Bioconductor version: Release (3.12)
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.
Author: Wei Shi, Yang Liao and Gordon K Smyth with contributions from Jenny Dai
Maintainer: Wei Shi
Citation (from within R, entercitation("Rsubread")
):
To install this package, start R (version "4.0") and enter:
if (!requireNamespace("BiocManager", quietly = TRUE)) install.packages("BiocManager") BiocManager::install("Rsubread")
For older versions of R, please refer to the appropriateBioconductor release.
查看文档的版本包age installed in your system, start R and enter:
browseVignettes("Rsubread")
R Script | Rsubread Vignette | |
SubreadUsersGuide.pdf | ||
Reference Manual | ||
Text | NEWS |
biocViews | Alignment,ChIPSeq,GeneExpression,GeneFusionDetection,GeneRegulation,GeneticVariability,Genetics,GenomeAnnotation,ImmunoOncology,IndelDetection,MultipleSequenceAlignment,Preprocessing,QualityControl,RNASeq,SNP,SequenceMatching,Sequencing,SingleCell,Software,VariantAnnotation,VariantDetection |
Version | 2.4.2 |
In Bioconductor since | BioC 2.8 (R-2.13) (10 years) |
License | GPL (>=3) |
Depends | |
Imports | grDevices, stats, utils,Matrix |
LinkingTo | |
Suggests | |
SystemRequirements | |
Enhances | |
URL | //www.andersvercelli.com/packages/Rsubread |
Depends On Me | ExCluster,samExploreR |
Imports Me | APAlyzer,dupRadar,FRASER,ribosomeProfilingQC,scruff |
Suggests Me | icetea,scPipe,singleCellTK,tidybulk |
Links To Me | |
Build Report |
Follow2021年欧洲杯比分预测 instructions to use this package in your R session.
Source Package | Rsubread_2.4.2.tar.gz |
Windows Binary | Rsubread_2.4.2.zip |
macOS 10.13 (High Sierra) | Rsubread_2.4.2.tgz |
Source Repository | git clone https://git.bioconductor.org/packages/Rsubread |
Source Repository (Developer Access) | git clone git@git.bioconductor.org:packages/Rsubread |
Package Short Url | //www.andersvercelli.com/packages/Rsubread/ |
Package Downloads Report | Download Stats |
Old Source Packages for BioC 3.12 | Source Archive |
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