nanoporetech
Request for fastq.gz read ID format change
In the fastq.gz that Dorado outputs, I see that a semicolon is sometimes included as part of the read ID. A semicolon is used to separate attribute-value pairs in the VCF format. Could you please use a different character (e.g. forward slash "/") in the read IDs? Thank you.
Hi @andyjslee - This sounds like you're using duplex basecalled reads which write the read_ids as idA;idB - is this correct?
I'll discuss this issue internally and we'll get back to you with a decision on how we will proceed.
Kind regards, Rich
Hi @andyjslee,
Apologies for the delayed reply, and thank you for your feature request.
After reviewing this, we won’t be moving forward with this change. The current format is required by some downstream applications, which now rely on it as part of their expected input.
Best regards, Rich