Explore Workflows
View already parsed workflows here or click here to add your own
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module-4
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Path: setup/cwl/module-4.cwl Branch/Commit ID: dev |
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merge_filter.cwl
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Path: CWL/workflow_modules/merge_filter.cwl Branch/Commit ID: master |
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cnv_exomedepth
CNV ExomeDepth calling |
Path: structuralvariants/cwl/abstract_operations/subworkflows/cnv_exome_depth.cwl Branch/Commit ID: master |
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forome_vcf_upload_uri.cwl
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Path: forome_vcf_upload_uri.cwl Branch/Commit ID: main |
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Initial CNVkit analysis
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Path: subworkflows/cnvkit_initial_analysis.cwl Branch/Commit ID: master |
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Runs InterProScan on batches of sequences to retrieve functional annotations.
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Path: workflows/InterProScan-v5-chunked-wf.cwl Branch/Commit ID: master |
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gk-parse-current.cwl
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Path: cwl/gk-parse-current.cwl Branch/Commit ID: master |
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Illumina read quality control, trimming and contamination filter.
**Workflow for Illumina paired read quality control, trimming and filtering.**<br /> Multiple paired datasets will be merged into single paired dataset.<br /> Summary: - FastQC on raw data files<br /> - fastp for read quality trimming<br /> - BBduk for phiX and (optional) rRNA filtering<br /> - Kraken2 for taxonomic classification of reads (optional)<br /> - BBmap for (contamination) filtering using given references (optional)<br /> - FastQC on filtered (merged) data<br /> **All tool CWL files and other workflows can be found here:**<br> Tools: https://git.wur.nl/unlock/cwl/-/tree/master/cwl<br> Workflows: https://git.wur.nl/unlock/cwl/-/tree/master/cwl/workflows<br> WorkflowHub: https://workflowhub.eu/projects/16/workflows?view=default |
Path: cwl/workflows/workflow_illumina_quality.cwl Branch/Commit ID: master |
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fillout_singleton_processing.cwl
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Path: cwl/fillout_singleton_processing.cwl Branch/Commit ID: master |
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blastp_wnode_naming
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Path: task_types/tt_blastp_wnode_naming.cwl Branch/Commit ID: dev |
