WDL that runs FCS workflow

Hailey Loucks 5/26/23


This workflow takes an assembly, the FCS-GX database, and the FCS script. It will run FCS-GX and output the reports generated by that process as well as a gzipped fasta that should have the contamination contigs removed and a gzipped fasta file with just the contamination for review.


  • Assembly
  • FCS GX wrapper script
  • FCS adapter script [run

This is a companion discussion topic for the original entry at