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Published 20 hours ago • verified publisher icon wdecoster

Adaptive sampling info

Open nsgarcia27 opened this issue 2 years ago • 3 comments

Hello. Is NanoPlot able to generate report on details of an ONT adaptive sampling sequencing run? Specifically want to see if I can get the "Reads completed N50" (for kept reads) and "adaptive sampling voltage reversal N50" (for rejected reads)?

Thanks!

nsgarcia27 avatar Sep 24 '22 00:09 nsgarcia27

That is not currently supported and seems so specific that I probably won't add it. Do you want to start from a sequencing summary file? Is there a column that tells whether the read is completed or rejected?

wdecoster avatar Sep 25 '22 18:09 wdecoster

Thanks for the reply. I actually would like to start from the fastq files. There was one sequencing run that got interrupted towards the end and it was not able to generate the summary file. So I was wondering if this tool could regenerate the reports on the barcoded adaptive sampling run.

nsgarcia27 avatar Sep 26 '22 16:09 nsgarcia27

Well, to start I don't know if that information is available in the fastq file, so you'll have to help me understand it here. How do you know for a fastq record/read if the read was completed or rejected?

wdecoster avatar Sep 26 '22 19:09 wdecoster