Explore Workflows

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

Graph Name Retrieved From View
workflow graph STAR-Alignment-PE-circRNA

This workflow aligns the fastq files using STAR for paired-end samples to be used in circRNA pipeline

 https://github.com/ncbi/cwl-ngs-workflows-cbb.git

Path: workflows/Alignments/star-alignment-circRNA-default.cwl

Branch/Commit ID: e1c19e64f6fc210f65472ee227786d33c9b4909a
workflow graph basename-fields-test.cwl

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

Path: cwltool/schemas/v1.0/v1.0/basename-fields-test.cwl

Branch/Commit ID: 4d4bbc301c81cbbae9b7f40fb3da3fa16d900fe3
workflow graph strelka workflow

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

Path: definitions/subworkflows/strelka_and_post_processing.cwl

Branch/Commit ID: db0a91eb094d0a7c58042d4264986ea042dd4827
workflow graph 1st-workflow.cwl

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

Path: tests/wf/1st-workflow.cwl

Branch/Commit ID: 048eb55aefd8d71d161fbc89ec0e888b8bfa0aa1
workflow graph exome alignment and somatic variant detection

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

Path: definitions/pipelines/somatic_exome.cwl

Branch/Commit ID: 293dc7b83639d21a56efff2baf9dfe4e97b9b806
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: 1338ffbf2492a2ca1be1d7c5c46597bd9205aa24
workflow graph calculate_contamination_workflow.cwl

GATK4.1.2 Calculate tumor-normal contamination workflow

https://github.com/NCI-GDC/gatk4_mutect2_cwl.git

Path: subworkflows/calculate_contamination_workflow.cwl

Branch/Commit ID: 02129060b3a92f90daf1328f21b9db49da7a5aca
workflow graph filter_alignment_artifacts.cwl

GATK4.1.2 Alignment artifacts filtration workflow

https://github.com/NCI-GDC/gatk4_mutect2_cwl.git

Path: subworkflows/filter_alignment_artifacts.cwl

Branch/Commit ID: 02129060b3a92f90daf1328f21b9db49da7a5aca
workflow graph mutect2_calling.cwl

GATK4.1.2 Mutect2 workflow

https://github.com/NCI-GDC/gatk4_mutect2_cwl.git

Path: subworkflows/mutect2_calling.cwl

Branch/Commit ID: 02129060b3a92f90daf1328f21b9db49da7a5aca
workflow graph Unaligned BAM to BQSR

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

Path: definitions/subworkflows/bam_to_bqsr.cwl

Branch/Commit ID: 6bfb64375e7ebb6eb40f463ede86d8deccdb9eff