ROSeq

DOI: 10.18129/B9.bioc.ROSeq  

Modeling expression ranks for noise-tolerant differential expression analysis of scRNA-Seq data

Bioconductor version: Release (3.16)

ROSeq - A rank based approach to modeling gene expression with filtered and normalized read count matrix. ROSeq takes filtered and normalized read matrix and cell-annotation/condition as input and determines the differentially expressed genes between the contrasting groups of single cells. One of the input parameters is the number of cores to be used.

Author: Krishan Gupta [aut, cre], Manan Lalit [aut], Aditya Biswas [aut], Abhik Ghosh [aut], Debarka Sengupta [aut]

Maintainer: Krishan Gupta <krishang at iiitd.ac.in>

Installation

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

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

BiocManager::install("ROSeq")

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("ROSeq")

 

HTML	R Script	ROSeq
PDF		Reference Manual
Text		NEWS
Text		LICENSE

Details

biocViews	DifferentialExpression, GeneExpression, SingleCell, Software
Version	1.10.0
In Bioconductor since	BioC 3.11 (R-4.0) (3 years)
License	GPL-3
Depends	R (>= 4.0)
Imports	pbmcapply, edgeR, limma
LinkingTo
Suggests	knitr, rmarkdown, testthat, RUnit, BiocGenerics
SystemRequirements
Enhances
URL	https://github.com/krishan57gupta/ROSeq
BugReports	https://github.com/krishan57gupta/ROSeq/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	ROSeq_1.10.0.tar.gz
Windows Binary	ROSeq_1.10.0.zip
macOS Binary (x86_64)	ROSeq_1.10.0.tgz
macOS Binary (arm64)	ROSeq_1.10.0.tgz
Source Repository	git clone https://git.bioconductor.org/packages/ROSeq
Source Repository (Developer Access)	git clone git@git.bioconductor.org:packages/ROSeq
Bioc Package Browser	https://code.bioconductor.org/browse/ROSeq/
Package Short Url	https://bioconductor.org/packages/ROSeq/
Package Downloads Report	Download Stats