Explore Workflows

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

Graph Name Retrieved From View
workflow graph rnaseq-alignment-quantification

This workflow retrieve SRA fastqc data and execute QC, alignment and quantification from TPMCalculator

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

Path: workflows/RNA-Seq/rnaseq-alignment-quantification.cwl

Branch/Commit ID: 11f70a71cb68b3960c2d410ba1fdcd3b8a7e1419
workflow graph Vcf concordance evaluation workflow

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

Path: definitions/subworkflows/vcf_eval_concordance.cwl

Branch/Commit ID: 1750cd5cc653f058f521b6195e3bec1e7df1a086
workflow graph bacterial_orthology

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

Path: bacterial_orthology/wf_bacterial_orthology.cwl

Branch/Commit ID: 369afa7090a7480e6a0b144eff967a4a52b6fde2
workflow graph MoveData-workflow.cwl

https://github.com/NAL-i5K/Organism_Onboarding.git

Path: MoveData-workflow.cwl

Branch/Commit ID: c6077d2756e628f469b446e1584ac8a86582d729
workflow graph kfdrc_bwamem_subwf.cwl

https://github.com/kids-first/kf-alignment-workflow.git

Path: workflows/dev/ultra-opt/kfdrc_bwamem_subwf.cwl

Branch/Commit ID: fc947e792856747f8dbd78811ee105dbd736bea6
workflow graph scRNA-seq pipeline using Salmon and Alevin

https://github.com/hubmapconsortium/salmon-rnaseq.git

Path: pipeline.cwl

Branch/Commit ID: c9aedcb8d3d153a1ce475939fd0c752269570a69
workflow graph ROSE: rank ordering of super-enhancers

Super-enhancers, consist of clusters of enhancers that are densely occupied by the master regulators and Mediator. Super-enhancers differ from typical enhancers in size, transcription factor density and content, ability to activate transcription, and sensitivity to perturbation. Use to create stitched enhancers, and to separate super-enhancers from typical enhancers using sequencing data (.bam) given a file of previously identified constituent enhancers (.gff)

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

Path: workflows/super-enhancer.cwl

Branch/Commit ID: 9e3c3e65c19873cd1ed3cf7cc3b94ebc75ae0cc5
workflow graph wf_trim_and_map_se_nostats.cwl

This workflow takes in appropriate trimming params and demultiplexed reads, and performs the following steps in order: trimx1, trimx2, fastq-sort, filter repeat elements, fastq-sort, genomic mapping, sort alignment, index alignment, namesort, PCR dedup, sort alignment, index alignment

https://github.com/YeoLab/eclip.git

Path: cwl/wf_trim_and_map_se_nostats.cwl

Branch/Commit ID: b389f7fe3e76cb6e3f31c3a8e2e3b59bb400e74c
workflow graph vecscreen.cwl

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

Path: vecscreen/vecscreen.cwl

Branch/Commit ID: 94c97cfc95a5bf102a6f9206e045ea1afb768317
workflow graph haplotypecaller.cwl

https://github.com/uc-cdis/genomel_pipelines.git

Path: genomel/cwl/workflows/variant_calling/haplotypecaller.cwl

Branch/Commit ID: 7f01768479e6a77a5caf6b3382174aa038ba05fc