Explore Workflows

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

Graph Name Retrieved From View
workflow graph chksum_xam_to_interleaved_fq.cwl

https://github.com/cancerit/workflow-seq-import.git

Path: cwls/chksum_xam_to_interleaved_fq.cwl

Branch/Commit ID: develop
workflow graph dedup-3-pass.cwl

run 3-pass dedup: algo LocusCollector + algo Dedup output_dup_read_name + algo Dedup dedup_by_read_name sequentially

 https://github.com/Sentieon/Sentieon-cwl.git

Path: stage/dedup-3-pass.cwl

Branch/Commit ID: master
workflow graph 02-trim-pe.cwl

ATAC-seq 02 trimming - reads: PE

 https://github.com/alexbarrera/GGR-cwl.git

Path: v1.0/ATAC-seq_pipeline/02-trim-pe.cwl

Branch/Commit ID: v1.0
workflow graph spurious_annot pass2

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

Path: spurious_annot/wf_spurious_annot_pass2.cwl

Branch/Commit ID: dev
workflow graph scRNA-seq pipeline using Salmon and Alevin

https://github.com/hubmapconsortium/salmon-rnaseq.git

Path: pipeline.cwl

Branch/Commit ID: f8ea70d
workflow graph ACCESS_pipeline.cwl

https://github.com/mskcc/ACCESS-Pipeline.git

Path: workflows/ACCESS_pipeline.cwl

Branch/Commit ID: master
workflow graph umi molecular alignment fastq workflow

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

Path: definitions/pipelines/alignment_umi_molecular.cwl

Branch/Commit ID: master
workflow graph scatter-wf4.cwl#main

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

Path: tests/scatter-wf4.cwl

Branch/Commit ID: master

Packed ID: main
workflow graph 1st-workflow.cwl

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

Path: 1st-workflow.cwl

Branch/Commit ID: main
workflow graph UW GAC (GENESIS) VCF to GDS

**VCF to GDS** workflow converts VCF or BCF files into Genomic Data Structure (GDS) format. GDS files are required by all workflows utilizing the GENESIS or SNPRelate R packages. _Filename requirements_: The input file names should follow the pattern <A>chr<X>.<y> For example: 1KG_phase3_subset_chr1.vcf.gz Some of the tools inside the workflow infer the chromosome number from the file by expecting this pattern of file name.

 https://github.com/sevenbridges-openworkflows/uw-genesis-topmed-cwl.git

Path: vcftogds/vcf-to-gds-wf.cwl

Branch/Commit ID: master