"Best practice" for maintaining genome list in Galaxy
Is there current "best practice" for maintaining a collection of reference genome data in a Galaxy server? I.e. filling in the dbkeys.loc and all_fasta.loc table and associated data. I know of the following discussions on this topic:
7. I hear the usegalaxy.org reference collection is available via cvmfs - I think this was discussed in a Galaxy Admins meetup at some point.
None of this is comprehensive. There are 2 sets of questions for me (in my role as Galaxy admin):
1. If I want to make reference genomes and common indices (like for HISAT and BWA) available for e.g. human and mouse, what is the best way to do this?
2. If I want to add a genome for a non-model organism (e.g. M. tuberculosis or L. calcarifer) available, what is the best way to do this? Which data manager should or could I use?
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