Question: Oxford Nanopore insertion vs deletion rates
0
gravatar for BioinformaticsLad
14 months ago by
BioinformaticsLad160 wrote:

Indels are a big problem in Oxford Nanopore reads due to difficulty in basecalling homopolymers. Are insertions and deletions equally likely? If the one type is more likely than the other, why don't they compensate for it in the basecaller by systematically under- or over-calling homopolymer length?

nanopore basecalling • 484 views
ADD COMMENTlink modified 14 months ago by WouterDeCoster43k • written 14 months ago by BioinformaticsLad160
1

Based on my (limited) experience with Nanopore data, looks like there was no bias towards either insertions or deletions. I don't have hard data to support this, though.

ADD REPLYlink written 14 months ago by Vitis2.3k
3
gravatar for WouterDeCoster
14 months ago by
Belgium
WouterDeCoster43k wrote:

Short insertions and short deletions are about equally likely.

ADD COMMENTlink written 14 months ago by WouterDeCoster43k
Please log in to add an answer.

Help
Access

Use of this site constitutes acceptance of our User Agreement and Privacy Policy.
Powered by Biostar version 2.3.0
Traffic: 896 users visited in the last hour