package biocaml

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The OCaml Bioinformatics Library

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biocaml.org Readme Edit opam file Versions (5)

Authors

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biocaml@googlegroups.com

Sources

v0.11.1.tar.gz

md5=e292efa2f61fec33dad63ec897106f59

sha512=35519bf3b1e67a9191ef9bb74eba0dae941e0d05bad89076a36f507dc5c2d105a03c1c917d5a3f7ed9d1da4acbf3199582f78c308aa2a5a22c21f743945c852b

doc/biocaml.unix/Biocaml_unix/Seq_range/index.html

Module `Biocaml_unix.Seq_range`Source

Range on a sequence, where the sequence is represented by an identifier.

This datatype can be used to represent genomic regions with a triplet (chromosome, start, end) as can be found in say, BED files. The Seq_range.Make functor offers some genericity for the choice of the type representing a sequence identifier, while the module offers the most frequent case when the identifier is a simple string.

Most operations on Seq_range.t are simple extensions of operations on Range.t.

Sourcemodule type Identifier = sig ... end

Sourcemodule Make (S : Identifier) : sig ... end

include sig ... end

Sourcetype t = Core_kernel.String.t * Range.t

Sourceval compare : t -> t -> int

Sourceval t_of_sexp : Sexplib0__.Sexp.t -> t

Sourceval sexp_of_t : t -> Sexplib0__.Sexp.t

Sourceval make : Core_kernel.String.t -> int -> int -> t Core_kernel.Or_error.t

Sourceval seq : t -> Core_kernel.String.t

Sourceval size : t -> int

Sourceval to_string : t -> string

String representation of a sequence range, as <seq>:<start>-<end>

Sourceval of_string : string -> t Core_kernel.Or_error.t

Parses a string representation of a sequence range, as <seq>:<start>-<end>