Explore Workflows

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

Graph Name Retrieved From View
workflow graph Task2

For CMRxRecon validation

https://github.com/CmrxRecon/CMRxRecon2024-snippets.git

Path: workflow-task2.cwl

Branch/Commit ID: master
workflow graph main.cwl

https://github.com/smc-rna-challenge/zhanghj-9609594.git

Path: main.cwl

Branch/Commit ID: master
workflow graph CODEX analysis pipeline using Cytokit

https://github.com/hubmapconsortium/codex-pipeline.git

Path: steps/illumination_first_stitching.cwl

Branch/Commit ID: 16794b6
workflow graph preprocess_vcf.cwl

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

https://github.com/ICGC-TCGA-PanCancer/pcawg-snv-indel-annotation.git

Path: preprocess_vcf.cwl

Branch/Commit ID: develop
workflow graph tRNA_selection.cwl

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

Path: tools/tRNA_selection.cwl

Branch/Commit ID: f6b5196
workflow graph gatk4W-spark.cwl

Author: AMBARISH KUMAR er.ambarish@gmail.com & ambari73_sit@jnu.ac.in This is a proposed standard operating procedure for genomic variant detection using GATK4. It is hoped to be effective and useful for getting SARS-CoV-2 genome variants. It uses Illumina RNASEQ reads and genome sequence.

https://github.com/ambarishK/bio-cwl-tools.git

Path: gatk4W-spark.cwl

Branch/Commit ID: release
workflow graph wgs alignment and tumor-only variant detection

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

Path: definitions/pipelines/tumor_only_wgs.cwl

Branch/Commit ID: low-vaf
workflow graph rest_parallel.cwl

https://github.com/anandanlk/Community-FL.git

Path: Decentralized-FL/CWL_Workflow/rest_parallel.cwl

Branch/Commit ID: master
workflow graph oxog_varbam_annotate_wf.cwl

This workflow will run OxoG, variantbam, and annotate. Run this as `dockstore --script --debug workflow launch --descriptor cwl --local-entry --entry ./oxog_varbam_annotate_wf.cwl --json oxog_varbam_annotat_wf.input.json `

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

Path: oxog_varbam_annotate_wf.cwl

Branch/Commit ID: develop
workflow graph qc_aggregator

https://github.com/msk-access/qc_generation.git

Path: access_qc__packed.cwl

Branch/Commit ID: develop

Packed ID: qc_aggregator.cwl