Explore Workflows
View already parsed workflows here or click here to add your own
| Graph | Name | Retrieved From | View |
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preprocess_vcf.cwl
This workflow will perform preprocessing steps on VCFs for the OxoG/Variantbam/Annotation workflow. |
https://github.com/ICGC-TCGA-PanCancer/pcawg-minibam.git
Path: preprocess_vcf.cwl Branch/Commit ID: 1.0.0 |
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protein_evidence_mapping.cwl
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https://github.com/pvanheus/lukasa.git
Path: protein_evidence_mapping.cwl Branch/Commit ID: master |
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umccrise-pipeline__2.3.0--0.cwl
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https://github.com/umccr/cwl-ica.git
Path: workflows/umccrise-pipeline/2.3.0--0/umccrise-pipeline__2.3.0--0.cwl Branch/Commit ID: main |
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bam_filtering
BAM filtering |
https://gitlab.bsc.es/lrodrig1/structuralvariants_poc.git
Path: structuralvariants/cwl/subworkflows/bam_filtering.cwl Branch/Commit ID: master |
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02-trim-pe.cwl
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: master |
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env-wf2.cwl
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https://github.com/common-workflow-language/cwl-v1.2.git
Path: tests/env-wf2.cwl Branch/Commit ID: main |
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rRNA_selection.cwl
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https://github.com/ProteinsWebTeam/ebi-metagenomics-cwl.git
Path: tools/rRNA_selection.cwl Branch/Commit ID: 5833078 |
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scatter-wf2_v1_1.cwl
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https://github.com/common-workflow-language/cwl-utils.git
Path: testdata/scatter-wf2_v1_1.cwl Branch/Commit ID: 68843d2d829a337c7bb7dc51473f1ff68d6d59ca |
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metaphlan_wfl_cgc.cwl
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https://github.com/stevetsa/Metaphlan-SBCGC.git
Path: metaphlan_wfl_cgc.cwl Branch/Commit ID: master |
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Metagenomic Binning from Assembly
Workflow for Metagenomics from raw reads to annotated bins.<br> Summary - MetaBAT2 (binning) - CheckM (bin completeness and contamination) - GTDB-Tk (bin taxonomic classification) - BUSCO (bin completeness) **All tool CWL files and other workflows can be found here:**<br> Tools: https://git.wur.nl/unlock/cwl/-/tree/master/cwl<br> Workflows: https://git.wur.nl/unlock/cwl/-/tree/master/cwl/workflows<br> The dependencies are either accessible from https://unlock-icat.irods.surfsara.nl (anonymous,anonymous)<br> and/or<br> By using the conda / pip environments as shown in https://git.wur.nl/unlock/docker/-/blob/master/kubernetes/scripts/setup.sh<br> |
https://git.wur.nl/unlock/cwl.git
Path: cwl/workflows/workflow_metagenomics_binning.cwl Branch/Commit ID: master |
