014) <doi:10.1111/bmsp.12015>. Goertzen, J. R. & Cribbie, R. A. (2010) <doi:10.1348/000711009x475853>. Cribbie, R. A., Gruman, J. & Arpin-Cribbi [...truncated...]
Author: Robert Cribbie [aut, cre], Udi Alter [aut], Nataly Beribisky [aut], Phil Chalmers [aut], Alyssa Counsell [aut], Linda Farmus [aut], Naomi Martinez Gutierrez [aut], Victoria Ng [ctb]
Maintainer: Robert Cribbie <cribbie@yorku.ca>

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Package Colossus updated to version 1.1.1 with previous version 1.1.0 dated 2024-04-03

Title: "Risk Model Regression and Analysis with Complex Non-Linear Models"
Description: Performs survival analysis using general non-linear models. Risk models can be the sum or product of terms. Each term is the product of exponential/linear functions of covariates. Additionally sub-terms can be defined as a sum of exponential, linear threshold, and step functions. Cox Proportional hazards <https://en.wikipedia.org/wiki/Proportional_hazards_model>, Poisson <https://en.wikipedia.org/wiki/Poisson_regression>, and Fine-Grey competing risks <https://www.publichealth.columbia.edu/research/population-health-methods/competing-risk-analysis> regression are supported. This work was sponsored by NASA Grant 80NSSC19M0161 through a subcontract from the National Council on Radiation Protection and Measurements (NCRP). The computing for this project was performed on the Beocat Research Cluster at Kansas State University, which is funded in part by NSF grants CNS-1006860, EPS-1006860, EPS-0919443, ACI-1440548, CHE-1726332, and NIH P20GM113109.
Author: Eric Giunta [aut, cre] , Amir Bahadori [ctb] , Dan Andresen [ctb], Linda Walsh [ctb] , Benjamin French [ctb] , Lawrence Dauer [ctb], John Boice Jr [ctb] , Kansas State University [cph], NASA [fnd], NCRP [fnd], NRC [fnd]
Maintainer: Eric Giunta <egiunta@ksu.edu>

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Package BayesDissolution updated to version 0.2.1 with previous version 0.2.0 dated 2024-02-15

Title: Bayesian Models for Dissolution Testing
Description: Fits Bayesian models (amongst others) to dissolution data sets that can be used for dissolution testing. The package was originally constructed to include only the Bayesian models outlined in Pourmohamad et al. (2022) <doi:10.1111/rssc.12535>. However, additional Bayesian and non-Bayesian models (based on bootstrapping and generalized pivotal quanties) have also been added. More models may be added over time.
Author: Tony Pourmohamad [aut, cre], Steven Novick [aut], Robert Richardson [aut]
Maintainer: Tony Pourmohamad <tpourmohamad@gmail.com>

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Package TrendLSW updated to version 1.0.2 with previous version 1.0.1 dated 2024-04-22

Title: Wavelet Methods for Analysing Locally Stationary Time Series
Description: Fitting models for, and simulation of, trend locally stationary wavelet (TLSW) time series models, which take account of time-varying trend and dependence structure in a univariate time series. The TLSW model, and its estimation, is described in McGonigle, Killick and Nunes (2022a) <doi:10.1111/jtsa.12643>, (2022b) <doi:10.1214/22-EJS2044>. New users will likely want to start with the TLSW function.
Author: Euan T. McGonigle [aut, cre], Rebecca Killick [aut], Matthew Nunes [aut]
Maintainer: Euan T. McGonigle <e.t.mcgonigle@soton.ac.uk>

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Package neonUtilities updated to version 2.4.2 with previous version 2.4.1 dated 2024-01-09

Title: Utilities for Working with NEON Data
Description: NEON data packages can be accessed through the NEON Data Portal <https://www.neonscience.org> or through the NEON Data API (see <https://data.neonscience.org/data-api> for documentation). Data delivered from the Data Portal are provided as monthly zip files packaged within a parent zip file, while individual files can be accessed from the API. This package provides tools that aid in discovering, downloading, and reformatting data prior to use in analyses. This includes downloading data via the API, merging data tables by type, and converting formats. For more information, see the readme file at <https://github.com/NEONScience/NEON-utilities>.
Author: Claire Lunch [aut, cre, ctb], Christine Laney [aut, ctb], Nathan Mietkiewicz [aut, ctb], Eric Sokol [aut, ctb], Kaelin Cawley [aut, ctb], NEON [aut]
Maintainer: Claire Lunch <clunch@battelleecology.org>

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Package negligible updated to version 0.1.7 with previous version 0.1.6 dated 2023-12-02

Title: A Collection of Functions for Negligible Effect/Equivalence Testing
Description: Researchers often want to evaluate whether there is a negligible relationship among variables. The 'negligible' package provides functions that are useful for conducting negligible effect testing (also called equivalence testing). For example, there are functions for evaluating the equivalence of means or the presence of a negligible association (correlation or regression). Beribisky, N., Mara, C., & Cribbie, R. A. (2020) <doi:10.20982/tqmp.16.4.p424>. Beribisky, N., Davidson, H., Cribbie, R. A. (2019) <doi:10.7717/peerj.6853>. Shiskina, T., Farmus, L., & Cribbie, R. A. (2018) <doi:10.20982/tqmp.14.3.p167>. Mara, C. & Cribbie, R. A. (2017) <doi:10.1080/00220973.2017.1301356>. Counsell, A. & Cribbie, R. A. (2015) <doi:10.1111/bmsp.12045>. van Wieringen, K. & Cribbie, R. A. (2014) <doi:10.1111/bmsp.12015>. Goertzen, J. R. & Cribbie, R. A. (2010) <doi:10.1348/000711009x475853>. Cribbie, R. A., Gruman, J. & Arpin-Cribbi [...truncated...]
Author: Robert Cribbie [aut, cre], Udi Alter [aut], Nataly Beribisky [aut], Phil Chalmers [aut], Alyssa Counsell [aut], Linda Farmus [aut], Naomi Martinez Gutierrez [aut], Victoria Ng [ctb]
Maintainer: Robert Cribbie <cribbie@yorku.ca>

