OSA: a fast and accurate alignment tool for RNA-Seq | Zendy

Jun Hu | Zendy; Huanying Ge | Zendy; Matthew Newman | Zendy; Kejun Liu | Zendy

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OSA: a fast and accurate alignment tool for RNA-Seq

Author(s) -

Jun Hu,

Huanying Ge,

Matthew Newman,

Kejun Liu

Publication year - 2012

Publication title -

bioinformatics

Language(s) - English

Resource type - Journals

eISSN - 1367-4811

pISSN - 1367-4803

DOI - 10.1093/bioinformatics/bts294

Subject(s) - false positive paradox , computer science , rna seq , true positive rate , os x , rna , transcriptome , computational biology , sensitivity (control systems) , data mining , reference genome , software , dna sequencing , artificial intelligence , gene , operating system , biology , genetics , gene expression , electronic engineering , engineering

Accurately mapping RNA-Seq reads to the reference genome is a critical step for performing downstream analysis such as transcript assembly, isoform detection and quantification. Many tools have been developed; however, given the huge size of the next generation sequencing datasets and the complexity of the transcriptome, RNA-Seq read mapping remains a challenge with the ever-increasing amount of data. We develop Omicsoft sequence aligner (OSA), a fast and accurate alignment tool for RNA-Seq data. Benchmarked with existing methods, OSA improves mapping speed 4-10-fold with better sensitivity and less false positives.

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