ROSeq

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

Bioconductor version: Release (3.20)

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>

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

Installation

To install this package, start R (version "4.4") 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")

ROSeq	HTML	R Script
Reference Manual	PDF
NEWS	Text
LICENSE	Text

Need some help? Ask on the Bioconductor Support site!

Details

biocViews	DifferentialExpression, GeneExpression, SingleCell, Software
Version	1.18.0
In Bioconductor since	BioC 3.11 (R-4.0) (4.5 years)
License	GPL-3
Depends	R (>= 4.0)
Imports	pbmcapply, edgeR, limma
System Requirements
URL	https://github.com/krishan57gupta/ROSeq
Bug Reports	https://github.com/krishan57gupta/ROSeq/issues

Suggests	knitr, rmarkdown, testthat, RUnit, BiocGenerics
Linking To
Enhances
Depends On Me
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Build Report	Build Report

Package Archives

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

Source Package	ROSeq_1.18.0.tar.gz
Windows Binary (x86_64)	ROSeq_1.18.0.zip (64-bit only)
macOS Binary (x86_64)	ROSeq_1.18.0.tgz
macOS Binary (arm64)	ROSeq_1.18.0.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