Explore Workflows

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

Graph Name Retrieved From View
workflow graph Deprecated. AltAnalyze Build Reference Indices

Deprecated. AltAnalyze Build Reference Indices

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

Path: workflows/altanalyze-prepare-genome.cwl

Branch/Commit ID: fc45b83b3edd8378e14bce3de14f3eb6d4a140dc
workflow graph Get Proteins

https://github.com/ncbi/pgap.git

Path: wf_bacterial_prot_src.cwl

Branch/Commit ID: 96dbb414d287f4382e2d477fb1851aeaa5f14f2b
workflow graph alignment for mouse with qc

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

Path: definitions/pipelines/alignment_wgs_mouse.cwl

Branch/Commit ID: 0db1a5f1ceedd4416ac550787c27b99c87dbe985
workflow graph workflow.cwl

https://github.com/Andreja28/cloud-workflows.git

Path: cwl/torso/workflow.cwl

Branch/Commit ID: ed5dd0589aa951193f4b98f44b0edc7f58e04ba5
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: ae79bc51e8b502164dbe74ea3b068d6d4d36a1f8
workflow graph marianas_collapsing_workflow.cwl

https://github.com/mskcc/ACCESS-Pipeline.git

Path: workflows/marianas/marianas_collapsing_workflow.cwl

Branch/Commit ID: b0f226a9ac5152f3afe0d38c8cd54aa25b8b01cf
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/tmooney/cancer-genomics-workflow.git

Path: definitions/pipelines/somatic_exome.cwl

Branch/Commit ID: 0db1a5f1ceedd4416ac550787c27b99c87dbe985
workflow graph gathered exome alignment and somatic variant detection

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

Path: definitions/pipelines/somatic_exome_gathered.cwl

Branch/Commit ID: 0db1a5f1ceedd4416ac550787c27b99c87dbe985
workflow graph QuantSeq 3' FWD, FWD-UMI or REV for single-read mRNA-Seq data

### Devel version of QuantSeq 3' FWD, FWD-UMI or REV for single-read mRNA-Seq data

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

Path: workflows/trim-quantseq-mrnaseq-se-strand-specific.cwl

Branch/Commit ID: 954bb2f213d97dfef1cddaf9e830169a92ad0c6b
workflow graph hc-distr.cwl

https://github.com/sentieon/sentieon-cwl.git

Path: stage/hc-distr.cwl

Branch/Commit ID: d20382adfe7285cb517a25d95d2bcb7586546e23