Explore Workflows
View already parsed workflows here or click here to add your own
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step-valuefrom3-wf.cwl
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https://github.com/common-workflow-language/cwl-v1.1.git
Path: tests/step-valuefrom3-wf.cwl Branch/Commit ID: 3e90671b25f7840ef2926ad2bacbf447772dda94 |
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scatter-wf3.cwl#main
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https://github.com/common-workflow-language/cwl-v1.1.git
Path: tests/scatter-wf3.cwl Branch/Commit ID: 3e90671b25f7840ef2926ad2bacbf447772dda94 Packed ID: main |
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count-lines18-wf.cwl
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https://github.com/common-workflow-language/cwl-v1.1.git
Path: tests/count-lines18-wf.cwl Branch/Commit ID: 3e90671b25f7840ef2926ad2bacbf447772dda94 |
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Bacterial Annotation, pass 1, genemark training, by HMMs (first pass)
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https://github.com/ncbi/pgap.git
Path: bacterial_annot/wf_bacterial_annot_pass1.cwl Branch/Commit ID: 4ffbad9ffeab15ec8af5f6f91bd352ef96d1ef77 |
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Set Operations for Called Peaks (ChIP/ATAC/C&R/diffbind)
# Set Operations for Peaks This workflow takes as input multiple peak list TSV files (the `iaintersect_result.tsv` output under the \"Files\" output tab) from the ChIP, ATAC, C&R, or diffbind workflows and performs the user-selected set operation on the group. Set operations include intersection, union, difference, and complement. See the tooltip for the `set_operator` input for more details. |
https://github.com/datirium/workflows.git
Path: workflows/filter-peaks-by-overlap.cwl Branch/Commit ID: d76110e0bfc40c874f82e37cef6451d74df4f908 |
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Generate genome indices for STAR & bowtie
Creates indices for: * [STAR](https://github.com/alexdobin/STAR) v2.5.3a (03/17/2017) PMID: [23104886](https://www.ncbi.nlm.nih.gov/pubmed/23104886) * [bowtie](http://bowtie-bio.sourceforge.net/tutorial.shtml) v1.2.0 (12/30/2016) It performs the following steps: 1. `STAR --runMode genomeGenerate` to generate indices, based on [FASTA](http://zhanglab.ccmb.med.umich.edu/FASTA/) and [GTF](http://mblab.wustl.edu/GTF2.html) input files, returns results as an array of files 2. Outputs indices as [Direcotry](http://www.commonwl.org/v1.0/CommandLineTool.html#Directory) data type 3. Separates *chrNameLength.txt* file from Directory output 4. `bowtie-build` to generate indices requires genome [FASTA](http://zhanglab.ccmb.med.umich.edu/FASTA/) file as input, returns results as a group of main and secondary files |
https://github.com/datirium/workflows.git
Path: workflows/genome-indices.cwl Branch/Commit ID: d76110e0bfc40c874f82e37cef6451d74df4f908 |
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count-lines11-null-step-wf-noET.cwl
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https://github.com/common-workflow-language/cwl-v1.1.git
Path: tests/count-lines11-null-step-wf-noET.cwl Branch/Commit ID: 3e90671b25f7840ef2926ad2bacbf447772dda94 |
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fail-unconnected.cwl
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https://github.com/common-workflow-language/cwl-v1.1.git
Path: tests/fail-unconnected.cwl Branch/Commit ID: 3e90671b25f7840ef2926ad2bacbf447772dda94 |
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hmmsearch_wnode and gpx_qdump combined workflow to apply scatter/gather
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https://github.com/ncbi/pgap.git
Path: task_types/tt_hmmsearch_wnode_plus_qdump.cwl Branch/Commit ID: 1cfd46014be8d867044cb10d1ddde0cb3068ee84 |
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dynresreq-workflow.cwl
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https://github.com/common-workflow-language/cwl-v1.2.git
Path: tests/dynresreq-workflow.cwl Branch/Commit ID: 7d7986a6e852ca6e3239c96d3a05dd536c76c903 |
