Explore Workflows
View already parsed workflows here or click here to add your own
| Graph | Name | Retrieved From | View |
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phase VCF
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https://github.com/genome/analysis-workflows.git
Path: definitions/subworkflows/phase_vcf.cwl Branch/Commit ID: 9cbf2a483e1b9e4cdb8e2564be27a9e64fc1169e |
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exome alignment and tumor-only variant detection
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https://github.com/genome/analysis-workflows.git
Path: definitions/pipelines/tumor_only_exome.cwl Branch/Commit ID: 2979b565f88ceebca934611adbf3fb8cefd65a19 |
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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. |
https://github.com/datirium/workflows.git
Path: tools/heatmap-prepare.cwl Branch/Commit ID: 2f0db4b3c515f91c5cfda19c78cf90d339390986 |
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Read quality control, trimming and contamination filter.
Workflow for (paired) read quality control, trimming and contamination filtering. Will output a merged set of read pairs, when multiple datasets are used. Steps: - FastQC (read quality control) - fastp (read quality trimming) - bbduk used for rrna filtering - bbmap for contamination filter |
https://git.wageningenur.nl/unlock/cwl.git
Path: cwl/workflows/workflow_quality.cwl Branch/Commit ID: 0dd868de067a386be8ec6b147df007e213c7275a |
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wf-variantcall.cwl
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https://github.com/bcbio/bcbio_validation_workflows.git
Path: wes-agha-test/wes_chr21_test-workflow-arvados/wf-variantcall.cwl Branch/Commit ID: af9a5621efcb44c249697d6df071fe4defe389ac |
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Detect Docm variants
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https://github.com/genome/analysis-workflows.git
Path: definitions/subworkflows/docm_cle.cwl Branch/Commit ID: 061d3a2fbcd8a1c39c0b38c549e528deb24a9d54 |
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mutect parallel workflow
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https://github.com/genome/analysis-workflows.git
Path: definitions/subworkflows/mutect.cwl Branch/Commit ID: 061d3a2fbcd8a1c39c0b38c549e528deb24a9d54 |
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Cellranger Reanalyze
Cellranger Reanalyze ==================== |
https://github.com/datirium/workflows.git
Path: workflows/cellranger-reanalyze.cwl Branch/Commit ID: 9e3c3e65c19873cd1ed3cf7cc3b94ebc75ae0cc5 |
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pindel parallel workflow
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https://github.com/genome/analysis-workflows.git
Path: definitions/subworkflows/pindel.cwl Branch/Commit ID: 061d3a2fbcd8a1c39c0b38c549e528deb24a9d54 |
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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.cwl Branch/Commit ID: 061d3a2fbcd8a1c39c0b38c549e528deb24a9d54 |
