Wed, 22 Mar 2023

Package svd updated to version 0.5.4 with previous version 0.5.3 dated 2023-01-15

Title: Interfaces to Various State-of-Art SVD and Eigensolvers
Description: R bindings to SVD and eigensolvers (PROPACK, nuTRLan).
Author: Anton Korobeynikov [aut, cre], Rasmus Munk Larsen [ctb, cph], Lawrence Berkeley National Laboratory [ctb, cph]
Maintainer: Anton Korobeynikov <anton@korobeynikov.info>

Diff between svd versions 0.5.3 dated 2023-01-15 and 0.5.4 dated 2023-03-22

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Package poppr updated to version 2.9.4 with previous version 2.9.3 dated 2021-09-07

Title: Genetic Analysis of Populations with Mixed Reproduction
Description: Population genetic analyses for hierarchical analysis of partially clonal populations built upon the architecture of the 'adegenet' package. Originally described in Kamvar, Tabima, and Grünwald (2014) <doi:10.7717/peerj.281> with version 2.0 described in Kamvar, Brooks, and Grünwald (2015) <doi:10.3389/fgene.2015.00208>.
Author: Zhian N. Kamvar [cre, aut] , Javier F. Tabima [aut] , Sydney E. Everhart [ctb, dtc] , Jonah C. Brooks [aut], Stacy A. Krueger-Hadfield [ctb] , Erik Sotka [ctb], Brian J. Knaus [ctb] , Patrick G. Meirmans [ctb] , Frederic D. Chevalier [ctb] , David Fo [...truncated...]
Maintainer: Zhian N. Kamvar <zkamvar@gmail.com>

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Package groupr updated to version 0.1.2 with previous version 0.1.1 dated 2023-02-09

Title: Groups with Inapplicable Values
Description: The 'groupr' package provides a more powerful version of grouped tibbles from 'dplyr'. It allows groups to be marked inapplicable, which is a simple but widely useful way to express structure in a dataset. It also provides powerful pivoting and other group manipulation functions.
Author: Nicholas Griffiths [aut, cre]
Maintainer: Nicholas Griffiths <ngriffiths21@gmail.com>

Diff between groupr versions 0.1.1 dated 2023-02-09 and 0.1.2 dated 2023-03-22

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Package glmnet updated to version 4.1-7 with previous version 4.1-6 dated 2022-11-27

Title: Lasso and Elastic-Net Regularized Generalized Linear Models
Description: Extremely efficient procedures for fitting the entire lasso or elastic-net regularization path for linear regression, logistic and multinomial regression models, Poisson regression, Cox model, multiple-response Gaussian, and the grouped multinomial regression; see <doi:10.18637/jss.v033.i01> and <doi:10.18637/jss.v039.i05>. There are two new and important additions. The family argument can be a GLM family object, which opens the door to any programmed family (<doi:10.18637/jss.v106.i01>). This comes with a modest computational cost, so when the built-in families suffice, they should be used instead. The other novelty is the relax option, which refits each of the active sets in the path unpenalized. The algorithm uses cyclical coordinate descent in a path-wise fashion, as described in the papers cited.
Author: Jerome Friedman [aut], Trevor Hastie [aut, cre], Rob Tibshirani [aut], Balasubramanian Narasimhan [aut], Kenneth Tay [aut], Noah Simon [aut], Junyang Qian [ctb], James Yang [aut]
Maintainer: Trevor Hastie <hastie@stanford.edu>

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Package parallelly updated to version 1.35.0 with previous version 1.34.0 dated 2023-01-13

Title: Enhancing the 'parallel' Package
Description: Utility functions that enhance the 'parallel' package and support the built-in parallel backends of the 'future' package. For example, availableCores() gives the number of CPU cores available to your R process as given by the operating system, 'cgroups' and Linux containers, R options, and environment variables, including those set by job schedulers on high-performance compute clusters. If none is set, it will fall back to parallel::detectCores(). Another example is makeClusterPSOCK(), which is backward compatible with parallel::makePSOCKcluster() while doing a better job in setting up remote cluster workers without the need for configuring the firewall to do port-forwarding to your local computer.
Author: Henrik Bengtsson [aut, cre, cph]
Maintainer: Henrik Bengtsson <henrikb@braju.com>

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Package edibble updated to version 0.1.3 with previous version 0.1.2 dated 2022-10-04

Title: Designing Comparative Experiments
Description: A system to facilitate designing comparative experiments using the grammar of experimental designs <https://emitanaka.org/edibble-book/>. An experimental design is treated as an intermediate, mutable object that is built progressively by fundamental experimental components like units, treatments, and their relation.
Author: Emi Tanaka [aut, cre, cph]
Maintainer: Emi Tanaka <dr.emi.tanaka@gmail.com>

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Package prioriactions updated to version 0.4.2 with previous version 0.4.1 dated 2022-08-16

Title: Multi-Action Conservation Planning
Description: This uses a mixed integer mathematical programming (MIP) approach for building and solving multi-action planning problems, where the goal is to find an optimal combination of management actions that abate threats, in an efficient way while accounting for spatial aspects. Thus, optimizing the connectivity and conservation effectiveness of the prioritized units and of the deployed actions. The package is capable of handling different commercial (gurobi, CPLEX) and non-commercial (symphony) MIP solvers. Gurobi optimization solver can be installed using comprehensive instructions in the gurobi installation vignette of the prioritizr package (available in <https://prioritizr.net/articles/gurobi_installation_guide.html>). Instead, CPLEX optimization solver can be obtain from IBM CPLEX web page (available here <https://www.ibm.com/es-es/products/ilog-cplex-optimization-studio>). Methods used in the package refers to Salgado-Rojas et al. (2020) <doi:10.1016/j.ecolmodel.2019.1089 [...truncated...]
Author: Jose Salgado-Rojas [aut, cre], Irlanda Ceballos-Fuentealba [aut], Virgilio Hermoso [aut], Eduardo Alvarez-Miranda [aut], Jordi Garcia-Gonzalo [aut]
Maintainer: Jose Salgado-Rojas <jose.salgroj@gmail.com>

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Package exuber updated to version 1.0.2 with previous version 1.0.1 dated 2023-02-12

Title: Econometric Analysis of Explosive Time Series
Description: Testing for and dating periods of explosive dynamics (exuberance) in time series using the univariate and panel recursive unit root tests proposed by Phillips et al. (2015) <doi:10.1111/iere.12132> and Pavlidis et al. (2016) <doi:10.1007/s11146-015-9531-2>.The recursive least-squares algorithm utilizes the matrix inversion lemma to avoid matrix inversion which results in significant speed improvements. Simulation of a variety of periodically-collapsing bubble processes. Details can be found in Vasilopoulos et al. (2022) <doi:10.18637/jss.v103.i10>.
Author: Kostas Vasilopoulos [cre, aut], Efthymios Pavlidis [aut], Enrique Martinez-Garcia [aut], Simon Spavound [aut]
Maintainer: Kostas Vasilopoulos <k.vasilopoulo@gmail.com>

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Package CDMConnector updated to version 0.5.1 with previous version 0.5.0 dated 2023-03-09

Title: Connect to an OMOP Common Data Model
Description: Provides tools for working with observational health data in the Observational Medical Outcomes Partnership (OMOP) Common Data Model format with a pipe friendly syntax. Common data model database table references are stored in a single compound object along with metadata.
Author: Adam Black [aut, cre] , Artem Gorbachev [aut], Edward Burn [aut], Marti Catala Sabate [aut]
Maintainer: Adam Black <black@ohdsi.org>

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Package vars updated to version 1.5-9 with previous version 1.5-6 dated 2021-09-17

Title: VAR Modelling
Description: Estimation, lag selection, diagnostic testing, forecasting, causality analysis, forecast error variance decomposition and impulse response functions of VAR models and estimation of SVAR and SVEC models.
Author: Bernhard Pfaff [aut, cre], Matthieu Stigler [ctb]
Maintainer: Bernhard Pfaff <bernhard@pfaffikus.de>

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Package shinytest updated to version 1.5.2 with previous version 1.5.1 dated 2021-09-13

Title: Test Shiny Apps
Description: For automated testing of Shiny applications, using a headless browser, driven through 'WebDriver'.
Author: Winston Chang [aut, cre], Gabor Csardi [aut], Hadley Wickham [aut], RStudio [cph, fnd], Mango Solutions [cph, ccp]
Maintainer: Winston Chang <winston@rstudio.com>

Diff between shinytest versions 1.5.1 dated 2021-09-13 and 1.5.2 dated 2023-03-22

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Package mcen updated to version 1.2.1 with previous version 1.2 dated 2020-07-23

Title: Multivariate Cluster Elastic Net
Description: Fits the Multivariate Cluster Elastic Net (MCEN) presented in Price & Sherwood (2018) <arXiv:1707.03530>. The MCEN model simultaneously estimates regression coefficients and a clustering of the responses for a multivariate response model. Currently accommodates the Gaussian and binomial likelihood.
Author: Ben Sherwood [aut, cre], Brad Price [aut]
Maintainer: Ben Sherwood <ben.sherwood@ku.edu>

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Package ktweedie updated to version 1.0.2 with previous version 1.0.1 dated 2022-11-02

Title: 'Tweedie' Compound Poisson Model in the Reproducing Kernel Hilbert Space
Description: Kernel-based 'Tweedie' compound Poisson gamma model using high-dimensional predictors for the analyses of zero-inflated response variables. The package features built-in estimation, prediction and cross-validation tools and supports choice of different kernel functions. For more details, please see Yi Lian, Archer Yi Yang, Boxiang Wang, Peng Shi & Robert William Platt (2023) <doi:10.1080/00401706.2022.2156615>.
Author: Yi Lian [aut, cre], Archer Yi Yang [aut, cph], Boxiang Wang [aut], Peng Shi [aut], Robert W. Platt [aut]
Maintainer: Yi Lian <yi.lian@mail.mcgill.ca>

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Package brokenstick updated to version 2.5.0 with previous version 2.4.0 dated 2022-10-30

Title: Broken Stick Model for Irregular Longitudinal Data
Description: Data on multiple individuals through time are often sampled at times that differ between persons. Irregular observation times can severely complicate the statistical analysis of the data. The broken stick model approximates each subject’s trajectory by one or more connected line segments. The times at which segments connect (breakpoints) are identical for all subjects and under control of the user. A well-fitting broken stick model effectively transforms individual measurements made at irregular times into regular trajectories with common observation times. Specification of the model requires three variables: time, measurement and subject. The model is a special case of the linear mixed model, with time as a linear B-spline and subject as the grouping factor. The main assumptions are: subjects are exchangeable, trajectories between consecutive breakpoints are straight, random effects follow a multivariate normal distribution, and unobserved data are missing at random. The package conta [...truncated...]
Author: Stef van Buuren [aut, cre]
Maintainer: Stef van Buuren <stef.vanbuuren@tno.nl>

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Package poolfstat updated to version 2.1.2 with previous version 2.1.1 dated 2022-05-02

Title: Computing f-Statistics and Building Admixture Graphs Based on Allele Count or Pool-Seq Read Count Data
Description: Functions for the computation of f- and D-statistics (estimation of 'Fst', Patterson's 'F2', 'F3', 'F3*', 'F4' and D parameters) in population genomics studies from allele count or Pool-Seq read count data and for the fitting, building and visualization of admixture graphs. The package also includes several utilities to manipulate Pool-Seq data stored in standard format (e.g., such as 'vcf' files or 'rsync' files generated by the the 'PoPoolation' software) and perform conversion to alternative format (as used in the 'BayPass' and 'SelEstim' software). As of version 2.0, the package also includes utilities to manipulate standard allele count data (e.g., stored in 'TreeMix', 'BayPass' or 'SelEstim' format).
Author: Mathieu Gautier
Maintainer: Mathieu Gautier <mathieu.gautier@inrae.fr>

