Explore Workflows

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

Graph Name Retrieved From View
workflow graph Spliced RNAseq workflow

Workflow for Spliced RNAseq data Steps: - workflow_illumina_quality: - FastQC (Read Quality Control) - fastp (Read Trimming) - STAR (Read mapping) - featurecounts (transcript read counts) - kallisto (transcript [pseudo]counts)

https://git.wur.nl/unlock/cwl.git

Path: cwl/workflows/workflow_RNAseq_Spliced.cwl

Branch/Commit ID: master
workflow graph create_snap_and_analyze.cwl

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

Path: create_snap_and_analyze.cwl

Branch/Commit ID: 102d8cb
workflow graph canine_strelka2_module.cwl

https://github.com/d3b-center/canine-dev.git

Path: subworkflows/canine_strelka2_module.cwl

Branch/Commit ID: master
workflow graph inp_update_wf.cwl

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

Path: tests/inp_update_wf.cwl

Branch/Commit ID: main
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: master
workflow graph canine_collect_somatic_metrics_module.cwl

https://github.com/d3b-center/canine-dev.git

Path: subworkflows/canine_collect_somatic_metrics_module.cwl

Branch/Commit ID: master
workflow graph ConcordanceCheckerWorkflow.cwl

https://github.com/DataBiosphere/topmed-workflows.git

Path: vcf-comparator/ConcordanceCheckerWorkflow.cwl

Branch/Commit ID: 1.16.0
workflow graph Metagenomics workflow

Workflow for Metagenomics from raw reads to annotated bins. Steps: - workflow_illumina_quality.cwl: - FastQC (control) - fastp (quality trimming) - kraken2 (taxonomy) - bbmap contamination filter - SPAdes (Assembly) - QUAST (Assembly quality report) - BBmap (Read mapping to assembly) - Contig binning (OPTIONAL)

https://git.wur.nl/unlock/cwl.git

Path: cwl/workflows/workflow_metagenomics_assembly.cwl

Branch/Commit ID: master
workflow graph Bisulfite alignment and QC

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

Path: definitions/pipelines/bisulfite.cwl

Branch/Commit ID: downsample_and_recall
workflow graph Detect Docm variants

https://github.com/fgomez02/analysis-workflows.git

Path: definitions/subworkflows/docm_cle.cwl

Branch/Commit ID: No_filters_detect_variants