Explore Workflows
View already parsed workflows here or click here to add your own
| Graph | Name | Retrieved From | View |
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cond-wf-003.1.cwl
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https://github.com/common-workflow-language/cwl-utils.git
Path: testdata/cond-wf-003.1.cwl Branch/Commit ID: e949503ac0dd7e22ba9b04ac51926d13780f9cee |
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bacterial_orthology
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https://github.com/ncbi/pgap.git
Path: bacterial_orthology/wf_bacterial_orthology.cwl Branch/Commit ID: 1e16653514fd5629a704516eb447043c9fd0a53b |
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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: b4d578c2ba4713a5a22163d9f8c7105acda1f22e |
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checkm_wnode
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https://github.com/ncbi/pgap.git
Path: task_types/tt_checkm_wnode.cwl Branch/Commit ID: 1e16653514fd5629a704516eb447043c9fd0a53b |
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FASTQ Download
FASTQ Download Assists in downloading problematic single-cell sequencing data from Sequence Read Archive (SRA) |
https://github.com/datirium/workflows.git
Path: workflows/fastq-download.cwl Branch/Commit ID: 549fac35bf6b8b1c25af0f4f6c3f162c40dc130e |
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taxcheck.cwl
Perform taxonomic identification tasks on an input genome |
https://github.com/ncbi/pgap.git
Path: taxcheck.cwl Branch/Commit ID: 1e16653514fd5629a704516eb447043c9fd0a53b |
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dicom-workflow.cwl
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https://github.com/afmam/dicom-cwl.git
Path: dicom-workflow.cwl Branch/Commit ID: f27077cc61b284b3b656615c5a53b756cd9df0d7 |
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scatter-wf4.cwl#main
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https://github.com/common-workflow-language/cwltool.git
Path: cwltool/schemas/v1.0/v1.0/scatter-wf4.cwl Branch/Commit ID: fd6e054510e2bb65eed4069a3a88013d7ecbb99c Packed ID: main |
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mut2.cwl
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https://github.com/common-workflow-language/cwltool.git
Path: tests/wf/mut2.cwl Branch/Commit ID: 75271e2a0887d47cca4077b60dd51ac763c09b63 |
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step_valuefrom5_wf_v1_0.cwl
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https://github.com/common-workflow-language/cwl-utils.git
Path: testdata/step_valuefrom5_wf_v1_0.cwl Branch/Commit ID: e949503ac0dd7e22ba9b04ac51926d13780f9cee |
