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Nextflow wrapper for kvarq process.

Pre-requisites

  • Nextflow
  • Docker

NOTE If you plan to setup a basic server, then you can refer minimal-nextflow-setup

Usage

nextflow run https://github.com/nextflow-hub/kvarq

Options

  • trimmed and untrimmed input files

By default the pipeline assumes the files to follow the untrimmed *.fastq.gz format. For trimmed files i.e. *.p.fastq.gz pattern simply add the trimmed option.

nextflow run https://github.com/nextflow-hub/kvarq --trimmed
  • resultsDir

By default, it stores the result files locally into results directory.

Contribution

Contribution, in all forms, is most welcome!