Explore Workflows

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

Path: pipeline.cwl

Branch/Commit ID: f0f5054

https://github.com/nal-i5k/organism_onboarding.git

Path: flow_genomicsWorkspace/genomics-workspace-cds.cwl

Branch/Commit ID: master

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/pcawg-oxog-filter.git

Path: zip_and_index_vcf.cwl

Branch/Commit ID: develop

The 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: v0.0.3

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

Path: workflows/lobSTR/lobSTR-workflow.cwl

Branch/Commit ID: master

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

Path: tests/count-lines9-wf.cwl

Branch/Commit ID: master

https://github.com/hubmapconsortium/azimuth-annotate.git

Path: pipeline.cwl

Branch/Commit ID: a5b2aa9

https://github.com/ProteinsWebTeam/ebi-metagenomics-cwl.git

Path: workflows/functional_analysis.cwl

Branch/Commit ID: 8515542

https://gitlab.bsc.es/lrodrig1/structuralvariants_poc.git

Path: structuralvariants/cwl/subworkflows/samtools_sort.cwl

Branch/Commit ID: 1.0.5

BAM filtering

https://gitlab.bsc.es/lrodrig1/structuralvariants_poc.git

Path: structuralvariants/cwl/subworkflows/bam_filtering.cwl

Branch/Commit ID: 1.0.5