Most pipelines require a unique way to organize samples, but looper
subscribes to standard Portable Encapsulated Project (PEP) format. PEP is a standardized way to represent metadata about your project and each of its samples. If you follow this format, then your project can be read not only by looper
, but also by other software, like the pepr R package, or the peppy python package. You should read the instructions on how to create a PEP to use with looper
.
So, the first thing you should do is follow the instructions for how to make a PEP. Once you've have a basic PEP created, the next section shows you how to add looper-specific configuration to the PEP config file, or you can jump ahead to linking a project to a pipeline.