Explore Workflows
View already parsed workflows here or click here to add your own
| Graph | Name | Retrieved From | View |
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kmer_seq_entry_extract_wnode
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https://github.com/ncbi/pgap.git
Path: task_types/tt_kmer_seq_entry_extract_wnode.cwl Branch/Commit ID: b4a6e46405c08e0b14ad92f0ab38bcc4a69caa5c |
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consensus_maf.cwl
Workflow to merge a large number of maf files into a single consensus maf file for use with GetBaseCountsMultiSample |
https://github.com/mskcc/pluto-cwl.git
Path: cwl/consensus_maf.cwl Branch/Commit ID: 342e6f1f4f7a3839e579fbe96ccc8d6f7a61ac77 |
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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: 0debfe681fc16cfee943d799dcebc7fe4bb82495 |
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Build Bowtie indices
Workflow runs [Bowtie](http://bowtie-bio.sourceforge.net/tutorial.shtml) v1.2.0 (12/30/2016) to build indices for reference genome provided in a single FASTA file as fasta_file input. Generated indices are saved in a folder with the name that corresponds to the input genome |
https://github.com/datirium/workflows.git
Path: workflows/bowtie-index.cwl Branch/Commit ID: 64f7fe4438898218fd83133efa25251078f5b27e |
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THOR - differential peak calling of ChIP-seq signals with replicates
What is THOR? -------------- THOR is an HMM-based approach to detect and analyze differential peaks in two sets of ChIP-seq data from distinct biological conditions with replicates. THOR performs genomic signal processing, peak calling and p-value calculation in an integrated framework. For more information please refer to: ------------------------------------- Allhoff, M., Sere K., Freitas, J., Zenke, M., Costa, I.G. (2016), Differential Peak Calling of ChIP-seq Signals with Replicates with THOR, Nucleic Acids Research, epub gkw680. |
https://github.com/datirium/workflows.git
Path: workflows/rgt-thor.cwl Branch/Commit ID: f3e44d3b0f198cf5245c49011124dc3b6c2b06fd |
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scatter-valuefrom-wf2.cwl
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https://github.com/common-workflow-language/cwltool.git
Path: cwltool/schemas/v1.0/v1.0/scatter-valuefrom-wf2.cwl Branch/Commit ID: 75271e2a0887d47cca4077b60dd51ac763c09b63 |
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xenbase-fastq-bowtie-bigwig-se-pe.cwl
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https://github.com/datirium/workflows.git
Path: subworkflows/xenbase-fastq-bowtie-bigwig-se-pe.cwl Branch/Commit ID: 69623308d3b5577a4672b1d5aaf104ad1a259b20 |
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Subworkflow to allow calling cnvkit with cram instead of bam files
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https://github.com/genome/analysis-workflows.git
Path: definitions/subworkflows/cram_to_cnvkit.cwl Branch/Commit ID: e649fcb1092905c539be026a3f23c82d5b0871d2 |
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bam to trimmed fastqs and HISAT alignments
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https://github.com/genome/analysis-workflows.git
Path: definitions/subworkflows/bam_to_trimmed_fastq_and_hisat_alignments.cwl Branch/Commit ID: 31602b94b34ff55876147c7299e1bec47e8d1a31 |
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tt_univec_wnode.cwl
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https://github.com/ncbi/pgap.git
Path: task_types/tt_univec_wnode.cwl Branch/Commit ID: 29deae89a9898bb4dcfc27b7391b7d5067e65068 |
