Welcome

peppy is a python package that provides an API for handling standardized project and sample metadata. If you define your project as a standard Portable Encapsulated Project (or PEP), you can use the peppy package to instantiate an in-memory representation of your project and all of its samples. You can then use this for interactive analysis, or to develop a novel python tool based on peppy so you don’t have to handle sample processing.

peppy is primarily useful to tool developers and data analysts who want a standard way of representing sample-intensive research project metadata. To get started, proceed with the Introduction.