ARNApipe: a balanced, efficient and distributed pipeline for processing RNA-seq data in high-performance computing environments.

ABSTRACT:

Summary

The wide range of RNA-seq applications and their high-computational needs require the development of pipelines orchestrating the entire workflow and optimizing usage of available computational resources. We present aRNApipe, a project-oriented pipeline for processing of RNA-seq data in high-performance cluster environments. aRNApipe is highly modular and can be easily migrated to any high-performance computing (HPC) environment. The current applications included in aRNApipe combine the essential RNA-seq primary analyses, including quality control metrics, transcript alignment, count generation, transcript fusion identification, alternative splicing and sequence variant calling. aRNApipe is project-oriented and dynamic so users can easily update analyses to include or exclud

SUBMITTER: Alonso A 

PROVIDER: S-EPMC5447234 | biostudies-literature | 2017 Jun

REPOSITORIES: biostudies-literature