Module Biocaml_fastq (.ml)

module Biocaml_fastq: sig .. end

---

type item = {

}

module Error: sig .. end

val in_channel_to_item_stream  : ?buffer_size:int ->
 ?filename:string ->
 Pervasives.in_channel ->
 (item, Error.t) Core.Result.t Stream.t

module Exceptionful: sig .. end

module Transform: sig .. end

val item_of_sexp  : Sexplib.Sexp.t -> item 

val sexp_of_item  : item -> Sexplib.Sexp.t

Errors. All errors generated by any function in the Fastq module are defined here.

• `sequence_and_qualities_do_not_match (position, sequence, qualities) - given sequence and qualities at given position are of different lengths.

• `wrong_name_line x - name line x does not start with '@'

• `wrong_comment_line _ - comment line does not start with '+'

• `incomplete_input (position, lines, s) - the input ended prematurely. Trailing contents, which cannot be used to fully construct an item, are provided: lines is any complete lines parsed and s is any final string not ending in a newline.

Transform error to a human-readable string.

Create a full stoppable Biocaml_transform.t from arbitrary strings to item values.

Create a full stoppable Biocaml_transform.t from item values to strings.

Create a full stoppable Biocaml_transform.t that trims FASTQ items.