Diff between poolfstat versions 2.1.1 dated 2022-05-02 and 2.1.2 dated 2023-03-22

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Package AgroR updated to version 1.3.3 with previous version 1.3.2 dated 2022-11-17

Title: Experimental Statistics and Graphics for Agricultural Sciences
Description: Performs the analysis of completely randomized experimental designs (CRD), randomized blocks (RBD) and Latin square (LSD), experiments in double and triple factorial scheme (in CRD and RBD), experiments in subdivided plot scheme (in CRD and RBD), subdivided and joint analysis of experiments in CRD and RBD, linear regression analysis, test for two samples. The package performs analysis of variance, ANOVA assumptions and multiple comparison test of means or regression, according to Pimentel-Gomes (2009, ISBN: 978-85-7133-055-9), nonparametric test (Conover, 1999, ISBN: 0471160687), test for two samples, joint analysis of experiments according to Ferreira (2018, ISBN: 978-85-7269-566-4) and generalized linear model (glm) for binomial and Poisson family in CRD and RBD (Carvalho, FJ (2019), <doi:10.14393/ufu.te.2019.1244>). It can also be used to obtain descriptive measures and graphics, in addition to correlations and creative graphics used in agricultural sciences (Agronomy, Zootech [...truncated...]
Author: Gabriel Danilo Shimizu [aut, cre] , Rodrigo Yudi Palhaci Marubayashi [aut, ctb] , Leandro Simoes Azeredo Goncalves [aut, ctb]
Maintainer: Gabriel Danilo Shimizu <shimizu@uel.br>

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Package bayes4psy updated to version 1.2.11 with previous version 1.2.8 dated 2021-09-27

Title: User Friendly Bayesian Data Analysis for Psychology
Description: Contains several Bayesian models for data analysis of psychological tests. A user friendly interface for these models should enable students and researchers to perform professional level Bayesian data analysis without advanced knowledge in programming and Bayesian statistics. This package is based on the Stan platform (Carpenter et el. 2017 <doi:10.18637/jss.v076.i01>).
Author: Jure Demsar [cre, aut], Grega Repovs [aut], Erik Strumbelj [aut], Trustees of Columbia University [cph], John Kruschke [cph] , Rasmus Baath [cph]
Maintainer: Jure Demsar <jure.demsar@fri.uni-lj.si>

Diff between bayes4psy versions 1.2.8 dated 2021-09-27 and 1.2.11 dated 2023-03-22

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Package zyp updated to version 0.11-1 with previous version 0.11 dated 2023-01-26

Title: Zhang + Yue-Pilon Trends Package
Description: An efficient implementation of the slope method described by Sen (1968) <doi:10.1080/01621459.1968.10480934> plus implementation of prewhitening approaches to determining trends in climate data described by Zhang, Vincent, Hogg, and Niitsoo (2000) <doi:10.1080/07055900.2000.9649654> and Yue, Pilon, Phinney, and Cavadias (2002) <doi:10.1002/hyp.1095>.
Author: David Bronaugh [aut], Arelia Schoeneberg [aut], Lee Zeman [cre]
Maintainer: Lee Zeman <lzeman@uvic.ca>

Diff between zyp versions 0.11 dated 2023-01-26 and 0.11-1 dated 2023-03-22

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Package wTO updated to version 2.0.2 with previous version 2.0.1 dated 2022-05-24

Title: Computing Weighted Topological Overlaps (wTO) & Consensus wTO Network
Description: Computes the Weighted Topological Overlap with positive and negative signs (wTO) networks given a data frame containing the mRNA count/ expression/ abundance per sample, and a vector containing the interested nodes of interaction (a subset of the elements of the full data frame). It also computes the cut-off threshold or p-value based on the individuals bootstrap or the values reshuffle per individual. It also allows the construction of a consensus network, based on multiple wTO networks. The package includes a visualization tool for the networks. More about the methodology can be found at <arXiv:1711.04702>.
Author: Deisy Morselli Gysi, Andre Voigt, Tiago Miranda Fragoso, Eivind Almaas and Katja Nowick.
Maintainer: Deisy Morselli Gysi <deisy.ccnr@gmail.com>

Diff between wTO versions 2.0.1 dated 2022-05-24 and 2.0.2 dated 2023-03-22

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Package windAC updated to version 1.2.10 with previous version 1.2.9 dated 2022-09-09

Title: Area Correction Methods
Description: Post-construction fatality monitoring studies at wind facilities are based on data from searches for bird and bat carcasses in plots beneath turbines. Bird and bat carcasses can fall outside of the search plot. Bird and bat carcasses from wind turbines often fall outside of the searched area. To compensate, area correction (AC) estimations are calculated to estimate the percentage of fatalities that fall within the searched area versus those that fall outside of it. This package provides two likelihood based methods and one physics based method (Hull and Muir (2010) <doi:10.1080/14486563.2010.9725253>, Huso and Dalthorp (2014) <doi:10.1002/jwmg.663>) to estimate the carcass fall distribution. There are also functions for calculating the proportion of area searched within one unit annuli, log logistic distribution functions, and truncated distribution functions.
Author: Paul Rabie [aut], Daniel Riser-Espinoza [aut, cre], Trent McDonald [ctb]
Maintainer: Daniel Riser-Espinoza <despinoza@west-inc.com>

Diff between windAC versions 1.2.9 dated 2022-09-09 and 1.2.10 dated 2023-03-22

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Package varbvs updated to version 2.6-8 with previous version 2.5-16 dated 2019-03-07

Title: Large-Scale Bayesian Variable Selection Using Variational Methods
Description: Fast algorithms for fitting Bayesian variable selection models and computing Bayes factors, in which the outcome (or response variable) is modeled using a linear regression or a logistic regression. The algorithms are based on the variational approximations described in "Scalable variational inference for Bayesian variable selection in regression, and its accuracy in genetic association studies" (P. Carbonetto & M. Stephens, 2012, <DOI:10.1214/12-BA703>). This software has been applied to large data sets with over a million variables and thousands of samples.
Author: Peter Carbonetto [aut, cre], Matthew Stephens [aut], David Gerard [ctb]
Maintainer: Peter Carbonetto <peter.carbonetto@gmail.com>

Diff between varbvs versions 2.5-16 dated 2019-03-07 and 2.6-8 dated 2023-03-22

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New package PSAboot with initial version 1.3.6
Package: PSAboot
Title: Bootstrapping for Propensity Score Analysis
Version: 1.3.6
Date: 2023-03-21
Maintainer: Jason Bryer <jason@bryer.org>
Description: It is often advantageous to test a hypothesis more than once in the context of propensity score analysis (Rosenbaum, 2012) <doi:10.1093/biomet/ass032>. The functions in this package facilitate bootstrapping for propensity score analysis (PSA). By default, bootstrapping using two classification tree methods (using 'rpart' and 'ctree' functions), two matching methods (using 'Matching' and 'MatchIt' packages), and stratification with logistic regression. A framework is described for users to implement additional propensity score methods. Visualizations are emphasized for diagnosing balance; exploring the correlation relationships between bootstrap samples and methods; and to summarize results.
License: GPL
URL: https://github.com/jbryer/PSAboot
BugReports: https://github.com/jbryer/PSAboot/issues
Depends: ggplot2, graphics, PSAgraphics, R (>= 3.0)
Imports: ggthemes, Matching, MatchIt, modeltools, parallel, party, psych, reshape2, rpart, stats, TriMatch, utils
Suggests: knitr, rmarkdown
VignetteBuilder: knitr
Encoding: UTF-8
LazyLoad: yes
NeedsCompilation: no
Packaged: 2023-03-22 13:53:57 UTC; jbryer
Author: Jason Bryer [aut, cre]
Repository: CRAN
Date/Publication: 2023-03-22 19:50:05 UTC

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New package morf with initial version 1.0.0
Package: morf
Title: Modified Ordered Random Forest
Version: 1.0.0
Description: Nonparametric estimator of the ordered choice model using random forests. The estimator modifies a standard random forest splitting criterion to build a collection of forests, each estimating the conditional probability of a single class. The package also implements a nonparametric estimator of the covariates’ marginal effects.
License: GPL-3
Encoding: UTF-8
Depends: R (>= 3.1)
Imports: Rcpp, Matrix, stats, utils, stringr, orf
LinkingTo: Rcpp, RcppEigen
Suggests: knitr, rmarkdown, testthat (>= 3.0.0)
VignetteBuilder: knitr
URL: https://riccardo-df.github.io/morf/
Biarch: TRUE
NeedsCompilation: yes
Packaged: 2023-03-22 07:38:35 UTC; difra
Author: Riccardo Di Francesco [aut, cre]
Maintainer: Riccardo Di Francesco <difrancesco.riccardo96@gmail.com>
Repository: CRAN
Date/Publication: 2023-03-22 19:40:06 UTC

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New package ggFishPlots with initial version 0.2.2
Package: ggFishPlots
Title: Visualise and Calculate Life History Parameters for Fisheries Science using 'ggplot2'
Version: 0.2.2
Date: 2023-03-21
URL: https://github.com/DeepWaterIMR/ggFishPlots
BugReports: https://github.com/DeepWaterIMR/ggFishPlots/issues
Description: Contains functions to create life history parameter plots from raw data. The plots are created using 'ggplot2', and calculations done using the 'tidyverse' collection of packages. The package contains references to FishBase (Froese R., Pauly. D., 2023) <https://www.fishbase.se/>.
Depends: R (>= 3.5.0), ggplot2
Imports: dplyr, tibble, tidyr, ggridges, fishmethods, broom, rlang, tidyselect, magrittr, ggrepel
Suggests: knitr, rmarkdown
License: GPL-3
Encoding: UTF-8
NeedsCompilation: no
Packaged: 2023-03-22 10:54:34 UTC; a22357
Author: Mikko Vihtakari [aut, cre]
Maintainer: Mikko Vihtakari <mikko.vihtakari@hi.no>
Repository: CRAN
Date/Publication: 2023-03-22 19:40:10 UTC

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Package esreg updated to version 0.6.1 with previous version 0.6.0 dated 2022-04-09

Title: Joint Quantile and Expected Shortfall Regression
Description: Simultaneous modeling of the quantile and the expected shortfall of a response variable given a set of covariates, see Dimitriadis and Bayer (2019) <doi:10.1214/19-EJS1560>.
Author: Sebastian Bayer [aut, cre], Timo Dimitriadis [aut]
Maintainer: Sebastian Bayer <sebastian.bayer@uni-konstanz.de>

Diff between esreg versions 0.6.0 dated 2022-04-09 and 0.6.1 dated 2023-03-22

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New package csranks with initial version 1.0.1
Package: csranks
Title: Confidence Sets for Ranks
Version: 1.0.1
Description: Construct confidence sets for positions of populations in a ranking based on values of a certain feature and their estimation errors. Both simultaneous and marginal confidence sets are available, as well as confidence sets with populations occupying top-n positions in the ranking. Theory based on Mogstad, Romano, Shaikh, and Wilhelm (2023)<doi:10.1093/restud/rdad006>.
License: MIT + file LICENSE
Encoding: UTF-8
LazyData: true
URL: https://github.com/danielwilhelm/R-CS-ranks, https://danielwilhelm.github.io/R-CS-ranks/
BugReports: https://github.com/danielwilhelm/R-CS-ranks/issues
Depends: R (>= 3.5.0)
Imports: stats, ggplot2, scales, MASS, cli
Suggests: spelling, testthat (>= 2.1.0), grid, knitr, rmarkdown
VignetteBuilder: knitr
Language: en-US
NeedsCompilation: no
Packaged: 2023-03-22 10:11:43 UTC; mrdomani
Author: Daniel Wilhelm [aut, cre], Pawel Morgen [aut]
Maintainer: Daniel Wilhelm <d.wilhelm@ucl.ac.uk>
Repository: CRAN
Date/Publication: 2023-03-22 19:40:13 UTC

