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Please use this identifier to cite or link to this item: http://hdl.handle.net/11019/226

Title: Estimation of prediction error variances via Monte Carlo sampling methods using different formulations of the prediction error variance
Authors: Hickey, John M
Veerkamp, Roel F
Calus, M. P. L.
Mulder, Han A
Thompson, Robin
Keywords: Prediction error variance covariance matrix
Monte Carlo sampling
Convergence rate
Breeding values
Issue Date: 9-Feb-2009
Publisher: Biomed Central
Citation: John M Hickey, Roel F Veerkamp, Mario PL Calus, Han A Mulder and Robin Thompson. Estimation of prediction error variances via Monte Carlo sampling methods using different formulations of the prediction error variance. Genetics Selection Evolution. 2009 Feb 09;41(1):23.doi:10.1186/1297-9686-41-23
Series/Report no.: Genetics Selection Evolution
Abstract: Calculation of the exact prediction error variance covariance matrix is often computationally too demanding, which limits its application in REML algorithms, the calculation of accuracies of estimated breeding values and the control of variance of response to selection. Alternatively Monte Carlo sampling can be used to calculate approximations of the prediction error variance, which converge to the true values if enough samples are used. However, in practical situations the number of samples, which are computationally feasible, is limited. The objective of this study was to compare the convergence rate of different formulations of the prediction error variance calculated using Monte Carlo sampling. Four of these formulations were published, four were corresponding alternative versions, and two were derived as part of this study. The different formulations had different convergence rates and these were shown to depend on the number of samples and on the level of prediction error variance. Four formulations were competitive and these made use of information on either the variance of the estimated breeding value and on the variance of the true breeding value minus the estimated breeding value or on the covariance between the true and estimated breeding values.
Description: peer-reviewed
URI: http://hdl.handle.net/11019/226
http://dx.doi.org/10.1186/1297-9686-41-23
Appears in Collections:Teagasc publications in Biomed Central

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