Explore Workflows

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

Graph Name Retrieved From View
workflow graph Add snv and indel bam-readcount files to a vcf

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

Path: definitions/subworkflows/vcf_readcount_annotator.cwl

Branch/Commit ID: master
workflow graph idr.cwl

https://github.com/ncbi/cwl-ngs-workflows-cbb.git

Path: workflows/ChIP-Seq/idr.cwl

Branch/Commit ID: master
workflow graph BAM to BEDPE

Comvert BAM to BEDPE and compress the output

 https://github.com/ncbi/cwl-ngs-workflows-cbb.git

Path: workflows/File-formats/bamtobedpe-gzip.cwl

Branch/Commit ID: master
workflow graph Seed Protein Alignments

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

Path: protein_alignment/wf_seed_seqids.cwl

Branch/Commit ID: test
workflow graph EMG QC workflow, (paired end version). Benchmarking with MG-RAST expt.

https://github.com/EBI-Metagenomics/ebi-metagenomics-cwl.git

Path: workflows/emg-qc-paired.cwl

Branch/Commit ID: f993cad
workflow graph bulk_process.cwl

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

Path: steps/bulk_process.cwl

Branch/Commit ID: 102d8cb
workflow graph pipeline.cwl

https://github.com/hubmapconsortium/ims-mxif-pipeline.git

Path: pipeline.cwl

Branch/Commit ID: master
workflow graph count-lines1-wf.cwl

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

Path: v1.0/v1.0/count-lines1-wf.cwl

Branch/Commit ID: master
workflow graph qiime2 DADA2 detect/correct paired sequence data

Option 1: DADA2 from https://docs.qiime2.org/2018.4/tutorials/moving-pictures/

 https://github.com/duke-gcb/bespin-cwl.git

Path: packed/qiime2-step2-dada2-paired.cwl

Branch/Commit ID: qiime2-workflow-paired

Packed ID: qiime2-03-dada2-paired.cwl
workflow graph step3: create STAR index

create STAR index for mapping CAGE-Seq data (step 1: decompress reference genome fasta file, step 2: create STAR index)

 https://github.com/RyoNozu/CWL4IncorporateTSSintoGXF.git

Path: workflow/02_star_index_subworkflow.cwl

Branch/Commit ID: main