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Package RISCA updated to version 1.0.4 with previous version 1.0.3 dated 2022-11-21

Title: Causal Inference and Prediction in Cohort-Based Analyses
Description: Numerous functions for cohort-based analyses, either for prediction or causal inference. For causal inference, it includes Inverse Probability Weighting and G-computation for marginal estimation of an exposure effect when confounders are expected. We deal with binary outcomes, times-to-events, competing events, and multi-state data. For multistate data, semi-Markov model with interval censoring may be considered, and we propose the possibility to consider the excess of mortality related to the disease compared to reference lifetime tables. For predictive studies, we propose a set of functions to estimate time-dependent receiver operating characteristic (ROC) curves with the possible consideration of right-censoring times-to-events or the presence of confounders. Finally, several functions are available to assess time-dependent ROC curves or survival curves from aggregated data.
Author: Yohann Foucher [aut, cre] , Florent Le Borgne [aut], Arthur Chatton [aut], Camille Sabathe [aut]
Maintainer: Yohann Foucher <Yohann.Foucher@univ-poitiers.fr>

Diff between RISCA versions 1.0.3 dated 2022-11-21 and 1.0.4 dated 2023-03-22

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Package fasstr updated to version 0.5.1 with previous version 0.5.0 dated 2022-10-21

Title: Analyze, Summarize, and Visualize Daily Streamflow Data
Description: The Flow Analysis Summary Statistics Tool for R, 'fasstr', provides various functions to tidy and screen daily stream discharge data, calculate and visualize various summary statistics and metrics, and compute annual trending and volume frequency analyses. It features useful function arguments for filtering of and handling dates, customizing data and metrics, and the ability to pull daily data directly from the Water Survey of Canada hydrometric database (<https://collaboration.cmc.ec.gc.ca/cmc/hydrometrics/www/>).
Author: Jon Goetz [aut, cre] , Carl James Schwarz [aut], Sam Albers [ctb] , Robin Pike [ctb], Province of British Columbia [cph]
Maintainer: Jon Goetz <jon.goetz@gov.bc.ca>

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Package descr updated to version 1.1.7 with previous version 1.1.6 dated 2023-03-08

Title: Descriptive Statistics
Description: Weighted frequency and contingency tables of categorical variables and of the comparison of the mean value of a numerical variable by the levels of a factor, and methods to produce xtable objects of the tables and to plot them. There are also functions to facilitate the character encoding conversion of objects, to quickly convert fixed width files into csv ones, and to export a data.frame to a text file with the necessary R and SPSS codes to reread the data.
Author: Jakson Aquino. Includes R source code and/or documentation written by Dirk Enzmann, Marc Schwartz, Nitin Jain, and Stefan Kraft
Maintainer: Jakson Aquino <jalvesaq@gmail.com>

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Package mggd updated to version 1.1.0 with previous version 1.0.2 dated 2022-06-13

Title: Multivariate Generalised Gaussian Distribution; Kullback-Leibler Divergence
Description: Distance between multivariate generalised Gaussian distributions, as presented by N. Bouhlel and A. Dziri (2019) <doi:10.1109/LSP.2019.2915000>. Manipulation of multivariate generalised Gaussian distributions (methods presented by Gomez, Gomez-Villegas and Marin (1998) <doi:10.1080/03610929808832115> and Pascal, Bombrun, Tourneret and Berthoumieu (2013) <doi:10.1109/TSP.2013.2282909>).
Author: Pierre Santagostini [aut, cre], Nizar Bouhlel [aut]
Maintainer: Pierre Santagostini <pierre.santagostini@agrocampus-ouest.fr>

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Package glmertree updated to version 0.2-3 with previous version 0.2-0 dated 2019-11-19

Title: Generalized Linear Mixed Model Trees
Description: Recursive partitioning based on (generalized) linear mixed models (GLMMs) combining lmer()/glmer() from 'lme4' and lmtree()/glmtree() from 'partykit'. The fitting algorithm is described in more detail in Fokkema, Smits, Zeileis, Hothorn & Kelderman (2018; <DOI:10.3758/s13428-017-0971-x>).
Author: Marjolein Fokkema [aut, cre], Achim Zeileis [aut]
Maintainer: Marjolein Fokkema <M.Fokkema@fsw.leidenuniv.nl>

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Package eive updated to version 3.1.1 with previous version 3.1.0 dated 2022-08-05

Title: An Algorithm for Reducing Errors-in-Variable Bias in Simple and Multiple Linear Regression
Description: Performs a compact genetic algorithm search to reduce errors-in-variables bias in linear regression. The algorithm estimates the regression parameters with lower biases and higher variances but mean-square errors (MSEs) are reduced.
Author: Mehmet Hakan Satman , Erkin Diyarbakirlioglu
Maintainer: Mehmet Hakan Satman <mhsatman@istanbul.edu.tr>

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Package adlift updated to version 1.4-5 with previous version 1.4-4 dated 2022-11-06

Title: An Adaptive Lifting Scheme Algorithm
Description: Adaptive wavelet lifting transforms for signal denoising using optimal local neighbourhood regression, from Nunes et al. (2006) <doi:10.1007/s11222-006-6560-y>.
Author: Matt Nunes [aut, cre], Marina Knight [aut], Guy Nason [ctb, ths]
Maintainer: Matt Nunes <nunesrpackages@gmail.com>

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Package VBLPCM updated to version 2.4.9 with previous version 2.4.8 dated 2021-10-06

Title: Variational Bayes Latent Position Cluster Model for Networks
Description: Fit and simulate latent position and cluster models for network data, using a fast Variational Bayes approximation developed in Salter-Townshend and Murphy (2013) <doi:10.1016/j.csda.2012.08.004>.
Author: Michael Salter-Townshend
Maintainer: Michael Salter-Townshend <mike.saltertownshend@gmail.com>

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Package systemfit updated to version 1.1-30 with previous version 1.1-28 dated 2022-09-04

Title: Estimating Systems of Simultaneous Equations
Description: Econometric estimation of simultaneous systems of linear and nonlinear equations using Ordinary Least Squares (OLS), Weighted Least Squares (WLS), Seemingly Unrelated Regressions (SUR), Two-Stage Least Squares (2SLS), Weighted Two-Stage Least Squares (W2SLS), and Three-Stage Least Squares (3SLS) as suggested, e.g., by Zellner (1962) <doi:10.2307/2281644>, Zellner and Theil (1962) <doi:10.2307/1911287>, and Schmidt (1990) <doi:10.1016/0304-4076(90)90127-F>.
Author: Arne Henningsen and Jeff D. Hamann
Maintainer: Arne Henningsen <arne.henningsen@gmail.com>

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Package stepmixr updated to version 0.1.1 with previous version 0.1.0 dated 2022-11-18

Title: Interface to 'Python' Package 'StepMix'
Description: This is an interface for the 'Python' package 'StepMix'. It is a 'Python' package following the scikit-learn API for model-based clustering and generalized mixture modeling (latent class/profile analysis) of continuous and categorical data. 'StepMix' handles missing values through Full Information Maximum Likelihood (FIML) and provides multiple stepwise Expectation-Maximization (EM) estimation methods based on pseudolikelihood theory. Additional features include support for covariates and distal outcomes, various simulation utilities, and non-parametric bootstrapping, which allows inference in semi-supervised and unsupervised settings.
Author: Éric Lacourse [aut], Roxane de la Sablonniere [aut], Charles-Édouard Giguere [aut, cre], Sacha Morin [aut], Robin Legault [aut], Zsusza Bakk [ctb]
Maintainer: Charles-Édouard Giguere <ce.giguere@gmail.com>

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Package smurf updated to version 1.1.5 with previous version 1.1.4 dated 2023-01-30

Title: Sparse Multi-Type Regularized Feature Modeling
Description: Implementation of the SMuRF algorithm of Devriendt et al. (2021) <doi:10.1016/j.insmatheco.2020.11.010> to fit generalized linear models (GLMs) with multiple types of predictors via regularized maximum likelihood.
Author: Tom Reynkens [aut, cre] , Sander Devriendt [aut], Katrien Antonio [aut]
Maintainer: Tom Reynkens <tomreynkens@hotmail.com>

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Package sharpshootR updated to version 2.1 with previous version 2.0 dated 2023-01-06

Title: A Soil Survey Toolkit
Description: Miscellaneous soil data management, summary, visualization, and conversion utilities to support soil survey.
Author: Dylan Beaudette [cre, aut], Jay Skovlin [aut], Stephen Roecker [aut], Andrew Brown [aut], USDA-NRCS Soil Survey Staff [ctb]
Maintainer: Dylan Beaudette <dylan.beaudette@usda.gov>

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Package sfnetworks updated to version 0.6.3 with previous version 0.6.2 dated 2023-02-26

Title: Tidy Geospatial Networks
Description: Provides a tidy approach to spatial network analysis, in the form of classes and functions that enable a seamless interaction between the network analysis package 'tidygraph' and the spatial analysis package 'sf'.
Author: Lucas van der Meer [aut, cre] , Lorena Abad [aut] , Andrea Gilardi [aut] , Robin Lovelace [aut]
Maintainer: Lucas van der Meer <luukvandermeer@live.nl>

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Package rD3plot updated to version 1.0.68 with previous version 1.0.25 dated 2021-10-28

Title: Interactive Networks, Timelines, Barplots, Galleries with 'D3.js'
Description: Creates interactive analytic graphs with 'R'. It joins the data analysis power of R and the visualization libraries of JavaScript in one package. The package provides interactive networks, timelines, barplots, image galleries and evolving networks. Graphs are represented as 'D3.js' graphs embedded in a web page ready for its interactive analysis and exploration.
Author: Modesto Escobar [aut, cph, cre] , Carlos Prieto [aut] , David Barrios [aut]
Maintainer: Modesto Escobar <modesto@usal.es>

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Package MHCtools updated to version 1.5.1 with previous version 1.5.0 dated 2022-10-19

Title: Analysis of MHC Data in Non-Model Species
Description: Fifteen tools for bioinformatics processing and analysis of major histocompatibility complex (MHC) data. The functions are tailored for amplicon data sets that have been filtered using the dada2 method (for more information on dada2, visit <https://benjjneb.github.io/dada2/> ), but even other types of data sets can be analyzed. The ReplMatch() function matches replicates in data sets in order to evaluate genotyping success. The GetReplTable() and GetReplStats() functions perform such an evaluation. The CreateFas() function creates a fasta file with all the sequences in the data set. The CreateSamplesFas() function creates individual fasta files for each sample in the data set. The DistCalc() function calculates Grantham, Sandberg, or p-distances from pairwise comparisons of all sequences in a data set, and mean distances of all pairwise comparisons within each sample in a data set. The function additionally outputs five tables with physico-chemical z-descriptor values (based on S [...truncated...]
Author: Jacob Roved [aut, cre]
Maintainer: Jacob Roved <jacob.roved@biol.lu.se>

Diff between MHCtools versions 1.5.0 dated 2022-10-19 and 1.5.1 dated 2023-03-22

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More information about MHCtools at CRAN
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Package htetree updated to version 0.1.14 with previous version 0.1.13 dated 2023-03-21

