search

hariszaf / pema

PEMA: a flexible Pipeline for Environmental DNA Metabarcoding Analysis of the 16S/18S rRNA, ITS and COI marker genes
27 stars 12 forks source link

PEMA Ro-Crate #54

Open kmexter opened 1 year ago

kmexter commented 1 year ago

We would like that the outputs from PEMA are described in a ro-crate.json file. VLIZ can help in how to fill the file with content. It will be the same idea as the ro-crate produced by MetaGOflow (see comment below), but with some extra provenance-related fields (see e.g. https://github.com/emo-bon/observatory-bpns-data/blob/main/ro-crate-metadata.json)

@kmexter can advice on the content of this file.

hariszaf commented 1 year ago

In a similar project, the way we do this is using the rocrate Python library.

Once the workflow is done, we initiate an RO-Crate rocrate init -c ${OUTPUT_DIR}

and then we edit the ro-crate-metadata.json with something like the edit-ro-crate.py