• disambiguate For mixed or explant samples, provide a list of genome_build identifiers to check and remove from alignment. Currently supports cleaning a single organism. For example, with genome_build: hg19 and disambiguate: [mm10], it will align to hg19 and mm10, run disambiguation and discard reads confidently aligned to mm10 and not hg19. Affects fusion detection when star is chosen as the aligner. Aligner must be set to a non false value for this to run.