Explore Workflows

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

Graph Name Retrieved From View
workflow graph scatter GATK HaplotypeCaller over intervals

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

Path: definitions/subworkflows/gatk_haplotypecaller_iterator.cwl

Branch/Commit ID: downsample_and_recall
workflow graph fastqSE2bam.cwl

https://github.com/ddbj/human-reseq.git

Path: Workflows/fastqSE2bam.cwl

Branch/Commit ID: master
workflow graph bams2gvcf.woBQSR_male.cwl

https://github.com/ddbj/human-reseq.git

Path: Workflows/bams2gvcf.woBQSR_male.cwl

Branch/Commit ID: master
workflow graph somatic_exome: exome alignment and somatic variant detection

somatic_exome is designed to perform processing of mutant/wildtype H.sapiens exome sequencing data. It features BQSR corrected alignments, 4 caller variant detection, and vep style annotations. Structural variants are detected via manta and cnvkit. In addition QC metrics are run, including somalier concordance metrics. example input file = analysis_workflows/example_data/somatic_exome.yaml

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

Path: definitions/pipelines/somatic_exome.cwl

Branch/Commit ID: master
workflow graph presto.cwl

https://github.com/EOSC-LOFAR/presto-cwl.git

Path: presto.cwl

Branch/Commit ID: visualise
workflow graph EMG QC workflow, (paired end version). Benchmarking with MG-RAST expt.

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

Path: workflows/emg-qc-paired.cwl

Branch/Commit ID: 3f85843
workflow graph cmsearch-multimodel.cwl

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

Path: workflows/cmsearch-multimodel.cwl

Branch/Commit ID: c1f8b22
workflow graph sc_atac_seq_process_and_analyze.cwl

https://github.com/hubmapconsortium/sc-atac-seq-pipeline.git

Path: steps/sc_atac_seq_process_and_analyze.cwl

Branch/Commit ID: d0e845d
workflow graph pipeline-se-blacklist-removal.cwl

ATAC-seq pipeline - reads: SE - with blacklist removal

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

Path: v1.0/ATAC-seq_pipeline/pipeline-se-blacklist-removal.cwl

Branch/Commit ID: master
workflow graph repliseq-parta.cwl

https://github.com/4dn-dcic/pipelines-cwl.git

Path: cwl_awsem_v1/repliseq/repliseq-parta.cwl

Branch/Commit ID: dev2