Explore Workflows

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

Graph	Name	Retrieved From	View
	strelka workflow	https://github.com/genome/analysis-workflows.git Path: definitions/subworkflows/strelka_and_post_processing.cwl Branch/Commit ID: 39ac49f5d080bbb6bfa97246f46a5b621254f622
	wgs alignment and tumor-only variant detection	https://github.com/genome/analysis-workflows.git Path: definitions/pipelines/tumor_only_wgs.cwl Branch/Commit ID: 0b6e8fd8ead7644cf5398395b76af5cf4011686f
	exome alignment and tumor-only variant detection	https://github.com/fgomez02/analysis-workflows.git Path: definitions/pipelines/exome.cwl Branch/Commit ID: 9c9e6a6a48eb321804ce772a2c2c12b4f2f32529
	bam to trimmed fastqs and biscuit alignments	https://github.com/fgomez02/analysis-workflows.git Path: definitions/subworkflows/bam_to_trimmed_fastq_and_biscuit_alignments.cwl Branch/Commit ID: 9c9e6a6a48eb321804ce772a2c2c12b4f2f32529
	Varscan Workflow	https://github.com/tmooney/cancer-genomics-workflow.git Path: definitions/subworkflows/varscan_germline.cwl Branch/Commit ID: 233f026ffce240071edda526391be0c03186fce8
	exome alignment and germline variant detection, with optitype for HLA typing	https://github.com/tmooney/cancer-genomics-workflow.git Path: definitions/pipelines/germline_exome_hla_typing.cwl Branch/Commit ID: 233f026ffce240071edda526391be0c03186fce8
	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/tmooney/cancer-genomics-workflow.git Path: definitions/pipelines/somatic_exome.cwl Branch/Commit ID: 233f026ffce240071edda526391be0c03186fce8
	Apply filters to VCF file	https://github.com/genome/analysis-workflows.git Path: definitions/subworkflows/germline_filter_vcf.cwl Branch/Commit ID: 457e101e3fb87e7fd792357afce00ed8ccbfbcdb
	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: 844c10a4466ab39c02e5bfa7a210c195b8efa77a
	exome alignment with qc, no bqsr, no verify_bam_id	https://github.com/tmooney/cancer-genomics-workflow.git Path: definitions/pipelines/alignment_exome_mouse.cwl Branch/Commit ID: 233f026ffce240071edda526391be0c03186fce8