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Package jagshelper updated to version 0.2.3 with previous version 0.2.2 dated 2024-03-19

Title: Extracting and Visualizing Output from 'jagsUI'
Description: Tools are provided to streamline Bayesian analyses in 'JAGS' using the 'jagsUI' package. Included are functions for extracting output in simpler format, functions for streamlining assessment of convergence, and functions for producing summary plots of output. Also included is a function that provides a simple template for running 'JAGS' from 'R'. Referenced materials can be found at <DOI:10.1214/ss/1177011136>.
Author: Matt Tyers [aut, cre]
Maintainer: Matt Tyers <matttyersstat@gmail.com>

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Package ThomasJeffersonUniv updated to version 0.1.2 with previous version 0.1.1 dated 2024-04-21

Title: Handy Tools for TJU/TJUH Employees
Description: Functions for admin needs of employees of Thomas Jefferson University and Thomas Jefferson University Hospital, Philadelphia, PA.
Author: Tingting Zhan [aut, cre, cph]
Maintainer: Tingting Zhan <tingtingzhan@gmail.com>

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Package sp updated to version 2.1-4 with previous version 2.1-3 dated 2024-01-30

Title: Classes and Methods for Spatial Data
Description: Classes and methods for spatial data; the classes document where the spatial location information resides, for 2D or 3D data. Utility functions are provided, e.g. for plotting data as maps, spatial selection, as well as methods for retrieving coordinates, for subsetting, print, summary, etc. From this version, 'rgdal', 'maptools', and 'rgeos' are no longer used at all, see <https://r-spatial.org/r/2023/05/15/evolution4.html> for details.
Author: Edzer Pebesma [aut, cre], Roger Bivand [aut], Barry Rowlingson [ctb], Virgilio Gomez-Rubio [ctb], Robert Hijmans [ctb], Michael Sumner [ctb], Don MacQueen [ctb], Jim Lemon [ctb], Finn Lindgren [ctb], Josh O'Brien [ctb], Joseph O'Rourke [ctb], Patrick [...truncated...]
Maintainer: Edzer Pebesma <edzer.pebesma@uni-muenster.de>

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Package fmx updated to version 0.1.2 with previous version 0.1.1 dated 2024-04-04

Title: Finite Mixture Parametrization
Description: A parametrization framework for finite mixture distribution using S4 objects. Density, cumulative density, quantile and simulation functions are defined. Currently normal, Tukey g-&-h, skew-normal and skew-t distributions are well tested. The gamma, negative binomial distributions are being tested.
Author: Tingting Zhan [aut, cre, cph] , Inna Chervoneva [ctb, cph]
Maintainer: Tingting Zhan <tingtingzhan@gmail.com>

Diff between fmx versions 0.1.1 dated 2024-04-04 and 0.1.2 dated 2024-04-30

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Package bibliometrix updated to version 4.2.1 with previous version 4.2.0 dated 2024-04-18

Title: Comprehensive Science Mapping Analysis
Description: Tool for quantitative research in scientometrics and bibliometrics. It provides various routines for importing bibliographic data from 'SCOPUS', 'Clarivate Analytics Web of Science' (<https://www.webofknowledge.com/>), 'Digital Science Dimensions' (<https://www.dimensions.ai/>), 'OpenAlex' (<https://openalex.org/>), 'Cochrane Library' (<https://www.cochranelibrary.com/>), 'Lens' (<https://lens.org>), and 'PubMed' (<https://pubmed.ncbi.nlm.nih.gov/>) databases, performing bibliometric analysis and building networks for co-citation, coupling, scientific collaboration and co-word analysis.
Author: Massimo Aria [cre, aut, cph] , Corrado Cuccurullo [aut]
Maintainer: Massimo Aria <aria@unina.it>

Diff between bibliometrix versions 4.2.0 dated 2024-04-18 and 4.2.1 dated 2024-04-30

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Package turkeyelections updated to version 0.1.2 with previous version 0.1.1 dated 2024-02-04

Title: The Most Comprehensive R Package for Turkish Election Results
Description: Includes the results of general, local, and presidential elections held in Turkey between 1995 and 2023, broken down by provinces and overall national results. It facilitates easy processing of this data and the creation of visual representations based on these election results.
Author: Ozancan Ozdemir [aut, cre]
Maintainer: Ozancan Ozdemir <ozancanozdemir@gmail.com>

Diff between turkeyelections versions 0.1.1 dated 2024-02-04 and 0.1.2 dated 2024-04-30

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Package testCompareR updated to version 1.0.3 with previous version 1.0.2 dated 2023-09-15

Title: Comparing Two Diagnostic Tests with Dichotomous Results using Paired Data
Description: Provides a method for comparing the results of two binary diagnostic tests using paired data. Users can rapidly perform descriptive and inferential statistics in a single function call. Options permit users to select which parameters they are interested in comparing and methods for correction for multiple comparisons. Confidence intervals are calculated using the methods with the best coverage. Hypothesis tests use the methods with the best asymptotic performance. A summary of the methods is available in Roldán-Nofuentes (2020) <doi:10.1186/s12874-020-00988-y>. This package is targeted at clinical researchers who want to rapidly and effectively compare results from binary diagnostic tests.
Author: Kyle J. Wilson [cre, aut] , Marc Henrion [aut] , Jose Antonio Roldan Nofuentes [aut]
Maintainer: Kyle J. Wilson <kyle.jordan.wilson@googlemail.com>

