Explore Workflows
View already parsed workflows here or click here to add your own
| Graph | Name | Retrieved From | View |
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genome-kallisto-index.cwl
Generates a FASTA file with the DNA sequences for all transcripts in a GFF file and builds kallisto index |
https://github.com/Barski-lab/workflows.git
Path: tools/genome-kallisto-index.cwl Branch/Commit ID: master |
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ATACseq.cwl
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https://github.com/CompEpigen/ATACseq_workflows.git
Path: CWL/workflows/ATACseq.cwl Branch/Commit ID: master |
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scRNA-seq pipeline using Salmon and Alevin
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https://github.com/hubmapconsortium/salmon-rnaseq.git
Path: pipeline.cwl Branch/Commit ID: release |
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oxog_sub_wf.cwl
This is a subworkflow of the main oxog_varbam_annotat_wf workflow - this is not meant to be run as a stand-alone workflow! |
https://github.com/icgc-tcga-pancancer/oxog-dockstore-tools.git
Path: oxog_sub_wf.cwl Branch/Commit ID: 1.0.0 |
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runAll.cwl
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https://github.com/nlesc-sherlock/corporadb.git
Path: cwl/runAll.cwl Branch/Commit ID: master |
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04-quantification-pe-stranded.cwl
RNA-seq 04 quantification |
https://github.com/Duke-GCB/GGR-cwl.git
Path: v1.0/RNA-seq_pipeline/04-quantification-pe-stranded.cwl Branch/Commit ID: master |
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Metagenomics workflow
Workflow for Metagenomics from raw reads to annotated bins. Steps: - workflow_illumina_quality.cwl: - FastQC (control) - fastp (quality trimming) - kraken2 (taxonomy) - bbmap contamination filter - SPAdes (Assembly) - QUAST (Assembly quality report) - BBmap (Read mapping to assembly) - Contig binning (OPTIONAL) |
https://git.wur.nl/unlock/cwl.git
Path: cwl/workflows/workflow_metagenomics_assembly.cwl Branch/Commit ID: master |
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Replace legacy AML Trio Assay
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https://github.com/genome/analysis-workflows.git
Path: definitions/pipelines/aml_trio_cle.cwl Branch/Commit ID: master |
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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: 1.0.5 |
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module-2
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https://github.com/mskcc/roslin-variant.git
Path: setup/cwl/module-2.cwl Branch/Commit ID: dev |
