Explore Workflows

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

Graph Name Retrieved From View
workflow graph hisat2-cufflinks_wf_pe.cwl

https://github.com/pitagora-network/pitagora-cwl.git

Path: workflows/hisat2-cufflinks/paired_end/hisat2-cufflinks_wf_pe.cwl

Branch/Commit ID: f85f2cd5d888ed947f47a391eb32dcb53265f9b3
workflow graph 04-quantification-se-revstranded.cwl

RNA-seq 04 quantification

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

Path: v1.0/RNA-seq_pipeline/04-quantification-se-revstranded.cwl

Branch/Commit ID: 487af88ef0b971f76ecd1a215639bb47e3ee94e1
workflow graph tt_univec_wnode.cwl

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

Path: task_types/tt_univec_wnode.cwl

Branch/Commit ID: 4e2a295bb6c8b4982402ee80538a0cdb8ee6b6dd
workflow graph super-enhancer.cwl

Both `islands_file` and `islands_control_file` should be produced by the same cwl tool (iaintersect.cwl or macs2-callpeak-biowardrobe-only.cwl)

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

Path: workflows/super-enhancer.cwl

Branch/Commit ID: c87f2e20d22fdfa1f65b85e9b4a8585b681d88ef
workflow graph 04-quantification-se-stranded.cwl

RNA-seq 04 quantification

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

Path: v1.0/RNA-seq_pipeline/04-quantification-se-stranded.cwl

Branch/Commit ID: 487af88ef0b971f76ecd1a215639bb47e3ee94e1
workflow graph tophat2-cufflinks_wf_se.cwl

https://github.com/pitagora-network/pitagora-cwl.git

Path: workflows/tophat2-cufflinks/single_end/tophat2-cufflinks_wf_se.cwl

Branch/Commit ID: f85f2cd5d888ed947f47a391eb32dcb53265f9b3
workflow graph 04-quantification-se-unstranded.cwl

RNA-seq 04 quantification

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

Path: v1.0/RNA-seq_pipeline/04-quantification-se-unstranded.cwl

Branch/Commit ID: 1a0dd34d59ec983d1f7ad77bff35da2f016e3134
workflow graph 03-map-se-blacklist-removal.cwl

ATAC-seq 03 mapping - reads: SE - blacklist removal

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

Path: v1.0/ATAC-seq_pipeline/03-map-se-blacklist-removal.cwl

Branch/Commit ID: 487af88ef0b971f76ecd1a215639bb47e3ee94e1
workflow graph chipseq-header.cwl

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

Path: metadata/chipseq-header.cwl

Branch/Commit ID: c9e7f3de7f6ba38ee663bd3f9649e8d7dbac0c86
workflow graph Read quality control, trimming and contamination filter.

Workflow for (paired) read quality control, trimming and contamination filtering. Will output a merged set of read pairs, when multiple datasets are used. Steps: - FastQC (read quality control) - fastp (read quality trimming) - bbduk used for rrna filtering - bbmap for contamination filter

https://git.wageningenur.nl/unlock/cwl.git

Path: cwl/workflows/workflow_quality.cwl

Branch/Commit ID: d6893a25b58b9b25fb76c5e060974b54d9eabc41