Explore Workflows

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

Graph Name Retrieved From View
workflow graph SPRM pipeline

https://github.com/hubmapconsortium/sprm.git

Path: pipeline.cwl

Branch/Commit ID: 05b7aef
workflow graph EMG pipeline v3.0 (paired end version)

https://github.com/ProteinsWebTeam/ebi-metagenomics-cwl.git

Path: workflows/emg-pipeline-v3-paired.cwl

Branch/Commit ID: 5e82174
workflow graph Calculate reference coverage

https://github.com/ChrisMaherLab/PACT.git

Path: subworkflows/cna_reference_coverage.cwl

Branch/Commit ID: master
workflow graph RNASelector as a CWL workflow

https://doi.org/10.1007/s12275-011-1213-z

 https://github.com/proteinswebteam/ebi-metagenomics-cwl.git

Path: workflows/rna-selector.cwl

Branch/Commit ID: 5dc7c5c
workflow graph biowardrobe_chipseq_se.cwl

The workflow is used to run CHIP-Seq basic analysis with single-end input FASTQ file. In outputs it returns coordinate sorted BAM file alongside with index BAI file, quality statistics of the input FASTQ file, reads coverage in a form of bigWig file, peaks calling data in a form of narrowPeak or broadPeak files.

https://github.com/Barski-lab/ga4gh_challenge.git

Path: biowardrobe_chipseq_se.cwl

Branch/Commit ID: v0.0.3
workflow graph cond-wf-009.cwl

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

Path: tests/conditionals/cond-wf-009.cwl

Branch/Commit ID: main
workflow graph kmer_ref_compare_wnode

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

Path: task_types/tt_kmer_ref_compare_wnode.cwl

Branch/Commit ID: dev
workflow graph bgzip and index VCF

https://github.com/tmooney/cancer-genomics-workflow.git

Path: definitions/subworkflows/bgzip_and_index.cwl

Branch/Commit ID: downsample_and_recall
workflow graph trimmed_fastq

Quality Control (raw data), Raw Data trimming and Quality Control (pre-processed)

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

Path: structuralvariants/cwl/subworkflows/trimmed_fastq.cwl

Branch/Commit ID: 1.1.3
workflow graph UW GAC (GENESIS) VCF to GDS

**VCF to GDS** workflow converts VCF or BCF files into Genomic Data Structure (GDS) format. GDS files are required by all workflows utilizing the GENESIS or SNPRelate R packages. _Filename requirements_: The input file names should follow the pattern <A>chr<X>.<y> For example: 1KG_phase3_subset_chr1.vcf.gz Some of the tools inside the workflow infer the chromosome number from the file by expecting this pattern of file name.

 https://github.com/sevenbridges-openworkflows/uw-genesis-topmed-cwl.git

Path: vcftogds/vcf-to-gds-wf.cwl

Branch/Commit ID: master