Explore Workflows

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

Graph Name Retrieved From View
workflow graph kmer_cache_retrieve

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

Path: task_types/tt_kmer_cache_retrieve.cwl

Branch/Commit ID: 9bf0dc70af47b5c37fe6cbf3442cd52ff8f8025d
workflow graph kmer_compare_wnode

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

Path: task_types/tt_kmer_compare_wnode.cwl

Branch/Commit ID: 13b411d94a568e52797ba936732dc65f1a91bd41
workflow graph scatter-wf1.cwl

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

Path: cwltool/schemas/v1.0/v1.0/scatter-wf1.cwl

Branch/Commit ID: 639229b1159cf484e70e52da10194561b3fad719
workflow graph allele-vcf-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-vcf-alignreads-se-pe.cwl

Branch/Commit ID: 0a8a3a654518547047ca4c975795459ade904fe2
workflow graph cond-wf-004.1.cwl

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

Path: testdata/cond-wf-004.1.cwl

Branch/Commit ID: e413f9b185f0060ffbdd876062133d65daecb7da
workflow graph sec-wf.cwl

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

Path: tests/wf/sec-wf.cwl

Branch/Commit ID: d7c4d48fcd1aef2cae7ba31445e73d59b377e978
workflow graph zip_and_index_vcf.cwl

This is a very simple workflow of two steps. It will zip an input VCF file and then index it. The zipped file and the index file will be in the workflow output.

https://github.com/david4096/oxog-dockstore-tools.git

Path: zip_and_index_vcf.cwl

Branch/Commit ID: 6366ed398da10019b6d81a789291af6d909f28f4
workflow graph mpi_simple_wf.cwl

Simple 2 step workflow to check that workflow steps are independently picking up on the number of processes. First run the parallel get PIDs step (on the input num procs) then run (on a single proc) the line count. This should equal the input.

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

Path: tests/wf/mpi_simple_wf.cwl

Branch/Commit ID: 20bec583996f86de518feb51574ff6efc8784f49
workflow graph preprocess_vcf.cwl

This workflow will perform preprocessing steps on VCFs for the OxoG/Variantbam/Annotation workflow.

https://github.com/david4096/oxog-dockstore-tools.git

Path: preprocess_vcf.cwl

Branch/Commit ID: 6366ed398da10019b6d81a789291af6d909f28f4
workflow graph env-wf3.cwl

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

Path: tests/env-wf3.cwl

Branch/Commit ID: 31bda22357987171f02ae6513fcc26e011e6afed