Explore Workflows

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

Graph Name Retrieved From View
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 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 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 umi per-lane alignment subworkflow

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

Path: definitions/subworkflows/umi_alignment.cwl

Branch/Commit ID: 9e5f228bc1a3d0dfe950b5d41d7e4319e834a6d4
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 05-quantification.cwl

ChIP-seq - Quantification - samples: treatment

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

Path: v1.0/ChIP-seq_pipeline/05-quantification.cwl

Branch/Commit ID: 8d02684ae0ff27e641f3704686e3bc8b1979b854
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 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 running cellranger mkfastq and count

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

Path: definitions/subworkflows/cellranger_mkfastq_and_count.cwl

Branch/Commit ID: 3a287b7cb6162cdea79865235d224fea45963d87
workflow graph wf_clipseqcore_pe_1barcode.cwl

Workflow for handling reads containing one barcode. Returns the bam file containing read2 only. Notes: runs the following steps: - demultiplex - trimfirst_file2string - trimagain_file2string - b1_trim_and_map - view_r2 - index_r2_bam - make_bigwigs

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

Path: cwl/wf_clipseqcore_pe_1barcode.cwl

Branch/Commit ID: e2a314ff7646c4ea7b90f65caad0452ef6874757