Explore Workflows

accept a simulation model parameter (or set of parameters) as validated and to be used in future MC productions.

https://github.com/gammasim/workflows.git

Path: workflows/AccceptParameter.cwl

Branch/Commit ID: main

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

Path: bulk-pipeline.cwl

Branch/Commit ID: 8af5a1c

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

Path: workflows/emg-pipeline-v3-paired.cwl

Branch/Commit ID: fa86fce

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

Path: cwls/chksum_for_corrupted_fastq_files.cwl

Branch/Commit ID: master

https://github.com/apaul7/cancer-genomics-workflow.git

Path: definitions/subworkflows/phase_vcf.cwl

Branch/Commit ID: low-vaf

https://github.com/apaul7/cancer-genomics-workflow.git

Path: definitions/pipelines/tumor_only_wgs.cwl

Branch/Commit ID: low-vaf

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

Path: definitions/subworkflows/varscan.cwl

Branch/Commit ID: master

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: v0.0.5

ATAC-seq pipeline - reads: PE

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

Path: v1.0/ATAC-seq_pipeline/pipeline-pe.cwl

Branch/Commit ID: master

https://github.com/dockstore-testing/tooltester-wes-testing.git

Path: nontrivial/nontrivial.cwl

Branch/Commit ID: stable-version-for-testing-v3