KAML

KAML enhances genomic prediction accuracy for complex traits by combining kinship-adjusted multiple-loci Best Linear Unbiased Prediction (BLUP) with machine-learning-driven parameter optimization.


Key Features:

  • Machine Learning Integration: Employs a machine-learning-based approach that integrates cross-validation, multiple regression, grid search, and bisection algorithms to optimize predictive parameters.
  • Efficiency in Computation: Draws on efficient computation approaches for linear mixed models and concepts from Bayesian methods to balance prediction accuracy with computational efficiency.
  • Improved Prediction Accuracy: Demonstrates improved prediction accuracy compared to existing genomic prediction methods for complex traits.

Scientific Applications:

  • Animal and Plant Breeding: Provides more precise genetic evaluations to improve selection decisions in breeding programs.
  • Human Genetics: Supplies improved predictive models for studying complex human traits and diseases.

Methodology:

KAML combines kinship-adjusted multiple-loci BLUP with a machine-learning framework using cross-validation, multiple regression, grid search, and bisection algorithms and is informed by methods for linear mixed models and Bayesian prediction.

Topics

Details

License:
GPL-3.0
Tool Type:
library
Programming Languages:
R, C++
Added:
1/18/2021
Last Updated:
2/12/2021

Operations

Publications

Yin L, Zhang H, Zhou X, Yuan X, Zhao S, Li X, Liu X. KAML: improving genomic prediction accuracy of complex traits using machine learning determined parameters. Genome Biology. 2020;21(1). doi:10.1186/s13059-020-02052-w. PMID:32552725. PMCID:PMC7386246.

PMID: 32552725
PMCID: PMC7386246
Funding: - National Natural Science Foundation of China: 31702087, 31672391, 31701144 - Key project of the National Natural Science Foundation of China: 31790414 - National Swine Industry Technology System: CARS-35