easyRNASeq: a bioconductor package for processing RNA-Seq data | Zendy

Nicolas Delhomme | Zendy; Ismaël Padioleau | Zendy; Eileen E. M. Furlong | Zendy; Lars M. Steinmetz | Zendy

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easyRNASeq: a bioconductor package for processing RNA-Seq data

Author(s) -

Nicolas Delhomme,

Ismaël Padioleau,

Eileen E. M. Furlong,

Lars M. Steinmetz

Publication year - 2012

Publication title -

bioinformatics

Language(s) - English

Resource type - Journals

SCImago Journal Rank - 3.599

H-Index - 390

eISSN - 1367-4811

pISSN - 1367-4803

DOI - 10.1093/bioinformatics/bts477

Subject(s) - bioconductor , computer science , r package , rna seq , software , data mining , software package , operating system , programming language , biology , gene expression , gene , genetics , transcriptome

RNA sequencing is becoming a standard for expression profiling experiments and many tools have been developed in the past few years to analyze RNA-Seq data. Numerous 'Bioconductor' packages are available for next-generation sequencing data loading in R, e.g. ShortRead and Rsamtools as well as to perform differential gene expression analyses, e.g. DESeq and edgeR. However, the processing tasks lying in between these require the precise interplay of many Bioconductor packages, e.g. Biostrings, IRanges or external solutions are to be sought.

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