NanoClass
NanoClass is a taxonomic meta-classifier for meta-barcoding sequencing data generated with the Oxford Nanopore Technology. With a single command, this Snakemake pipeline installs all programs and databases and runs and evaluates 10 popular taxonomic classification tools.
Quick start
Simply clone NanoClass
git clone https://github.com/ejongepier/NanoClass
Or download and extract the zip archive from https://github.com/ejongepier/NanoClass.
NanoClass is immediately ready for use.
Enter your samples and the paths to your fastq.gz files in the sample.csv. Sample labels should be unique. Both sample and run labels should contain letters and numbers only. Barcode column should be left empty for the time being, meaning your input files should already be demultiplexed. For an example see the sample.csv file.
The entire pipeline can be run with a single command:
snakemake --use-conda --cores <ncores>
Where –cores are the number of CPU cores/jobs that can be run in parallel on your system.