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easyRNASeq | A bioconductor package for processing RNA-Seq data

An R package that simplifies the processing of RNA sequencing data, hiding the complex interplay of the required packages behind a single functionality. easyRNASeq calculates the coverage of high-throughput short-reads against a genome of reference and summarizes it per feature of interest (e.g. exon, gene, transcript). The data can be normalized as 'RPKM' or by the 'DESeq' or 'edgeR' package.

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easyRNASeq forum

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easyRNASeq classification

easyRNASeq specifications

Unique identifier:
OMICS_01938
Interface:
Command line interface
Operating system:
Unix/Linux, Mac OS, Windows
License:
Artistic License version 2.0
Version:
1.4.2
Requirements:
graphics, methods, parallel, utils, genomeIntervals, Biobase, BiocGenerics, biomaRt, edgeR, Biostrings, BSgenome, DESeq, GenomicRanges, IRanges, Rsamtools, ShortRead
Software type:
Pipeline/Workflow
Restrictions to use:
None
Programming languages:
R
Computer skills:
Advanced
Stability:
Stable
Maintained:
Yes

easyRNASeq distribution

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easyRNASeq support

Documentation

Maintainer

  • Nicolas Delhomme <>

Credits

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Publications

Institution(s)

Genome Biology Computational Support; Genome Biology Unit, European Molecular Biology Laboratory, Heidelberg, Germany

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