Explore Workflows

The main workflow that: produces two reproducible peaks via IDR given two eCLIP samples (1 input, 1 IP each). runs the 'rescue ratio' statistic runs the 'consistency ratio' statistic

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

Path: cwl/wf_full_IDR_pipeline_1input_scatter.cwl

Branch/Commit ID: master

Workflow to build different indices for different tools from a genome and transcriptome. This workflow expects an (annotated) genome in GBOL ttl format. Steps: - SAPP: rdf2gtf (genome fasta) - SAPP: rdf2fasta (transcripts fasta) - STAR index (Optional for Eukaryotic origin) - bowtie2 index - kallisto index

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

Path: cwl/workflows/workflow_indexbuilder.cwl

Branch/Commit ID: master

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

Path: subworkflows/exomeseq-00-prepare-reference-data.cwl

Branch/Commit ID: gatk4-fixes

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/ProteinsWebTeam/ebi-metagenomics-cwl.git

Path: workflows/16S_taxonomic_analysis.cwl

Branch/Commit ID: ca6ca613

https://github.com/arvados/czi-pangenome-usecase.git

Path: pangenome-generate_spoa.cwl

Branch/Commit ID: main

https://github.com/common-workflow-language/cwl-v1.1.git

Path: tests/basename-fields-test.cwl

Branch/Commit ID: main

https://github.com/EBI-Metagenomics/ebi-metagenomics-cwl.git

Path: tools/SSU-from-tablehits.cwl

Branch/Commit ID: 135976d

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

Path: subworkflows/canine_tucon_module.cwl

Branch/Commit ID: master

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

Path: workflows/subworkflows/manta.cwl

Branch/Commit ID: master