Explore Workflows
View already parsed workflows here or click here to add your own
| Graph | Name | Retrieved From | View |
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Build Bowtie indices
Workflow runs [Bowtie](http://bowtie-bio.sourceforge.net/tutorial.shtml) v1.2.0 (12/30/2016) to build indices for reference genome provided in a single FASTA file as fasta_file input. Generated indices are saved in a folder with the name that corresponds to the input genome |
https://github.com/datirium/workflows.git
Path: workflows/bowtie-index.cwl Branch/Commit ID: 57437c1e9f881411b65f79acd64b7cf14df5b901 |
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Salmon quantification, FASTQ -> H5AD count matrix
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https://github.com/hubmapconsortium/salmon-rnaseq.git
Path: steps/salmon-quantification.cwl Branch/Commit ID: 16dd8ca3ce99b7a2660e9549d74344a5e542d567 |
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Build Bowtie indices
Workflow runs [Bowtie](http://bowtie-bio.sourceforge.net/tutorial.shtml) v1.2.0 (12/30/2016) to build indices for reference genome provided in a single FASTA file as fasta_file input. Generated indices are saved in a folder with the name that corresponds to the input genome |
https://github.com/datirium/workflows.git
Path: workflows/bowtie-index.cwl Branch/Commit ID: aebf2355539fdf81fd9082616f8b21440d2691c6 |
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Motif Finding with HOMER with target and background regions from peaks
Motif Finding with HOMER with target and background regions from peaks --------------------------------------------------- HOMER contains a novel motif discovery algorithm that was designed for regulatory element analysis in genomics applications (DNA only, no protein). It is a differential motif discovery algorithm, which means that it takes two sets of sequences and tries to identify the regulatory elements that are specifically enriched in on set relative to the other. It uses ZOOPS scoring (zero or one occurrence per sequence) coupled with the hypergeometric enrichment calculations (or binomial) to determine motif enrichment. HOMER also tries its best to account for sequenced bias in the dataset. It was designed with ChIP-Seq and promoter analysis in mind, but can be applied to pretty much any nucleic acids motif finding problem. For more information please refer to: ------------------------------------- [Official documentation](http://homer.ucsd.edu/homer/motif/) |
https://github.com/datirium/workflows.git
Path: workflows/homer-motif-analysis-peak.cwl Branch/Commit ID: 2caa50434966ebdf4b33e5ca689c2e4df32f9058 |
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count-lines11-extra-step-wf.cwl
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https://github.com/common-workflow-language/cwl-v1.2.git
Path: tests/count-lines11-extra-step-wf.cwl Branch/Commit ID: 707ebcd2173889604459c5f4ffb55173c508abb3 |
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pipeline.cwl
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https://github.com/hubmapconsortium/ome-tiff-pyramid.git
Path: pipeline.cwl Branch/Commit ID: a063a3404a5f4345292508cb82313bd41ea6c615 |
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myAIWorkflow3.cwl
This CWL workflow outlines the steps for setting up and executing an experiment based on objectives, SOP references, parameters, and experimental design. Version: 1.0 Description: Workflow for executing and tracking experiments. Includes validation and logging steps. |
https://github.com/pascmont/cwltest.git
Path: myAIWorkflow3.cwl Branch/Commit ID: e56456381c2588e3933d91b47c47b7e61023683b |
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Running cellranger count and lineage inference
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https://github.com/genome/analysis-workflows.git
Path: definitions/subworkflows/single_cell_rnaseq.cwl Branch/Commit ID: 24e5290aec441665c6976ee3ee8ae3574c49c6b5 |
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SPRM pipeline
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https://github.com/hubmapconsortium/sprm.git
Path: pipeline.cwl Branch/Commit ID: dd8c266a1e4bc953e29671219e7bb004072f7838 |
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count-lines16-wf.cwl
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https://github.com/common-workflow-language/cwl-v1.2.git
Path: tests/count-lines16-wf.cwl Branch/Commit ID: 707ebcd2173889604459c5f4ffb55173c508abb3 |
