Explore Workflows
View already parsed workflows here or click here to add your own
| Graph | Name | Retrieved From | View |
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sequence (bam or fastqs) to trimmed fastqs and HISAT alignments
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https://github.com/genome/analysis-workflows.git
Path: definitions/subworkflows/sequence_to_trimmed_fastq_and_hisat_alignments.cwl Branch/Commit ID: master |
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Trim and reformat reads (single and paired end version)
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https://github.com/farahzkhan/ebi-metagenomics-cwl.git
Path: workflows/trim_and_reformat_reads.cwl Branch/Commit ID: master |
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rRNA_selection.cwl
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https://github.com/ProteinsWebTeam/ebi-metagenomics-cwl.git
Path: tools/rRNA_selection.cwl Branch/Commit ID: 3b602cb |
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minibam_sub_wf.cwl
This is a subworkflow of the main oxog_varbam_annotat_wf workflow - this is not meant to be run as a stand-alone workflow! |
https://github.com/ICGC-TCGA-PanCancer/pcawg-minibam.git
Path: minibam_sub_wf.cwl Branch/Commit ID: 1.0.0 |
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find_hotspots_in_normals.cwl
Workflow to find hotspot VAFs from duplex (for Tumor sample) and unfiltered (for Normal sample) pileups. These inputs are all required to be sorted in the same order: sample_ids patient_ids sample_classes unfiltered_pileups duplex_pileups |
https://github.com/mskcc/ACCESS-Pipeline.git
Path: workflows/subworkflows/find_hotspots_in_normals.cwl Branch/Commit ID: master |
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calculate_contamination_workflow.cwl
GATK4.1.2 Calculate tumor-normal contamination workflow |
https://github.com/nci-gdc/gatk4_mutect2_cwl.git
Path: subworkflows/calculate_contamination_workflow.cwl Branch/Commit ID: master |
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SSU-from-tablehits.cwl
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https://github.com/ProteinsWebTeam/ebi-metagenomics-cwl.git
Path: tools/SSU-from-tablehits.cwl Branch/Commit ID: 0fed1c9 |
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SPRM pipeline
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https://github.com/hubmapconsortium/sprm.git
Path: pipeline.cwl Branch/Commit ID: d2d5127 |
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wf_get_peaks_nostats_se.cwl
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https://github.com/YeoLab/eclip.git
Path: cwl/wf_get_peaks_nostats_se.cwl Branch/Commit ID: master |
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03-map-se.cwl
ATAC-seq 03 mapping - reads: SE |
https://github.com/Duke-GCB/GGR-cwl.git
Path: v1.0/ATAC-seq_pipeline/03-map-se.cwl Branch/Commit ID: master |
