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: 6dca77dfd89996079bff84d07849a1583455b54f
workflow graph revsort_step_bad_schema.cwl

Reverse the lines in a document, then sort those lines.

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

Path: tests/wf/revsort_step_bad_schema.cwl

Branch/Commit ID: baefdcb58fcc76e3378cf705fc6a3e69ef35bb47
workflow graph Seed Protein Alignments

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

Path: protein_alignment/wf_seed_seqids.cwl

Branch/Commit ID: 55b6ee46b0c9fb1c9949cd0888b388c6f11b73b1
workflow graph secret_wf.cwl

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

Path: tests/wf/secret_wf.cwl

Branch/Commit ID: a21728aa0e2dd0ffc1be39fdbf9bc76029e90c66
workflow graph HBA_target_VLBI.cwl

https://git.astron.nl/eosc/prefactor3-cwl.git

Path: workflows/HBA_target_VLBI.cwl

Branch/Commit ID: cff7fed6aa41fb1ccacd5235dec289b4e7ef70eb
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: 1a01b0220aa6bbd76e81ceb19a892ac69d6047ec
workflow graph iwdr-passthrough-successive.cwl

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

Path: tests/wf/iwdr-passthrough-successive.cwl

Branch/Commit ID: 2c48ccc9c67e4d5671ec32d2182d25d7a0bb631d
workflow graph exome alignment and somatic variant detection

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

Path: definitions/pipelines/somatic_exome_mouse.cwl

Branch/Commit ID: efbbe5ed51f6ac583e87a348785c72818a33f56e
workflow graph scatter-wf4.cwl#main

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

Path: cwltool/schemas/v1.0/v1.0/scatter-wf4.cwl

Branch/Commit ID: 10492acee927c177933160f6ad67085f9112b0d1

Packed ID: main
workflow graph schemadef_types_with_import-wf.cwl

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

Path: tests/schemadef_types_with_import-wf.cwl

Branch/Commit ID: 31bda22357987171f02ae6513fcc26e011e6afed