Streptococcus pyogenes PopPUNK database

2019-08-24T13:56:04Z (GMT) by John Lees LIAM MCINTYRE MARK DAVIES
Database for assigning cluster ID to new S. pyogenes isolates.
First extract:
tar xf GAS_query_v2.tar.bz2

Then assign new genomes:
poppunk --assign-query --ref-db GAS_query_v2 --distances GAS_query_v2/GAS_query_v2.dists --model-dir GAS_query_v2 --q-files query.list --output GAS_assignment --threads 8

Where query.list is a list of the assemblies to assign