Explore Workflows

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

Graph Name Retrieved From View
Unaligned to aligned BAM https://github.com/markrobbo/workflows.git

Path: workflows/hello/exome_alignment_packed.cwl

Branch/Commit ID: master

Packed ID: align.cwl
zip_and_index_vcf.cwl

This is a very simple workflow of two steps. It will zip an input VCF file and then index it. The zipped file and the index file will be in the workflow output.

https://github.com/ICGC-TCGA-PanCancer/OxoG-Dockstore-Tools.git

Path: zip_and_index_vcf.cwl

Branch/Commit ID: develop
checker_workflow_wrapping_workflow.cwl

This demonstrates how to wrap a \"real\" workflow with a checker workflow that runs both the tool and a tool that performs verification of results

https://github.com/dockstore-testing/dockstore-workflow-md5sum-unified.git

Path: checker_workflow_wrapping_workflow.cwl

Branch/Commit ID: develop
wf_extract_prism_data.cwl https://github.com/idaks/cwl_modeling.git

Path: yw_cwl_modeling/yw_cwl_parser_old/Examples/extract_prism_data/wf_extract_prism_data.cwl

Branch/Commit ID: master
preprocess_vcf.cwl

This workflow will perform preprocessing steps on VCFs for the OxoG/Variantbam/Annotation workflow.

https://github.com/ICGC-TCGA-PanCancer/OxoG-Dockstore-Tools.git

Path: preprocess_vcf.cwl

Branch/Commit ID: 1.0.0
SSU-from-tablehits.cwl https://github.com/ProteinsWebTeam/ebi-metagenomics-cwl.git

Path: tools/SSU-from-tablehits.cwl

Branch/Commit ID: 3b602cb
A CGP workflow to generate checksum of an interleaved fastq

A workflow to generate checksums of FastQ files and an interleaved FastQ from them. See the [workflow-seq-import](https://github.com/cancerit/workflow-seq-import) website for more information.

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

Path: cwls/chksum_seqval_wf_interleaved_fq.cwl

Branch/Commit ID: 0.5.0
bam to trimmed fastqs https://github.com/tmooney/cancer-genomics-workflow.git

Path: definitions/subworkflows/bam_to_trimmed_fastq.cwl

Branch/Commit ID: downsample_and_recall
EMG QC workflow, (paired end version). Benchmarking with MG-RAST expt. https://github.com/ProteinsWebTeam/ebi-metagenomics-cwl.git

Path: workflows/emg-qc-paired.cwl

Branch/Commit ID: a8abd0e
per_cluster_workflow.cwl https://github.com/FarahZKhan/scalability-reproducibility-chapter.git

Path: CWL/per_cluster_workflow.cwl

Branch/Commit ID: master