Explore Workflows

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Graph Name Retrieved From View
workflow graph pipeline-fastq2vcf-multisample.cwl

DNAseq pipeline from fastq to vcf for multiple samples

https://github.com/Sentieon/Sentieon-cwl.git

Path: pipeline/pipeline-fastq2vcf-multisample.cwl

Branch/Commit ID: d20382adfe7285cb517a25d95d2bcb7586546e23

workflow graph QIIME2 Step 1

QIIME2 Import and Demux Step 1

https://github.com/Duke-GCB/bespin-cwl.git

Path: packed/qiime2-step1-import-demux.cwl

Branch/Commit ID: 68c92437c854a200433ee684067f81f13de5d8eb

Packed ID: main

workflow graph MEME motif

This workflow uses MEME suite for motif finding

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

Path: workflows/ChIP-Seq/meme-motif.cwl

Branch/Commit ID: 06501cfc314e36749043431e67c2990966b452e0

workflow graph Bacterial Annotation, pass 3, structural annotation, functional annotation: ab initio GeneMark, by WP, by HMM (second pass)

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

Path: bacterial_annot/wf_bacterial_annot_pass3.cwl

Branch/Commit ID: 9ff3e17888a15f4691ba82380472317214e20a1c

workflow graph Subworkflow that runs cnvkit in single sample mode and returns a vcf file

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

Path: definitions/subworkflows/cnvkit_single_sample.cwl

Branch/Commit ID: b9e7392e72506cadd898a6ac4db330baf6535ab6

workflow graph 01-qc-pe.cwl

ATAC-seq 01 QC - reads: PE

https://github.com/alexbarrera/GGR-cwl.git

Path: v1.0/ATAC-seq_pipeline/01-qc-pe.cwl

Branch/Commit ID: 4e568335133405d28f4b73ae11e7f51f2900dfa3

workflow graph GEM peak calling

This workflow execute peak calling using GEM

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

Path: workflows/ChIP-Seq/gem.cwl

Branch/Commit ID: 265440c63ab75d2451c90bcd116e725626e9a608

workflow graph qiime2 diversity analyses

Alpha and beta diversity analysis from https://docs.qiime2.org/2018.4/tutorials/moving-pictures/

https://github.com/Duke-GCB/bespin-cwl.git

Path: packed/qiime2-step3-alpha-analysis.cwl

Branch/Commit ID: 68c92437c854a200433ee684067f81f13de5d8eb

Packed ID: qiime2-06-alpha-beta-diversity.cwl

workflow graph qiime2 rarefaction visualization

Alpha rarefaction plotting from https://docs.qiime2.org/2018.4/tutorials/moving-pictures/

https://github.com/Duke-GCB/bespin-cwl.git

Path: packed/qiime2-step3-alpha-analysis.cwl

Branch/Commit ID: 68c92437c854a200433ee684067f81f13de5d8eb

Packed ID: qiime2-07-alpha-rarefaction.cwl

workflow graph Non-Coding Bacterial Genes

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

Path: bacterial_noncoding/wf_bacterial_noncoding.cwl

Branch/Commit ID: 9ff3e17888a15f4691ba82380472317214e20a1c