How to avoid the influence of pseudogenes in NGS analysis?

26 October 2018 1 2K Report

Several of the genes in our NGS-panels have psuedogenes (some genes have only 1 pseudogene, others have 14). Due to various degee of sequence homology, this will influence the mapping quality and variant calling. Does anybody know how to avoid this?

The NGS panels are based on WES analysis.

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