Explore Workflows
View already parsed workflows here or click here to add your own
| Graph | Name | Retrieved From | View |
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Apply filters to VCF file
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https://github.com/genome/cancer-genomics-workflow.git
Path: detect_variants/filter_vcf.cwl Branch/Commit ID: toil_compatibility |
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cnv_codex
CNV CODEX calling |
https://gitlab.bsc.es/lrodrig1/structuralvariants_poc.git
Path: structuralvariants/cwl/subworkflows/cnv_codex.cwl Branch/Commit ID: 1.0.7 |
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EMG pipeline v3.0 (single end version)
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https://github.com/ProteinsWebTeam/ebi-metagenomics-cwl.git
Path: workflows/emg-pipeline-v3.cwl Branch/Commit ID: 3f85843 |
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Unaligned to aligned BAM
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https://github.com/genome/cancer-genomics-workflow.git
Path: unaligned_bam_to_bqsr/align.cwl Branch/Commit ID: toil_compatibility |
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ug-distr.cwl
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https://github.com/Sentieon/Sentieon-cwl.git
Path: stage/ug-distr.cwl Branch/Commit ID: master |
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picard_markduplicates
Mark duplicates |
https://gitlab.bsc.es/lrodrig1/structuralvariants_poc.git
Path: structuralvariants/cwl/abstract_operations/subworkflows/picard_markduplicates.cwl Branch/Commit ID: master |
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bgzip and index VCF
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https://github.com/hamid58b/cancer-genomics-workflow.git
Path: varscan/bgzip_and_index.cwl Branch/Commit ID: master |
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SetParameterFromExternal
Receive parameter update (e.g., by querying an external source like a configuration or calibration database) or by expert input (e.g., by a member of a telescope team or a simulation pipeline expert). |
https://gitlab.desy.de/gernot.maier/cwlsandbox.git
Path: workflows/SetParameterFromExternal.cwl Branch/Commit ID: main |
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main.cwl
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https://github.com/alpha-unito/cwl-1000genome-workflow.git
Path: main.cwl Branch/Commit ID: master |
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Quality assessment, amplicon classification
Workflow for quality assessment of paired reads and classification using NGTax 2.0. In addition files are exported to their respective subfolders for easier data management in a later stage. Steps: - FastQC (read quality control) - NGTax 2.0 - Export module |
https://git.wur.nl/unlock/cwl.git
Path: cwl/workflows/workflow_ngtax.cwl Branch/Commit ID: master |
