Sun, 02 Jul 2023

Package RcppAnnoy updated to version 0.0.21 with previous version 0.0.20 dated 2022-10-27

Title: 'Rcpp' Bindings for 'Annoy', a Library for Approximate Nearest Neighbors
Description: 'Annoy' is a small C++ library for Approximate Nearest Neighbors written for efficient memory usage as well an ability to load from / save to disk. This package provides an R interface by relying on the 'Rcpp' package, exposing the same interface as the original Python wrapper to 'Annoy'. See <https://github.com/spotify/annoy> for more on 'Annoy'. 'Annoy' is released under Version 2.0 of the Apache License. Also included is a small Windows port of 'mmap' which is released under the MIT license.
Author: Dirk Eddelbuettel
Maintainer: Dirk Eddelbuettel <edd@debian.org>

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Package PLRModels updated to version 1.3 with previous version 1.2 dated 2022-07-14

Title: Statistical Inference in Partial Linear Regression Models
Description: Contains statistical inference tools applied to Partial Linear Regression (PLR) models. Specifically, point estimation, confidence intervals estimation, bandwidth selection, goodness-of-fit tests and analysis of covariance are considered. Kernel-based methods, combined with ordinary least squares estimation, are used and time series errors are allowed. In addition, these techniques are also implemented for both parametric (linear) and nonparametric regression models.
Author: German Aneiros Perez and Ana Lopez-Cheda
Maintainer: Ana Lopez-Cheda <ana.lopez.cheda@udc.es>

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Package rSPDE updated to version 2.3.2 with previous version 2.3.1 dated 2023-05-25

Title: Rational Approximations of Fractional Stochastic Partial Differential Equations
Description: Functions that compute rational approximations of fractional elliptic stochastic partial differential equations. The package also contains functions for common statistical usage of these approximations. The main references for rSPDE are Bolin, Simas and Xiong (2023) <doi:10.1080/10618600.2023.2231051> for the covariance-based method and Bolin and Kirchner (2020) <doi:10.1080/10618600.2019.1665537> for the operator-based rational approximation. These can be generated by the citation function in R.
Author: David Bolin [cre, aut], Alexandre Simas [aut], Finn Lindgren [ctb]
Maintainer: David Bolin <davidbolin@gmail.com>

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Package neojags updated to version 0.1.2 with previous version 0.1.1 dated 2023-06-29

Title: Neo-Normal Distributions Family for Markov Chain Monte Carlo (MCMC) Models in 'JAGS'
Description: A 'JAGS' extension module provides neo-normal distributions family including MSNBurr, MSNBurr-IIa, GMSNBurr, Lunetta Exponential Power, Fernandez-Steel Skew t, Fernandez-Steel Skew Normal, Fernandez-Osiewalski-Steel Skew Exponential Power, Jones Skew Exponential Power. References: Choir, A. S. (2020). "The New Neo-Normal Distributions and Their Properties".Unpublished Dissertation. Denwood, M.J. (2016) <doi:10.18637/jss.v071.i09>. Fernandez, C., Osiewalski, J., & Steel, M. F. (1995) <doi:10.1080/01621459.1995.10476637>. Fernandez, C., & Steel, M. F. (1998) <doi:10.1080/01621459.1998.10474117>. Iriawan, N. (2000). "Computationally Intensive Approaches to Inference in NeoNormal Linear Models".Unpublished Dissertation. Mineo, A., & Ruggieri, M. (2005) <doi:10.18637/jss.v012.i04>. Rigby, R. A., & Stasinopoulos, D. M. (2005) <doi:10.1111/j.1467-9876.2005.00510.x>. Lunetta, G. (1963). "Di una Generalizzazione dello Schema della Curva Normale". Ri [...truncated...]
Author: Achmad Syahrul Choir [aut, cre], Resi Ramadani [aut], Nur Iriawan [aut], S Sifa'ul Khusna Malikhatul Mutmainah [ctb], Matthew Denwood [cph], Martyn Plummer [cph]
Maintainer: Achmad Syahrul Choir <madsyair@stis.ac.id>

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Package jlmerclusterperm updated to version 1.0.1 with previous version 1.0.0 dated 2023-06-27

