Question: Variants in mito using Nanopore MinIOn
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gravatar for dineshgene89
9 weeks ago by
dineshgene890 wrote:

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

ADD COMMENTlink written 9 weeks ago by dineshgene890

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.

ADD REPLYlink written 9 weeks ago by h.mon24k

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

ADD REPLYlink modified 9 weeks ago • written 9 weeks ago by colindaven1.1k
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