Explore Workflows
View already parsed workflows here or click here to add your own
| Graph | Name | Retrieved From | View |
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cnv_gridss
CNV GRIDSS calling |
https://gitlab.bsc.es/lrodrig1/structuralvariants_poc.git
Path: structuralvariants/cwl/subworkflows/cnv_gridss.cwl Branch/Commit ID: 1.0.7 |
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kmer_cache_retrieve
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https://github.com/ncbi/pgap.git
Path: task_types/tt_kmer_cache_retrieve.cwl Branch/Commit ID: 89098668413e90519c99b35143bffec509d3599c |
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import_include_test.cwl
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https://github.com/wshands/CWL1.2Test.git
Path: import_include_test.cwl Branch/Commit ID: develop |
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delay-calibration.cwl
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https://github.com/lonbar/VLBI-cwl.git
Path: workflows/delay-calibration.cwl Branch/Commit ID: master |
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kmer_cache_store
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https://github.com/ncbi/pgap.git
Path: task_types/tt_kmer_cache_store.cwl Branch/Commit ID: be32f1363f9a9a9247d738e9593b207e9c5172c8 |
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mutect parallel workflow
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https://github.com/genome/cancer-genomics-workflow.git
Path: mutect/workflow.cwl Branch/Commit ID: toil_compatibility |
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Chipseq alignment with qc and creating homer tag directory
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https://github.com/genome/analysis-workflows.git
Path: definitions/pipelines/chipseq.cwl Branch/Commit ID: ef7f3345b352319ec22dffba26c79df033b141f9 |
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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 |
https://git.wur.nl/unlock/cwl.git
Path: cwl/workflows/workflow_illumina_quality.cwl Branch/Commit ID: master |
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Tumor-Only Detect Variants workflow
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https://github.com/apaul7/cancer-genomics-workflow.git
Path: definitions/pipelines/tumor_only_detect_variants.cwl Branch/Commit ID: low-vaf |
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multi.cwl
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https://github.com/gijzelaerr/spiel.git
Path: multi.cwl Branch/Commit ID: master |
