PEP project files
To run your own samples, you'll need to organize them in PEP format, which is explained in how to create a PEP and is universal to all pipelines that read PEPs, including
PEPATAC. To get you started, there are multiple examples you can adapt in the
examples/ folder (e.g. example test PEP). In short, you need two files for your project:
- project config file -- describes output locations, pointers to data, etc.
- sample table file -- comma-separated value (CSV) list of your samples.
The sample table file must specify these columns:
- library ('ATAC' or 'ATACSEQ' or 'ATAC-seq')
- organism (e.g. 'human', 'mouse', or 'drosophila' et cetera)
- whatever else you want