Diff between testCompareR versions 1.0.2 dated 2023-09-15 and 1.0.3 dated 2024-04-30

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Package omopgenerics updated to version 0.2.0 with previous version 0.1.2 dated 2024-03-09

Title: Methods and Classes for the OMOP Common Data Model
Description: Provides definitions of core classes and methods used by analytic pipelines that query the OMOP (Observational Medical Outcomes Partnership) common data model.
Author: Marti Catala [aut, cre] , Edward Burn [aut] , Mike Du [ctb] , Yuchen Guo [ctb] , Adam Black [ctb] , Marta Alcalde-Herraiz [ctb]
Maintainer: Marti Catala <marti.catalasabate@ndorms.ox.ac.uk>

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Package DanielBiostatistics10th updated to version 0.2.2 with previous version 0.2.1 dated 2024-04-21

Title: Functions for Wayne W. Daniel's Biostatistics, Tenth Edition
Description: Functions to accompany Wayne W. Daniel's Biostatistics: A Foundation for Analysis in the Health Sciences, Tenth Edition.
Author: Tingting Zhan [aut, cre, cph]
Maintainer: Tingting Zhan <tingtingzhan@gmail.com>

Diff between DanielBiostatistics10th versions 0.2.1 dated 2024-04-21 and 0.2.2 dated 2024-04-30

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Package RcppInt64 updated to version 0.0.5 with previous version 0.0.4 dated 2023-12-09

Title: 'Rcpp'-Based Helper Functions to Pass 'Int64' and 'nanotime' Values Between 'R' and 'C++'
Description: 'Int64' values can be created and accessed via the 'bit64' package and its 'integer64' class which package the 'int64' representation cleverly into a 'double'. The 'nanotime' packages builds on this to support nanosecond-resolution timestamps. This packages helps conversions between 'R' and 'C++' via several helper functions provided via a single header file. A complete example client package is included as an illustration.
Author: Dirk Eddelbuettel [aut, cre]
Maintainer: Dirk Eddelbuettel <edd@debian.org>

Diff between RcppInt64 versions 0.0.4 dated 2023-12-09 and 0.0.5 dated 2024-04-30

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New package stackgbm with initial version 0.1.0
Package: stackgbm
Title: Stacked Gradient Boosting Machines
Version: 0.1.0
Description: A minimalist implementation of model stacking by Wolpert (1992) <doi:10.1016/S0893-6080(05)80023-1> for boosted tree models. A classic, two-layer stacking model is implemented, where the first layer generates features using gradient boosting trees, and the second layer employs a logistic regression model that uses these features as inputs. Utilities for training the base models and parameters tuning are provided, allowing users to experiment with different ensemble configurations easily. It aims to provide a simple and efficient way to combine multiple gradient boosting models to improve predictive model performance and robustness.
License: MIT + file LICENSE
URL: https://nanx.me/stackgbm/, https://github.com/nanxstats/stackgbm
BugReports: https://github.com/nanxstats/stackgbm/issues
Encoding: UTF-8
VignetteBuilder: knitr
Depends: R (>= 3.5.0)
Imports: pROC, progress, rlang
Suggests: knitr, lightgbm, msaenet, rmarkdown, xgboost
NeedsCompilation: no
Packaged: 2024-04-29 04:16:05 UTC; nanx
Author: Nan Xiao [aut, cre, cph]
Maintainer: Nan Xiao <me@nanx.me>
Repository: CRAN
Date/Publication: 2024-04-30 11:20:02 UTC

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New package ShapDoE with initial version 1.0.0
Package: ShapDoE
Title: Approximation of the Shapley Values Based on Experimental Designs
Version: 1.0.0
Maintainer: Liuqing Yang <yliuqing0714@163.com>
Description: Estimating the Shapley values using the algorithm in the paper Liuqing Yang, Yongdao Zhou, Haoda Fu, Min-Qian Liu and Wei Zheng (2024) <doi:10.1080/01621459.2023.2257364> "Fast Approximation of the Shapley Values Based on Order-of-Addition Experimental Designs". You provide the data and define the value function, it retures the estimated Shapley values based on sampling methods or experimental designs.
License: MIT + file LICENSE
Encoding: UTF-8
Imports: gtools
NeedsCompilation: no
Packaged: 2024-04-29 12:28:44 UTC; lydia
Author: Liuqing Yang [aut, cre, cph]
Repository: CRAN
Date/Publication: 2024-04-30 11:42:47 UTC

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New package PPbigdata with initial version 1.0.0
Package: PPbigdata
Title: Projection Pursuit for Big Data Based on Data Nuggets
Version: 1.0.0
Date: 2024-4-1
Author: Yajie Duan [aut, cre], Javier Cabrera [aut]
Maintainer: Yajie Duan <yajieritaduan@gmail.com>
Description: Perform 1-dim/2-dim projection pursuit, grand tour and guided tour for big data based on data nuggets. Reference papers: [1] Beavers et al., (2024) <doi:10.1080/10618600.2024.2341896>. [2] Duan, Y., Cabrera, J., & Emir, B. (2023). "A New Projection Pursuit Index for Big Data." <doi:10.48550/arXiv.2312.06465>.
Depends: R (>= 4.0), stats, datanugget(>= 1.2.4), MASS
Imports: dplyr, magrittr, weights, rstiefel, gtools, tourr, mclust, graphics, grDevices
License: GPL-2
Encoding: UTF-8
NeedsCompilation: no
Packaged: 2024-04-29 20:06:43 UTC; yd254
Repository: CRAN
Date/Publication: 2024-04-30 11:42:50 UTC

