Explore Workflows

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

Graph Name Retrieved From View
workflow graph animal-genome-assembly.pack.cwl#hybrid_error_correction.cwl

Sub workflow used in the Animal Genome Assembly pipeline by Kazuharu Arakawa (@gaou_ak), CWLized by Tazro Ohta (@inutano)

 https://github.com/pitagora-network/DAT2-cwl.git

Path: workflow/animal-genome-assembly/animal-genome-assembly.pack.cwl

Branch/Commit ID: b63171820f546def8c26f558182912a71af88b48

Packed ID: hybrid_error_correction.cwl
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: 4360fb2e778ecee42e5f78f83b78c65ab3a2b1df
workflow graph Exome QC workflow

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

Path: definitions/subworkflows/qc_exome_no_verify_bam.cwl

Branch/Commit ID: 0c4f4e59c265eb22aed3d2d37b173cb5430773d2
workflow graph Immunotherapy Workflow

https://github.com/apaul7/cancer-genomics-workflow.git

Path: definitions/pipelines/immuno.cwl

Branch/Commit ID: bfcb5ffbea3d00a38cc03595d41e53ea976d599d
workflow graph mut2.cwl

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

Path: tests/wf/mut2.cwl

Branch/Commit ID: 0184e647cde1bc44279107d6df31b3ebb138769c
workflow graph Detect Docm variants

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

Path: definitions/subworkflows/docm_cle.cwl

Branch/Commit ID: 60edaf6f57eaaf02cda1a3d8cb9a825aa64a43e2
workflow graph io-union-input-default-wf.cwl

https://github.com/common-workflow-language/cwl-v1.2.git

Path: tests/io-union-input-default-wf.cwl

Branch/Commit ID: 707ebcd2173889604459c5f4ffb55173c508abb3
workflow graph vecscreen.cwl

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

Path: vecscreen/vecscreen.cwl

Branch/Commit ID: a3affd1b9e3e16f0644a25fee1a7b87b99df57b0
workflow graph xenbase-sra-to-fastq-pe.cwl

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

Path: subworkflows/xenbase-sra-to-fastq-pe.cwl

Branch/Commit ID: 09c08f858e91c4cfd387067f07445722ac7e18aa
workflow graph scatter-wf3.cwl#main

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

Path: cwltool/schemas/v1.0/v1.0/scatter-wf3.cwl

Branch/Commit ID: 3ed10d0ea7ac57550433a89a92bdbe756bdb0e40

Packed ID: main