Explore Workflows

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

Graph Name Retrieved From View
workflow graph PGAP Pipeline, simple user input, PGAPX-134

PGAP pipeline for external usage, powered via containers, simple user input: (FASTA + yaml only, no template)

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

Path: pgap.cwl

Branch/Commit ID: master
workflow graph test-extract_ifie.cwl

https://github.com/kyusque/abmp_log_dump2pieda.git

Path: test-extract_ifie.cwl

Branch/Commit ID: master
workflow graph bam to trimmed fastqs and biscuit alignments

https://github.com/apaul7/cancer-genomics-workflow.git

Path: definitions/subworkflows/bam_to_trimmed_fastq_and_biscuit_alignments.cwl

Branch/Commit ID: low-vaf
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: master
workflow graph pcawg_oxog_wf.cwl

This workflow will perform OxoG filtering on a set of VCFs. It will produce VCFs and their associated index files.

https://github.com/ICGC-TCGA-PanCancer/pcawg-oxog-filter.git

Path: pcawg_oxog_wf.cwl

Branch/Commit ID: develop
workflow graph bulk_analysis.cwl

https://github.com/hubmapconsortium/sc-atac-seq-pipeline.git

Path: steps/bulk_analysis.cwl

Branch/Commit ID: develop
workflow graph VIRTUS.SE.cwl

https://github.com/yyoshiaki/VIRTUS2.git

Path: workflow/VIRTUS.SE.cwl

Branch/Commit ID: master
workflow graph Produce a list of residue-mapped structural domain instances from CATH ids

Retrieve and process the PDB structures corresponding to the CATH superfamily ids resulting in a list of residue-mapped structural domain instances along with lost structural instances (requires Data/cath_domain_description_file.txt downloaded from CATH and uses SIFTS resource for PDB to UniProt residue Mapping)

https://gitlab.inria.fr/capsid.public_codes/CroMaSt.git

Path: Tools/resmapping_cath_instances_subwf.cwl

Branch/Commit ID: main
workflow graph preprocess-illumina.cwl

https://github.com/fjrmoreews/cwl-workflow-SARS-CoV-2.git

Path: PreProcessing/preprocess-illumina.cwl

Branch/Commit ID: master
workflow graph align-test-files-pack.cwl#main

https://github.com/KBNLresearch/ochre.git

Path: ochre/cwl/align-test-files-pack.cwl

Branch/Commit ID: master

Packed ID: main