pISA-tree - a data management framework for life science research projects using a standardised directory tree

pISA-tree - a data management framework for life science research projects using a standardised directory tree

Blog Article

Abstract We developed pISA-tree, a straightforward and flexible data management solution Collections for organisation of life science project-associated research data and metadata.pISA-tree was initiated by end-user requirements thus its strong points are practicality and low maintenance cost.It enables on-the-fly creation of enriched directory tree structure (project/Investigation/Study/Assay) based on the ISA model, in a standardised manner via consecutive batch files.Templates-based metadata is generated in parallel at each level enabling guided submission of experiment metadata.

pISA-tree is complemented by two R packages, pisar and seekr.pisar facilitates integration of pISA-tree datasets into bioinformatic pipelines and generation of ISA-Tab exports.seekr enables synchronisation with the FAIRDOMHub repository.Applicability of pISA-tree was demonstrated in several national and international multi-partner projects.

The system thus supports findable, accessible, interoperable and reusable (FAIR) research and is Bundles in accordance with the Open Science initiative.Source code and documentation of pISA-tree are available at https://github.com/NIB-SI/pISA-tree.