Explore Workflows

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

Graph Name Retrieved From View
workflow graph allele-alignreads-se-pe.cwl

Workflow maps FASTQ files from `fastq_files` input into reference genome `reference_star_indices_folder` and insilico generated `insilico_star_indices_folder` genome (concatenated genome for both `strain1` and `strain2` strains). For both genomes STAR is run with `outFilterMultimapNmax` parameter set to 1 to discard all of the multimapped reads. For insilico genome SAM file is generated. Then it's splitted into two SAM files based on strain names and then sorted by coordinates into the BAM format. For reference genome output BAM file from STAR slignment is also coordinate sorted.

https://github.com/barski-lab/workflows.git

Path: subworkflows/allele-alignreads-se-pe.cwl

Branch/Commit ID: f2aee86fecd321efc6857b124350f079238ea2ba
workflow graph 02-trim-pe.cwl

ChIP-seq 02 trimming - reads: PE

 https://github.com/Duke-GCB/GGR-cwl.git

Path: v1.0/ChIP-seq_pipeline/02-trim-pe.cwl

Branch/Commit ID: 67e8ccd5abddbd9e27f23ceeb95536fecf792d93
workflow graph step-valuefrom2-wf_v1_1.cwl

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

Path: testdata/step-valuefrom2-wf_v1_1.cwl

Branch/Commit ID: 02d6dbd3d48d50adfd4afb1f7d92e8a4284bcab9
workflow graph cnv_exomedepth

CNV ExomeDepth calling

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

Path: structuralvariants/cwl/subworkflows/cnv_exome_depth.cwl

Branch/Commit ID: 1.1.3
workflow graph collate_unique_SSU_headers.cwl

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

Path: tools/collate_unique_SSU_headers.cwl

Branch/Commit ID: 1b0851e
workflow graph Calculate FDA-requested metrics on all aligned and unaligned sequence files

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

Path: definitions/subworkflows/generate_fda_metrics.cwl

Branch/Commit ID: master
workflow graph revcomp.cwl

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

Path: workflows/sanbi_cwltutorial/revcomp/revcomp.cwl

Branch/Commit ID: master
workflow graph step-valuefrom5-wf.cwl

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

Path: tests/step-valuefrom5-wf.cwl

Branch/Commit ID: main
workflow graph Sounder SIPS L1B PGE

Processes Sounder SIPS L1A products into L1B Products

 https://github.com/unity-sds/unity-sps-workflows.git

Path: sounder_sips/l1b_package.cwl

Branch/Commit ID: main

Packed ID: main
workflow graph full_workflow_notcompact.cwl

https://github.com/teoloup/cwltools.git

Path: full_workflow_notcompact.cwl

Branch/Commit ID: master