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New package petersenlab with initial version 1.0.0
Package: petersenlab
Title: A Collection of R Functions by the Petersen Lab
Version: 1.0.0
Maintainer: Isaac T. Petersen <isaac-t-petersen@uiowa.edu>
Depends: R (>= 4.1.0)
Imports: stats, graphics, utils, nlme, Hmisc, digest, dplyr, ggplot2, lavaan, mitools, mix, mvtnorm, psych, stringr, xtable, grDevices, plyr, reshape2, RColorBrewer, viridisLite, tidyselect, scales
Suggests: testthat (>= 3.0.0), waldo, withr
Description: A collection of R functions that are widely used by the Petersen Lab. Included are functions for various purposes, including evaluating the accuracy of judgments and predictions, performing scoring of assessments, generating correlation matrices, conversion of data between various types, data management, psychometric evaluation, extensions related to latent variable modeling, various plotting capabilities, and other miscellaneous useful functions. By making the package available, we hope to make our methods reproducible and replicable by others and to help others perform their data processing and analysis methods more easily and efficiently. The codebase is in <doi:10.5281/zenodo.7602890>. The package is described in Petersen (2024) <doi:10.1201/9781003357421>, <doi:10.5281/zenodo.6466590>.
URL: https://github.com/DevPsyLab/petersenlab, https://devpsylab.github.io/petersenlab/
BugReports: https://github.com/DevPsyLab/petersenlab/issues
License: MIT + file LICENSE
Encoding: UTF-8
NeedsCompilation: no
Packaged: 2024-04-28 22:13:14 UTC; Isaac
Author: Isaac T. Petersen [aut, cre] , Developmental Psychopathology Lab at the University of Iowa [ctb]
Repository: CRAN
Date/Publication: 2024-04-30 11:10:02 UTC

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Package MethEvolSIM updated to version 0.1.1 with previous version 0.1 dated 2024-04-18

Title: Simulate DNA Methylation Dynamics on Different Genomic Structures along Genealogies
Description: DNA methylation is an epigenetic modification involved in genomic stability, gene regulation, development and disease. DNA methylation occurs mainly through the addition of a methyl group to cytosines, for example to cytosines in a CpG dinucleotide context (CpG stands for a cytosine followed by a guanine). Tissue-specific methylation patterns lead to genomic regions with different characteristic methylation levels. E.g. in vertebrates CpG islands (regions with high CpG content) that are associated to promoter regions of expressed genes tend to be unmethylated. 'MethEvolSIM' is a model-based simulation software for the generation and modification of cytosine methylation patterns along a given tree, which can be a genealogy of cells within an organism, a coalescent tree of DNA sequences sampled from a population, or a species tree. The simulations are based on an extension of the model of Grosser & Metzler (2020) <doi:10.1186/s12859-020-3438-5> and allows for changes of the met [...truncated...]
Author: Sara Castillo Vicente [aut, cre], Dirk Metzler [aut, ths]
Maintainer: Sara Castillo Vicente <castillo@bio.lmu.de>

Diff between MethEvolSIM versions 0.1 dated 2024-04-18 and 0.1.1 dated 2024-04-30

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New package KMLtoSHAPE with initial version 0.1.0
Package: KMLtoSHAPE
Title: Preserving Attribute Values: Converting KML to Shapefile
Version: 0.1.0
Depends: R(>= 2.10)
Suggests: knitr, rmarkdown, testthat (>= 3.0.0)
Description: The developed function is designed to facilitate the seamless conversion of KML (Keyhole Markup Language) files to Shapefiles while preserving attribute values. It provides a straightforward interface for users to effortlessly import KML data, extract relevant attributes, and export them into the widely compatible Shapefile format. The package ensures accurate representation of spatial data while maintaining the integrity of associated attribute information. For details see, Flores, G. (2021). <DOI:10.1007/978-3-030-63665-4_15>. Whether for spatial analysis, visualization, or data interoperability, it simplifies the conversion process and empowers users to seamlessly work with geospatial datasets.
License: GPL (>= 2.0)
Encoding: UTF-8
Imports: raster,stringr,sf
NeedsCompilation: no
Packaged: 2024-04-29 07:24:40 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: 2024-04-30 11:20:05 UTC

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New package goat with initial version 1.0
Package: goat
Title: Gene Set Analysis Using the Gene Set Ordinal Association Test
Version: 1.0
Description: Perform gene set enrichment analyses using the Gene set Ordinal Association Test (GOAT) algorithm and visualize your results. Koopmans, F. (2024) <doi:10.1101/2023.12.10.570979>.
URL: https://github.com/ftwkoopmans/goat/
License: Apache License (>= 2)
Depends: R (>= 4.1.0), dplyr (>= 1.0.3)
Imports: tibble (>= 3.0.0), tidyselect (>= 1.2.0), tidyr (>= 1.1.2), data.table (>= 1.14.0), Matrix (>= 1.4-0), readxl (>= 1.4.1), writexl (>= 1.4.1), Rcpp (>= 1.0.9), vctrs (>= 0.3.8), MonoPoly (>= 0.3-10), ggplot2 (>= 3.3.0), pheatmap (>= 1.0.8), treemap (>= 2.4), igraph (>= 1.2.5), ggraph (>= 2.0.0)
Suggests: AnnotationDbi, GO.db, org.Hs.eg.db, fgsea, testthat (>= 3.0.0)
LinkingTo: Rcpp
Encoding: UTF-8
LazyData: true
LazyDataCompression: xz
Language: en-US
NeedsCompilation: yes
Packaged: 2024-04-28 22:29:53 UTC; Frank
Author: Frank Koopmans [aut, cre]
Maintainer: Frank Koopmans <ftwkoopmans@gmail.com>
Repository: CRAN
Date/Publication: 2024-04-30 11:10:07 UTC

