Explore Workflows
View already parsed workflows here or click here to add your own
| Graph | Name | Retrieved From | View |
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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: f225cd99b0e0a5043dd102f8b33a6139fefe9ea4 |
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Dockstore.cwl
updated description |
https://github.com/NatalieEO/ghapps-single-workflow.git
Path: Dockstore.cwl Branch/Commit ID: 7a2c2db3c5a9a0d643172fa380eee68b5132f4dd |
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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: 4f4448f71645275db5b84eb551990dfe3bf37cbb |
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Dockstore.cwl
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https://github.com/NatalieEO/ghAppsMultipleWorkflows.git
Path: Dockstore.cwl Branch/Commit ID: 6a4e3d3c9261c76826c09e779b565af455ebdc3b |
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download_pheno.cwl
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https://github.com/Christensen-Lab-Dartmouth/PyMethylProcess.git
Path: cwl/workflows/download_pheno.cwl Branch/Commit ID: 9724eed7d80cc1a4273b38f5b9cd2526d1579a29 |
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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: d1bef74924efcb8bfaa00987b3f148d5a192b7a9 |
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scRNA-seq pipeline using Salmon and Alevin
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https://github.com/hubmapconsortium/salmon-rnaseq.git
Path: pipeline.cwl Branch/Commit ID: a5779cc2804edf3052e597ea32f1f1c49aa33afb |
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bgzip and index VCF
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https://github.com/genome/analysis-workflows.git
Path: definitions/subworkflows/bgzip_and_index.cwl Branch/Commit ID: 3bb0693076adc1543079a6b136c74906ad546ac6 |
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kmer_build_tree
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https://github.com/ncbi/pgap.git
Path: task_types/tt_kmer_build_tree.cwl Branch/Commit ID: 2229f26ec424f9ebeb3db7fec3bd3f84a38c7485 |
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Run genomic CMsearch (5S rRNA)
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https://github.com/ncbi/pgap.git
Path: bacterial_noncoding/wf_gcmsearch.cwl Branch/Commit ID: dcbbce152fbff2637f102471fb80318244492853 |