Title: Cluster-Based Permutation Analysis for Densely Sampled Time Data
Description: An implementation of fast cluster-based permutation analysis (CPA) for densely-sampled time data developed in Maris & Oostenveld, 2007 <doi:10.1016/j.jneumeth.2007.03.024>. Supports (generalized, mixed-effects) regression models for the calculation of timewise statistics. Provides both a wholesale and a piecemeal interface to the CPA procedure with an emphasis on interpretability and diagnostics. Integrates 'Julia' libraries 'MixedModels.jl' and 'GLM.jl' for performance improvements, with additional functionalities for interfacing with 'Julia' from 'R' powered by the 'JuliaConnectoR' package.
Author: June Choe [aut, cre, cph]
Maintainer: June Choe <jchoe001@gmail.com>

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Package ropercenter updated to version 0.3.2 with previous version 0.3.1 dated 2020-07-26

Title: Reproducible Data Retrieval from the Roper Center Data Archive
Description: Reproducible, programmatic retrieval of datasets from the Roper Center data archive. The Roper Center for Public Opinion Research <https://ropercenter.cornell.edu> maintains the largest archive of public opinion data in existence, but researchers using these datasets are caught in a bind. The Center's terms and conditions bar redistribution of downloaded datasets, but to ensure that one's work can be reproduced, assessed, and built upon by others, one must provide access to the raw data one employed. The `ropercenter` package cuts this knot by providing registered users with programmatic, reproducible access to Roper Center datasets from within R.
Author: Frederick Solt [aut, cre, cph], Jennifer Lin [ctb], Paul Gronke [ctb], Dave Peterson [ctb]
Maintainer: Frederick Solt <frederick-solt@uiowa.edu>

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Package nestedcv updated to version 0.6.7 with previous version 0.6.6 dated 2023-06-07

Title: Nested Cross-Validation with 'glmnet' and 'caret'
Description: Implements nested k*l-fold cross-validation for lasso and elastic-net regularised linear models via the 'glmnet' package and other machine learning models via the 'caret' package. Cross-validation of 'glmnet' alpha mixing parameter and embedded fast filter functions for feature selection are provided. Described as double cross-validation by Stone (1977) <doi:10.1111/j.2517-6161.1977.tb01603.x>. Also implemented is a method using outer CV to measure unbiased model performance metrics when fitting Bayesian linear and logistic regression shrinkage models using the horseshoe prior over parameters to encourage a sparse model as described by Piironen & Vehtari (2017) <doi:10.1214/17-EJS1337SI>.
Author: Myles Lewis [aut, cre] , Athina Spiliopoulou [aut] , Katriona Goldmann [aut]
Maintainer: Myles Lewis <myles.lewis@qmul.ac.uk>

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Package qualV updated to version 0.3-5 with previous version 0.3-4 dated 2021-10-07

Title: Qualitative Validation Methods
Description: Qualitative methods for the validation of dynamic models. It contains (i) an orthogonal set of deviance measures for absolute, relative and ordinal scale and (ii) approaches accounting for time shifts. The first approach transforms time to take time delays and speed differences into account. The second divides the time series into interval units according to their main features and finds the longest common subsequence (LCS) using a dynamic programming algorithm.
Author: K. Gerald van den Boogaart [aut, ths] , Stefanie Rost [aut], Thomas Petzoldt [aut, ths, cre]
Maintainer: Thomas Petzoldt <thomas.petzoldt@tu-dresden.de>

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Package wrappedtools updated to version 0.9.2 with previous version 0.9.1 dated 2023-03-28

Title: Useful Wrappers Around Commonly Used Functions
Description: The main functionalities of 'wrappedtools' are: adding backticks to variable names; rounding to desired precision with special case for p-values; selecting columns based on pattern and storing their position, name, and backticked name; computing and formatting of descriptive statistics (e.g. meanĀ±SD), comparing groups and creating publication-ready tables with descriptive statistics and p-values; creating specialized plots for correlation matrices. Functions were mainly written for my own daily work or teaching, but may be of use to others as well.
Author: Andreas Busjahn [cre, aut] , Bilal Asser [aut]
Maintainer: Andreas Busjahn <andreas@busjahn.net>

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Package taskscheduleR updated to version 1.8 with previous version 1.7 dated 2023-02-01

Title: Schedule R Scripts and Processes with the Windows Task Scheduler
Description: Schedule R scripts/processes with the Windows task scheduler. This allows R users to automate R processes on specific time points from R itself.
Author: Jan Wijffels [aut, cre, cph], BNOSAC [cph], Oliver Belmans [cph, aut]
Maintainer: Jan Wijffels <jwijffels@bnosac.be>

