The current version of CowPI is v1.0.
The pre-calculated files for running CowPI using the PICRUST software are available on Zenodo here: https://doi.org/10.5281/zenodo.1252858 (currently V 1.0) - please reference this DOI in any published work.
Currently the pre-calculated files of functional annotations for 497 rumen microbial genomes consisting of Kegg Ortholog (KO) predictions mapped from uniprot IDs as identified by PROKKA. A full list of the Genomes used can be found here: http://www.cowpi.org/p/genomes-included-in-cowpi.html.
These files can be used to implement CowPi on Galaxy, or with the PICRUSt command line tools.
Also contained in this data repository are pre-calculated OTUs and OTU abundance tables from the CowPi paper that can be used for the tutorial.