Explore Workflows

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

Graph Name Retrieved From View
workflow graph Variant calling workflow for given interval

https://github.com/arvados/arvados-tutorial.git

Path: WGS-processing/cwl/helper/gatk-wf-with-interval.cwl

Branch/Commit ID: 7521f8770b81d944aad3c1e0fd7ef5a886600190
workflow graph exome alignment and somatic variant detection for cle purpose

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

Path: definitions/pipelines/somatic_exome_cle.cwl

Branch/Commit ID: 06d2440d115b446c299b4ce96e8812d2f8df86ec
workflow graph exome alignment and germline variant detection

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

Path: definitions/subworkflows/germline_detect_variants.cwl

Branch/Commit ID: 742dbafb5fb103d8578f48a0576c14dd8dae3b2a
workflow graph Detect Variants workflow

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

Path: definitions/pipelines/detect_variants.cwl

Branch/Commit ID: c625e05eefb1754353c1bdfa46c01dc61e6233dd
workflow graph pipeline.cwl

https://github.com/hubmapconsortium/ims-mxif-pipeline.git

Path: pipeline.cwl

Branch/Commit ID: 6915b8bbefdc8302c6041c4d795dd4c3fa8a9f4c
workflow graph 01-qc-se.cwl

RNA-seq 01 QC - reads: SE

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

Path: v1.0/RNA-seq_pipeline/01-qc-se.cwl

Branch/Commit ID: 4e568335133405d28f4b73ae11e7f51f2900dfa3
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/genome/analysis-workflows.git

Path: definitions/pipelines/somatic_exome.cwl

Branch/Commit ID: bed420556091b7b8b45cf20a95e5947e1de9a416
workflow graph Varscan Workflow

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

Path: definitions/subworkflows/varscan_germline.cwl

Branch/Commit ID: ecac0fda44df3a8f25ddfbb3e7a023fcbe4cbd0f
workflow graph Detect DoCM variants

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

Path: definitions/subworkflows/docm_germline.cwl

Branch/Commit ID: ecac0fda44df3a8f25ddfbb3e7a023fcbe4cbd0f
workflow graph transform.cwl

https://github.com/NCI-GDC/gdc-dnaseq-cwl.git

Path: workflows/fastq_readgroup_stats/transform.cwl

Branch/Commit ID: 1046947f8d2923e6563b3aceac9e435554c5bea1