Module Biokepi_run_environment.Region (.ml)

module Region: sig .. end

type t = [ `Chromosome of string | `Chromosome_interval of string * int * int | `Full ]

Positions are 1-based

val to_filename : [< `Chromosome of string | `Chromosome_interval of string * int * int | `Full ] ->
       string

Make a filename-compliant string out of a region specification.

val to_samtools_specification : [< `Chromosome of string | `Chromosome_interval of string * int * int | `Full ] ->
       string option

val to_samtools_option : [< `Chromosome of string | `Chromosome_interval of string * int * int | `Full ] ->
       string

val to_gatk_option : [< `Chromosome of string | `Chromosome_interval of string * int * int | `Full ] ->
       string

val parse_samtools : string ->
       [> `Chromosome of string | `Chromosome_interval of string * int * int ]

val cmdliner_term : unit ->
       [> `Chromosome of string | `Chromosome_interval of string * int * int | `Full ]
       Cmdliner.Term.t