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!