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Article

Evaluating the accuracy of variant calling methods using the frequency of parent-offspring genotype mismatch.

Molecular ecology resources - 1 Oct 2022

Jasper Russ J, McDonald Tegan Krista, Singh Pooja, Lu Mengmeng, Rougeux Clément, Lind Brandon M, Yeaman Sam

Abstract excerpt

The use of next-generation sequencing (NGS) data sets has increased dramatically over the last decade, but there have been few systematic analyses quantifying the accuracy of the commonly used variant caller programs. Here we used a familial design consisting of diploid tissue from a single lodgepole pine (Pinus contorta) parent and the maternally derived haploid tissue from 106 full-sibling offspring, where...

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PMID: 35510784
DOI: 10.1111/1755-0998.13628
PMCID: PMC9544674

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