Title: Causal Inference with Tree-Based Machine Learning Algorithms
Description: Estimating heterogeneous treatment effects with tree-based machine learning algorithms and visualizing estimated results in flexible and presentation-ready ways. For more information, see Brand, Xu, Koch, and Geraldo (2021) <doi:10.1177/0081175021993503>. Our current package first started as a fork of the 'causalTree' package on 'GitHub' and we greatly appreciate the authors for their extremely useful and free package.
Author: Jiahui Xu [cre, aut], Tanvi Shinkre [aut], Jennie Brand [aut]
Maintainer: Jiahui Xu <jiahuixu@ucla.edu>

Diff between htetree versions 0.1.13 dated 2023-03-21 and 0.1.14 dated 2023-03-22

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More information about htetree at CRAN
Permanent link

New package HDPenReg with initial version 0.94.9
Package: HDPenReg
Version: 0.94.9
Date: 2023-03-22
Encoding: UTF-8
Title: High-Dimensional Penalized Regression
Copyright: Inria - Université de Lille
BugReports: https://github.com/modal-inria/HDPenReg/issues
Depends: R (>= 3.0.2), rtkore (>= 1.6.7)
Imports: methods, Matrix
Description: Algorithms for lasso and fused-lasso problems: C++ implementation of the 'lars' algorithm for lasso and fusion penalization <doi:10.1214/009053604000000067>, and EM-based algorithms for (logistic) lasso and fused-lasso penalization.
License: GPL (>= 2)
LinkingTo: rtkore, Rcpp
SystemRequirements: GNU make
NeedsCompilation: yes
Packaged: 2023-03-22 10:52:51 UTC; quentin
Author: Quentin Grimonprez [aut, cre], Serge Iovleff [aut]
Maintainer: Quentin Grimonprez <quentingrim@yahoo.fr>
Repository: CRAN
Date/Publication: 2023-03-22 16:50:21 UTC

More information about HDPenReg at CRAN
Permanent link

New package evolqg with initial version 0.3-2
Package: evolqg
Title: Evolutionary Quantitative Genetics
Version: 0.3-2
Date: 2023-03-21
Description: Provides functions for covariance matrix comparisons, estimation of repeatabilities in measurements and matrices, and general evolutionary quantitative genetics tools. Melo D, Garcia G, Hubbe A, Assis A P, Marroig G. (2016) <doi:10.12688/f1000research.7082.3>.
Depends: R (>= 4.1.0), plyr (>= 1.7.1)
Imports: Matrix, reshape2, ggplot2, vegan, ape, expm, numDeriv, Morpho, mvtnorm, coda, igraph, MCMCpack, graphics, grDevices, methods, stats, utils
Suggests: dplyr, testthat, foreach, grid, gridExtra, doParallel, cowplot
LinkingTo: Rcpp, RcppArmadillo
License: MIT + file LICENSE
BugReports: https://github.com/lem-usp/evolqg/issues
Encoding: UTF-8
NeedsCompilation: yes
Packaged: 2023-03-22 01:50:23 UTC; diogro
Author: Diogo Melo [aut, cre] , Ana Paula Assis [aut], Edgar Zanella [ctb], Fabio Andrade Machado [aut] , Guilherme Garcia [aut], Alex Hubbe [rev] , Gabriel Marroig [ths]
Maintainer: Diogo Melo <diogro@gmail.com>
Repository: CRAN
Date/Publication: 2023-03-22 16:50:17 UTC

More information about evolqg at CRAN
Permanent link

Package datawizard updated to version 0.7.0 with previous version 0.6.5 dated 2022-12-14

Title: Easy Data Wrangling and Statistical Transformations
Description: A lightweight package to assist in key steps involved in any data analysis workflow: (1) wrangling the raw data to get it in the needed form, (2) applying preprocessing steps and statistical transformations, and (3) compute statistical summaries of data properties and distributions. It is also the data wrangling backend for packages in 'easystats' ecosystem. References: Patil et al. (2022) <doi:10.21105/joss.04684>.
Author: Indrajeet Patil [aut] , Etienne Bacher [aut, cre] , Dominique Makowski [aut] , Daniel Luedecke [aut] , Mattan S. Ben-Shachar [aut] , Brenton M. Wiernik [aut] , Remi Theriault [ctb] , Thomas J. Faulkenberry [rev], Robert Garrett [rev]
Maintainer: Etienne Bacher <etienne.bacher@protonmail.com>

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Permanent link

Package MuMIn updated to version 1.47.5 with previous version 1.47.1 dated 2022-08-31

Title: Multi-Model Inference
Description: Tools for performing model selection and model averaging. Automated model selection through subsetting the maximum model, with optional constraints for model inclusion. Model parameter and prediction averaging based on model weights derived from information criteria (AICc and alike) or custom model weighting schemes.
Author: Kamil Barton
Maintainer: Kamil Barton <kamil.barton@go2.pl>

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Package fable updated to version 0.3.3 with previous version 0.3.2 dated 2022-09-01

Title: Forecasting Models for Tidy Time Series
Description: Provides a collection of commonly used univariate and multivariate time series forecasting models including automatically selected exponential smoothing (ETS) and autoregressive integrated moving average (ARIMA) models. These models work within the 'fable' framework provided by the 'fabletools' package, which provides the tools to evaluate, visualise, and combine models in a workflow consistent with the tidyverse.
Author: Mitchell O'Hara-Wild [aut, cre], Rob Hyndman [aut], Earo Wang [aut], Gabriel Caceres [ctb] , Christoph Bergmeir [ctb] , Tim-Gunnar Hensel [ctb], Timothy Hyndman [ctb]
Maintainer: Mitchell O'Hara-Wild <mail@mitchelloharawild.com>

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Package xgxr updated to version 1.1.2 with previous version 1.1.1 dated 2021-04-22

Title: Exploratory Graphics for Pharmacometrics
Description: Supports a structured approach for exploring PKPD data <https://opensource.nibr.com/xgx/>. It also contains helper functions for enabling the modeler to follow best R practices (by appending the program name, figure name location, and draft status to each plot). In addition, it enables the modeler to follow best graphical practices (by providing a theme that reduces chart ink, and by providing time-scale, log-scale, and reverse-log-transform-scale functions for more readable axes). Finally, it provides some data checking and summarizing functions for rapidly exploring pharmacokinetics and pharmacodynamics (PKPD) datasets.
Author: Andrew Stein [aut, cre], Alison Margolskee [aut], Fariba Khanshan [aut], Konstantin Krismer [aut] , Matthew Fidler [ctb] , Novartis Pharma AG [cph, fnd]
Maintainer: Andrew Stein <andy.stein@gmail.com>

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Package SAEval updated to version 1.0.0 with previous version 0.1.5 dated 2022-05-16

Title: Small Area Estimation Evaluation
Description: Allows users to produce diagnostic procedures and graphic tools for the evaluation of Small Area estimators.
Author: Andrea Fasulo [aut, cre]
Maintainer: Andrea Fasulo <fasulo@istat.it>

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Package meteospain updated to version 0.1.2 with previous version 0.1.1 dated 2023-02-14

Title: Access to Spanish Meteorological Stations Services
Description: Access to different Spanish meteorological stations data services and APIs (AEMET, SMC, MG, Meteoclimatic...).
Author: Victor Granda [aut, cre] , Miquel de Caceres [ctb] , Aitor Ameztegui [ctb] , Luis Franco [ctb]
Maintainer: Victor Granda <victorgrandagarcia@gmail.com>

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Package feasts updated to version 0.3.1 with previous version 0.3.0 dated 2022-09-01

Title: Feature Extraction and Statistics for Time Series
Description: Provides a collection of features, decomposition methods, statistical summaries and graphics functions for the analysing tidy time series data. The package name 'feasts' is an acronym comprising of its key features: Feature Extraction And Statistics for Time Series.
Author: Mitchell O'Hara-Wild [aut, cre], Rob Hyndman [aut], Earo Wang [aut], Di Cook [ctb], Thiyanga Talagala [ctb] , Leanne Chhay [ctb]
Maintainer: Mitchell O'Hara-Wild <mail@mitchelloharawild.com>

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Package distributional updated to version 0.3.2 with previous version 0.3.1 dated 2022-09-02

Title: Vectorised Probability Distributions
Description: Vectorised distribution objects with tools for manipulating, visualising, and using probability distributions. Designed to allow model prediction outputs to return distributions rather than their parameters, allowing users to directly interact with predictive distributions in a data-oriented workflow. In addition to providing generic replacements for p/d/q/r functions, other useful statistics can be computed including means, variances, intervals, and highest density regions.
Author: Mitchell O'Hara-Wild [aut, cre] , Matthew Kay [aut] , Alex Hayes [aut] , Earo Wang [ctb]
Maintainer: Mitchell O'Hara-Wild <mail@mitchelloharawild.com>

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Package spatialTIME updated to version 1.3.3-3 with previous version 1.2.2 dated 2022-11-22

Title: Spatial Analysis of Vectra Immunoflourescent Data
Description: Visualization and analysis of Vectra Immunoflourescent data. Options for calculating both the univariate and bivariate Ripley's K are included. Calculations are performed using a permutation-based approach presented by Wilson et al. <doi:10.1101/2021.04.27.21256104>.
Author: Jordan Creed [aut], Ram Thapa [aut], Christopher Wilson [aut], Alex Soupir [aut], Oscar Ospina [aut], Julia Wrobel [aut], Brooke Fridley [cph], Fridley Lab [cre]
Maintainer: Fridley Lab <fridley.lab@moffitt.org>

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Package sparklyr updated to version 1.8.1 with previous version 1.8.0 dated 2023-03-06

Title: R Interface to Apache Spark
Description: R interface to Apache Spark, a fast and general engine for big data processing, see <https://spark.apache.org/>. This package supports connecting to local and remote Apache Spark clusters, provides a 'dplyr' compatible back-end, and provides an interface to Spark's built-in machine learning algorithms.
Author: Javier Luraschi [aut], Kevin Kuo [aut] , Kevin Ushey [aut], JJ Allaire [aut], Samuel Macedo [ctb], Hossein Falaki [aut], Lu Wang [aut], Andy Zhang [aut], Yitao Li [aut] , Jozef Hajnala [ctb], Maciej Szymkiewicz [ctb] , Wil Davis [ctb], Edgar Ruiz [au [...truncated...]
Maintainer: Edgar Ruiz <edgar@rstudio.com>

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Package report updated to version 0.5.7 with previous version 0.5.6 dated 2023-02-05

Title: Automated Reporting of Results and Statistical Models
Description: The aim of the 'report' package is to bridge the gap between R’s output and the formatted results contained in your manuscript. This package converts statistical models and data frames into textual reports suited for publication, ensuring standardization and quality in results reporting.
Author: Dominique Makowski [aut] , Daniel Luedecke [aut] , Indrajeet Patil [aut] , Remi Theriault [aut, cre] , Mattan S. Ben-Shachar [aut] , Brenton M. Wiernik [aut] , Rudolf Siegel [ctb]
Maintainer: Remi Theriault <remi.theriault@mail.mcgill.ca>

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Package peperr updated to version 1.5 with previous version 1.4 dated 2022-03-03

Title: Parallelised Estimation of Prediction Error
Description: Designed for prediction error estimation through resampling techniques, possibly accelerated by parallel execution on a compute cluster. Newly developed model fitting routines can be easily incorporated. Methods used in the package are detailed in Porzelius Ch., Binder H. and Schumacher M. (2009) <doi:10.1093/bioinformatics/btp062> and were used, for instance, in Porzelius Ch., Schumacher M.and Binder H. (2011) <doi:10.1007/s00180-011-0236-6>.
Author: Christine Porzelius, Harald Binder
Maintainer: Frederic Bertrand <frederic.bertrand@utt.fr>

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Package pchc updated to version 0.9 with previous version 0.8 dated 2022-06-18