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Package epicontacts updated to version 1.1.4 with previous version 1.1.3 dated 2023-03-28

Title: Handling, Visualisation and Analysis of Epidemiological Contacts
Description: A collection of tools for representing epidemiological contact data, composed of case line lists and contacts between cases. Also contains procedures for data handling, interactive graphics, and statistics.
Author: Finlay Campbell [aut, cre], Thibaut Jombart [aut], Nistara Randhawa [aut], Bertrand Sudre [aut], VP Nagraj [aut], Thomas Crellen [aut], Zhian N. Kamvar [aut]
Maintainer: Finlay Campbell <finlaycampbell93@gmail.com>

Diff between epicontacts versions 1.1.3 dated 2023-03-28 and 1.1.4 dated 2024-04-30

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New package BioCro with initial version 3.1.3
Package: BioCro
Version: 3.1.3
Date: 2024-04-22
Title: Modular Crop Growth Simulations
Description: A cross-platform representation of models as sets of equations that facilitates modularity in model building and allows users to harness modern techniques for numerical integration and data visualization. Documentation is provided by several vignettes included in this package; also see Lochocki et al. (2022) <doi:10.1093/insilicoplants/diac003>.
Depends: R (>= 3.6.0)
Imports: stats
Suggests: testthat (>= 3.2.0), knitr, rmarkdown, bookdown, lattice, deSolve
VignetteBuilder: knitr
SystemRequirements: C++11, GNU make
License: MIT + file LICENSE
LazyData: true
ByteCompile: TRUE
URL: https://github.com/biocro/biocro, https://biocro.github.io
NeedsCompilation: yes
Packaged: 2024-04-29 16:32:57 UTC; Justin
Author: Justin M. McGrath [cre, aut] , Edward B. Lochocki [aut] , Scott Rohde [aut] , Deepak Jaiswal [aut] , Megan L. Matthews [aut] , Fernando E. Miguez [aut] , Stephen P. Long [aut] , Dan Wang [ctb], David LeBauer [ctb] , BioCro authors [cph], Boost Organi [...truncated...]
Maintainer: Justin M. McGrath <jmcgrath@illinois.edu>
Repository: CRAN
Date/Publication: 2024-04-30 11:42:54 UTC

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Package mapme.biodiversity updated to version 0.6.0 with previous version 0.5.0 dated 2024-01-08

Title: Efficient Monitoring of Global Biodiversity Portfolios
Description: Biodiversity areas, especially primary forest, serve a multitude of functions for local economy, regional functionality of the ecosystems as well as the global health of our planet. Recently, adverse changes in human land use practices and climatic responses to increased greenhouse gas emissions, put these biodiversity areas under a variety of different threats. The present package helps to analyse a number of biodiversity indicators based on freely available geographical datasets. It supports computational efficient routines that allow the analysis of potentially global biodiversity portfolios. The primary use case of the package is to support evidence based reporting of an organization's effort to protect biodiversity areas under threat and to identify regions were intervention is most duly needed.
Author: Darius A. Goergen [aut, cre], Om Prakash Bhandari [aut]
Maintainer: Darius A. Goergen <darius2402@web.de>

Diff between mapme.biodiversity versions 0.5.0 dated 2024-01-08 and 0.6.0 dated 2024-04-30

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 mapme.biodiversity-0.6.0/mapme.biodiversity/DESCRIPTION                                                |   23 
 mapme.biodiversity-0.6.0/mapme.biodiversity/MD5                                                        |  332 ++++----
 mapme.biodiversity-0.6.0/mapme.biodiversity/NAMESPACE                                                  |   64 +
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Package stringmagic updated to version 1.1.2 with previous version 1.1.1 dated 2024-04-25

Title: Character String Operations and Interpolation, Magic Edition
Description: Performs complex string operations compactly and efficiently. Supports string interpolation jointly with over 50 string operations. Also enhances regular string functions (like grep() and co). See an introduction at <https://lrberge.github.io/stringmagic/>.
Author: Laurent R Berge [aut, cre] , Morgan Jacob [ctb]
Maintainer: Laurent R Berge <laurent.berge@u-bordeaux.fr>

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Package RJSDMX updated to version 3.2-0 with previous version 3.1-0 dated 2024-02-27

Title: R Interface to SDMX Web Services
Description: Provides functions to retrieve data and metadata from providers that disseminate data by means of SDMX web services. SDMX (Statistical Data and Metadata eXchange) is a standard that has been developed with the aim of simplifying the exchange of statistical information. More about the SDMX standard and the SDMX Web Services can be found at: <https://sdmx.org>.
Author: Attilio Mattiocco, Gianpaolo Lopez, Banca d'Italia
Maintainer: Attilio Mattiocco <attilio.mattiocco@bancaditalia.it>

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Package osmextract updated to version 0.5.1 with previous version 0.5.0 dated 2023-08-10

Title: Download and Import Open Street Map Data Extracts
Description: Match, download, convert and import Open Street Map data extracts obtained from several providers.
Author: Andrea Gilardi [aut, cre] , Robin Lovelace [aut] , Barry Rowlingson [ctb] , Salva Fernandez [rev] for rOpenSci, see <https://github.com/ropensci/software-review/issues/395>), Nicholas Potter [rev] for rOpenSci, see <https://github.com/ropensci/soft [...truncated...]
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Package fHMM updated to version 1.3.0 with previous version 1.2.2 dated 2024-02-24

