setting minimum sequence lenght when running MetONTIIME directly from fastq.gz files

[dloukovi]

Dear all, I have ready fastq.gz files from ONT guppy basecaller. I have run them in MetONTIIME and everything seems ok. However, I want to filter the sequences based on read length (e.g. keep sequences above 1000bp). Can I add a parameter in the command in order to do this??

Thanks a lot!!

[MaestSi]

Hi, you can prefilter them using something like: zless reads.fastq.gz | NanoFilt -l 1000 | gzip > reads.filtered.fastq.gz Let me know if it works! Simone

[dloukovi]

Thanks Simone!!!!