Explore Workflows

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

Graph Name Retrieved From View
workflow graph bgzip and index VCF

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

Path: varscan/bgzip_and_index.cwl

Branch/Commit ID: master
workflow graph env-wf3.cwl

https://github.com/common-workflow-language/cwl-v1.2.git

Path: tests/env-wf3.cwl

Branch/Commit ID: main
workflow graph ST610109.cwl

https://github.com/Marco-Salvi/dtc61.git

Path: ST610109.cwl

Branch/Commit ID: remove-cycles
workflow graph strelka workflow

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

Path: definitions/subworkflows/strelka_and_post_processing.cwl

Branch/Commit ID: low-vaf
workflow graph step-valuefrom-wf.cwl

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

Path: v1.0/v1.0/step-valuefrom-wf.cwl

Branch/Commit ID: master
workflow graph main.cwl

https://github.com/CLAIRE-COVID/AI-Covid19-pipelines.git

Path: offline/streamflow/cwl/main.cwl

Branch/Commit ID: master
workflow graph tRNA_selection.cwl

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

Path: tools/tRNA_selection.cwl

Branch/Commit ID: 43d2fb8
workflow graph workflow_with_facets.cwl

CWL workflow for generating Roslin / Argos post pipeline analysis files and cBioPortal data and metadata files This workflow includes Facets and Facets Suite usages Inputs ------ The following parameters are required: project_id project_pi request_pi project_short_name project_name project_description cancer_type cancer_study_identifier argos_version_string helix_filter_version is_impact extra_pi_groups pairs The following filenames are required: analysis_mutations_filename analysis_gene_cna_filename analysis_sv_filename analysis_segment_cna_filename cbio_segment_data_filename cbio_meta_cna_segments_filename The following filenames have default values and are optional: cbio_mutation_data_filename cbio_cna_data_filename cbio_fusion_data_filename cbio_clinical_patient_data_filename cbio_clinical_sample_data_filename cbio_clinical_sample_meta_filename cbio_clinical_patient_meta_filename cbio_meta_study_filename cbio_meta_cna_filename cbio_meta_fusions_filename cbio_meta_mutations_filename cbio_cases_all_filename cbio_cases_cnaseq_filename cbio_cases_cna_filename cbio_cases_sequenced_filename Output ------ Workflow output should look like this: output ├── analysis │   ├── <project_id>.gene.cna.txt │   ├── <project_id>.muts.maf │   ├── <project_id>.seg.cna.txt │   └── <project_id>.svs.maf ├── facets │ ├── <tumor_id>.<normal_id> (passed) │ │ └── <facets_files> │ └── <tumor_id>.<normal_id> (failed) │ └── <log_files> └── portal ├── case_list │   ├── cases_all.txt │   ├── cases_cnaseq.txt │   ├── cases_cna.txt │   └── cases_sequenced.txt ├── data_clinical_patient.txt ├── data_clinical_sample.txt ├── data_CNA.ascna.txt ├── data_CNA.scna.txt ├── data_CNA.txt ├── data_sv.txt ├── data_fusions.txt ├── data_mutations_extended.txt ├── meta_clinical_patient.txt ├── meta_clinical_sample.txt ├── meta_CNA.txt ├── meta_sv.txt ├── meta_fusions.txt ├── meta_mutations_extended.txt ├── meta_study.txt ├── <project_id>_data_cna_hg19.seg └── <project_id>_meta_cna_hg19_seg.txt

https://github.com/mskcc/pluto-cwl.git

Path: cwl/workflow_with_facets.cwl

Branch/Commit ID: master
workflow graph HBA_calibrator.cwl

https://git.astron.nl/eosc/prefactor3-cwl.git

Path: workflows/HBA_calibrator.cwl

Branch/Commit ID: 267dde1ba2f9b4cd0c12eef58e1724f75b069f41
workflow graph workflow_simple.cwl

https://github.com/fstrozzi/scalability-reproducibility-chapter.git

Path: CWL/workflow_simple.cwl

Branch/Commit ID: master