MTGSAM: Multiple-Trait Gibbs Sampler for Animal Models

Metadata Updated: November 10, 2020

A set of FORTRAN programs to implement a multiple-trait Gibbs sampling algorithm for (co)variance component inference in animal models (MTGSAM) was developed. The MTGSAM programs are available to the public. The programs support models with correlated genetic effects and arbitrary numbers of covariates, fixed effects, and independent random effects for each trait. Any combination of missing traits is allowed. The programs were used to estimate variance components for 50 replicates of simulated data. Each replicate consisted of 50 animals of each sex in each of four generations, for 400 animals in each replicate for two traits. For MTGSAM, informative prior distributions for variance components were inverted Wishart random variables with 10 df and means equal to the simulation parameters. A total of 15,000 Gibbs sampling rounds were completed for each replicate, with 2,000 rounds discarded for burn-in. For multiple-trait derivative free restricted maximum likelihood (MTDFREML), starting values for the variance components were the simulation parameters. Averages of posterior mean of variance components estimated using MTGSAM with informative and flat prior distributions for variance components and REML estimates obtained using MTDFREML indicated that all three methods were empirically unbiased. Correlations between estimates from MTGSAM using flat priors and MTDFREML all exceeded .99.

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Public: This dataset is intended for public access and use. License: Creative Commons CCZero

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Metadata Created Date November 10, 2020
Metadata Updated Date November 10, 2020

Metadata Source

Harvested from USDA JSON

Additional Metadata

Resource Type Dataset
Metadata Created Date November 10, 2020
Metadata Updated Date November 10, 2020
Publisher Agricultural Research Service
Unique Identifier Unknown
Maintainer
Identifier 3953b9b7-e417-4988-b311-3d6d1e0d2217
Data Last Modified 2019-08-05
Public Access Level public
Bureau Code 005:18
Metadata Context https://project-open-data.cio.gov/v1.1/schema/catalog.jsonld
Schema Version https://project-open-data.cio.gov/v1.1/schema
Catalog Describedby https://project-open-data.cio.gov/v1.1/schema/catalog.json
Harvest Object Id e1fb0fa5-33a1-4043-b2d8-4c2da73c695f
Harvest Source Id d3fafa34-0cb9-48f1-ab1d-5b5fdc783806
Harvest Source Title USDA JSON
License https://creativecommons.org/publicdomain/zero/1.0/
Program Code 005:040
Source Datajson Identifier True
Source Hash e9fe43df3a0238f4ff2f32600aecdd073a8163b4
Source Schema Version 1.1

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