Explore Workflows

https://github.com/hubmapconsortium/sprm.git

Path: pipeline.cwl

Branch/Commit ID: f9e6ef4b3e1733ff4427f65435edae054bc596bb

Reverse the lines in a document, then sort those lines.

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

Path: tests/wf/revsort.cwl

Branch/Commit ID: e1a9100dff381ebd59b2a74806f705b7c68a8584

Generates ATDP heatmap centered on TSS from an array of input BAM files and genelist TSV file. Returns array of heatmap JSON files with the names that have the same basenames as input BAM files, but with .json extension

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

Path: workflows/heatmap.cwl

Branch/Commit ID: e284e3f6dff25037b209895c52f2abd37a1ce1bf

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

Path: tests/wf/double-nested.cwl

Branch/Commit ID: 55ccde7c2fe3e7899136ce8606a341e292d7050a

Set single photo-electron response spectrum including after pulsing or cross talk.

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

Path: workflows/SetSinglePhotoElectronResponse.cwl

Branch/Commit ID: 789752af87eb190387ff2acb4c95c7a5cdb961e7

https://github.com/common-workflow-language/cwl-v1.2.git

Path: tests/count-lines11-extra-step-wf-noET.cwl

Branch/Commit ID: a0f2d38e37ff51721fdeaf993bb2ab474b17246b

https://github.com/kids-first/kf-rnaseq-workflow.git

Path: workflow/kfdrc_flagstat_qc.cwl

Branch/Commit ID: d333a221a20e5d3eb46bbf220fa0fd3250dcf5ba

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: cbefc215d8286447620664fb47076ba5d81aa47f

Reverse the lines in a document, then sort those lines.

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

Path: tests/wf/revsort_step_bad_schema.cwl

Branch/Commit ID: 55ccde7c2fe3e7899136ce8606a341e292d7050a

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

Path: cwltool/schemas/v1.0/v1.0/scatter-valuefrom-wf6.cwl

Branch/Commit ID: ae401a813472ca453a99ad067a5e6fc3bd71112b