Title: Bayesian Network Learning with the PCHC and Related Algorithms
Description: Bayesian network learning using the PCHC algorithm. PCHC stands for PC Hill-Climbing, a new hybrid algorithm that uses PC to construct the skeleton of the BN and then applies the Hill-Climbing greedy search. More algorithms and variants have been added, such as MMHC, FEDHC, and the Tabu search variants, PCTABU, MMTABU and FEDTABU. The relevant papers are a) Tsagris M. (2021). A new scalable Bayesian network learning algorithm with applications to economics. Computational Economics, 57(1): 341-367. <doi:10.1007/s10614-020-10065-7>. b) Tsagris M. (2022). The FEDHC Bayesian Network Learning Algorithm. Mathematics 2022, 10(15), 2604. <doi:10.3390/math10152604>.
Author: Michail Tsagris [aut, cre]
Maintainer: Michail Tsagris <mtsagris@uoc.gr>

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Package multidplyr updated to version 0.1.3 with previous version 0.1.2 dated 2022-09-26

Title: A Multi-Process 'dplyr' Backend
Description: Partition a data frame across multiple worker processes to provide simple multicore parallelism.
Author: Hadley Wickham [aut, cre], Posit Software, PBC [cph, fnd]
Maintainer: Hadley Wickham <hadley@posit.co>

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Package MatchIt updated to version 4.5.2 with previous version 4.5.1 dated 2023-02-23

Title: Nonparametric Preprocessing for Parametric Causal Inference
Description: Selects matched samples of the original treated and control groups with similar covariate distributions -- can be used to match exactly on covariates, to match on propensity scores, or perform a variety of other matching procedures. The package also implements a series of recommendations offered in Ho, Imai, King, and Stuart (2007) <DOI:10.1093/pan/mpl013>. (The 'gurobi' package, which is not on CRAN, is optional and comes with an installation of the Gurobi Optimizer, available at <https://www.gurobi.com>.)
Author: Daniel Ho [aut] , Kosuke Imai [aut] , Gary King [aut] , Elizabeth Stuart [aut] , Alex Whitworth [ctb], Noah Greifer [cre, aut]
Maintainer: Noah Greifer <noah.greifer@gmail.com>

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More information about MatchIt at CRAN
Permanent link

Package marqLevAlg updated to version 2.0.8 with previous version 2.0.7 dated 2022-07-08

Title: A Parallelized General-Purpose Optimization Based on Marquardt-Levenberg Algorithm
Description: This algorithm provides a numerical solution to the problem of unconstrained local minimization (or maximization). It is particularly suited for complex problems and more efficient than the Gauss-Newton-like algorithm when starting from points very far from the final minimum (or maximum). Each iteration is parallelized and convergence relies on a stringent stopping criterion based on the first and second derivatives. See Philipps et al, 2021 <doi:10.32614/RJ-2021-089>.
Author: Viviane Philipps, Cecile Proust-Lima, Melanie Prague, Boris Hejblum, Daniel Commenges, Amadou Diakite
Maintainer: Viviane Philipps <viviane.philipps@u-bordeaux.fr>

Diff between marqLevAlg versions 2.0.7 dated 2022-07-08 and 2.0.8 dated 2023-03-22

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Permanent link

Package googledrive updated to version 2.1.0 with previous version 2.0.0 dated 2021-07-08

Title: An Interface to Google Drive
Description: Manage Google Drive files from R.
Author: Lucy D'Agostino McGowan [aut], Jennifer Bryan [aut, cre] , Posit Software, PBC [cph, fnd]
Maintainer: Jennifer Bryan <jenny@posit.co>

Diff between googledrive versions 2.0.0 dated 2021-07-08 and 2.1.0 dated 2023-03-22

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 googledrive-2.1.0/googledrive/LICENSE                                                        |    4 
 googledrive-2.1.0/googledrive/MD5                                                            |  224 +++++-----
 googledrive-2.1.0/googledrive/NAMESPACE                                                      |    1 
 googledrive-2.1.0/googledrive/NEWS.md                                                        |   32 +
 googledrive-2.1.0/googledrive/R/camelCase.R                                                  |    2 
 googledrive-2.1.0/googledrive/R/compat-vctrs.R                                               |    2 
 googledrive-2.1.0/googledrive/R/deprecated.R                                                 |   61 ++
 googledrive-2.1.0/googledrive/R/dribble.R                                                    |   13 
 googledrive-2.1.0/googledrive/R/drive_auth.R                                                 |  111 ++--
 googledrive-2.1.0/googledrive/R/drive_browse.R                                               |    4 
 googledrive-2.1.0/googledrive/R/drive_cp.R                                                   |    2 
 googledrive-2.1.0/googledrive/R/drive_create.R                                               |    5 
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 googledrive-2.1.0/googledrive/R/drive_find.R                                                 |   14 
 googledrive-2.1.0/googledrive/R/drive_get.R                                                  |    6 
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 googledrive-2.1.0/googledrive/R/drive_id-class.R                                             |  109 ++--
 googledrive-2.1.0/googledrive/R/drive_ls.R                                                   |   15 
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 googledrive-2.1.0/googledrive/R/drive_put.R                                                  |    2 
 googledrive-2.1.0/googledrive/R/drive_rename.R                                               |    6 
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 googledrive-2.1.0/googledrive/R/drive_rm.R                                                   |    2 
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 googledrive-2.1.0/googledrive/R/request_make.R                                               |    2 
 googledrive-2.1.0/googledrive/R/shared_drive_create.R                                        |    2 
 googledrive-2.1.0/googledrive/R/shared_drive_find.R                                          |    4 
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 googledrive-2.1.0/googledrive/R/shared_drive_update.R                                        |    8 
 googledrive-2.1.0/googledrive/R/shared_drives.R                                              |    4 
 googledrive-2.1.0/googledrive/R/shortcut.R                                                   |   10 
 googledrive-2.1.0/googledrive/R/team_drive.R                                                 |    4 
 googledrive-2.1.0/googledrive/R/utils-io.R                                                   |    4 
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 googledrive-2.1.0/googledrive/R/utils-ui.R                                                   |   48 +-
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 googledrive-2.1.0/googledrive/tests/testthat/_snaps/drive_auth.md                            |    7 
 googledrive-2.1.0/googledrive/tests/testthat/_snaps/drive_cp.md                              |   21 
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 googledrive-2.1.0/googledrive/tests/testthat/_snaps/drive_id-class.md                        |  106 ++--
 googledrive-2.1.0/googledrive/tests/testthat/_snaps/drive_ls.md                              |    5 
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 googledrive-2.1.0/googledrive/tests/testthat/_snaps/shared_drives.md                         |   30 -
 googledrive-2.1.0/googledrive/tests/testthat/_snaps/shortcut.md                              |    6 
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 googledrive-2.1.0/googledrive/tests/testthat/helper.R                                        |    4 
 googledrive-2.1.0/googledrive/tests/testthat/test-compat-dplyr.R                             |    5 
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 googledrive-2.1.0/googledrive/tests/testthat/test-drive_download.R                           |    2 
 googledrive-2.1.0/googledrive/tests/testthat/test-drive_get_path.R                           |   18 
 googledrive-2.1.0/googledrive/tests/testthat/test-drive_id-class.R                           |    2 
 googledrive-2.1.0/googledrive/tests/testthat/test-drive_mv.R                                 |    4 
 googledrive-2.1.0/googledrive/tests/testthat/test-drive_upload.R                             |    4 
 googledrive-2.1.0/googledrive/tests/testthat/test-utils-paths.R                              |    3 
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More information about googledrive at CRAN
Permanent link

Package GIGrvg updated to version 0.8 with previous version 0.7 dated 2022-05-05

Title: Random Variate Generator for the GIG Distribution
Description: Generator and density function for the Generalized Inverse Gaussian (GIG) distribution.
Author: Josef Leydold and Wolfgang Hormann
Maintainer: Josef Leydold <josef.leydold@wu.ac.at>

Diff between GIGrvg versions 0.7 dated 2022-05-05 and 0.8 dated 2023-03-22

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Package dtplyr updated to version 1.3.1 with previous version 1.3.0 dated 2023-02-24

Title: Data Table Back-End for 'dplyr'
Description: Provides a data.table backend for 'dplyr'. The goal of 'dtplyr' is to allow you to write 'dplyr' code that is automatically translated to the equivalent, but usually much faster, data.table code.
Author: Hadley Wickham [cre, aut], Maximilian Girlich [aut], Mark Fairbanks [aut], Ryan Dickerson [aut], Posit Software, PBC [cph, fnd]
Maintainer: Hadley Wickham <hadley@posit.co>

Diff between dtplyr versions 1.3.0 dated 2023-02-24 and 1.3.1 dated 2023-03-22

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Package dplyr updated to version 1.1.1 with previous version 1.1.0 dated 2023-01-29

Title: A Grammar of Data Manipulation
Description: A fast, consistent tool for working with data frame like objects, both in memory and out of memory.
Author: Hadley Wickham [aut, cre] , Romain Francois [aut] , Lionel Henry [aut], Kirill Mueller [aut] , Davis Vaughan [aut] , Posit Software, PBC [cph, fnd]
Maintainer: Hadley Wickham <hadley@posit.co>

Diff between dplyr versions 1.1.0 dated 2023-01-29 and 1.1.1 dated 2023-03-22

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Package crunch updated to version 1.30.2 with previous version 1.30.1 dated 2022-11-16

Title: Crunch.io Data Tools
Description: The Crunch.io service <https://crunch.io/> provides a cloud-based data store and analytic engine, as well as an intuitive web interface. Using this package, analysts can interact with and manipulate Crunch datasets from within R. Importantly, this allows technical researchers to collaborate naturally with team members, managers, and clients who prefer a point-and-click interface.
Author: Greg Freedman Ellis [aut, cre], Jonathan Keane [aut], Mike Malecki [aut], Neal Richardson [aut], Gordon Shotwell [aut], Aljaz Sluga [aut]
Maintainer: Greg Freedman Ellis <greg@crunch.io>

Diff between crunch versions 1.30.1 dated 2022-11-16 and 1.30.2 dated 2023-03-22

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Package xoi updated to version 0.72 with previous version 0.70 dated 2022-01-21

Title: Tools for Analyzing Crossover Interference
Description: Analysis of crossover interference in experimental crosses, particularly regarding the gamma model. See, for example, Broman and Weber (2000) <doi:10.1086/302923>.
Author: Karl W Broman [aut, cre] , Il-Youp Kwak [ctb]
Maintainer: Karl W Broman <broman@wisc.edu>

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Package stevemisc updated to version 1.6.0 with previous version 1.5.0 dated 2023-02-01

Title: Steve's Miscellaneous Functions
Description: These are miscellaneous functions that I find useful for my research and teaching. The contents include themes for plots, functions for simulating quantities of interest from regression models, functions for simulating various forms of fake data for instructional/research purposes, and many more. All told, the functions provided here are broadly useful for data organization, data presentation, data recoding, and data simulation.
Author: Steve Miller [aut, cre], Ben Bolker [ctb], Dave Armstrong [ctb], John Fox [ctb], Winston Chang [ctb], Brian Ripley [ctb], Bill Venables [ctb], Pascal van Kooten [ctb], Gerko Vink [ctb], Paul Williamson [ctb], Andreas Beger [ctb] , Vincent Arel-Bundoc [...truncated...]
Maintainer: Steve Miller <steven.v.miller@gmail.com>

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Package RcppSMC updated to version 0.2.7 with previous version 0.2.6 dated 2021-12-18

