3 ms·

What is the accuracy in this ? Aka if I run the experiment 10 times how many differences will i get? I don’t have a physical sense on what would be a good numbe

• myhf 3mo ago
  You would get a lot of differences, but the errors would cancel each other out with enough depth of coverage. This technology's baseline accuracy is around 95% per base, so 10x reads of every segment in the sample would give >99% accuracy for each base after aligning the reads with each other. https://en.wikipedia.org/wiki/Coverage_(genetics) https://en.wikipedia.org/wiki/Coverage_(genetics)
  • Jules-Bertholet 3mo ago
    > so 10x reads of every segment in the sample would give >99% accuracy for each base after aligning the reads with each other This assumes random errors, which IIRC isn't the case for Oxford Nanopore.
• Jules-Bertholet 3mo ago
  Oxford Nanopore unfortunately has a high error rate (3-5%) compared to other sequencing technologies. And the errors are non-random
  • Gethsemane 3mo ago
    For most DNA it now sits at ~Q20 (1%) which is a big improvement - there was also some hacky stuff like HERRO and duplex sequencing which improved it substantially. For routine genome sequencing it's definitely suitable, and the long-read advantage helps resolve some of those trickier regions
  • mbeavitt 3mo ago
    This is simply not true, advances in basecalling and using Duplex give you >Q25