Title: Fitting Hidden Markov Models to Financial Data
Description: Fitting (hierarchical) hidden Markov models to financial data via maximum likelihood estimation. See Oelschläger, L. and Adam, T. "Detecting bearish and bullish markets in financial time series using hierarchical hidden Markov models" (2021, Statistical Modelling) <doi:10.1177/1471082X211034048> for a reference.
Author: Lennart Oelschlaeger [aut, cre] , Timo Adam [aut] , Rouven Michels [aut]
Maintainer: Lennart Oelschlaeger <oelschlaeger.lennart@gmail.com>

Diff between fHMM versions 1.2.2 dated 2024-02-24 and 1.3.0 dated 2024-04-30

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More information about fHMM at CRAN
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Package CDSE updated to version 0.2.0 with previous version 0.1.0 dated 2023-12-05

Title: 'Copernicus Data Space Ecosystem' API Wrapper
Description: Provides interface to the 'Copernicus Data Space Ecosystem' API <https://dataspace.copernicus.eu/analyse/apis>, mainly for searching the catalog of available data from Copernicus Sentinel missions and obtaining the images for just the area of interest based on selected spectral bands. The package uses the 'Sentinel Hub' REST API interface <https://dataspace.copernicus.eu/analyse/apis/sentinel-hub> that provides access to various satellite imagery archives. It allows you to access raw satellite data, rendered images, statistical analysis, and other features.
Author: Zivan Karaman [aut, cre, cph]
Maintainer: Zivan Karaman <zivan.karaman@gmail.com>

Diff between CDSE versions 0.1.0 dated 2023-12-05 and 0.2.0 dated 2024-04-30

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Package bbk updated to version 0.2.0 with previous version 0.1.0 dated 2024-04-23

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>

Diff between bbk versions 0.1.0 dated 2024-04-23 and 0.2.0 dated 2024-04-30

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 12 files changed, 93 insertions(+), 77 deletions(-)

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New package scdtb with initial version 0.1.0
Package: scdtb
Title: Single Case Design Tools
Version: 0.1.0
Description: In some situations where researchers would like to demonstrate causal effects, it is hard to obtain a sample size that would allow for a well-powered randomized controlled trial. Single case designs are experimental designs that can be used to demonstrate causal effects with only one participant or with only a few participants. The 'scdtb' package provides a suite of tools for analyzing data from studies that use single case designs. The nap() function can be used to compute the nonoverlap of all pairs as outlined by the What Works Clearinghouse (2022) <https://ies.ed.gov/ncee/wwc/Handbooks>. The package also offers the mixed_model_analysis() and cross_lagged() functions which implement mixed effects models and cross lagged analyses as described in Maric & van der Werff (2020) <doi:10.4324/9780429273872-9>. The randomization_test() function implements randomization tests based on methods presented in Onghena (2020) <doi:10.4324/9780429273872-8>. The scdtb() 'shiny [...truncated...]
License: MIT + file LICENSE
Encoding: UTF-8
URL: https://github.com/mightymetrika/scdtb
BugReports: https://github.com/mightymetrika/scdtb/issues
Depends: R (>= 2.10)
LazyData: true
Suggests: testthat (>= 3.0.0)
Imports: broom.mixed, DT, ggplot2, mmcards, nlme, shiny, shinythemes
NeedsCompilation: no
Packaged: 2024-04-28 16:11:06 UTC; Administrator
Author: Mackson Ncube [aut, cre], mightymetrika, LLC [cph, fnd]
Maintainer: Mackson Ncube <macksonncube.stats@gmail.com>
Repository: CRAN
Date/Publication: 2024-04-30 08:50:02 UTC

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New package sacRebleu with initial version 0.1.3
Package: sacRebleu
Title: Metrics for Assessing the Quality of Generated Text
Version: 0.1.3
Date: 2024-04-05
Description: Implementation of the BLEU-Score in 'C++' to evaluate the quality of generated text. The BLEU-Score, introduced by Papineni et al. (2002) <doi:10.3115/1073083.1073135>, is a metric for evaluating the quality of generated text. It is based on the n-gram overlap between the generated text and reference texts. Additionally, the package provides some smoothing methods as described in Chen and Cherry (2014) <doi:10.3115/v1/W14-3346>.
License: GPL (>= 2)
SystemRequirements: Rust tool chain w/ cargo, libclang/llvm-config
Depends: R (>= 4.2.0)
Imports: checkmate, Rcpp (>= 1.0.12), tok
LinkingTo: Rcpp
URL: https://github.com/LazerLambda/sacRebleu
BugReports: https://github.com/LazerLambda/sacRebleu/issues
Suggests: knitr, rmarkdown, hfhub, testthat (>= 3.0.0), withr
VignetteBuilder: knitr
Encoding: UTF-8
Language: en-US
NeedsCompilation: yes
Packaged: 2024-04-28 15:33:40 UTC; philko
Author: Philipp Koch [aut, cre]
Maintainer: Philipp Koch <PhillKoch@protonmail.com>
Repository: CRAN
Date/Publication: 2024-04-30 08:40:03 UTC

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New package ratioOfQsprays with initial version 1.0.0
Package: ratioOfQsprays
Title: Fractions of Multivariate Polynomials with Rational Coefficients
Version: 1.0.0
Description: Based on the 'qspray' package, this package introduces the new type 'ratioOfQsprays'. An object of type 'qspray' represents a multivariate polynomial with rational coefficients while an object of type 'ratioOfQsprays', defined by two 'qspray' objects, represents a fraction of two multivariate polynomials with rational coefficients. Arithmetic operations for these objects are available, and they always return irreducible fractions. Other features include: differentiation, evaluation, conversion to a function, and fine control of the way to print a 'ratioOfQsprays' object. The 'C++' library 'CGAL' is used to make the fractions irreducible.
License: GPL-3
URL: https://github.com/stla/ratioOfQsprays
BugReports: https://github.com/stla/ratioOfQsprays/issues
Depends: qspray (>= 3.0.0)
Imports: gmp, methods, Rcpp, Ryacas, utils
Suggests: testthat (>= 3.0.0)
LinkingTo: BH, qspray, Rcpp, RcppArmadillo, RcppCGAL
Encoding: UTF-8
SystemRequirements: C++17, gmp, mpfr
NeedsCompilation: yes
Packaged: 2024-04-28 18:53:36 UTC; SDL96354
Author: Stephane Laurent [aut, cre]
Maintainer: Stephane Laurent <laurent_step@outlook.fr>
Repository: CRAN
Date/Publication: 2024-04-30 09:00:02 UTC