Title: Rcpp Bindings for Sequential Monte Carlo
Description: R access to the Sequential Monte Carlo Template Classes by Johansen <doi:10.18637/jss.v030.i06> is provided. At present, four additional examples have been added, and the first example from the JSS paper has been extended. Further integration and extensions are planned.
Author: Dirk Eddelbuettel, Adam M. Johansen, Leah F. South and Ilya Zarubin
Maintainer: Dirk Eddelbuettel <edd@debian.org>

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Package modelr updated to version 0.1.11 with previous version 0.1.10 dated 2022-11-11

Title: Modelling Functions that Work with the Pipe
Description: Functions for modelling that help you seamlessly integrate modelling into a pipeline of data manipulation and visualisation.
Author: Hadley Wickham [aut, cre], Posit Software, PBC [cph, fnd]
Maintainer: Hadley Wickham <hadley@posit.co>

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Package lessR updated to version 4.2.8 with previous version 4.2.6 dated 2023-02-12

Title: Less Code, More Results
Description: Each function accomplishes the work of multiple standard R functions. For example, two function calls, Read() and CountAll(), read the data and generate summary statistics for all variables in the data frame, plus histograms and bar charts as appropriate. Other functions provide for comprehensive summary statistics via pivot tables, a comprehensive regression analysis, ANOVA and t-test, visualizations including the Violin/Box/Scatter plot for a numerical variable, bar chart, histogram, box plot, density curves, calibrated power curve, reading multiple data formats with the same function call, variable labels, color themes, and Trellis graphics. Also includes a confirmatory factor analysis of multiple indicator measurement models, pedagogical routines for data simulation such as for the Central Limit Theorem, generation and rendering o regression instructions for interpretative output, and interactive visualizations.
Author: David Gerbing, The School of Business, Portland State University
Maintainer: David W. Gerbing <gerbing@pdx.edu>

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New package granova with initial version 2.2
Package: granova
Version: 2.2
Date: 2023-03-21
Title: Graphical Analysis of Variance
Author: Frederic Bertrand [cre] , Robert M. Pruzek [aut], James E. Helmreich [aut]
Maintainer: Frederic Bertrand <frederic.bertrand@utt.fr>
Depends: R (>= 3.1.1), car (>= 2.0-21)
Suggests: mgcv, rgl, tcltk, MASS
Description: This small collection of functions provides what we call elemental graphics for display of analysis of variance results, David C. Hoaglin, Frederick Mosteller and John W. Tukey (1991, ISBN:978-0-471-52735-0), Paul R. Rosenbaum (1989) <doi:10.2307/2684513>, Robert M. Pruzek and James E. Helmreich <https://jse.amstat.org/v17n1/helmreich.html>. The term elemental derives from the fact that each function is aimed at construction of graphical displays that afford direct visualizations of data with respect to the fundamental questions that drive the particular analysis of variance methods. These functions can be particularly helpful for students and non-statistician analysts. But these methods should be quite generally helpful for work-a-day applications of all kinds, as they can help to identify outliers, clusters or patterns, as well as highlight the role of non-linear transformations of data.
License: GPL (>= 2)
LazyLoad: yes
LazyData: yes
Encoding: UTF-8
NeedsCompilation: no
Packaged: 2023-03-22 10:55:25 UTC; fbertran
Repository: CRAN
Date/Publication: 2023-03-22 11:30:02 UTC

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Package chatgpt updated to version 0.2.2 with previous version 0.2.0 dated 2023-03-03

Title: Interface to 'ChatGPT' from R
Description: 'OpenAI's 'ChatGPT' <https://chat.openai.com/> coding assistant for 'RStudio'. A set of functions and 'RStudio' addins that aim to help the R developer in tedious coding tasks.
Author: Juan Cruz Rodriguez [aut, cre]
Maintainer: Juan Cruz Rodriguez <jcrodriguez@unc.edu.ar>

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Package contactdata updated to version 1.0.0 with previous version 0.2.0 dated 2021-02-19

Title: Social Contact Matrices for 177 Countries
Description: Data package for the supplementary data in Prem et al. (2017) <doi:10.1371/journal.pcbi.1005697> and Prem et al. <doi:10.1371/journal.pcbi.1009098>. Provides easy access to contact data for 177 countries, for use in epidemiological, demographic or social sciences research.
Author: Hugo Gruson [cre, aut, cph] , Kiesha Prem [dtc] , Alex Richard Cook [dtc] , Mark Jit [dtc]
Maintainer: Hugo Gruson <hugo.gruson+R@normalesup.org>

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Package BGData updated to version 2.4.1 with previous version 2.4.0 dated 2021-12-08

Title: A Suite of Packages for Analysis of Big Genomic Data
Description: An umbrella package providing a phenotype/genotype data structure and scalable and efficient computational methods for large genomic datasets in combination with several other packages: 'BEDMatrix', 'LinkedMatrix', and 'symDMatrix'.
Author: Gustavo de los Campos [aut], Alexander Grueneberg [aut, cre], Paulino Perez [ctb], Ana Vazquez [ctb]
Maintainer: Alexander Grueneberg <cran@agrueneberg.info>

Diff between BGData versions 2.4.0 dated 2021-12-08 and 2.4.1 dated 2023-03-22

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Package baggr updated to version 0.7.6 with previous version 0.7.4 dated 2023-01-06

Title: Bayesian Aggregate Treatment Effects
Description: Running and comparing meta-analyses of data with hierarchical Bayesian models in Stan, including convenience functions for formatting data, plotting and pooling measures specific to meta-analysis. This implements many models from Meager (2019) <doi:10.1257/app.20170299>.
Author: Witold Wiecek [cre, aut], Rachael Meager [aut], Brice Green [ctb] , Trustees of Columbia University [cph]
Maintainer: Witold Wiecek <witold.wiecek@gmail.com>

Diff between baggr versions 0.7.4 dated 2023-01-06 and 0.7.6 dated 2023-03-22

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Package vctrs updated to version 0.6.1 with previous version 0.6.0 dated 2023-03-15

Title: Vector Helpers
Description: Defines new notions of prototype and size that are used to provide tools for consistent and well-founded type-coercion and size-recycling, and are in turn connected to ideas of type- and size-stability useful for analysing function interfaces.
Author: Hadley Wickham [aut], Lionel Henry [aut], Davis Vaughan [aut, cre], data.table team [cph] and their contribution to R's order), Posit Software, PBC [cph, fnd]
Maintainer: Davis Vaughan <davis@posit.co>

Diff between vctrs versions 0.6.0 dated 2023-03-15 and 0.6.1 dated 2023-03-22

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Package rasterList updated to version 0.5.17 with previous version 0.5.14 dated 2022-11-30

Title: A Raster Where Cells are Generic Objects
Description: A S4 class has been created such that complex operations can be executed on each cells of a raster map. The raster of objects contains the traditional raster map with the addition of a list of generic objects: one object for each raster cells. It allows to write few lines of R code for complex map algebra. Two environmental applications about frequency analysis of raster map of precipitation and creation of a raster map of soil water retention curves have been presented.
Author: Emanuele Cordano [aut, cre]
Maintainer: Emanuele Cordano <emanuele.cordano@gmail.com>

Diff between rasterList versions 0.5.14 dated 2022-11-30 and 0.5.17 dated 2023-03-22

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New package quanteda.textmodels with initial version 0.9.6
Package: quanteda.textmodels
Title: Scaling Models and Classifiers for Textual Data
Version: 0.9.6
Description: Scaling models and classifiers for sparse matrix objects representing textual data in the form of a document-feature matrix. Includes original implementations of 'Laver', 'Benoit', and Garry's (2003) <doi:10.1017/S0003055403000698>, 'Wordscores' model, the Perry and 'Benoit' (2017) <arXiv:1710.08963> class affinity scaling model, and the 'Slapin' and 'Proksch' (2008) <doi:10.1111/j.1540-5907.2008.00338.x> 'wordfish' model, as well as methods for correspondence analysis, latent semantic analysis, and fast Naive Bayes and linear 'SVMs' specially designed for sparse textual data.
Depends: R (>= 3.1.0), methods
Imports: glmnet, LiblineaR, Matrix (>= 1.2), quanteda (>= 2.0), RSpectra, Rcpp (>= 0.12.12), RcppParallel, SparseM, stringi
Suggests: ca, covr, fastNaiveBayes, knitr, lsa, microbenchmark, naivebayes, quanteda.textplots, spelling, testthat, rmarkdown
LinkingTo: Rcpp, RcppParallel, RcppArmadillo (>= 0.7.600.1.0), quanteda
URL: https://github.com/quanteda/quanteda.textmodels
License: GPL-3
Encoding: UTF-8
LazyData: true
Language: en-GB
VignetteBuilder: knitr
NeedsCompilation: yes
Packaged: 2023-03-22 00:55:30 UTC; kbenoit
Author: Kenneth Benoit [cre, aut, cph] , Kohei Watanabe [aut] , Haiyan Wang [aut] , Patrick O. Perry [aut] , Benjamin Lauderdale [aut] , Johannes Gruber [aut] , William Lowe [aut] , Vikas Sindhwani [cph] , European Research Council [fnd]
Maintainer: Kenneth Benoit <kbenoit@lse.ac.uk>
Repository: CRAN
Date/Publication: 2023-03-22 09:20:08 UTC

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New package pokemon with initial version 0.1.3
Package: pokemon
Title: Pokemon Data in English and Brazilian Portuguese
Version: 0.1.3
Description: Provides a dataset of Pokemon information in both English and Brazilian Portuguese. The dataset contains 949 rows and 22 columns, including information such as the Pokemon's name, ID, height, weight, stats, type, and more.
License: MIT + file LICENSE
Encoding: UTF-8
Language: en-US
Depends: R (>= 2.10)
LazyData: true
URL: https://github.com/williamorim/pokemon
BugReports: https://github.com/williamorim/pokemon/issues
NeedsCompilation: no
Packaged: 2023-03-22 03:34:31 UTC; williamamorim
Author: William Amorim [aut, cre]
Maintainer: William Amorim <thewilliam89@gmail.com>
Repository: CRAN
Date/Publication: 2023-03-22 09:30:02 UTC

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New package octopus with initial version 0.1.2
Package: octopus
Title: A Database Management Tool
Version: 0.1.2
Maintainer: Marcus Codrescu <m.codrescu@outlook.com>
Description: A database management tool built as a 'shiny' application. Connect to various databases to send queries, upload files, preview tables, and more.
License: MIT + file LICENSE
Encoding: UTF-8
Suggests: duckdb, keyring, odbc, readr, RMySQL, RPostgres, RSQLite, testthat (>= 3.0.0)
Imports: bslib, DBI, dplyr, DT, glue, httr, janitor, rio, shiny, shinyAce, shinyjs, utils
NeedsCompilation: no
Packaged: 2023-03-22 02:20:22 UTC; mc678p
Author: Marcus Codrescu [aut, cre]
Repository: CRAN
Date/Publication: 2023-03-22 09:30:05 UTC

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Package mcp updated to version 0.3.3 with previous version 0.3.2 dated 2022-02-18

Title: Regression with Multiple Change Points
Description: Flexible and informed regression with Multiple Change Points. 'mcp' can infer change points in means, variances, autocorrelation structure, and any combination of these, as well as the parameters of the segments in between. All parameters are estimated with uncertainty and prediction intervals are supported - also near the change points. 'mcp' supports hypothesis testing via Savage-Dickey density ratio, posterior contrasts, and cross-validation. 'mcp' is described in Lindeløv (submitted) <doi:10.31219/osf.io/fzqxv> and generalizes the approach described in Carlin, Gelfand, & Smith (1992) <doi:10.2307/2347570> and Stephens (1994) <doi:10.2307/2986119>.
Author: Jonas Kristoffer Lindeloev [aut, cre]
Maintainer: Jonas Kristoffer Lindeloev <jonas@lindeloev.dk>

