Gamevar.f90: a software package for calculating individual gametic diversity

BMC Bioinformatics
Daniel Jordan de Abreu SantosL Ma

Abstract

Traditional selection in livestock and crops focuses on additive genetic values or breeding values of the individuals. While traditional selection utilizes variation between individuals, differences between gametes within individuals have been less frequently exploited in selection programs. With the successful implementation of genomic selection in livestock and crops, estimation and selection for gametic variation is becoming possible. The gamevar.f90 software is designed to estimate individual-level variance of genetic values of gametes for complex traits in large populations. The software estimates the (co)variances of gametic diversity as well as other diversity parameters that are useful for selection programs and mating designs. The calculation is carried out chromosome by chromosome and can be easily parallelized. The gamevar.f90 program is written in Fortran with efficient computing algorithms in a user-friendly software package with easily-handled input and output files. Finally, we applied the program to estimate gametic variance for hundreds of bulls for lifetime net merit, productive life, and livability. The RPTA (relative predicted transmitting ability), assuming a future selection intensity (if) of 1.5, showed l...Continue Reading

References

Jul 6, 2014·Genetics, Selection, Evolution : GSE·Dierck SegelkeGeorg Thaller
Apr 25, 2016·Genetics, Selection, Evolution : GSE·Sarah BonkNorbert Reinsch
Apr 15, 2019·Journal of Dairy Science·D J A SantosL Ma

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Citations

Feb 13, 2021·Genes·Veena UnnikrishnanJacob Thundathil

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Software Mentioned

Linux
gamevar
f90
gamavar
Unix
GPL
gfortran

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