Vidya S Vuruputoor, Daniel Monyak, Karl C Fetter, Cynthia Webster, Akriti Bhattarai, Bikash Shrestha, Sumaira Zaman, Jeremy Bennett, Susan L McEvoy, Madison Caballero, Jill L Wegrzyn
PREMISE: Robust standards to evaluate quality and completeness are lacking in eukaryotic structural genome annotation, as genome annotation software is developed using model organisms and typically lacks benchmarking to comprehensively evaluate the quality and accuracy of the final predictions. The annotation of plant genomes is particularly challenging due to their large sizes, abundant transposable elements, and variable ploidies. This study investigates the impact of genome quality, complexity, sequence read input, and method on protein-coding gene predictions...
2023: Applications in Plant Sciences