Explore Workflows

Current workflow is used to run CHIP-Seq basic analysis with single-end input FASTQ file. In outputs it returns coordinate sorted BAM file alongside with index BAI file, quality statistics of the input FASTQ file, reads coverage in a form of BigWig file, peaks calling data in a form of narrowPeak or broadPeak files.

https://github.com/Barski-lab/ga4gh_challenge.git

Path: biowardrobe_chipseq_se.cwl

Branch/Commit ID: v0.0.2

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

https://github.com/dockstore-testing/md5sum-checker.git

Path: checker-workflow-wrapping-tool.cwl

Branch/Commit ID: develop

https://github.com/hubmapconsortium/ome-tiff-pyramid.git

Path: pipeline.cwl

Branch/Commit ID: a063a34

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

Path: definitions/subworkflows/pindel_region.cwl

Branch/Commit ID: master

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

Path: workflows/subworkflows/vcf_concat.cwl

Branch/Commit ID: master

https://github.com/hpobio-lab/viral-analysis.git

Path: cwl/fastq2fasta/fastq2fasta-create-bwaindex.cwl

Branch/Commit ID: master

This subworkflow will perform a QA check on the OxoG outputs. It will perform the QA check on a single tumour and it associated VCFs

https://github.com/david4096/OxoG-Dockstore-Tools.git

Path: qa_check_subwf.cwl

Branch/Commit ID: develop

This workflow detect and remove foreign chromosome from a DNA fasta file

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

Path: workflows/Contamination/contamination-foreign-chromosome-blastn.cwl

Branch/Commit ID: master

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

Path: v1.0/v1.0/count-lines8-wf-noET.cwl

Branch/Commit ID: master

https://github.com/Marco-Salvi/cwl-test.git

Path: wf5201/ST520110.cwl

Branch/Commit ID: main