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Package transport updated to version 0.14-6 with previous version 0.14-4 dated 2023-06-25

Title: Computation of Optimal Transport Plans and Wasserstein Distances
Description: Solve optimal transport problems. Compute Wasserstein distances (a.k.a. Kantorovitch, Fortet--Mourier, Mallows, Earth Mover's, or minimal L_p distances), return the corresponding transference plans, and display them graphically. Objects that can be compared include grey-scale images, (weighted) point patterns, and mass vectors.
Author: Dominic Schuhmacher [aut, cre], Bjoern Baehre [aut] , Nicolas Bonneel [aut] , Carsten Gottschlich [aut] , Valentin Hartmann [aut] , Florian Heinemann [aut] , Bernhard Schmitzer [aut] , Joern Schrieber [aut] , Timo Wilm [ctb]
Maintainer: Dominic Schuhmacher <dominic.schuhmacher@mathematik.uni-goettingen.de>

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Package quickPlot updated to version 1.0.2 with previous version 1.0.1 dated 2023-06-12

Title: A System of Plotting Optimized for Speed and Modularity
Description: A high-level plotting system, compatible with `ggplot2` objects, maps from `sf`, `terra`, `raster`, `sp`. It is built primarily on the 'grid' package. The objective of the package is to provide a plotting system that is built for speed and modularity. This is useful for quick visualizations when testing code and for plotting multiple figures to the same device from independent sources that may be independent of one another (i.e., different function or modules the create the visualizations). The suggested package 'fastshp' can be installed from the repository (<https://PredictiveEcology.r-universe.dev>).
Author: Eliot J B McIntire [aut, cre] , Alex M Chubaty [aut] , His Majesty the King in Right of Canada, as represented by the Minister of Natural Resources Canada [cph]
Maintainer: Eliot J B McIntire <eliot.mcintire@canada.ca>

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Package plac updated to version 0.1.3 with previous version 0.1.1 dated 2016-04-29

Title: A Pairwise Likelihood Augmented Cox Estimator for Left-Truncated Data
Description: A semi-parametric estimation method for the Cox model with left-truncated data using augmented information from the marginal of truncation times.
Author: Fan Wu [aut, cre]
Maintainer: Fan Wu <fannwu@umich.edu>

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Package CASCORE updated to version 0.1.2 with previous version 0.1.1 dated 2022-10-02

Title: Covariate Assisted Spectral Clustering on Ratios of Eigenvectors
Description: Functions for implementing the novel algorithm CASCORE, which is designed to detect latent community structure in graphs with node covariates. This algorithm can handle models such as the covariate-assisted degree corrected stochastic block model (CADCSBM). CASCORE specifically addresses the disagreement between the community structure inferred from the adjacency information and the community structure inferred from the covariate information. For more detailed information, please refer to the reference paper: Yaofang Hu and Wanjie Wang (2022) <arXiv:2306.15616>. In addition to CASCORE, this package includes several classical community detection algorithms that are compared to CASCORE in our paper. These algorithms are: Spectral Clustering On Ratios-of Eigenvectors (SCORE), normalized PCA, ordinary PCA, network-based clustering, covariates-based clustering and covariate-assisted spectral clustering (CASC). By providing these additional algorithms, the package enables users to comp [...truncated...]
Author: Yaofang Hu [aut, cre], Wanjie Wang [aut]
Maintainer: Yaofang Hu <yaofangh@smu.edu>

Diff between CASCORE versions 0.1.1 dated 2022-10-02 and 0.1.2 dated 2023-07-02

 DESCRIPTION                     |   18 +++++++--------
 MD5                             |   20 ++++++++++------
 NAMESPACE                       |    2 +
 R/CASCORE.R                     |   48 +++++++++++++++++++++++++---------------
 R/Cov_based.R                   |only
 R/Net_based.R                   |only
 build/partial.rdb               |binary
 man/CASCORE.Rd                  |   20 ++++++++--------
 man/Cov_based.Rd                |only
 man/Net_based.Rd                |only
 tests/testthat/test-ADMM.R      |    4 +--
 tests/testthat/test-Cov_based.R |only
 tests/testthat/test-Net_based.R |only
 tests/testthat/test-SCORE.R     |    3 --
 14 files changed, 67 insertions(+), 48 deletions(-)

More information about CASCORE at CRAN
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