package bistro

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in-package search v0.2.0

A library to build and run distributed scientific workflows

Install

Dune Dependency

github.com Readme Edit opam file Versions (2)

Authors

P

Philippe Veber

Maintainers

P

philippe.veber@gmail.com

Sources

v0.5.0.tar.gz

md5=0ccb7c97728c94d17494b150192f6162

sha512=61dbd0ee5b98cd5fb8871d653aef0e440c318e9fbca439c3b0e4f86a32fa03c2a8a4770cd96b929b21b378db6788fa7d4df15935370be5b7b227564a31994998

doc/bistro.bioinfo/Bistro_bioinfo/Bedtools/index.html

Module `Bistro_bioinfo.Bedtools`

val img : Bistro.Shell_dsl.container_image list

type 'a input

val bed : bed3 input

val gff : gff input

module Cmd : sig ... end

val slop : 
  ?strand:bool ->
  ?header:bool ->
  mode:
    [ `both of int
    | `left of int
    | `right of int
    | `both_pct of float
    | `left_pct of float
    | `right_pct of float ] ->
  'a input ->
  'a Bistro.pworkflow ->
  Ucsc_gb.chrom_sizes Bistro.pworkflow ->
  'a Bistro.pworkflow

val intersect : 
  ?ubam:bool ->
  ?wa:bool ->
  ?wb:bool ->
  ?loj:bool ->
  ?wo:bool ->
  ?wao:bool ->
  ?u:bool ->
  ?c:bool ->
  ?v:bool ->
  ?f:float ->
  ?_F:float ->
  ?r:bool ->
  ?e:bool ->
  ?s:bool ->
  ?_S:bool ->
  ?split:bool ->
  ?sorted:bool ->
  ?g:Ucsc_gb.chrom_sizes Bistro.pworkflow ->
  ?header:bool ->
  ?filenames:bool ->
  ?sortout:bool ->
  'a input ->
  'a Bistro.pworkflow ->
  bed3 Bistro.pworkflow list ->
  'a Bistro.pworkflow

val bamtobed : 
  ?bed12:bool ->
  ?split:bool ->
  ?splitD:bool ->
  ?ed:bool ->
  ?tag:bool ->
  ?cigar:bool ->
  bam Bistro.pworkflow ->
  bed6 Bistro.pworkflow

val closest : 
  ?strand:[ `same | `opposite ] ->
  ?io:bool ->
  ?iu:bool ->
  ?id:bool ->
  ?fu:bool ->
  ?fd:bool ->
  ?ties:[ `all | `first | `last ] ->
  ?mdb:[ `each | `all ] ->
  ?k:int ->
  ?header:bool ->
  'a input ->
  'a Bistro.pworkflow ->
  bed3 Bistro.pworkflow list ->
  'a Bistro.pworkflow