Open tobsecret opened 8 years ago
After about 2012 (Illumina 1.8+) illumina uses sanger quality encoding, so as counter-intuitive as it seems you probably want -t sanger
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See the rather brilliant wiki page for more info: https://en.wikipedia.org/wiki/FASTQ_format
Oooh, I'm sorry - I'm kind of new to this. Sickle does also not remove adapters, right (manual says no)?
Hi,
sickle always gives me an error when I specify -t illumina, telling me that the quality value of some read does not fall within the correct range for Illumina encoding but I know that this particular dataset was obtained from an illumina machine in 2014. Is there any way of fixing this, any additional parameter that I can specify?