Explore Workflows

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

Graph Name Retrieved From View
workflow graph directory.cwl

Inspect provided directory and return filenames. Generate a new directory and return it (including content).

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

Path: tests/wf/directory.cwl

Branch/Commit ID: ecdfe1ee769d05790f70ac87a711131f441f3753
workflow graph tpp.cwl

https://github.com/sbg/sbg_dockstore_tools.git

Path: trans_proteomic_pipeline/tpp.cwl

Branch/Commit ID: master
workflow graph Transcripts annotation workflow

https://github.com/hmenager/workflow-is-cwl.git

Path: workflows/TranscriptsAnnotation-i5only-wf.cwl

Branch/Commit ID: master
workflow graph plant2human main workflow

\" plant2human main workflow: compare structural similarity and sequence similarity Compare distantly related species, such as plants and humans, using measures of structural similarity and sequence similarity. This workflow will contribute to the discovery of protein-coding genes with features that are “sequence dissimilar but structurally similar”. \"

https://github.com/yonesora56/plant2human.git

Path: Workflow/plant2human.cwl

Branch/Commit ID: main
workflow graph Nanopore assembly workflow

**Workflow for sequencing with ONT Nanopore data, from basecalled reads to (meta)assembly and binning**<br> - Workflow Nanopore Quality - Kraken2 taxonomic classification of FASTQ reads - Flye (de-novo assembly) - Medaka (assembly polishing) - metaQUAST (assembly quality reports) **When Illumina reads are provided:** - Workflow Illumina Quality: https://workflowhub.eu/workflows/336?version=1 - Assembly polishing with Pilon<br> - Workflow binnning https://workflowhub.eu/workflows/64?version=11 - Metabat2 - CheckM - BUSCO - GTDB-Tk **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> The dependencies are either accessible from https://unlock-icat.irods.surfsara.nl (anonymous,anonymous)<br> and/or<br> By using the conda / pip environments as shown in https://git.wur.nl/unlock/docker/-/blob/master/kubernetes/scripts/setup.sh<br>

https://git.wur.nl/unlock/cwl.git

Path: cwl/workflows/workflow_nanopore_assembly.cwl

Branch/Commit ID: master
workflow graph picard_markduplicates

Mark duplicates

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

Path: structuralvariants/cwl/subworkflows/picard_markduplicates.cwl

Branch/Commit ID: 1.1.3
workflow graph run_workflow_234.cwl

https://github.com/ncbi/cwl-demos.git

Path: outlier-hit-detection-pipeline/run_workflow_234.cwl

Branch/Commit ID: master
workflow graph EMG assembly for paired end Illumina

https://github.com/EBI-Metagenomics/ebi-metagenomics-cwl.git

Path: workflows/emg-assembly.cwl

Branch/Commit ID: 5833078
workflow graph WF6101.cwl

https://github.com/Marco-Salvi/dtc61.git

Path: WF6101.cwl

Branch/Commit ID: main
workflow graph WF6101.cwl

https://github.com/Marco-Salvi/dtc61.git

Path: WF6101.cwl

Branch/Commit ID: remove-cycles