Module Biocaml.Bam (.ml)

module Bam: Biocaml_bam

type raw_alignment = {

qname :string;

flag :int;

ref_id :int;

pos :int; (* 0-based, -1 if undefined *)

mapq :int;

bin :int;

cigar :string;

next_ref_id :int;

pnext :int;

tlen :int;

seq :string;

qual :int array;

optional :string;

}

type raw_item = [ `alignment of raw_alignment 
 | `header of string
 | `reference_information of (string * int) array ]

module Transform: sig .. end

val raw_alignment_of_sexp  : Sexplib.Sexp.t -> raw_alignment

val sexp_of_raw_alignment  : raw_alignment -> Sexplib.Sexp.t

val raw_item_of_sexp  : Sexplib.Sexp.t -> raw_item

val raw_item_of_sexp__  : Sexplib.Sexp.t -> raw_item

val sexp_of_raw_item  : raw_item -> Sexplib.Sexp.t