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New package peacots with initial version 1.3.2
Package: peacots
Title: Periodogram Peaks in Correlated Time Series
Version: 1.3.2
Date: 2024-04-28
Description: Calculates the periodogram of a time series, maximum-likelihood fits an Ornstein-Uhlenbeck state space (OUSS) null model and evaluates the statistical significance of periodogram peaks against the OUSS null hypothesis. The OUSS is a parsimonious model for stochastically fluctuating variables with linear stabilizing forces, subject to uncorrelated measurement errors. Contrary to the classical white noise null model for detecting cyclicity, the OUSS model can account for temporal correlations typically occurring in ecological and geological time series. Citation: Louca, Stilianos and Doebeli, Michael (2015) <doi:10.1890/14-0126.1>.
License: GPL-3
Depends: stats,graphics
NeedsCompilation: no
Packaged: 2024-04-28 15:25:13 UTC; stilianoslouca
Author: Stilianos Louca [aut, cre, cph]
Maintainer: Stilianos Louca <louca.research@gmail.com>
Repository: CRAN
Date/Publication: 2024-04-30 08:40:06 UTC

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New package karlen with initial version 0.0.2
Package: karlen
Title: Real-Time PCR Data Sets by Karlen et al. (2007)
Version: 0.0.2
Description: Real-time quantitative polymerase chain reaction (qPCR) data sets by Karlen et al. (2007) <doi:10.1186/1471-2105-8-131>. Provides one single tabular tidy data set in long format, encompassing 32 dilution series, for seven PCR targets and four biological samples. The targeted amplicons are within the murine genes: Cav1, Ccn2, Eln, Fn1, Rpl27, Hspg2, and Serpine1, respectively. Dilution series: scheme 1 (Cav1, Eln, Hspg2, Serpine1): 1-fold, 10-fold, 50-fold, and 100-fold; scheme 2 (Ccn2, Rpl27, Fn1): 1-fold, 10-fold, 50-fold, 100-fold and 1000-fold. For each concentration there are five replicates, except for the 1000-fold concentration, where only two replicates were performed. Each amplification curve is 40 cycles long. Original raw data file is Additional file 2 from "Statistical significance of quantitative PCR" by Y. Karlen, A. McNair, S. Perseguers, C. Mazza, and N. Mermod (2007) <https://static-content.springer.com/esm/art%3A10.1186%2F1471-2105-8-131/MediaObjects/12859_20 [...truncated...]
License: CC BY 4.0
Encoding: UTF-8
Imports: tibble
Depends: R (>= 2.10)
LazyData: true
URL: https://rmagno.eu/karlen/, https://github.com/ramiromagno/karlen
BugReports: https://github.com/ramiromagno/karlen/issues
NeedsCompilation: no
Packaged: 2024-04-28 14:28:17 UTC; rmagno
Author: Ramiro Magno [aut, cre] , Pattern Institute [cph, fnd]
Maintainer: Ramiro Magno <rmagno@pattern.institute>
Repository: CRAN
Date/Publication: 2024-04-30 08:30:07 UTC

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New package freewall with initial version 1.0.0
Package: freewall
Title: A Wrapper of the JavaScript Library 'Freewall'
Version: 1.0.0
Description: Creates dynamic grid layouts of images that can be included in 'Shiny' applications and R markdown documents.
License: GPL-3
URL: https://github.com/stla/freewall
BugReports: https://github.com/stla/freewall/issues
Imports: htmlwidgets, htmltools, jquerylib
Suggests: shiny
Encoding: UTF-8
NeedsCompilation: no
Packaged: 2024-04-28 15:33:08 UTC; SDL96354
Author: Stephane Laurent [aut, cre], Minh Nguyen [cph]
Maintainer: Stephane Laurent <laurent_step@outlook.fr>
Repository: CRAN
Date/Publication: 2024-04-30 09:00:05 UTC

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New package dendroNetwork with initial version 0.5.4
Package: dendroNetwork
Title: Create Networks of Dendrochronological Series using Pairwise Similarity
Version: 0.5.4
Maintainer: Ronald Visser <r.m.visser@saxion.nl>
Depends: R (>= 4.1.0)
Imports: dplR (>= 1.7.2), igraph, stringr, reshape2, RCy3, dplyr, RColorBrewer, tidyr, foreach, lifecycle, doParallel, stats, grDevices
Description: Creating dendrochronological networks based on the similarity between tree-ring series or chronologies. The package includes various functions to compare tree-ring curves building upon the 'dplR' package. The networks can be used to visualise and understand the relations between tree-ring curves. These networks are also very useful to estimate the provenance of wood as described in Visser (2021) <DOI:10.5334/jcaa.79> or wood-use within a structure/context/site as described in Visser and Vorst (2022) <DOI:10.1163/27723194-bja10014>.
License: GPL (>= 3)
Encoding: UTF-8
LazyData: true
Suggests: knitr, rmarkdown, testthat (>= 3.0.0), DiagrammeR
VignetteBuilder: knitr
URL: https://github.com/ropensci/dendroNetwork, https://ropensci.github.io/dendroNetwork/
BugReports: https://github.com/ropensci/dendroNetwork/issues
NeedsCompilation: no
Packaged: 2024-04-28 14:42:37 UTC; rvi04
Author: Ronald Visser [aut, cre] , Angelino Salentino [ctb] , Andy Bunn [ctb] , Kaija Gahm [rev] , Zachary Gajewski [rev]
Repository: CRAN
Date/Publication: 2024-04-30 08:40:10 UTC

