Explore Workflows
View already parsed workflows here or click here to add your own
Graph | Name | Retrieved From | View |
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wf_get_peaks_scatter_se_nostats.cwl
The \"main\" workflow. Takes fastq files generated using the seCLIP protocol (https://www.ncbi.nlm.nih.gov/pmc/articles/PMC5991800/) and outputs candidate RBP binding regions (peaks). runs: wf_get_peaks_se.cwl through scatter across multiple samples. |
https://github.com/YeoLab/eclip.git
Path: cwl/wf_get_peaks_scatter_se_nostats.cwl Branch/Commit ID: master |
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workflow_same_level_v2.cwl#main_pipeline
Simulation steps pipeline |
https://github.com/ILIAD-ocean-twin/application_package.git
Path: workflow_in_workflow/workflow_same_level_v2.cwl Branch/Commit ID: main Packed ID: main_pipeline |
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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 |
https://github.com/genome/analysis-workflows.git
Path: definitions/pipelines/somatic_exome.cwl Branch/Commit ID: master |
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biowardrobe_chipseq_se.cwl
The workflow is used to run CHIP-Seq basic analysis with single-end input FASTQ file. In outputs it returns coordinate sorted BAM file alongside with index BAI file, quality statistics of the input FASTQ file, reads coverage in a form of bigWig file, peaks calling data in a form of narrowPeak or broadPeak files. |
https://github.com/Barski-lab/ga4gh_challenge.git
Path: biowardrobe_chipseq_se.cwl Branch/Commit ID: v0.0.5 |
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dynresreq-workflow-inputdefault.cwl
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https://github.com/common-workflow-language/cwl-v1.1.git
Path: tests/dynresreq-workflow-inputdefault.cwl Branch/Commit ID: main |
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bams2cram.cwl
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https://github.com/biosciencedbc/jga-analysis.git
Path: per-sample/Workflows/bams2cram.cwl Branch/Commit ID: main |
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exome alignment and tumor-only variant detection
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https://github.com/litd/analysis-workflows.git
Path: definitions/pipelines/tumor_only_exome.cwl Branch/Commit ID: master |
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list ZIP content by URL
curl will download a HTTP/HTTPS resource or file from a given URL, following any redirections. |
https://github.com/stain/ro-index-paper.git
Path: code/data-gathering/workflows/zip-content-by-url.cwl Branch/Commit ID: master |
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EMG pipeline v3.0 (paired end version)
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https://github.com/ProteinsWebTeam/ebi-metagenomics-cwl.git
Path: workflows/emg-pipeline-v3-paired.cwl Branch/Commit ID: master |
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giab_haplotypecaller.cwl
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https://github.com/uc-cdis/genomel_pipelines.git
Path: genomel/cwl/workflows/variant_calling/giab_haplotypecaller.cwl Branch/Commit ID: master |