Module Biokepi_bfx_tools.Vaxrank (.ml)

module Vaxrank: sig .. end

module Configuration: sig .. end

type product = <

	`ascii_report_path : string option;`
	`is_done : Ketrew_pure.Target.Condition.t option;`
	`output_folder_path : string;`
	`pdf_report_path : string option;`
	`xlsx_report_path : string option;`

val run : run_with:Biokepi_run_environment.Machine.t ->
       configuration:Configuration.t ->
       reference_build:string ->
       vcfs:< is_done : Biokepi_run_environment.Common.KEDSL.Condition.t option;
              path : string; .. >
            Biokepi_run_environment.Common.KEDSL.workflow_node list ->
       bam:Biokepi_run_environment.Common.KEDSL.bam_file
           Biokepi_run_environment.Common.KEDSL.workflow_node ->
       predictor:[< `NetMHC
                  | `NetMHCIIpan
                  | `NetMHCcons
                  | `NetMHCcons_IEDB
                  | `NetMHCpan
                  | `NetMHCpan_IEDB
                  | `Random
                  | `SMM
                  | `SMM_IEDB
                  | `SMM_PMBEC
                  | `SMM_PMBEC_IEDB
                  > `NetMHC `NetMHCIIpan `NetMHCcons `NetMHCpan ] ->
       alleles_file:< is_done : Biokepi_run_environment.Common.KEDSL.Condition.t
                                option;
                      path : string; .. >
                    Biokepi_run_environment.Common.KEDSL.workflow_node ->
       output_folder:string ->
       < ascii_report_path : string option;
         is_done : Biokepi_run_environment.Common.KEDSL.Condition.t option;
         output_folder_path : string; pdf_report_path : string option;
         xlsx_report_path : string option >
       Biokepi_run_environment.Common.KEDSL.workflow_node