Explore Workflows

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

Graph Name Retrieved From View
workflow graph 01-qc-pe.cwl

STARR-seq 01 QC - reads: PE

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

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

Branch/Commit ID: 4e568335133405d28f4b73ae11e7f51f2900dfa3
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: fa0bf2a51b72cd0869253943b67aa8e271633945
workflow graph cluster_blastp_wnode and gpx_qdump combined

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

Path: task_types/tt_cluster_and_qdump.cwl

Branch/Commit ID: 9ff3e17888a15f4691ba82380472317214e20a1c
workflow graph MoveData-workflow.cwl

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

Path: MoveData-workflow.cwl

Branch/Commit ID: 3aabbb0f6635bb9354ad52f616ab7cfc61848eb6
workflow graph Unaligned to aligned BAM

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

Path: definitions/subworkflows/align.cwl

Branch/Commit ID: 509938802c5e42bb8084c6a5a26ab6425c60e69a
workflow graph wf_fastqc.cwl

This workflow takes in single-end reads, and performs the following steps in order: demux_se.cwl (does not actually demux for single end, but mirrors the paired-end processing protocol)

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

Path: cwl/wf_fastqc.cwl

Branch/Commit ID: e2a314ff7646c4ea7b90f65caad0452ef6874757
workflow graph wf_trim_and_map_se.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.cwl

Branch/Commit ID: e2a314ff7646c4ea7b90f65caad0452ef6874757
workflow graph wf_get_peaks_se.cwl

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

Path: cwl/wf_get_peaks_se.cwl

Branch/Commit ID: e2a314ff7646c4ea7b90f65caad0452ef6874757
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: c5948732a4196fcbc95633be3829c6de8809570e
workflow graph Per-region pindel

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

Path: definitions/subworkflows/pindel_cat.cwl

Branch/Commit ID: 04d21c33a5f2950e86db285fa0a32a6659198d8a