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Variants in mito using Nanopore MinIOn

We did an amplicon sequencing in nanopore for mitochondria, we used Nanopolish to study the variants, but we are not getting any variants after using the software can anyone help us with this. Thanks in advance

next-gen assembly sequencing snp
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written by dineshgene89 0

Please explain in more detail your experimental setting and commands used. What is the amplicon target region? Is it a population study, inter-species, or just one individual? And so on.

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written by h.mon 3.5K

Also, how many SNVs can you see directly eye-balling the raw data? If very deep coverage, try downsampling or using the Tablet assembly browser

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written by colindaven 844

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