." /> Bioconductor - rqt

This site is a development preview. As such the content and styling may not be final and is subject to change before going into production. To see more information about the redesign click here.

rqt

rqt: utilities for gene-level meta-analysis

Bioconductor version: Release (3.17)

Despite the recent advances of modern GWAS methods, it still remains an important problem of addressing calculation an effect size and corresponding p-value for the whole gene rather than for single variant. The R- package rqt offers gene-level GWAS meta-analysis. For more information, see: "Gene-set association tests for next-generation sequencing data" by Lee et al (2016), Bioinformatics, 32(17), i611-i619, .

Author: I. Y. Zhbannikov, K. G. Arbeev, A. I. Yashin.

Maintainer: Ilya Y. Zhbannikov <ilya.zhbannikov at duke.edu>

Citation (from within R, enter citation("rqt")):

Installation

To install this package, start R (version "4.3") and enter:

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

BiocManager::install("rqt")

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("rqt")
Tutorial for rqt package HTML R Script
Reference Manual PDF
NEWS Text

Details

biocViews GenomeWideAssociation, PrincipalComponent, Regression, Sequencing, Software, StatisticalMethod, Survival
Version 1.26.0
In Bioconductor since BioC 3.5 (R-3.4) (6.5 years)
License GPL
Depends R (>= 3.4), SummarizedExperiment
Imports stats, Matrix, ropls, methods, car, RUnit, metap, CompQuadForm, glmnet, utils, pls
Linking To
Suggests BiocStyle, knitr, rmarkdown
System Requirements
Enhances
URL https://github.com/izhbannikov/rqt
Bug Reports https://github.com/izhbannikov/rqt/issues
See More
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 rqt_1.26.0.tar.gz
Windows Binary rqt_1.26.0.zip
macOS Binary (x86_64) rqt_1.26.0.tgz
macOS Binary (arm64) rqt_1.26.0.tgz
Source Repository git clone https://git.bioconductor.org/packages/rqt
Source Repository (Developer Access) git clone git@git.bioconductor.org:packages/rqt
Bioc Package Browser https://code.bioconductor.org/browse/rqt/
Package Short Url https://bioconductor.org/packages/rqt/
Package Downloads Report Download Stats