Explore Workflows
View already parsed workflows here or click here to add your own
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taxcheck.cwl
Perform taxonomic identification tasks on an input genome |
https://github.com/ncbi/pgap.git
Path: taxcheck.cwl Branch/Commit ID: af78bfbc7625a817a2875e87c8ee267cf46b8c57 |
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Tumor-Only Detect Variants workflow
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https://github.com/genome/analysis-workflows.git
Path: definitions/pipelines/tumor_only_detect_variants.cwl Branch/Commit ID: 0805e8e0d358136468e0a9f49e06005e41965adc |
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Motif Finding with HOMER with target and background regions from peaks
Motif Finding with HOMER with target and background regions from peaks --------------------------------------------------- HOMER contains a novel motif discovery algorithm that was designed for regulatory element analysis in genomics applications (DNA only, no protein). It is a differential motif discovery algorithm, which means that it takes two sets of sequences and tries to identify the regulatory elements that are specifically enriched in on set relative to the other. It uses ZOOPS scoring (zero or one occurrence per sequence) coupled with the hypergeometric enrichment calculations (or binomial) to determine motif enrichment. HOMER also tries its best to account for sequenced bias in the dataset. It was designed with ChIP-Seq and promoter analysis in mind, but can be applied to pretty much any nucleic acids motif finding problem. For more information please refer to: ------------------------------------- [Official documentation](http://homer.ucsd.edu/homer/motif/) |
https://github.com/datirium/workflows.git
Path: workflows/homer-motif-analysis-peak.cwl Branch/Commit ID: e99e80a2c19682d59947bde04a892d7b6d90091c |
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taxonomy_check_16S
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https://github.com/ncbi/pgap.git
Path: task_types/tt_taxonomy_check_16S.cwl Branch/Commit ID: 2c7879b47890b9300ab9b5ebd35e17372e077757 |
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ChIP-exo peak caller workflow for single-end samples with no P-Value inflection
This workflow execute peak caller and QC from ChIP-exo for single-end samples with no P-Value inflection |
https://gitlab.com/r78v10a07/cwl-workflow.git
Path: workflows/ChIP-exo/peak_caller-SE-no_inflection.cwl Branch/Commit ID: 5964544849c8def80fb47813e34ce185205fda94 |
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group-isoforms-batch.cwl
Workflow runs group-isoforms.cwl tool using scatter for isoforms_file input. genes_filename and common_tss_filename inputs are ignored. |
https://github.com/datirium/workflows.git
Path: subworkflows/group-isoforms-batch.cwl Branch/Commit ID: 7290eb220c90a087dffde04efae3678286aa92d0 |
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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/Barski-lab/workflows.git
Path: tools/heatmap-prepare.cwl Branch/Commit ID: ea2a2ab57710fcf067f67305f3dd6ad29094da1a |
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allele-process-strain.cwl
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https://github.com/datirium/workflows.git
Path: subworkflows/allele-process-strain.cwl Branch/Commit ID: a7b031090f49ab52195a561c162b326998028a35 |
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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/exome.cwl Branch/Commit ID: ec5355f335852e51c6938809c16ea1d230a3f983 |
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bgzip and index VCF
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https://github.com/genome/analysis-workflows.git
Path: definitions/subworkflows/bgzip_and_index.cwl Branch/Commit ID: 641bdeffd942f5121e19626a094c8633386ad546 |
