Post #2858523
2026-04-07 13:30 UTC
@mzdravkov@mastodon.green we've observed that in all runs, usually a few % of reads, sometimes over 10%. When you plot raw signals, you'll see strange stretches similar to homopolymer... we haven't observe anything like this in rna002, only in rna004.
my working hypothesis it that's because of helicase #stalling specific to new #RNA #helicase variant used in #rna004
@nanopore@genomic.social
Replies (1)
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@mzdravkov@mastodon.green 2026-04-07 13:35
@lpryszcz@genomic.social @nanopore@genomic.social If it's stalling it's very curious why the k-mer is always the same. If it stalls at different sequences one would expect that the level would be different, right? I was kind of ignoring the problem so far, especially since in some of the runs we were abusing the RNA. But the latest run got 8% aligned reads, so it's a serious problem.