Explore Workflows

RNA-seq 02 trimming - reads: PE

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

Path: v1.0/RNA-seq_pipeline/02-trim-pe.cwl

Branch/Commit ID: 4636f2c1a8bcfceeb4b3596ee29e9c06311ed4a1

https://github.com/nci-gdc/gdc-dnaseq-cwl.git

Path: workflows/bamfastq_align/extract_amplicon_kit.cwl

Branch/Commit ID: f34d3963b33e0a379338cb3cb75b0016f012bf2c

https://github.com/common-workflow-language/cwltool.git

Path: tests/wf/1st-workflow.cwl

Branch/Commit ID: 2cec4eebeb3461844b9102b89551b8765c7be348

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

Path: definitions/subworkflows/bgzip_and_index.cwl

Branch/Commit ID: 06d2440d115b446c299b4ce96e8812d2f8df86ec

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

Path: task_types/tt_blastn_wnode.cwl

Branch/Commit ID: dcbbce152fbff2637f102471fb80318244492853

ChIP-seq 03 mapping - reads: PE

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

Path: v1.0/ChIP-seq_pipeline/03-map-pe.cwl

Branch/Commit ID: 4636f2c1a8bcfceeb4b3596ee29e9c06311ed4a1

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

Path: definitions/subworkflows/varscan.cwl

Branch/Commit ID: bed420556091b7b8b45cf20a95e5947e1de9a416

This workflow normalizes clip aligned reads against a size-matched input sample. Then, an entropy score is calculated for each peak found.

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

Path: cwl/wf_input_norm_and_entropy.cwl

Branch/Commit ID: 55f4f4f9c10a09ce03c5c531dd176e6080118977

ChIP-seq - Quantification - samples: treatment and control

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

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

Branch/Commit ID: 8aabde14169421a7115c5cd48c4740b3a7bd818f

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

Path: definitions/subworkflows/cellranger_mkfastq_and_count.cwl

Branch/Commit ID: 04d21c33a5f2950e86db285fa0a32a6659198d8a