Explore Workflows

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

Graph Name Retrieved From View
workflow graph WES GATK4 Preprocessing

Whole Exome Sequence analysis GATK4 Preprocessing

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

Path: workflows/exomeseq-gatk4-preprocessing.cwl

Branch/Commit ID: 66b46c15d266fdf6a1faabd8d2f1b257f3438efc
workflow graph Detect Variants workflow for WGS pipeline

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

Path: definitions/pipelines/detect_variants_wgs.cwl

Branch/Commit ID: 789267ce0e3fed674ea5212a562315218fcf1bfc
workflow graph step-valuefrom2-wf.cwl

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

Path: cwltool/schemas/v1.0/v1.0/step-valuefrom2-wf.cwl

Branch/Commit ID: 665141f319e6b23bd9924b14844f2e979f141944
workflow graph step-valuefrom-wf.cwl

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

Path: cwltool/schemas/v1.0/v1.0/step-valuefrom-wf.cwl

Branch/Commit ID: d7cd45f7072960d264962ecc5a04d7c219f65c06
workflow graph kmer_cache_retrieve

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

Path: task_types/tt_kmer_cache_retrieve.cwl

Branch/Commit ID: 686b570a9fa46f3ace3f8e9935490b75df86a1fc
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/datirium/workflows.git

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

Branch/Commit ID: 0ddfca10c41f83bb120c7633e0db9dba7441bca0
workflow graph Align reference proteins plane complete workflow

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

Path: protein_alignment/wf_protein_alignment.cwl

Branch/Commit ID: 16d1198871195e2229fd44dd0ad94a4ed6a87caf
workflow graph Long-covid.cwl

https://github.com/cwlviewer-test/Long-covid---aedea650-7a21-11ed-b9d2-e51f21933d80.git

Path: Long-covid---aede7f40-7a21-11ed-b9d2-e51f21933d80/Long-covid.cwl

Branch/Commit ID: e6e351cba4bf23073daa00364da5290d3c87738e
workflow graph Variant calling workflow for given interval

https://github.com/arvados/arvados-tutorial.git

Path: WGS-processing/cwl/helper/gatk-wf-with-interval.cwl

Branch/Commit ID: 2691061efa8341166ad6518688e5e6c0fb9a8fbf
workflow graph steplevel-resreq.cwl

https://github.com/common-workflow-language/cwl-v1.1.git

Path: tests/steplevel-resreq.cwl

Branch/Commit ID: 0e37d46e793e72b7c16b5ec03e22cb3ce1f55ba3