A comprehensive benchmark of graph-based genetic variant genotyping algorithms on plant genomes for creating an accurate ensemble pipeline.

Ze-Zhen DuJia-Bao HeWen-Biao Jiao

Published in: Genome biology (2024)

Our study will provide new insights into the development and application of graph-based genotyping algorithms. We conclude that EVG provides an accurate, unbiased, and cost-effective way for genotyping both small and large variations and will be potentially used in population-scale genotyping for large, repetitive, and heterozygous plant genomes.

Keyphrases

genome wide
high throughput
machine learning
convolutional neural network
genetic diversity
dna methylation
deep learning
high resolution
neural network
copy number
high frequency
single cell