Portable Encapsulated Projects

A modern structure and open toolkit for organizing large-scale, sample-intensive biological research projects.

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What is a PEP?

A PEP, or Portable Encapsulated Project, is a dataset that subscribes to the PEP structure for organizing metadata. It is written using a simple yaml + tsv format that can be read by tools in the pep toolkit, including universal R and Python packages. pepkit is your one-stop solution to metadata management across data analysis environments.


Data analysts

Start by describing your project metadata in PEP format, and immediately benefit from metadata organization tools written in either R or Python.

Software developers

Outsource sample metadata formatting and parsing by using our R or Python APIs, making your tool immediately applicable to any PEP-compliant project.