reconsi

DOI: 10.18129/B9.bioc.reconsi    

This package is for version 3.15 of Bioconductor; for the stable, up-to-date release version, see reconsi.

Resampling Collapsed Null Distributions for Simultaneous Inference

Bioconductor version: 3.15

Improves simultaneous inference under dependence of tests by estimating a collapsed null distribution through resampling. Accounting for the dependence between tests increases the power while reducing the variability of the false discovery proportion. This dependence is common in genomics applications, e.g. when combining flow cytometry measurements with microbiome sequence counts.

Author: Stijn Hawinkel [cre, aut]

Maintainer: Stijn Hawinkel <stijn.hawinkel at psb.ugent.be>

Installation

To install this package, start R (version "4.2") and enter:

if (!require("BiocManager", quietly = TRUE))
    install.packages("BiocManager")

BiocManager::install("reconsi")

For older versions of R, please refer to the appropriate Bioconductor release.

Documentation

To view documentation for the version of this package installed in your system, start R and enter:

browseVignettes("reconsi")

 

HTML	R Script	Manual for the RCM pacakage
PDF		Reference Manual
Text		NEWS

Details

biocViews	FlowCytometry, Metagenomics, Microbiome, MultipleComparison, Software
Version	1.8.0
In Bioconductor since	BioC 3.11 (R-4.0) (2.5 years)
License	GPL-2
Depends
Imports	phyloseq, ks, reshape2, ggplot2, stats, methods, graphics, grDevices, matrixStats, Matrix
LinkingTo
Suggests	knitr, rmarkdown, testthat
SystemRequirements
Enhances
URL
BugReports	https://github.com/CenterForStatistics-UGent/reconsi/issues
Depends On Me
Imports Me
Suggests Me
Links To Me
Build Report

Package Archives

Follow Installation instructions to use this package in your R session.

Source Package	reconsi_1.8.0.tar.gz
Windows Binary	reconsi_1.8.0.zip
macOS Binary (x86_64)	reconsi_1.8.0.tgz
Source Repository	git clone https://git.bioconductor.org/packages/reconsi
Source Repository (Developer Access)	git clone git@git.bioconductor.org:packages/reconsi
Package Short Url	https://bioconductor.org/packages/reconsi/
Package Downloads Report	Download Stats