Explore Workflows

View already parsed workflows here or click here to add your own

Graph	Name	Retrieved From	View
	scatter-wf4.cwl#main	https://github.com/common-workflow-language/cwltool.git Path: tests/wf/scatter-wf4.cwl Branch/Commit ID: d7cd45f7072960d264962ecc5a04d7c219f65c06 Packed ID: main
	exome alignment and germline variant detection	https://github.com/genome/analysis-workflows.git Path: definitions/subworkflows/germline_detect_variants.cwl Branch/Commit ID: eb0092603bf57acb7bda08a06e4f2f1e2a8c9b6d
	bam to trimmed fastqs	https://github.com/genome/analysis-workflows.git Path: definitions/subworkflows/bam_to_trimmed_fastq.cwl Branch/Commit ID: cfdcd0735e8fb1ac0b97f1a5cbe0cc7e00033dd0
	Tumor-Only Detect Variants workflow	https://github.com/genome/analysis-workflows.git Path: definitions/pipelines/tumor_only_detect_variants.cwl Branch/Commit ID: 700e73aaed6db1ad538dd27b2e1709f436ad3edb
	Detect DoCM variants	https://github.com/litd/analysis-workflows.git Path: definitions/subworkflows/docm_germline.cwl Branch/Commit ID: 18d8efdc4c97c1c9222f603f529b909b36fa42e7
	exome alignment and germline variant detection, with optitype for HLA typing	https://github.com/genome/analysis-workflows.git Path: definitions/pipelines/germline_exome_hla_typing.cwl Branch/Commit ID: 3bb0693076adc1543079a6b136c74906ad546ac6
	Detect Variants workflow	https://github.com/genome/analysis-workflows.git Path: definitions/pipelines/detect_variants.cwl Branch/Commit ID: 74647cc0f1abac4ee22950cfa89c44cf2ca3cffd
	somatic_exome: exome alignment and somatic variant detection somatic_exome is designed to perform processing of mutant/wildtype H.sapiens exome sequencing data. It features BQSR corrected alignments, 4 caller variant detection, and vep style annotations. Structural variants are detected via manta and cnvkit. In addition QC metrics are run, including somalier concordance metrics. example input file = analysis_workflows/example_data/somatic_exome.yaml	https://github.com/genome/analysis-workflows.git Path: definitions/pipelines/somatic_exome.cwl Branch/Commit ID: 74647cc0f1abac4ee22950cfa89c44cf2ca3cffd
	exome alignment and germline variant detection	https://github.com/genome/analysis-workflows.git Path: definitions/pipelines/germline_exome.cwl Branch/Commit ID: 74647cc0f1abac4ee22950cfa89c44cf2ca3cffd
	gatk4W.cwl Author: AMBARISH KUMAR er.ambarish@gmail.com & ambari73_sit@jnu.ac.in This is a proposed standard operating procedure for genomic variant detection using GATK4. It is hoped to be effective and useful for getting SARS-CoV-2 genome variants. It uses Illumina RNASEQ reads and genome sequence.	https://github.com/ambarishK/bio-cwl-tools.git Path: gatk4W.cwl Branch/Commit ID: 690ff2fa1ef356c42003e4b9986d39f4e44806a8