Explore Workflows

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

Graph Name Retrieved From View
workflow graph PGAP Pipeline, simple user input, PGAPX-134

PGAP pipeline for external usage, powered via containers, simple user input: (FASTA + yaml only, no template)

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

Path: pgap.cwl

Branch/Commit ID: 1e16653514fd5629a704516eb447043c9fd0a53b
workflow graph umi duplex alignment fastq workflow

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

Path: definitions/pipelines/alignment_umi_duplex.cwl

Branch/Commit ID: 6bfb64375e7ebb6eb40f463ede86d8deccdb9eff
workflow graph scatter-wf1_v1_2.cwl

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

Path: testdata/scatter-wf1_v1_2.cwl

Branch/Commit ID: 6a46105708870aa3cf97c8ba91884272b2857975
workflow graph scatterfail.cwl

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

Path: tests/wf/scatterfail.cwl

Branch/Commit ID: 6a10aa5ff43cd10c6895a98d8cef97472c823a3a
workflow graph project-workflow-sv.cwl

https://github.com/mskcc/roslin-variant.git

Path: setup/cwl/workflows/project-workflow-sv.cwl

Branch/Commit ID: b9db26ef98a0b283926aad13c008999c6bfe1949
workflow graph extract_amplicon_kit_http.cwl

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

Path: workflows/bamfastq_align/extract_amplicon_kit_http.cwl

Branch/Commit ID: b2f7a697e08220234062a9cf558ba169d255b4a4
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: 14d0618786c1499e8626f234341e99782a1e55c2
workflow graph 811.cwl

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

Path: tests/wf/811.cwl

Branch/Commit ID: 7a058fed2987bc0046ffbc9a2b8a39b5b4fec6e1
workflow graph umi duplex alignment workflow

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

Path: definitions/subworkflows/duplex_alignment.cwl

Branch/Commit ID: 6d03a918639a69ddf6a7b93fe9f72128ef37edc3
workflow graph process-ddf.cwl

https://git.astron.nl/RD/VLBI-cwl.git

Path: workflows/process-ddf.cwl

Branch/Commit ID: 014b873fc61456e01bade66e9e0ddd47af7d5aba