Explore Workflows
View already parsed workflows here or click here to add your own
| Graph | Name | Retrieved From | View |
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cosifer-workflow.cwl
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https://github.com/inab/ipc_workflows.git
Path: cosifer/cwl/cosifer-workflow.cwl Branch/Commit ID: 36b323cee75e429f74ae390c2b2c7b28c3d44a66 |
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scatter-wf4.cwl#main
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https://github.com/common-workflow-language/cwltool.git
Path: tests/wf/scatter-wf4.cwl Branch/Commit ID: c7c379948c02ba8f048d157f06eb903b1bda9894 Packed ID: main |
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Create tagAlign file
This workflow creates tagAlign file |
https://github.com/ncbi/cwl-ngs-workflows-cbb.git
Path: workflows/File-formats/create-tagAlign.cwl Branch/Commit ID: 92c23571bd5925c3d33678bc944a8546597cf3a3 |
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mutect parallel workflow
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https://github.com/genome/analysis-workflows.git
Path: definitions/subworkflows/mutect.cwl Branch/Commit ID: 3a822294da63b4e19446a285e2fef075e23cf3d0 |
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gcaccess_from_list
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https://github.com/ncbi/pgap.git
Path: task_types/tt_gcaccess_from_list.cwl Branch/Commit ID: 94c97cfc95a5bf102a6f9206e045ea1afb768317 |
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align_sort_sa
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https://github.com/ncbi/pgap.git
Path: task_types/tt_align_sort_sa.cwl Branch/Commit ID: 94c97cfc95a5bf102a6f9206e045ea1afb768317 |
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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: 10ce6e113f749c7bd725e426445220c3bdc5ddf1 |
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kmer_top_n_extract
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https://github.com/ncbi/pgap.git
Path: task_types/tt_kmer_top_n_extract.cwl Branch/Commit ID: 94c97cfc95a5bf102a6f9206e045ea1afb768317 |
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scatter-wf4.cwl#main
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https://github.com/common-workflow-language/cwltool.git
Path: tests/wf/scatter-wf4.cwl Branch/Commit ID: 596aab620489cd2611f4bc1d9a4fc914ddf34514 Packed ID: main |
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wf-alignment.cwl
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https://github.com/bcbio/bcbio_validation_workflows.git
Path: SGDP-recall-CGC/SGDP-recall-cgc/wf-alignment.cwl Branch/Commit ID: af9a5621efcb44c249697d6df071fe4defe389ac |