Diff between mcp versions 0.3.2 dated 2022-02-18 and 0.3.3 dated 2023-03-22

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New package HGraph with initial version 0.1.0
Package: HGraph
Title: Use Graph Structure to Travel
Version: 0.1.0
Author: JinanPang[aut, cre], HuiLi[ctb]
Maintainer: Jinan Pang <pang.jinan@qq.com>
Description: It is used to travel graphs, by using DFS and BFS to get the path from node to each leaf node. Depth first traversal(DFS) is a recursive algorithm for searching all the vertices of a graph or tree data structure. Traversal means visiting all the nodes of a graph. Breadth first traversal(BFS) algorithm is used to search a tree or graph data structure for a node that meets a set of criteria. It starts at the tree’s root or graph and searches/visits all nodes at the current depth level before moving on to the nodes at the next depth level. Also, it provides the matrix which is reachable between each node. Implement reference about Baruch Awerbuch (1985) <doi:10.1016/0020-0190(85)90083-3>.
License: GPL-2
LazyData: TRUE
Encoding: UTF-8
Imports: methods, knitr
VignetteBuilder: knitr
Suggests: rmarkdown
NeedsCompilation: no
Packaged: 2023-03-22 00:18:47 UTC; stongan
Depends: R (>= 3.5.0)
Repository: CRAN
Date/Publication: 2023-03-22 09:20:12 UTC

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New package guidedPLS with initial version 0.99.0
Package: guidedPLS
Title: Supervised Dimensional Reduction by Guided Partial Least Squares
Version: 0.99.0
Depends: R (>= 3.4.0)
Imports: irlba
Suggests: fields, knitr, rmarkdown, testthat
Description: Guided partial least squares (guided-PLS) is the combination of partial least squares by singular value decomposition (PLS-SVD) and guided principal component analysis (guided-PCA). For the details of the methods, see the reference section of GitHub README.md <https://github.com/rikenbit/guidedPLS>.
License: MIT + file LICENSE
URL: https://github.com/rikenbit/guidedPLS
VignetteBuilder: knitr
NeedsCompilation: no
Packaged: 2023-03-22 05:09:36 UTC; koki
Author: Koki Tsuyuzaki [aut, cre]
Maintainer: Koki Tsuyuzaki <k.t.the-answer@hotmail.co.jp>
Repository: CRAN
Date/Publication: 2023-03-22 09:30:08 UTC

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New package epicasting with initial version 0.1.0
Package: epicasting
Title: Ewnet: An Ensemble Wavelet Neural Network for Forecasting and Epicasting
Version: 0.1.0
Author: Madhurima Panja [aut], Tanujit Chakraborty [aut, cre, cph]
Description: Method and tool for generating time series forecasts using an ensemble wavelet-based auto-regressive neural network architecture. This method provides additional support of exogenous variables and also generates confidence interval. This package provides EWNet model for time series forecasting based on the algorithm by Panja, et al. (2022) and Panja, et al. (2023) <arXiv:2206.10696> <doi:10.1016/j.chaos.2023.113124>.
Maintainer: Tanujit Chakraborty <tanujitisi@gmail.com>
License: GPL (>= 2)
Encoding: UTF-8
Imports: forecast, Metrics, stats, wavelets
Depends: datasets
Suggests: ggplot2
NeedsCompilation: no
Packaged: 2023-03-22 06:19:46 UTC; mad-s
Repository: CRAN
Date/Publication: 2023-03-22 09:40:02 UTC

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Package dQTG.seq updated to version 1.0.2 with previous version 1.0.1 dated 2022-04-28

Title: A BSA Software for Detecting All Types of QTLs in BC, DH, RIL and F2
Description: The new (dQTG.seq1 and dQTG.seq2) and existing (SmoothLOD, G', deltaSNP and ED) bulked segregant analysis methods are used to identify various types of quantitative trait loci for complex traits via extreme phenotype individuals in bi-parental segregation populations (F2, backcross, doubled haploid and recombinant inbred line). The numbers of marker alleles in extreme low and high pools are used in existing methods to identify trait-related genes, while the numbers of marker alleles and genotypes in extreme low and high pools are used in the new methods to construct a new statistic Gw for identifying trait-related genes. dQTG-seq2 is feasible to identify extremely over-dominant and small-effect genes in F2. Li P, Li G, Zhang YW, Zuo JF, Liu JY, Zhang YM (2022, <doi: 10.1016/j.xplc.2022.100319>).
Author: Pei Li [aut], Yuan-Ming Zhang [aut, cre]
Maintainer: Yuan-Ming Zhang <soyzhang@mail.hzau.edu.cn>

Diff between dQTG.seq versions 1.0.1 dated 2022-04-28 and 1.0.2 dated 2023-03-22

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Package async updated to version 0.3.1 with previous version 0.3 dated 2023-02-20

Title: Coroutines: Generators / Yield, Async / Await, and Streams
Description: Write sequential-looking code that pauses and resumes. gen() creates a generator, an iterator that returns a value and pauses each time it reaches a yield() call. async() creates a promise, which runs until it reaches a call to await(), then resumes when information is available. These work similarly to generator and async constructs from 'Python' or 'JavaScript'. Objects produced are compatible with the 'iterators' and 'promises' packages. Version 0.3 supports on.exit, single-step debugging, stream() for making asynchronous iterators, and delimited goto() in switch() calls.
Author: Peter Meilstrup [aut, cre]
Maintainer: Peter Meilstrup <peter.meilstrup@gmail.com>

Diff between async versions 0.3 dated 2023-02-20 and 0.3.1 dated 2023-03-22

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Package spelling updated to version 2.2.1 with previous version 2.2 dated 2020-10-18

Title: Tools for Spell Checking in R
Description: Spell checking common document formats including latex, markdown, manual pages, and description files. Includes utilities to automate checking of documentation and vignettes as a unit test during 'R CMD check'. Both British and American English are supported out of the box and other languages can be added. In addition, packages may define a 'wordlist' to allow custom terminology without having to abuse punctuation.
Author: Jeroen Ooms [cre, aut] , Jim Hester [aut]
Maintainer: Jeroen Ooms <jeroen@berkeley.edu>

Diff between spelling versions 2.2 dated 2020-10-18 and 2.2.1 dated 2023-03-22

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New package sox with initial version 1.0
Package: sox
Title: Structured Learning in Time-Dependent Cox Models
Version: 1.0
Date: 2023-03-21
Description: Efficient procedures for fitting and cross-validating the structurally-regularized time-dependent Cox models. The penalty term is a weighted sum of infinity norms of (overlapping) groups of coefficients, which can select variables following a user-specified grouping structure.
License: GPL (>= 3)
Encoding: UTF-8
Depends: R (>= 3.5.0), survival, glmnet
Imports: Rcpp (>= 1.0.10)
LinkingTo: Rcpp
Suggests: testthat (>= 3.0.0)
LazyData: true
Copyright: file inst/COPYRIGHTS
NeedsCompilation: yes
Packaged: 2023-03-21 21:07:16 UTC; YLIAN
Author: Yi Lian [aut, cre], Guanbo Wang [aut], Archer Y. Yang [aut], Mireille E. Schnitzer [aut], Robert W. Platt [aut], Rui Wang [aut], Marc Dorais [aut], Sylvie Perreault [aut], Julien Mairal [ctb], Yuansi Chen [ctb]
Maintainer: Yi Lian <yi.lian@mail.mcgill.ca>
Repository: CRAN
Date/Publication: 2023-03-22 09:00:02 UTC

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Package seeker updated to version 1.1.0 with previous version 1.0.13 dated 2022-10-20

Title: Simplified Fetching and Processing of Microarray and RNA-Seq Data
Description: Wrapper around various existing tools and command-line interfaces, providing a standard interface, simple parallelization, and detailed logging. For microarray data, maps probe sets to standard gene IDs, building on 'GEOquery' Davis and Meltzer (2007) <doi:10.1093/bioinformatics/btm254>, 'ArrayExpress' Kauffmann et al. (2009) <doi:10.1093/bioinformatics/btp354>, Robust multi-array average 'RMA' Irizarry et al. (2003) <doi:10.1093/biostatistics/4.2.249>, and 'BrainArray' Dai et al. (2005) <doi:10.1093/nar/gni179>. For RNA-seq data, fetches metadata and raw reads from National Center for Biotechnology Information (NCBI) Sequence Read Archive (SRA), performs standard adapter and quality trimming using 'TrimGalore' Krueger <https://github.com/FelixKrueger/TrimGalore>, performs quality control checks using 'FastQC' Andrews <https://github.com/s-andrews/FastQC>, quantifies transcript abundances using 'salmon' Patro et al. (2017) <doi:10.1038/nmeth.4197& [...truncated...]
Author: Jake Hughey [aut, cre], Josh Schoenbachler [aut]
Maintainer: Jake Hughey <jakejhughey@gmail.com>

Diff between seeker versions 1.0.13 dated 2022-10-20 and 1.1.0 dated 2023-03-22

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Package RESI updated to version 1.1.1 with previous version 1.1.0 dated 2023-02-10

Title: Robust Effect Size Index (RESI) Estimation
Description: Summarize model output using a robust effect size index. The index is introduced in Vandekar, Rao, & Blume (2020) <doi:10.1007/s11336-020-09698-2>.
Author: Megan Jones [aut, cre], Kaidi Kang [aut], Simon Vandekar [aut]
Maintainer: Megan Jones <megan.n.taylor@vanderbilt.edu>

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Package pillar updated to version 1.9.0 with previous version 1.8.1 dated 2022-08-19

Title: Coloured Formatting for Columns
Description: Provides 'pillar' and 'colonnade' generics designed for formatting columns of data using the full range of colours provided by modern terminals.
Author: Kirill Mueller [aut, cre] , Hadley Wickham [aut], RStudio [cph]
Maintainer: Kirill Mueller <kirill@cynkra.com>

Diff between pillar versions 1.8.1 dated 2022-08-19 and 1.9.0 dated 2023-03-22

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New package npbr with initial version 1.8
Package: npbr
Title: Nonparametric Boundary Regression
Version: 1.8
Date: 2023-03-21
Author: Abdelaati Daouia <Abdelaati.Daouia@tse-fr.eu>, Thibault Laurent <thibault.laurent@univ-tlse1.fr>, Hohsuk Noh <word5810@gmail.com>
Maintainer: Thibault Laurent <thibault.laurent@univ-tlse1.fr>
Depends: R (>= 4.0.0), graphics, stats, utils
Imports: Benchmarking, np, quadprog, Rglpk (>= 0.6-2), splines
Description: A variety of functions for the best known and most innovative approaches to nonparametric boundary estimation. The selected methods are concerned with empirical, smoothed, unrestricted as well as constrained fits under both separate and multiple shape constraints. They cover robust approaches to outliers as well as data envelopment techniques based on piecewise polynomials, splines, local linear fitting, extreme values and kernel smoothing. The package also seamlessly allows for Monte Carlo comparisons among these different estimation methods. Its use is illustrated via a number of empirical applications and simulated examples.
License: GPL (>= 2)
NeedsCompilation: yes
Packaged: 2023-03-21 16:06:46 UTC; laurent
Repository: CRAN
Date/Publication: 2023-03-22 09:00:05 UTC

