Explore Workflows

View already parsed workflows here or click here to add your own

Graph Name Retrieved From View
workflow graph Variant calling workflow for given interval

https://github.com/arvados/arvados-tutorial.git

Path: WGS-processing/cwl/helper/gatk-wf-with-interval.cwl

Branch/Commit ID: e4d896f5f94a9cf7b157cf87d5042e416649d87b
workflow graph ST610109.cwl

https://github.com/Marco-Salvi/dtc61.git

Path: ST610109.cwl

Branch/Commit ID: e78ef2feb4be6721da9eb49cdc9137d00f7d6f9d
workflow graph SetTriggerThresholdsFromRateScan

Derive trigger thresholds from rate scans taking into account night-sky background illumination and cosmic-ray triggered events.

 https://github.com/gammasim/workflows.git

Path: workflows/SetTriggerThresholdsFromRateScan.cwl

Branch/Commit ID: 789752af87eb190387ff2acb4c95c7a5cdb961e7
workflow graph ST610106.cwl

https://github.com/Marco-Salvi/dtc61.git

Path: ST610106.cwl

Branch/Commit ID: e78ef2feb4be6721da9eb49cdc9137d00f7d6f9d
workflow graph mut.cwl

https://github.com/common-workflow-language/cwltool.git

Path: tests/wf/mut.cwl

Branch/Commit ID: 8d8512061f2367c90aac67bcbf92af1061b4af59
workflow graph create_snap_and_analyze.cwl

https://github.com/hubmapconsortium/sc-atac-seq-pipeline.git

Path: create_snap_and_analyze.cwl

Branch/Commit ID: 5465f666aac446a6d66fed1819e48a79395f6b02
workflow graph pipeline.cwl

https://github.com/hubmapconsortium/azimuth-annotate.git

Path: pipeline.cwl

Branch/Commit ID: d1cc262d0cb752b6bbe3432c3ea19f3a3c424d63
workflow graph tt_kmer_compare_wnode

Pairwise comparison

 https://github.com/ncbi/pgap.git

Path: task_types/tt_kmer_compare_wnode.cwl

Branch/Commit ID: 55b6ee46b0c9fb1c9949cd0888b388c6f11b73b1
workflow graph 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: bf80c9339d81a78aefb8de661bff998ed86e836e
workflow graph Run pindel on provided region

https://github.com/genome/analysis-workflows.git

Path: definitions/subworkflows/pindel_region.cwl

Branch/Commit ID: aba52e94b6d7470132d3c092c26d67e29d615300