Explore Workflows

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

Graph Name Retrieved From View
workflow graph WES Preprocessing

Whole Exome Sequence analysis Preprocessing

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

Path: workflows/exomeseq-preprocessing.cwl

Branch/Commit ID: 66b46c15d266fdf6a1faabd8d2f1b257f3438efc

workflow graph merge and annotate svs with population allele freq and vep

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

Path: definitions/subworkflows/merge_svs.cwl

Branch/Commit ID: d2c2f2eb846ae2e9cdcab46e3bb88e42126cb3f5

workflow graph Scattered variant calling workflow

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

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

Branch/Commit ID: 2691061efa8341166ad6518688e5e6c0fb9a8fbf

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: 915ea871cc28f7b666a4d7b476fdaa7b454ce7c3

workflow graph bam-bedgraph-bigwig.cwl

Workflow converts input BAM file into bigWig and bedGraph files

https://github.com/datirium/workflows.git

Path: subworkflows/bam-bedgraph-bigwig.cwl

Branch/Commit ID: 4106b7dc96e968db291b7a61ecd1641aa3b3dd6d

workflow graph varscan somatic workflow

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

Path: definitions/subworkflows/varscan.cwl

Branch/Commit ID: 0d2f354af9192a56af258a7d2426c7c160f4ec1a

workflow graph Production Configuration

This workflow prepares the configuration of the subsequent production steps.

https://gitlab.cta-observatory.org/cta-computing/dpps/dpps-workflows.git

Path: workflows/wms/uc-wms-XXX.cwl

Branch/Commit ID: 76f7c25c0472da23b7e0bfe9f2c18ab6bc369c9d

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: 665141f319e6b23bd9924b14844f2e979f141944

Packed ID: main

workflow graph env-wf2.cwl

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

Path: tests/env-wf2.cwl

Branch/Commit ID: 0e37d46e793e72b7c16b5ec03e22cb3ce1f55ba3

workflow graph kmer_cache_store

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

Path: task_types/tt_kmer_cache_store.cwl

Branch/Commit ID: 9abcceb95c8dcb74b98d7eeda265d8f3a9a4329e