Explore Workflows

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

Graph Name Retrieved From View
workflow graph pindel parallel workflow

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

Path: definitions/subworkflows/pindel.cwl

Branch/Commit ID: 293dc7b83639d21a56efff2baf9dfe4e97b9b806
workflow graph BLASTP, parse, dump FASTA

https://github.com/NCBI-Hackathons/BLAST-Pipelines-and-FAIR.git

Path: blast-pipelines/simple_three_step.cwl

Branch/Commit ID: b7fbc09ae6579b08fa30b43bb7c8ac7ea5b519e0
workflow graph trim-rnaseq-pe.cwl

Runs RNA-Seq BioWardrobe basic analysis with pair-end data file.

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

Path: workflows/trim-rnaseq-pe.cwl

Branch/Commit ID: 749460273e6c8d9e8b7d2395f0ac157701d3495e
workflow graph Run genomic CMsearch

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

Path: bacterial_noncoding/wf_gcmsearch.cwl

Branch/Commit ID: 369e2b6c7f4db75099d258729dec1326f55d2cc5
workflow graph kfdrc-gatk-haplotypecaller-wf.cwl

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

Path: workflows/kfdrc-gatk-haplotypecaller-wf.cwl

Branch/Commit ID: e75f0c96153a484db1f882f6ff2a9764519a3179
workflow graph Cell Ranger Count (RNA+VDJ)

Cell Ranger Count (RNA+VDJ) Quantifies single-cell gene expression, performs V(D)J contigs assembly and clonotype calling of the sequencing data from a single 10x Genomics library in a combined manner. The results of this workflow are primarily used in either “Single-Cell RNA-Seq Filtering Analysis”, “Single-Cell Immune Profiling Analysis”, or “Cell Ranger Aggregate (RNA, RNA+VDJ)” pipelines.

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

Path: workflows/cellranger-multi.cwl

Branch/Commit ID: 57863b6131d8262c5ce864adaf8e4038401e71a2
workflow graph Pipeline for evaluating differential expression of genes across datasets

https://github.com/hubmapconsortium/rna-data-products.git

Path: pipeline.cwl

Branch/Commit ID: 41ab146cbf51d1ffc9e22d577776813292792d70
workflow graph Resize sentinel2ard collection

Resize sentinel2ard collection

 https://github.com/EO-DataHub/eodh-training.git

Path: cwl/resize-sentinel2ard.cwl

Branch/Commit ID: cbd9df98847fb2921dd4384564857b52ceda43bc

Packed ID: resize-sentinel2ard
workflow graph DiffBind Multi-factor Analysis

DiffBind Multi-factor Analysis ------------------------------ DiffBind processes ChIP-Seq data enriched for genomic loci where specific protein/DNA binding occurs, including peak sets identified by ChIP-Seq peak callers and aligned sequence read datasets. It is designed to work with multiple peak sets simultaneously, representing different ChIP experiments (antibodies, transcription factor and/or histone marks, experimental conditions, replicates) as well as managing the results of multiple peak callers. For more information please refer to: ------------------------------------- Ross-Innes CS, Stark R, Teschendorff AE, Holmes KA, Ali HR, Dunning MJ, Brown GD, Gojis O, Ellis IO, Green AR, Ali S, Chin S, Palmieri C, Caldas C, Carroll JS (2012). “Differential oestrogen receptor binding is associated with clinical outcome in breast cancer.” Nature, 481, -4.

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

Path: workflows/diffbind-multi-factor.cwl

Branch/Commit ID: 57863b6131d8262c5ce864adaf8e4038401e71a2
workflow graph Unaligned BAM to BQSR and VCF

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

Path: definitions/subworkflows/bam_to_bqsr.cwl

Branch/Commit ID: 76a35e7d885790f30559beb31f3b58770e343afd