Oxford Nanopore and Coverage
Hello,
I was wondering if anyone knew how to calculate the coverage of a specific genome using output metrics from Oxford Nanopore Technology.
For instance, can anyone calculate coverage information using the total number of pores ran, the N50, and the data in Gb? Information of the expected genome size would be known.
Any help on this would be appreciated.
Thanks!
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Do you have this data?
Why not simply remap the reads and calculate the coverage 'properly'?
Yes absolutely. But I was hoping to be able to have a rough estimate without using a bioinformatics pipeline (similar to what can be done with Illumina technology).
If by coverage you simply mean
total nucleotides sequenced/size of genome = x coveragethen you can calculate that. Have you tried NanoPlot (https://github.com/wdecoster/NanoPlot )?Thank you very much, this is quite useful. I haven't used NanoPlot but will take a look.