Explore Workflows

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

Graph Name Retrieved From View
workflow graph Cut-n-Run pipeline paired-end

Experimental pipeline for Cut-n-Run analysis. Uses mapping results from the following experiment types: - `chipseq-pe.cwl` - `trim-chipseq-pe.cwl` - `trim-atacseq-pe.cwl` Note, the upstream analyses should not have duplicates removed

 https://github.com/datirium/workflows.git

Path: workflows/trim-chipseq-pe-cut-n-run.cwl

Branch/Commit ID: ad948b2691ef7f0f34de38f0102c3cd6f5182b29
workflow graph cluster_blastp_wnode and gpx_qdump combined

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

Path: task_types/tt_cluster_and_qdump.cwl

Branch/Commit ID: 3897218b16b30a933beecd60a98a300d677207d8
workflow graph kmer_compare_wnode

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

Path: task_types/tt_kmer_compare_wnode.cwl

Branch/Commit ID: b360e89d85d83ba3b863bf86074c0ec7e5c58f48
workflow graph umi molecular alignment workflow

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

Path: definitions/subworkflows/molecular_alignment.cwl

Branch/Commit ID: 480c438a6a7e78c624712aec01bc4214d2bc179c
workflow graph umi molecular alignment workflow

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

Path: definitions/subworkflows/molecular_qc.cwl

Branch/Commit ID: d3e4bf55753cd92f97537c7d701187ea92d1e5f0
workflow graph Subworkflow that runs cnvkit in single sample mode and returns a vcf file

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

Path: definitions/subworkflows/cnvkit_single_sample.cwl

Branch/Commit ID: 2decd55996b912feb48be5db1b052aa3274ee405
workflow graph format_rrnas_from_seq_entry

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

Path: task_types/tt_format_rrnas_from_seq_entry.cwl

Branch/Commit ID: c08fd46e8f715b9b5aa487466705863e4b1829df
workflow graph vqsr-flow.cwl

run vqsr flow, including vqsr rcal, vqsr apply and plot

 https://github.com/Sentieon/Sentieon-cwl.git

Path: stage/vqsr-flow.cwl

Branch/Commit ID: 845f4699c5fce96a4c708a553b3701c9cf296653
workflow graph Protein Ligand Complex MD Setup tutorial using BioExcel Building Blocks (biobb)

Common Workflow Language example that illustrate the process of setting up a simulation system containing a protein, step by step, using the BioExcel Building Blocks library (biobb). The particular example used is the Lysozyme protein (PDB code 1AKI).

https://github.com/bioexcel/biobb-wf-md-setup-protein-cwl.git

Path: protein_md.cwl

Branch/Commit ID: c7a9b4180e1e65f2e6d8fdeb7f8dbbf5c2433dfa
workflow graph merge and annotate svs with population allele freq

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

Path: definitions/subworkflows/merge_svs.cwl

Branch/Commit ID: 5c4125344b1b9125ad04d7e768ecc99901570a7a