Rsubread: Mapping, quantification and variant analysis of sequencing data

Alignment, quantification and analysis of RNA sequencing data (including both bulk RNA-seq and scRNA-seq) and DNA sequenicng data (including ATAC-seq, ChIP-seq, WGS, WES etc). Includes functionality for read mapping, read counting, SNP calling, structural variant detection and gene fusion discovery. Can be applied to all major sequencing techologies and to both short and long sequence reads.

Package details

AuthorWei Shi, Yang Liao and Gordon K Smyth with contributions from Jenny Dai
Bioconductor views Alignment ChIPSeq GeneExpression GeneFusionDetection GeneRegulation GeneticVariability Genetics GenomeAnnotation ImmunoOncology IndelDetection MultipleSequenceAlignment Preprocessing QualityControl RNASeq SNP SequenceMatching Sequencing SingleCell VariantAnnotation VariantDetection
MaintainerWei Shi <>, Yang Liao <> and Gordon K Smyth <>
LicenseGPL (>=3)
Package repositoryView on Bioconductor
Installation Install the latest version of this package by entering the following in R:
if (!requireNamespace("BiocManager", quietly = TRUE))


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Rsubread documentation built on March 17, 2021, 6:01 p.m.