Explore Workflows
View already parsed workflows here or click here to add your own
Graph | Name | Retrieved From | View |
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metabarcode (gene amplicon) analysis for fastq files
protein - qc, preprocess, annotation, index, abundance |
![]() Path: CWL/Workflows/metabarcode-fastq.workflow.cwl Branch/Commit ID: 9aba38fd1569287b7256ace7163ac84320909f8a |
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genomics-workspace-cds.cwl
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![]() Path: flow_genomicsWorkspace/genomics-workspace-cds.cwl Branch/Commit ID: 45bb8fc5cc5e5fee3f29099469621a53d084757d |
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sec-wf-out.cwl
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![]() Path: tests/wf/sec-wf-out.cwl Branch/Commit ID: d7cd45f7072960d264962ecc5a04d7c219f65c06 |
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tt_hmmsearch_wnode.cwl
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![]() Path: task_types/tt_hmmsearch_wnode.cwl Branch/Commit ID: 7c8eb4d23c3c9859f57421643710c0b6d57b606c |
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EMG QC workflow, (paired end version). Benchmarking with MG-RAST expt.
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![]() Path: workflows/emg-qc-single.cwl Branch/Commit ID: 6430df56f7345f837d3f9c3f7fb5af5aa9dadc90 |
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01-qc-se.cwl
ChIP-seq 01 QC - reads: SE |
![]() Path: v1.0/ChIP-seq_pipeline/01-qc-se.cwl Branch/Commit ID: 8d02684ae0ff27e641f3704686e3bc8b1979b854 |
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Tumor-Only Detect Variants workflow
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![]() Path: definitions/pipelines/tumor_only_detect_variants.cwl Branch/Commit ID: 3bb0693076adc1543079a6b136c74906ad546ac6 |
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UW GAC (GENESIS) VCF to GDS
**VCF to GDS** workflow converts VCF or BCF files into Genomic Data Structure (GDS) format. GDS files are required by all workflows utilizing the GENESIS or SNPRelate R packages. _Filename requirements_: The input file names should follow the pattern <A>chr<X>.<y> For example: 1KG_phase3_subset_chr1.vcf.gz Some of the tools inside the workflow infer the chromosome number from the file by expecting this pattern of file name. |
![]() Path: vcftogds/vcf-to-gds-wf.cwl Branch/Commit ID: 5f17ca875ec5b0e324fa899ed0e3175ef9ddf9d0 |
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rnaseq-alignment-quantification
This workflow retrieve SRA fastqc data and execute QC, alignment and quantification from TPMCalculator |
![]() Path: workflows/RNA-Seq/rnaseq-alignment-quantification.cwl Branch/Commit ID: f37e1346f1d48fe9f2b9282e37997a2e3ffed7e2 |
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snaptools_create_snap_file.cwl
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![]() Path: steps/snaptools_create_snap_file.cwl Branch/Commit ID: 53415520f94ac0d9a1fae89af0f6e8250240723a |