Explore Workflows

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

Graph Name Retrieved From View
workflow graph cnv_manta

CNV Manta calling

https://gitlab.bsc.es/lrodrig1/structuralvariants_poc.git

Path: structuralvariants/subworkflows/cnv_manta.cwl

Branch/Commit ID: 548778e1733b1cac01ed2ec3d25a14bc484f3cbd
workflow graph samtools_view_sam2bam

https://gitlab.bsc.es/lrodrig1/structuralvariants_poc.git

Path: structuralvariants/subworkflows/samtools_view_sam2bam.cwl

Branch/Commit ID: 548778e1733b1cac01ed2ec3d25a14bc484f3cbd
workflow graph conpair-master

https://github.com/mskcc/roslin-variant.git

Path: setup/cwl/conpair/0.2/conpair-master.cwl

Branch/Commit ID: 302b220bd06c195e43715c19685cb9c04692a73a
workflow graph bwa_mem

https://gitlab.bsc.es/lrodrig1/structuralvariants_poc.git

Path: structuralvariants/subworkflows/bwa_mem.cwl

Branch/Commit ID: 548778e1733b1cac01ed2ec3d25a14bc484f3cbd
workflow graph samtools_sort

https://gitlab.bsc.es/lrodrig1/structuralvariants_poc.git

Path: structuralvariants/subworkflows/samtools_sort.cwl

Branch/Commit ID: 548778e1733b1cac01ed2ec3d25a14bc484f3cbd
workflow graph sequence (bam or fastqs) to trimmed fastqs and HISAT alignments

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

Path: definitions/subworkflows/sequence_to_trimmed_fastq_and_hisat_alignments.cwl

Branch/Commit ID: 5be54bf09092c53e6c7797a875f64a360d511d7f
workflow graph cnv_gridss

CNV GRIDSS calling

https://gitlab.bsc.es/lrodrig1/structuralvariants_poc.git

Path: structuralvariants/subworkflows/cnv_gridss.cwl

Branch/Commit ID: 548778e1733b1cac01ed2ec3d25a14bc484f3cbd
workflow graph waltz-workflow.cwl

https://github.com/mskcc/Innovation-Pipeline.git

Path: workflows/waltz/waltz-workflow.cwl

Branch/Commit ID: 9e6eae9eb8448e68d509397a46303551a93a164d
workflow graph qc_workflow_wo_waltz.cwl

This workflow is intended to be used to test the QC module, without having to run the long waltz step

https://github.com/mskcc/ACCESS-Pipeline.git

Path: workflows/QC/qc_workflow_wo_waltz.cwl

Branch/Commit ID: 09ddd9711fb550f56d52f1806cdefd4a8cd943b0
workflow graph bam-filtering

BAM filtering

https://gitlab.bsc.es/lrodrig1/structuralvariants_poc.git

Path: structuralvariants/subworkflows/bam_filtering.cwl

Branch/Commit ID: 548778e1733b1cac01ed2ec3d25a14bc484f3cbd