package biocaml

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in-package search v0.2.0

The OCaml Bioinformatics Library

Install

md5=4cf944bcae5d36bf47b67f6bcb2455d7

sha512=0262b5768aefd7c080f664c46c88876fce9a658cc6a87358a77b7112c49ae3042e7ab542e76be5738fbaeda853149b308b48d4897960b5c7ae3b4da71d978bd8

type t = {

total : int;
qc_pass : int;
(*
not_passing_quality_controls returns false, assumed for all other counts
*)
single_reads : int;
(*
has_multiple_segments returns false
*)
read_pairs : int;
(*
has_multiple_segments and first_segment
*)
mapped_reads : int;
(*
!segment_unmapped and !secondary_alignment and !supplementary_alignment
*)
mapped_pairs : int;
(*
has_multiple_segments and first_segment and each_segment_properly_aligned and !secondary_alignment and !supplementary_alignment
*)

}

include Ppx_sexp_conv_lib.Sexpable.S with type t := t

val t_of_sexp : Sexplib0.Sexp.t -> t

val sexp_of_t : t -> Sexplib0.Sexp.t

val zero : t

val update0 : t -> Bam.Alignment0.t -> t Core_kernel.Or_error.t

val update : t -> Sam.alignment -> t

module Fragment_length_histogram : sig ... end

module Chr_histogram : sig ... end