Explore Workflows

Generates ATDP heatmap centered on TSS from an array of input BAM files and genelist TSV file. Returns array of heatmap JSON files with the names that have the same basenames as input BAM files, but with .json extension

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

Path: workflows/heatmap.cwl

Branch/Commit ID: b25b17651171f32005e9d879a9a049382f044baf

STARR-seq 02 trimming - reads: PE

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

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

Branch/Commit ID: master

ATAC-seq pipeline - reads: PE - with blacklist removal

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

Path: v1.0/ATAC-seq_pipeline/pipeline-pe-blacklist-removal.cwl

Branch/Commit ID: master

creates genome coverage bigWig file from .bam file

https://github.com/Barski-lab/ga4gh_challenge.git

Path: workflows/bam-genomecov-bigwig.cwl

Branch/Commit ID: v0.0.2

https://github.com/hmenager/workflow-is-cwl.git

Path: workflows/cmsearch-multimodel-wf.cwl

Branch/Commit ID: master

https://github.com/d3b-center/canine-dev.git

Path: subworkflows/canine_sigprofiler_module.cwl

Branch/Commit ID: master

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

Path: definitions/subworkflows/strelka_and_post_processing.cwl

Branch/Commit ID: master

https://github.com/andurill/ACCESS-Pipeline.git

Path: workflows/marianas/collapsed_fastq_to_bam.cwl

Branch/Commit ID: 0.0.33_dmp

This workflow will perform preprocessing steps on VCFs for the OxoG/Variantbam/Annotation workflow.

https://github.com/ICGC-TCGA-PanCancer/pcawg-oxog-filter.git

Path: preprocessor_for_oxog.cwl

Branch/Commit ID: develop

https://github.com/fjrmoreews/cwl-workflow-SARS-CoV-2.git

Path: PreProcessing/preprocess-ont.cwl

Branch/Commit ID: preprocessing