fieldbioinformatics artic guppyplexARTIC Guppyplex combines one or more Oxford Nanopore FASTQ datasets into a single FASTQ file while optionally filtering reads by length and mean quality. It is intended for aggregating basecalled or demultiplexed Nanopore read sets before downstream analysis.Versions

v1.10.3 (default)

Tags: Oxford Nanopore, FASTQ, read aggregation, read filtering, ARTIC, guppyplexParameters

reads (file, multiple) required: One or more Oxford Nanopore FASTQ files to combine and filter.

output_name (str) required: Base name for the combined output FASTQ file.

min_length (int): Minimum read length to retain, in bases.

max_length (int): Maximum read length to retain, in bases.

min_quality (int): Minimum mean read quality to retain.

skip_quality_check (bool): Disable mean read-quality filtering while retaining length filtering.

Links

Home page

Documentation

GitHub repository

License: MIT

Cite as: ARTIC Network. ARTIC FieldBioinformatics: a bioinformatics pipeline for tiled-amplicon viral nanopore sequencing data. https://github.com/artic-network/fieldbioinformatics

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