PM4NGS, a project management framework for next-generation sequencing data analysis.

ABSTRACT:

Background

FAIR (Findability, Accessibility, Interoperability, and Reusability) next-generation sequencing (NGS) data analysis relies on complex computational biology workflows and pipelines to guarantee reproducibility, portability, and scalability. Moreover, workflow languages, managers, and container technologies have helped address the problem of data analysis pipeline execution across multiple platforms in scalable ways.

Findings

Here, we present a project management framework for NGS data analysis called PM4NGS. This framework is composed of an automatic creation of a standard organizational structure of directories and files, bioinformatics tool management using Docker or Bioconda, and data analysis pipelines in CWL format. Pre-configured Jupyter notebooks with minimu

SUBMITTER: Vera Alvarez R 

PROVIDER: S-EPMC7788391 | biostudies-literature | 2021 Jan

REPOSITORIES: biostudies-literature