Explore Workflows
View already parsed workflows here or click here to add your own
| Graph | Name | Retrieved From | View |
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Decompress
Decompress mate pair fastq files |
https://github.com/MG-RAST/amplicon.git
Path: CWL/Workflows/decompress_mate_pair.workflow.cwl Branch/Commit ID: master |
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Apply filters to VCF file
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https://github.com/tmooney/cancer-genomics-workflow.git
Path: definitions/subworkflows/filter_vcf_mouse.cwl Branch/Commit ID: downsample_and_recall |
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sequence (bam or fastqs) to trimmed fastqs and HISAT alignments
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https://github.com/apaul7/cancer-genomics-workflow.git
Path: definitions/subworkflows/sequence_to_trimmed_fastq_and_hisat_alignments.cwl Branch/Commit ID: low-vaf |
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running cellranger mkfastq and count
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https://github.com/tmooney/cancer-genomics-workflow.git
Path: definitions/subworkflows/cellranger_mkfastq_and_count.cwl Branch/Commit ID: downsample_and_recall |
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Exome QC workflow
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https://github.com/genome/analysis-workflows.git
Path: definitions/subworkflows/qc_exome.cwl Branch/Commit ID: 9ad798f18104eb4a9c6c118f42691b9f5d9efd19 |
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EMG pipeline v3.0 (paired end version)
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https://github.com/EBI-Metagenomics/ebi-metagenomics-cwl.git
Path: workflows/emg-pipeline-v3-paired.cwl Branch/Commit ID: 5833078 |
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chksum_seqval_wf_paired_fq.cwl
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https://github.com/cancerit/workflow-seq-import.git
Path: cwls/chksum_seqval_wf_paired_fq.cwl Branch/Commit ID: 0.3.2 |
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Quality assessment, amplicon classification
Workflow for quality assessment of paired reads and classification using NGTax 2.0. In addition files are exported to their respective subfolders for easier data management in a later stage. Steps: - FastQC (read quality control) - NGTax 2.0 - Export module |
https://git.wur.nl/unlock/cwl.git
Path: cwl/workflows/workflow_ngtax.cwl Branch/Commit ID: master |
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cnv_codex
CNV CODEX calling |
https://gitlab.bsc.es/lrodrig1/structuralvariants_poc.git
Path: structuralvariants/cwl/subworkflows/cnv_codex.cwl Branch/Commit ID: 1.0.5 |
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hello_world_checker.cwl
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https://github.com/dockstore/hello_world.git
Path: hello_world_checker.cwl Branch/Commit ID: 1.03 |
