10.6084/m9.figshare.6931439.v3
John Lees
John
Lees
LIAM MCINTYRE
LIAM
MCINTYRE
MARK DAVIES
MARK
DAVIES
Streptococcus pyogenes PopPUNK database
figshare
2019
poppunk
gas
s. pyogenes
clustering
population genetics
Microbial Genetics
2019-08-24 13:56:04
Dataset
https://figshare.com/articles/dataset/Streptococcus_pyogenes_PopPUNK_database/6931439
Database for assigning cluster ID to new S. pyogenes isolates.<div>First extract:</div><div>tar xf GAS_query_v2.tar.bz2</div><div><br></div><div>Then assign new genomes:</div><div>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<br></div><div><br></div><div>Where query.list is a list of the assemblies to assign<br></div>