val bowtie2_build : ?large_index:bool ‑> ?noauto:bool ‑> ?packed:bool ‑> ?bmax:int ‑> ?bmaxdivn:int ‑> ?dcv:int ‑> ?nodc:bool ‑> ?noref:bool ‑> ?justref:bool ‑> ?offrate:int ‑> ?ftabchars:int ‑> ?seed:int ‑> ?cutoff:int ‑> Defs.fasta Bistro.Std.workflow ‑> index Bistro.Std.workflowval bowtie2 : ?skip:int ‑> ?qupto:int ‑> ?trim5:int ‑> ?trim3:int ‑> ?preset:[ `very_fast | `fast | `sensitive | `very_sensitive ] ‑> ?_N:int ‑> ?_L:int ‑> ?ignore_quals:bool ‑> ?mode:[ `end_to_end | `local ] ‑> ?a:bool ‑> ?k:int ‑> ?_D:int ‑> ?_R:int ‑> ?minins:int ‑> ?maxins:int ‑> ?orientation:[ `fr | `ff | `rf ] ‑> ?no_mixed:bool ‑> ?no_discordant:bool ‑> ?dovetail:bool ‑> ?no_contain:bool ‑> ?no_overlap:bool ‑> ?no_unal:bool ‑> ?seed:int ‑> ?fastq_format:'a Fastq.format ‑> index Bistro.Std.workflow ‑> [ `single_end of 'a Defs.fastq Bistro.Std.workflow list | `paired_end of 'a Defs.fastq Bistro.Std.workflow list * 'a Defs.fastq Bistro.Std.workflow list ] ‑> Defs.sam Bistro.Std.workflow