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Graph Name Retrieved From View
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
workflow graph work9.cwl

https://github.com/cnherrera/CWL_Workflow_DIADEM_use_case.git

Path: work9.cwl

Branch/Commit ID: b3583f47fdbc2a1252b847cdf67470da80c14302
workflow graph WF6101.cwl

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

Path: WF6101.cwl

Branch/Commit ID: e78ef2feb4be6721da9eb49cdc9137d00f7d6f9d
workflow graph ani_top_n

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

Path: task_types/tt_ani_top_n.cwl

Branch/Commit ID: 7e875f77b615b4f7ebfb23a1da30eb216cc52919
workflow graph LBA_target.cwl

https://git.astron.nl/RD/LINC.git

Path: workflows/LBA_target.cwl

Branch/Commit ID: 1e91001f761abbddeb2c9f4528ed4cec41d113f3
workflow graph wf-loadContents.cwl

https://github.com/common-workflow-language/cwl-v1.1.git

Path: tests/wf-loadContents.cwl

Branch/Commit ID: 3e90671b25f7840ef2926ad2bacbf447772dda94
workflow graph heatmap-prepare.cwl

Workflow runs homer-make-tag-directory.cwl tool using scatter for the following inputs - bam_file - fragment_size - total_reads `dotproduct` is used as a `scatterMethod`, so one element will be taken from each array to construct each job: 1) bam_file[0] fragment_size[0] total_reads[0] 2) bam_file[1] fragment_size[1] total_reads[1] ... N) bam_file[N] fragment_size[N] total_reads[N] `bam_file`, `fragment_size` and `total_reads` arrays should have the identical order.

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

Path: subworkflows/heatmap-prepare.cwl

Branch/Commit ID: cb5e5b8563be4977e9f2babc14fe084faa234847
workflow graph return-output-file.cwl#main

https://github.com/cwl-for-eo/cwl-how-to.git

Path: 01-output/return-output-file.cwl

Branch/Commit ID: 4e1090483eac4e2b7d92e3e9a7fde5257b90c04a

Packed ID: main
workflow graph cond-wf-003.1.cwl

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

Path: tests/conditionals/cond-wf-003.1.cwl

Branch/Commit ID: 707ebcd2173889604459c5f4ffb55173c508abb3