A computer implemented method for predicting an agronomical value and a breeding value of a plant belonging to a population, the method includes the steps of: obtaining at least some genotypic data from a subset of lines from the population, obtaining at least some phenotypic data from a subset of lines from the population, providing a statistical model receiving in input the genotypic data and phenotypic data, using the statistical model to output at least an agronomical value estimated for the plant. More particularly, the statistical model is a mixed model combining fixed effects and random effects.