TRAPLINE: a standardized and automated pipeline for RNA sequencing data analysis, evaluation and annotation.

ABSTRACT:

Background

Technical advances in Next Generation Sequencing (NGS) provide a means to acquire deeper insights into cellular functions. The lack of standardized and automated methodologies poses a challenge for the analysis and interpretation of RNA sequencing data. We critically compare and evaluate state-of-the-art bioinformatics approaches and present a workflow that integrates the best performing data analysis, data evaluation and annotation methods in a Transparent, Reproducible and Automated PipeLINE (TRAPLINE) for RNA sequencing data processing (suitable for Illumina, SOLiD and Solexa).

Results

Comparative transcriptomics analyses with TRAPLINE result in a set of differentially expressed genes, their corresponding protein-protein interactions, splice variants, promoter

SUBMITTER: Wolfien M 

PROVIDER: S-EPMC4702420 | biostudies-literature | 2016 Jan

REPOSITORIES: biostudies-literature