MAP-RSeq: Mayo Analysis Pipeline for RNA sequencing.

ABSTRACT:

Background

Although the costs of next generation sequencing technology have decreased over the past years, there is still a lack of simple-to-use applications, for a comprehensive analysis of RNA sequencing data. There is no one-stop shop for transcriptomic genomics. We have developed MAP-RSeq, a comprehensive computational workflow that can be used for obtaining genomic features from transcriptomic sequencing data, for any genome.

Results

For optimization of tools and parameters, MAP-RSeq was validated using both simulated and real datasets. MAP-RSeq workflow consists of six major modules such as alignment of reads, quality assessment of reads, gene expression assessment and exon read counting, identification of expressed single nucleotide variants (SNVs), detection of fusi

SUBMITTER: Kalari KR 

PROVIDER: S-EPMC4228501 | biostudies-literature | 2014 Jun

REPOSITORIES: biostudies-literature