Explore Workflows

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

Graph	Name	Retrieved From	View
	chip-seq-alignment.cwl	https://github.com/ncbi/cwl-ngs-workflows-cbb.git Path: workflows/ChIP-Seq/chip-seq-alignment.cwl Branch/Commit ID: 3b9736a19eed3efc8f6cc587df282aad4f50a2ee
	scatterfail.cwl	https://github.com/common-workflow-language/cwltool.git Path: tests/wf/scatterfail.cwl Branch/Commit ID: e4a52682f3bdefafe5c27e32983fed31116ac489
	Varscan Workflow	https://github.com/genome/analysis-workflows.git Path: definitions/subworkflows/varscan_pre_and_post_processing.cwl Branch/Commit ID: cfdcd0735e8fb1ac0b97f1a5cbe0cc7e00033dd0
	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: 742dbafb5fb103d8578f48a0576c14dd8dae3b2a
	genomel_cohort_gatk4.cwl	https://github.com/uc-cdis/genomel_pipelines.git Path: genomel/genomel_cohort_gatk4.cwl Branch/Commit ID: 28bb82ba031041321ff9caa5c299ec1bb15d7471
	import_schema-def.cwl	https://github.com/common-workflow-language/common-workflow-language.git Path: v1.0/v1.0/import_schema-def.cwl Branch/Commit ID: ca8e6661b5cab1f017e5bc4024650722dae4d50b
	kmer_seq_entry_extract_wnode	https://github.com/ncbi-gpipe/pgap.git Path: task_types/tt_kmer_seq_entry_extract_wnode.cwl Branch/Commit ID: be4060eec958c419c0f559da575533c8e0459ae5
	Cut-n-Run pipeline paired-end Experimental pipeline for Cut-n-Run analysis. Uses mapping results from the following experiment types: - `chipseq-pe.cwl` - `trim-chipseq-pe.cwl` - `trim-atacseq-pe.cwl` Note, the upstream analyses should not have duplicates removed	https://github.com/datirium/workflows.git Path: workflows/trim-chipseq-pe-cut-n-run.cwl Branch/Commit ID: 1f03ff02ef829bdb9d582825bcd4ca239e84ca2e
	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: 9143dc4ebacb9e1df36a712b0be6fa5d982b0c4f
	apolloServer-createOrganism-workflow.cwl	https://github.com/NAL-i5K/Organism_Onboarding.git Path: apolloServer-createOrganism-workflow.cwl Branch/Commit ID: 45bb8fc5cc5e5fee3f29099469621a53d084757d