Question: snpEff build Error
gravatar for Arup Ghosh
14 months ago by
Arup Ghosh2.4k
Arup Ghosh2.4k wrote:

While building snpEff database for Mitochondrial DNA using Revised Cambridge Reference Sequence genbank(NC_012920.1) file the tool was unable to read protein sequence data and was displaying following error message.

Protein check: NC_012920.1 OK: 0 Not found: 0 Errors: 13 Error percentage: 100.0%

Using the verbose mode I observed the error was caused by the mismatch between SnpEff predicted protein sequence and the Reference protein sequence in genbank file. Has anyone faced a similar issue? Also looking for other alternatives for annotating( to genes & amino acid changes) mitochondrial variants.

annotation software error • 307 views
ADD COMMENTlink written 14 months ago by Arup Ghosh2.4k
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