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/Kallisto/index.html

Module `Bistro_bioinfo.Kallisto`

class type index = object ... end

class type abundance_table = object ... end

val img : Bistro.Shell_dsl.container_image list

val index : fasta Bistro.pworkflow list -> index Bistro.pworkflow

val quant : 
  ?bootstrap_samples:int ->
  ?threads:int ->
  ?fragment_length:float ->
  ?sd:float ->
  index Bistro.pworkflow ->
  fq1:
    [ `fq of sanger_fastq Bistro.pworkflow
    | `fq_gz of sanger_fastq Bistro.gz Bistro.pworkflow ] ->
  ?fq2:
    [ `fq of sanger_fastq Bistro.pworkflow
    | `fq_gz of sanger_fastq Bistro.gz Bistro.pworkflow ] ->
  unit ->
  [ `kallisto_output ] Bistro.dworkflow

val abundance : 
  [ `kallisto_output ] Bistro.dworkflow ->
  abundance_table Bistro.pworkflow

val merge_eff_counts : 
  sample_ids:string list ->
  kallisto_outputs:abundance_table Bistro.pworkflow list ->
  Bistro.tsv Bistro.pworkflow

val merge_tpms : 
  sample_ids:string list ->
  kallisto_outputs:abundance_table Bistro.pworkflow list ->
  Bistro.tsv Bistro.pworkflow