Explore Workflows
View already parsed workflows here or click here to add your own
Graph | Name | Retrieved From | View |
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default-wf5.cwl
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https://github.com/common-workflow-language/cwltool.git
Path: tests/wf/default-wf5.cwl Branch/Commit ID: 4df56e95e6fceab69e677b539f3532cbf5946197 |
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Unaligned BAM to BQSR and VCF
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https://github.com/genome/analysis-workflows.git
Path: definitions/subworkflows/bam_to_bqsr_no_dup_marking.cwl Branch/Commit ID: 509938802c5e42bb8084c6a5a26ab6425c60e69a |
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phase VCF
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https://github.com/genome/analysis-workflows.git
Path: definitions/subworkflows/phase_vcf.cwl Branch/Commit ID: f0cdc773e31e4aa116838e8aba4954c31bd3d68b |
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scatter-valuefrom-wf5.cwl
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https://github.com/common-workflow-language/cwltool.git
Path: cwltool/schemas/v1.0/v1.0/scatter-valuefrom-wf5.cwl Branch/Commit ID: 9a8e654a91ea5d26e8452dd1cecf3faf22b7a12e |
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Alignment without BQSR
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https://github.com/genome/analysis-workflows.git
Path: definitions/subworkflows/sequence_to_bqsr_mouse.cwl Branch/Commit ID: 54846feabbf008c1946db2a86d87252e0edd95b0 |
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Unaligned BAM to BQSR and VCF
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https://github.com/genome/analysis-workflows.git
Path: definitions/subworkflows/bam_to_bqsr_no_dup_marking.cwl Branch/Commit ID: d3e4bf55753cd92f97537c7d701187ea92d1e5f0 |
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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/litd/analysis-workflows.git
Path: definitions/pipelines/somatic_exome.cwl Branch/Commit ID: 18d8efdc4c97c1c9222f603f529b909b36fa42e7 |
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Varscan Workflow
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https://github.com/genome/analysis-workflows.git
Path: definitions/subworkflows/varscan_germline.cwl Branch/Commit ID: 742dbafb5fb103d8578f48a0576c14dd8dae3b2a |
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hmmsearch_wnode and gpx_qdump combined workflow to apply scatter/gather
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https://github.com/ncbi/pgap.git
Path: task_types/tt_hmmsearch_wnode_plus_qdump.cwl Branch/Commit ID: 0514ffe248dd11068a3f2268bc67b6ce5ab051d2 |
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mutect panel-of-normals workflow
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https://github.com/genome/analysis-workflows.git
Path: definitions/pipelines/panel_of_normals.cwl Branch/Commit ID: 742dbafb5fb103d8578f48a0576c14dd8dae3b2a |