Article
Expected Genotype Quality and Diploidized Marker Data from Genotyping-by-Sequencing of Urochloa spp. Tetraploids.
The plant genome - 1 Nov 2019
Matias Filipe Inácio, Xavier Meireles Karem Guimarães, Nagamatsu Sheila Tiemi, Lima Barrios Sanzio Carvalho, Borges do Valle Cacilda, Carazzolle Marcelo Falsarella, Fritsche-Neto Roberto, Endelman Jeffrey B
Abstract excerpt
CORE IDEAS: Introduced concept of expected genotype quality (EGQ) and software to calculate it Provided read depth guidelines for GBS in tetraploids Developed software to generate diploidized genotype calls from VCF files Demonstrated value of aligning GBS reads to a mock reference genome for SNP discovery Recommend filtering based on GQ and read depth to prevent genotype bias Although genotyping-by-sequencing...
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