Explore Workflows

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

Graph Name Retrieved From View
workflow graph wgs alignment and germline variant detection

https://github.com/genome/analysis-workflows.git

Path: definitions/pipelines/germline_wgs_gvcf.cwl

Branch/Commit ID: master
workflow graph runAll.cwl

https://github.com/nlesc-sherlock/corporadb.git

Path: cwl/runAll.cwl

Branch/Commit ID: master
workflow graph 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
workflow graph transcoding-workflow.cwl

https://github.com/RoRu/Video-Packager.git

Path: cwl-scripts/transcoder/transcoding-workflow.cwl

Branch/Commit ID: master
workflow graph md5sum.cwl

https://github.com/dockstore-testing/dockstore-workflow-md5sum-unified.git

Path: md5sum/md5sum.cwl

Branch/Commit ID: 1.3.0
workflow graph preprocess_vcf.cwl

This workflow will perform preprocessing steps on VCFs for the OxoG/Variantbam/Annotation workflow.

https://github.com/svonworl/oxog-dockstore-tools.git

Path: preprocess_vcf.cwl

Branch/Commit ID: master
workflow graph etl_http_pdc.cwl

https://github.com/NCI-GDC/gdc-dnaseq-cwl.git

Path: workflows/dnaseq/etl_http_pdc.cwl

Branch/Commit ID: 1.1
workflow graph iwdr_with_nested_dirs.cwl

https://github.com/common-workflow-language/cwltool.git

Path: cwltool/schemas/v1.0/v1.0/iwdr_with_nested_dirs.cwl

Branch/Commit ID: 49cd284a8fc7884de763573075d3e1d6a4c1ffdd
workflow graph Run genomic CMsearch

https://github.com/ncbi/pgap.git

Path: bacterial_noncoding/wf_gcmsearch.cwl

Branch/Commit ID: dev
workflow graph CNV_pipeline

https://gitlab.bsc.es/lrodrig1/structuralvariants_poc.git

Path: structuralvariants/cwl/workflow.cwl

Branch/Commit ID: 1.0.7