Explore Workflows
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step2: trimming fastq files (single-end)
multiple fastq files trimming process using fastp version 0.23.4 and scatter feature requirement |
Path: workflow/01_trimming_fastq_subworkflow_se.cwl Branch/Commit ID: main |
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image_workflow.cwl
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Path: utils/IM/LINC/lincSun/workflow/image_workflow.cwl Branch/Commit ID: master |
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qc-assembled.workflow.cwl
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Path: CWL/Workflows/qc-assembled.workflow.cwl Branch/Commit ID: master |
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Per-region pindel
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Path: definitions/subworkflows/pindel_cat.cwl Branch/Commit ID: downsample_and_recall |
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Apply filters to VCF file
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Path: definitions/subworkflows/filter_vcf_mouse.cwl Branch/Commit ID: downsample_and_recall |
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Exome QC workflow
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Path: definitions/subworkflows/qc_exome_no_verify_bam.cwl Branch/Commit ID: low-vaf |
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check_bams_wf.cwl
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Path: workflow/checker-workflows/check_bams_wf.cwl Branch/Commit ID: master |
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Identify somatic SVs
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Path: subworkflows/sv_merge_and_filter.cwl Branch/Commit ID: master |
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cram-get-fasta.cwl
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Path: cwl/workflows/cram-get-fasta.cwl Branch/Commit ID: master |
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heatmap-prepare.cwl
Workflow runs homer-make-tag-directory.cwl tool using scatter for the following inputs - bam_file - fragment_size - total_reads `dotproduct` is used as a `scatterMethod`, so one element will be taken from each array to construct each job: 1) bam_file[0] fragment_size[0] total_reads[0] 2) bam_file[1] fragment_size[1] total_reads[1] ... N) bam_file[N] fragment_size[N] total_reads[N] `bam_file`, `fragment_size` and `total_reads` arrays should have the identical order. |
Path: tools/heatmap-prepare.cwl Branch/Commit ID: license_test |
