Explore Workflows

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

Graph Name Retrieved From View
workflow graph bact_get_kmer_reference

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

Path: task_types/tt_bact_get_kmer_reference.cwl

Branch/Commit ID: 146df33e2e44afa2a608ac72c036e6b6b871af93
workflow graph taxonomy_check_16S

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

Path: task_types/tt_taxonomy_check_16S.cwl

Branch/Commit ID: 7f857f7f2d7c080d27c775b67a6d6f7d94bce31f
workflow graph mut3.cwl

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

Path: tests/wf/mut3.cwl

Branch/Commit ID: 216fbe57afcf67d81c99b49c1aa3aee0844f0a6a
workflow graph Long-covid.cwl

https://github.com/cwlviewer-test/Long-covid---aedea650-7a21-11ed-b9d2-e51f21933d80-1.git

Path: Long-covid.cwl

Branch/Commit ID: read-potential-cases-disc
workflow graph Long-covid.cwl

https://github.com/cwlviewer-test/Long-covid---aedea650-7a21-11ed-b9d2-e51f21933d80-1.git

Path: Long-covid---a9e48a70-7a21-11ed-b9d2-e51f21933d80/Long-covid.cwl

Branch/Commit ID: read-potential-cases-disc
workflow graph index sim seq

create sorted / filtered similarity file with feature sequences, and index by md5

 https://github.com/MG-RAST/pipeline.git

Path: CWL/Workflows/index_sim_seq.workflow.cwl

Branch/Commit ID: f5839797da8209a9d3e441023f88130219751020
workflow graph Long-covid.cwl

https://github.com/phenoflow/Long-covid---aede7f40-7a21-11ed-b9d2-e51f21933d80.git

Path: Long-covid.cwl

Branch/Commit ID: 7df854469636576fc354111c5e96c072e2035b49
workflow graph bam-bedgraph-bigwig.cwl

Workflow converts input BAM file into bigWig and bedGraph files. Input BAM file should be sorted by coordinates (required by `bam_to_bedgraph` step). If `split` input is not provided use true by default. Default logic is implemented in `valueFrom` field of `split` input inside `bam_to_bedgraph` step to avoid possible bug in cwltool with setting default values for workflow inputs. `scale` has higher priority over the `mapped_reads_number`. The last one is used to calculate `-scale` parameter for `bedtools genomecov` (step `bam_to_bedgraph`) only in a case when input `scale` is not provided. All logic is implemented inside `bedtools-genomecov.cwl`. `bigwig_filename` defines the output name only for generated bigWig file. `bedgraph_filename` defines the output name for generated bedGraph file and can influence on generated bigWig filename in case when `bigwig_filename` is not provided. All workflow inputs and outputs don't have `format` field to avoid format incompatibility errors when workflow is used as subworkflow.

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

Path: tools/bam-bedgraph-bigwig.cwl

Branch/Commit ID: 12c29f88855329192bfff977f046990031f04931
workflow graph qc-basic.workflow.cwl

https://github.com/MG-RAST/pipeline.git

Path: CWL/Workflows/qc-basic.workflow.cwl

Branch/Commit ID: f5839797da8209a9d3e441023f88130219751020
workflow graph scatter GATK HaplotypeCaller over intervals

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

Path: definitions/subworkflows/gatk_haplotypecaller_iterator.cwl

Branch/Commit ID: ffd73951157c61c1581d346628d75b61cdd04141