More information about npbr at CRAN
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New package matric with initial version 0.2.0
Package: matric
Title: Metrics for Similarity Matrices
Version: 0.2.0
Description: Calculate quality metrics for readouts from high-throughput profiling experiments.
License: BSD_3_clause + file LICENSE
Encoding: UTF-8
LazyData: true
Imports: arrow, dplyr, magrittr, tibble, tidyr, readr, jsonlite, glue, purrr, ggplot2, stringr, rlang (>= 0.4.11), yardstick, foreach, logger, furrr, future
Suggests: testthat (>= 3.0.0), covr, knitr, markdown, rmarkdown, roxygen2
URL: https://github.com/cytomining/matric
BugReports: https://github.com/cytomining/matric/issues
Depends: R (>= 4.1.0)
VignetteBuilder: knitr
NeedsCompilation: no
Packaged: 2023-03-21 20:32:19 UTC; shsingh
Author: Shantanu Singh [aut, cre, cph], Gregory Way [aut]
Maintainer: Shantanu Singh <shsingh@broadinstitute.org>
Repository: CRAN
Date/Publication: 2023-03-22 08:50:02 UTC

More information about matric at CRAN
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New package KinMixLite with initial version 2.0.8
Package: KinMixLite
Title: Inference About Relationships from DNA Mixtures
Version: 2.0.8
Date: 2023-03-21
Maintainer: Peter Green <P.J.Green@bristol.ac.uk>
Description: Methods for inference about relationships between contributors to a DNA mixture and other individuals of known genotype: a basic example would be testing whether a contributor to a mixture is the father of a child of known genotype. This provides most of the functionality of the 'KinMix' package, but with some loss of efficiency and restriction on problem size, as the latter uses 'RHugin' as the Bayes net engine, while this package uses 'gRain'. The package implements the methods introduced in Green, P. J. and Mortera, J. (2017) <doi:10.1016/j.fsigen.2017.02.001> and Green, P. J. and Mortera, J. (2021) <doi:10.1111/rssc.12498>.
License: GPL (>= 2)
Depends: DNAmixturesLite, gRaven
Imports: statnet.common, gRbase, Rsolnp, ribd, pedtools, methods
URL: https://petergreenweb.wordpress.com/kinmix/
NeedsCompilation: no
Packaged: 2023-03-21 17:50:32 UTC; peter
Author: Peter Green [aut, cre]
Repository: CRAN
Date/Publication: 2023-03-22 08:50:12 UTC

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Package heemod updated to version 0.15.1 with previous version 0.15.0 dated 2023-02-14

Title: Markov Models for Health Economic Evaluations
Description: An implementation of the modelling and reporting features described in reference textbook and guidelines (Briggs, Andrew, et al. Decision Modelling for Health Economic Evaluation. Oxford Univ. Press, 2011; Siebert, U. et al. State-Transition Modeling. Medical Decision Making 32, 690-700 (2012).): deterministic and probabilistic sensitivity analysis, heterogeneity analysis, time dependency on state-time and model-time (semi-Markov and non-homogeneous Markov models), etc.
Author: Kevin Zarca [aut, cre], Antoine Filipovic-Pierucci [aut], Matthew Wiener [ctb], Zdenek Kabat [ctb], Vojtech Filipec [ctb], Jordan Amdahl [ctb], Yonatan Carranza Alarcon [ctb], Vince Daniels [ctb]
Maintainer: Kevin Zarca <kevin.zarca@gmail.com>

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Package gimme updated to version 0.7-13 with previous version 0.7-12 dated 2023-03-16

Title: Group Iterative Multiple Model Estimation
Description: Data-driven approach for arriving at person-specific time series models. The method first identifies which relations replicate across the majority of individuals to detect signal from noise. These group-level relations are then used as a foundation for starting the search for person-specific (or individual-level) relations. See Gates & Molenaar (2012) <doi:10.1016/j.neuroimage.2012.06.026>.
Author: Stephanie Lane [aut, trl], Kathleen Gates [aut, cre, ccp], Zachary Fisher [aut], Cara Arizmendi [aut], Peter Molenaar [aut, ccp], Edgar Merkle [ctb], Michael Hallquist [ctb], Hallie Pike [ctb], Teague Henry [ctb], Kelly Duffy [ctb], Lan Luo [ctb], Ad [...truncated...]
Maintainer: Kathleen M Gates <gateskm@email.unc.edu>

Diff between gimme versions 0.7-12 dated 2023-03-16 and 0.7-13 dated 2023-03-22

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Package ggperiodic updated to version 1.0.3 with previous version 1.0.2 dated 2022-08-12

Title: Easy Plotting of Periodic Data with 'ggplot2'
Description: Implements methods to plot periodic data in any arbitrary range on the fly.
Author: Elio Campitelli [cre, aut]
Maintainer: Elio Campitelli <elio.campitelli@cima.fcen.uba.ar>

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Package GENEAclassify updated to version 1.5.4 with previous version 1.5.3 dated 2022-09-25

Title: Segmentation and Classification of Accelerometer Data
Description: Segmentation and classification procedures for data from the 'Activinsights GENEActiv' <https://activinsights.com/technology/geneactiv/> accelerometer that provides the user with a model to guess behaviour from test data where behaviour is missing. Includes a step counting algorithm, a function to create segmented data with custom features and a function to use recursive partitioning provided in the function rpart() of the 'rpart' package to create classification models.
Author: Chris Campbell [aut], Aimee Gott [aut], Joss Langford [aut], Charles Sweetland [aut], Penny Sweetland [aut, cre], Activinsights Ltd [cph]
Maintainer: Penny Sweetland <penny@springhead-data.com>

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New package debkeepr with initial version 0.1.1
Package: debkeepr
Title: Analysis of Non-Decimal Currencies and Double-Entry Bookkeeping
Version: 0.1.1
Description: Analysis of historical non-decimal currencies and value systems that use tripartite or tetrapartite systems such as pounds, shillings, and pence. It introduces new vector classes to represent non-decimal currencies, making them compatible with numeric classes, and provides functions to work with these classes in data frames in the context of double-entry bookkeeping.
License: MIT + file LICENSE
URL: https://github.com/jessesadler/debkeepr, https://jessesadler.github.io/debkeepr/
BugReports: https://github.com/jessesadler/debkeepr/issues
Depends: R (>= 3.5)
Imports: cli (>= 3.4.0), dplyr (>= 1.0.0), magrittr, methods, rlang (>= 1.1.0), tibble (>= 3.0.0), vctrs (>= 0.5.2), zeallot
Suggests: covr, ggplot2, ggraph, igraph, knitr, rmarkdown, roxygen2, scales (>= 1.1.0), testthat (>= 3.1.3)
VignetteBuilder: knitr
Encoding: UTF-8
LazyData: true
NeedsCompilation: no
Packaged: 2023-03-21 21:54:06 UTC; jessesadler
Author: Jesse Sadler [aut, cre, cph]
Maintainer: Jesse Sadler <jrsadler@icloud.com>
Repository: CRAN
Date/Publication: 2023-03-22 09:00:10 UTC

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Package cobalt updated to version 4.5.0 with previous version 4.4.1 dated 2022-11-03

Title: Covariate Balance Tables and Plots
Description: Generate balance tables and plots for covariates of groups preprocessed through matching, weighting or subclassification, for example, using propensity scores. Includes integration with 'MatchIt', 'twang', 'Matching', 'optmatch', 'CBPS', 'ebal', 'WeightIt', 'cem', 'sbw', and 'designmatch' for assessing balance on the output of their preprocessing functions. Users can also specify data for balance assessment not generated through the above packages. Also included are methods for assessing balance in clustered or multiply imputed data sets or data sets with multi-category, continuous, or longitudinal treatments.
Author: Noah Greifer [aut, cre]
Maintainer: Noah Greifer <noah.greifer@gmail.com>

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 cobalt-4.5.0/cobalt/man/bal.tab.Rd                             |  243 --
 cobalt-4.5.0/cobalt/man/bal.tab.cem.match.Rd                   |  139 -
 cobalt-4.5.0/cobalt/man/bal.tab.default.Rd                     |  183 -
 cobalt-4.5.0/cobalt/man/bal.tab.designmatch.Rd                 |only
 cobalt-4.5.0/cobalt/man/bal.tab.ebalance.Rd                    |only
 cobalt-4.5.0/cobalt/man/bal.tab.formula.Rd                     |only
 cobalt-4.5.0/cobalt/man/bal.tab.matchit.Rd                     |  151 -
 cobalt-4.5.0/cobalt/man/bal.tab.mimids.Rd                      |  149 -
 cobalt-4.5.0/cobalt/man/bal.tab.optmatch.Rd                    |only
 cobalt-4.5.0/cobalt/man/bal.tab.ps.Rd                          |  160 -
 cobalt-4.5.0/cobalt/man/bal.tab.sbwcau.Rd                      |only
 cobalt-4.5.0/cobalt/man/bal.tab.time.list.Rd                   |only
 cobalt-4.5.0/cobalt/man/bal.tab.weightit.Rd                    |  145 -
 cobalt-4.5.0/cobalt/man/balance-statistics.Rd                  |only
 cobalt-4.5.0/cobalt/man/balance-summary.Rd                     |only
 cobalt-4.5.0/cobalt/man/class-bal.tab.cluster.Rd               |   44 
 cobalt-4.5.0/cobalt/man/class-bal.tab.imp.Rd                   |   45 
 cobalt-4.5.0/cobalt/man/class-bal.tab.msm.Rd                   |   48 
 cobalt-4.5.0/cobalt/man/class-bal.tab.multi.Rd                 |   56 
 cobalt-4.5.0/cobalt/man/class-bal.tab.subclass.Rd              |   41 
 cobalt-4.5.0/cobalt/man/cobalt-package.Rd                      |   34 
 cobalt-4.5.0/cobalt/man/display-options.Rd                     |only
 cobalt-4.5.0/cobalt/man/f.build.Rd                             |   16 
 cobalt-4.5.0/cobalt/man/get.w.Rd                               |   92 
 cobalt-4.5.0/cobalt/man/lalonde.Rd                             |   77 
 cobalt-4.5.0/cobalt/man/love.plot.Rd                           |  249 --
 cobalt-4.5.0/cobalt/man/print.bal.tab.Rd                       |  196 -
 cobalt-4.5.0/cobalt/man/set.cobalt.options.Rd                  |   36 
 cobalt-4.5.0/cobalt/man/splitfactor.Rd                         |  118 
 cobalt-4.5.0/cobalt/man/var.names.Rd                           |   45 
 cobalt-4.5.0/cobalt/tests/testthat/test-bal.compute.R          |only
 cobalt-4.5.0/cobalt/vignettes/cobalt.Rmd                       |    5 
 cobalt-4.5.0/cobalt/vignettes/longitudinal-treat.Rmd           |only
 cobalt-4.5.0/cobalt/vignettes/love.plot.Rmd                    |only
 cobalt-4.5.0/cobalt/vignettes/optimizing-balance.Rmd           |only
 cobalt-4.5.0/cobalt/vignettes/other-packages.Rmd               |only
 cobalt-4.5.0/cobalt/vignettes/references.bib                   |  100 
 cobalt-4.5.0/cobalt/vignettes/segmented-data.Rmd               |only
 131 files changed, 4317 insertions(+), 4744 deletions(-)

More information about cobalt at CRAN
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New package baseq with initial version 0.1.0
Package: baseq
Title: Basic Sequence Processing Tool for Biological Data
Version: 0.1.0
Description: Primarily created as an easy and understanding way to do basic sequences surrounding the central dogma of molecular biology.
License: GPL-3
URL: https://github.com/ambuvjyn/baseq
Encoding: UTF-8
Imports: stringr
NeedsCompilation: no
Packaged: 2023-03-21 20:53:41 UTC; ambuv
Author: Ambu Vijayan [aut, cre]
Maintainer: Ambu Vijayan <ambuvjyn@gmail.com>
Repository: CRAN
Date/Publication: 2023-03-22 08:50:06 UTC

More information about baseq at CRAN
Permanent link


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