Explore Workflows

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

Graph Name Retrieved From View
workflow graph Add snv and indel bam-readcount files to a vcf

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

Path: definitions/subworkflows/vcf_readcount_annotator.cwl

Branch/Commit ID: master
workflow graph standard_pipeline.cwl

This is a workflow to go from UMI-tagged fastqs to standard bams. It does not include collapsing, or QC It does include modules 1 and 2

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

Path: workflows/standard_pipeline.cwl

Branch/Commit ID: master
workflow graph ani_top_n

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

Path: task_types/tt_ani_top_n.cwl

Branch/Commit ID: dev
workflow graph rRNA_selection.cwl

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

Path: tools/rRNA_selection.cwl

Branch/Commit ID: 5dc7c5c
workflow graph FragPipe: Filter - Quant - Report

This workflow takes the PeptideProphet, and the ProteinProphet output files, and applies a stringent False Discovery Rate (FDR) filtering. Peptide and proteins are filtered individually at 1% FDR. The high-quality PSMs, peptides, and proteins are then quantified using a label-free algorithm that uses the apex peak intensity as a measurement. Finally, the isobaric tags are quantified and annotated with the correct sample labels.

 https://github.com/cwl-apps/fragpipe-proteomics-pipeline-tutorial.git

Path: FragPipe-Filter-Quant-Report/fragpipe-filter-quant-report.cwl

Branch/Commit ID: main
workflow graph bismark-genome-preparation.cwl

bismark genome preparation workflow

 https://github.com/pitagora-network/DAT2-cwl.git

Path: workflow/epigenome-bs-seq/bismark-genome-preparation/bismark-genome-preparation.cwl

Branch/Commit ID: main
workflow graph wf-alignment.cwl

https://github.com/garyluu/bcbio_validation_workflows.git

Path: wes-agha-test/wes_chr21_test-workflow-gcp/wf-alignment.cwl

Branch/Commit ID: master
workflow graph env-wf1.cwl

https://github.com/common-workflow-language/common-workflow-language.git

Path: v1.0/v1.0/env-wf1.cwl

Branch/Commit ID: master
workflow graph Exome QC workflow

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

Path: definitions/subworkflows/qc_exome.cwl

Branch/Commit ID: No_filters_detect_variants
workflow graph final_filtering

Final filtering

https://gitlab.bsc.es/lrodrig1/structuralvariants_poc.git

Path: structuralvariants/cwl/abstract_operations/subworkflows/final_filtering.cwl

Branch/Commit ID: master