Explore Workflows

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

Graph	Name	Retrieved From	View
	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: 54846feabbf008c1946db2a86d87252e0edd95b0
	exome alignment and germline variant detection	https://github.com/genome/analysis-workflows.git Path: definitions/subworkflows/germline_detect_variants.cwl Branch/Commit ID: 2ae0a374fab650757cdae4391c8cbd32f02edf97
	Detect Variants workflow	https://github.com/genome/analysis-workflows.git Path: definitions/pipelines/detect_variants.cwl Branch/Commit ID: 038cb3617a1966a1057386adcde97ce55d9e1139
	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: 54846feabbf008c1946db2a86d87252e0edd95b0
	bam2fasta.cwl	https://github.com/arvados/bh20-seq-resource.git Path: workflows/fastq2fasta/bam2fasta.cwl Branch/Commit ID: 30f3f8b0e9efbc954518fc8ea621b53c9591c83a
	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: eb0092603bf57acb7bda08a06e4f2f1e2a8c9b6d
	no-outputs-wf.cwl Workflow without outputs.	https://github.com/common-workflow-language/common-workflow-language.git Path: v1.0/v1.0/no-outputs-wf.cwl Branch/Commit ID: ca8e6661b5cab1f017e5bc4024650722dae4d50b
	sec-wf.cwl	https://github.com/common-workflow-language/cwltool.git Path: tests/wf/sec-wf.cwl Branch/Commit ID: e4a52682f3bdefafe5c27e32983fed31116ac489
	revsort.cwl Reverse the lines in a document, then sort those lines.	https://github.com/common-workflow-language/cwltool.git Path: tests/wf/revsort.cwl Branch/Commit ID: d7cd45f7072960d264962ecc5a04d7c219f65c06
	EMG QC workflow, (paired end version). Benchmarking with MG-RAST expt.	https://github.com/farahzkhan/ebi-metagenomics-cwl.git Path: workflows/emg-qc-paired.cwl Branch/Commit ID: 6430df56f7345f837d3f9c3f7fb5af5aa9dadc90