Explore Workflows
View already parsed workflows here or click here to add your own
| Graph | Name | Retrieved From | View |
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Unaligned bam to sorted, markduped bam
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https://github.com/genome/analysis-workflows.git
Path: definitions/subworkflows/align_sort_markdup.cwl Branch/Commit ID: 35e6b3ef71b4a2a9caba1dbd5dc424a8809bcc0a |
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screen out taxa
Remove sequences which align against a reference set using bowtie2. The references are preformatted (index files) |
https://github.com/MG-RAST/pipeline.git
Path: CWL/Workflows/organism-screening.workflow.cwl Branch/Commit ID: 9909eaf02b93bf3c5b20d9dd18a3ec076bc7a934 |
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FASTQ to BQSR
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https://github.com/genome/analysis-workflows.git
Path: definitions/subworkflows/fastq_to_bqsr.cwl Branch/Commit ID: 2decd55996b912feb48be5db1b052aa3274ee405 |
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Unaligned bam to sorted, markduped bam
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https://github.com/genome/analysis-workflows.git
Path: definitions/subworkflows/align_sort_markdup.cwl Branch/Commit ID: 10870aefd20469e728969269ff3c54b3b8339a18 |
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bam to trimmed fastqs and HISAT alignments
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https://github.com/tmooney/cancer-genomics-workflow.git
Path: definitions/subworkflows/bam_to_trimmed_fastq_and_hisat_alignments.cwl Branch/Commit ID: 233f026ffce240071edda526391be0c03186fce8 |
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bam to trimmed fastqs
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https://github.com/genome/analysis-workflows.git
Path: definitions/subworkflows/bam_to_trimmed_fastq.cwl Branch/Commit ID: 480c438a6a7e78c624712aec01bc4214d2bc179c |
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WGS QC workflow
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https://github.com/genome/analysis-workflows.git
Path: definitions/subworkflows/qc_wgs.cwl Branch/Commit ID: 480c438a6a7e78c624712aec01bc4214d2bc179c |
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Run pindel on provided region
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https://github.com/genome/analysis-workflows.git
Path: definitions/subworkflows/pindel_region.cwl Branch/Commit ID: 3a822294da63b4e19446a285e2fef075e23cf3d0 |
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Run pindel on provided region
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https://github.com/genome/analysis-workflows.git
Path: definitions/subworkflows/pindel_region.cwl Branch/Commit ID: 10870aefd20469e728969269ff3c54b3b8339a18 |
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Apply filters to VCF file
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https://github.com/genome/analysis-workflows.git
Path: definitions/subworkflows/filter_vcf_mouse.cwl Branch/Commit ID: 844c10a4466ab39c02e5bfa7a210c195b8efa77a |
