metan (version 1.19.0)

blup_indexes: Stability indexes based on a mixed-effect model

Description

• hmgv() Computes the harmonic mean of genotypic values (HMGV).

• rpgv() Computes the relative performance of the genotypic values (RPGV).

• hmrpgv() Computes the harmonic mean of the relative performance of genotypic values (HMRPGV).

• blup_indexes() Is a wrapper around the above functions that also computes the WAASB index (Olivoto et al. 2019) if an object computed with waasb() is used as input data.

Usage

hmgv(model)
rpgv(model)
hmrpgv(model)
blup_indexes(model)

Value

A tibble containing the indexes.

Arguments

model

An object of class waasb computed with waasb() or gamem_met().

Author

Tiago Olivoto

Details

The indexes computed with this function have been used to select genotypes with stability performance in a mixed-effect model framework. Some examples are in Alves et al (2018), Azevedo Peixoto et al. (2018), Dias et al. (2018) and Colombari Filho et al. (2013).

The HMGV index is computed as HMGV_i = E_j = 1^E 1Gv_ij

where E is the number of environments included in the analysis, Gv_ij is the genotypic value (BLUP) for the ith genotype in the jth environment.

The RPGV index is computed as RPGV_i = 1E_j = 1^E Gv_ij / _j

The HMRPGV index is computed as HMRPGV_i = E_j = 1^E 1Gv_ij/ _j

References

Alves, R.S., L. de Azevedo Peixoto, P.E. Teodoro, L.A. Silva, E.V. Rodrigues, M.D.V. de Resende, B.G. Laviola, and L.L. Bhering. 2018. Selection of Jatropha curcas families based on temporal stability and adaptability of genetic values. Ind. Crops Prod. 119:290-293. tools:::Rd_expr_doi("10.1016/J.INDCROP.2018.04.029")

Azevedo Peixoto, L. de, P.E. Teodoro, L.A. Silva, E.V. Rodrigues, B.G. Laviola, and L.L. Bhering. 2018. Jatropha half-sib family selection with high adaptability and genotypic stability. PLoS One 13:e0199880. tools:::Rd_expr_doi("10.1371/journal.pone.0199880")

Colombari Filho, J.M., M.D.V. de Resende, O.P. de Morais, A.P. de Castro, E.P. Guimaraes, J.A. Pereira, M.M. Utumi, and F. Breseghello. 2013. Upland rice breeding in Brazil: a simultaneous genotypic evaluation of stability, adaptability and grain yield. Euphytica 192:117-129. tools:::Rd_expr_doi("10.1007/s10681-013-0922-2")

Dias, P.C., A. Xavier, M.D.V. de Resende, M.H.P. Barbosa, F.A. Biernaski, R.A. Estopa. 2018. Genetic evaluation of Pinus taeda clones from somatic embryogenesis and their genotype x environment interaction. Crop Breed. Appl. Biotechnol. 18:55-64. tools:::Rd_expr_doi("10.1590/1984-70332018v18n1a8")

Olivoto, T., A.D.C. Lúcio, J.A.G. da silva, V.S. Marchioro, V.Q. de Souza, and E. Jost. 2019. Mean performance and stability in multi-environment trials I: Combining features of AMMI and BLUP techniques. Agron. J. 111:2949-2960. tools:::Rd_expr_doi("10.2134/agronj2019.03.0220")

Resende MDV (2007) Matematica e estatistica na analise de experimentos e no melhoramento genetico. Embrapa Florestas, Colombo

Examples

# \donttest{
library(metan)
res_ind <- waasb(data_ge,
                 env = ENV,
                 gen = GEN,
                 rep = REP,
                 resp = c(GY, HM),
                 verbose = FALSE)
model_indexes <- blup_indexes(res_ind)
gmd(model_indexes)
# }