Explore Workflows
View already parsed workflows here or click here to add your own
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scatter GATK HaplotypeCaller over intervals
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Path: definitions/subworkflows/gatk_haplotypecaller_iterator.cwl Branch/Commit ID: downsample_and_recall |
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fastqSE2bam.cwl
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Path: Workflows/fastqSE2bam.cwl Branch/Commit ID: master |
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bams2gvcf.woBQSR_male.cwl
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Path: Workflows/bams2gvcf.woBQSR_male.cwl Branch/Commit ID: master |
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somatic_exome: exome alignment and somatic variant detection
somatic_exome is designed to perform processing of mutant/wildtype H.sapiens exome sequencing data. It features BQSR corrected alignments, 4 caller variant detection, and vep style annotations. Structural variants are detected via manta and cnvkit. In addition QC metrics are run, including somalier concordance metrics. example input file = analysis_workflows/example_data/somatic_exome.yaml |
Path: definitions/pipelines/somatic_exome.cwl Branch/Commit ID: master |
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presto.cwl
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Path: presto.cwl Branch/Commit ID: visualise |
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EMG QC workflow, (paired end version). Benchmarking with MG-RAST expt.
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Path: workflows/emg-qc-paired.cwl Branch/Commit ID: 3f85843 |
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cmsearch-multimodel.cwl
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Path: workflows/cmsearch-multimodel.cwl Branch/Commit ID: c1f8b22 |
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sc_atac_seq_process_and_analyze.cwl
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Path: steps/sc_atac_seq_process_and_analyze.cwl Branch/Commit ID: d0e845d |
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pipeline-se-blacklist-removal.cwl
ATAC-seq pipeline - reads: SE - with blacklist removal |
Path: v1.0/ATAC-seq_pipeline/pipeline-se-blacklist-removal.cwl Branch/Commit ID: master |
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repliseq-parta.cwl
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Path: cwl_awsem_v1/repliseq/repliseq-parta.cwl Branch/Commit ID: dev2 |
