bistro-bio 0.6.0 · OCaml Package

val mapped_reads : 
  [ `ES_WT_ChIP_Essrb_Chen2008
  | `ES_WT_ChIP_Nanog_Chen2008
  | `ES_WT_ChIP_Pou5f1_Chen2008
  | `ES_WT_ChIP_Sox2_Chen2008 ] ->
  Bistro_bio.Formats.sam Bistro.file

val mapped_reads_indexed_bam : 
  [ `ES_WT_ChIP_Essrb_Chen2008
  | `ES_WT_ChIP_Nanog_Chen2008
  | `ES_WT_ChIP_Pou5f1_Chen2008
  | `ES_WT_ChIP_Sox2_Chen2008 ] ->
  [ `indexed_bam ] Bistro.directory

val mapped_reads_bam : 
  [ `ES_WT_ChIP_Essrb_Chen2008
  | `ES_WT_ChIP_Nanog_Chen2008
  | `ES_WT_ChIP_Pou5f1_Chen2008
  | `ES_WT_ChIP_Sox2_Chen2008 ] ->
  Bistro_bio.Formats.bam Bistro.file

val mapped_reads_nodup : 
  [ `ES_WT_ChIP_Essrb_Chen2008
  | `ES_WT_ChIP_Nanog_Chen2008
  | `ES_WT_ChIP_Pou5f1_Chen2008
  | `ES_WT_ChIP_Sox2_Chen2008 ] ->
  Bistro_bio.Formats.bam Bistro.file

val mapped_reads_nodup_indexed : 
  [ `ES_WT_ChIP_Essrb_Chen2008
  | `ES_WT_ChIP_Nanog_Chen2008
  | `ES_WT_ChIP_Pou5f1_Chen2008
  | `ES_WT_ChIP_Sox2_Chen2008 ] ->
  [ `indexed_bam ] Bistro.directory

val coverage : 
  [ `ES_WT_ChIP_Essrb_Chen2008
  | `ES_WT_ChIP_Nanog_Chen2008
  | `ES_WT_ChIP_Pou5f1_Chen2008
  | `ES_WT_ChIP_Sox2_Chen2008 ] ->
  Bistro_bio.Ucsc_gb.bigWig Bistro.file

val counts : 
  no_dups:bool ->
  feature_type:string ->
  attribute_type:string ->
  gff:Bistro_bio.Formats.gff Bistro.file ->
  [ `ES_WT_ChIP_Essrb_Chen2008
  | `ES_WT_ChIP_Nanog_Chen2008
  | `ES_WT_ChIP_Pou5f1_Chen2008
  | `ES_WT_ChIP_Sox2_Chen2008 ] ->
  [ `featureCounts ] Bistro.directory

val fastq_screen : 
  possible_contaminants:(string * Bistro_bio.Formats.fasta Bistro.file) list ->
  [ `ES_WT_ChIP_Essrb_Chen2008
  | `ES_WT_ChIP_Nanog_Chen2008
  | `ES_WT_ChIP_Pou5f1_Chen2008
  | `ES_WT_ChIP_Sox2_Chen2008 ] ->
  Bistro.html Bistro.file

val bamstats : 
  [ `ES_WT_ChIP_Essrb_Chen2008
  | `ES_WT_ChIP_Nanog_Chen2008
  | `ES_WT_ChIP_Pou5f1_Chen2008
  | `ES_WT_ChIP_Sox2_Chen2008 ] ->
  Bistro.text Bistro.file

val bamstats_alt : 
  [ `ES_WT_ChIP_Essrb_Chen2008
  | `ES_WT_ChIP_Nanog_Chen2008
  | `ES_WT_ChIP_Pou5f1_Chen2008
  | `ES_WT_ChIP_Sox2_Chen2008 ] ->
  Biocaml_ez.Bamstats.t Bistro.workflow

val chrstats : 
  [ `ES_WT_ChIP_Essrb_Chen2008
  | `ES_WT_ChIP_Nanog_Chen2008
  | `ES_WT_ChIP_Pou5f1_Chen2008
  | `ES_WT_ChIP_Sox2_Chen2008 ] ->
  Bistro.text Bistro.file

val alignment_summary : Bistro.html Bistro.file

package bistro-bio