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New package comorbidPGS with initial version 0.3.4
Package: comorbidPGS
Title: Assessing Predisposition Between Phenotypes using Polygenic Scores
Version: 0.3.4
Description: Using polygenic scores (PGS, or PRS/GRS for binary outcomes), this package allows to investigate shared predisposition between different conditions, and do fast association analysis, export plots and views of the PGS distribution using 'ggplot2' object.
Depends: R (>= 3.5.0)
License: GPL (>= 3)
Encoding: UTF-8
Imports: ggplot2, stats, utils, MASS, nnet, parallel
LazyData: true
Suggests: testthat (>= 3.0.0)
NeedsCompilation: no
Packaged: 2024-04-28 20:47:22 UTC; vpascat
Author: Vincent Pascat [aut, cre]
Maintainer: Vincent Pascat <vincent.pascat@univ-lille.fr>
Repository: CRAN
Date/Publication: 2024-04-30 09:00:08 UTC

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Package rdss (with last version 1.0.10) was removed from CRAN

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

2024-03-30 1.0.10
2024-03-02 1.0.8
2024-02-20 1.0.6

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

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

2024-04-01 1.0.1

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Package hexFinder (with last version 0.8.2) was removed from CRAN

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

2024-01-17 0.8.2
2023-02-01 0.8.0

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Package RcppCGAL updated to version 5.6.3 with previous version 5.6.2 dated 2024-01-29

Title: 'Rcpp' Integration for 'CGAL'
Description: Creates a header only package to link to the 'CGAL' (Computational Geometry Algorithms Library) header files in 'Rcpp'. There are a variety of potential uses for the software such as Hilbert sorting, K-D Tree nearest neighbors, and convex hull algorithms. For more information about how to use the header files, see the 'CGAL' documentation at <https://www.cgal.org>. Currently downloads version 5.6.1 of the 'CGAL' header files.
Author: Eric Dunipace [aut, cre] , Tyler Morgan-Wall [ctb], The CGAL Project [cph]
Maintainer: Eric Dunipace <edunipace@mail.harvard.edu>

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Package VisualizeSimon2Stage updated to version 0.1.5 with previous version 0.1.4 dated 2024-04-22

Title: Visualize Simon's Two-Stage Design
Description: To visualize the probabilities of early termination, fail and success of Simon's two-stage design. To evaluate and visualize the operating characteristics of Simon's two-stage design.
Author: Tingting Zhan [aut, cre, cph]
Maintainer: Tingting Zhan <tingtingzhan@gmail.com>

Diff between VisualizeSimon2Stage versions 0.1.4 dated 2024-04-22 and 0.1.5 dated 2024-04-30

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Package TukeyGH77 updated to version 0.1.2 with previous version 0.1.1 dated 2024-03-23

Title: Tukey g-&-h Distribution
Description: Functions for density, cumulative density, quantile and simulation of Tukey g-and-h (1977) distributions. The quantile-based transformation (Hoaglin 1985 <doi:10.1002/9781118150702.ch11>) and its reverse transformation, as well as the letter-value based estimates (Hoaglin 1985), are also provided.
Author: Tingting Zhan [aut, cre, cph], Inna Chervoneva [ctb, cph]
Maintainer: Tingting Zhan <tingtingzhan@gmail.com>

Diff between TukeyGH77 versions 0.1.1 dated 2024-03-23 and 0.1.2 dated 2024-04-30

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Package rcheology updated to version 4.4.0.0 with previous version 4.3.3.0 dated 2024-03-02

Title: Data on Base and Recommended Packages for Current and Previous Versions of R
Description: Provides a dataset of functions in all base and recommended packages of R versions 0.50 onwards.
Author: David Hugh-Jones [aut, cre]
Maintainer: David Hugh-Jones <davidhughjones@gmail.com>

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Package param2moment updated to version 0.1.2 with previous version 0.1.1 dated 2024-04-05

Title: Raw, Central and Standardized Moments of Parametric Distributions
Description: To calculate the raw, central and standardized moments from distribution parameters. To solve the distribution parameters based on user-provided mean, standard deviation, skewness and kurtosis. Normal, skew-normal, skew-t and Tukey g-&-h distributions are supported, for now.
Author: Tingting Zhan [aut, cre, cph]
Maintainer: Tingting Zhan <tingtingzhan@gmail.com>

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Package DemographicTable updated to version 0.1.8 with previous version 0.1.7 dated 2024-04-03

Title: Creating Demographic Table
Description: Functions for creating demographic table with simple summary statistics, with optional comparison(s) over one or more groups. Numeric variables are summarized in means, standard deviations, medians, inter-quartile-ranges (IQR), skewness, Shapiro-Wilk normality test and ranges, and compared using two-sample t-test, Wilcoxon test, ANOVA and/or Kruskal-Wallis test. Logical and factor variables are summarized in counts and percentages and compared using chi-squared test and/or Fisher's exact test.
Author: Tingting Zhan [aut, cre, cph]
Maintainer: Tingting Zhan <tingtingzhan@gmail.com>

Diff between DemographicTable versions 0.1.7 dated 2024-04-03 and 0.1.8 dated 2024-04-30

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