GVCBLUP statistics

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GVCBLUP specifications


Unique identifier OMICS_05281
Software type Package/Module
Interface Command line interface
Restrictions to use None
Operating system Unix/Linux, Mac OS, Windows
Programming languages C++, Java
Computer skills Advanced
Stability Stable
Maintained Yes


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Publication for GVCBLUP

GVCBLUP in publications

PMCID: 5633198
PMID: 28953891
DOI: 10.1371/journal.pgen.1007019

[…] of a group) and segregating for landrace and modern maize samples separately., we estimated the additive and dominant effects of individual gerp-snps using a gblup model [] implemented in gvcblup []: yi=μ+∑j=1nxijαj+∑j=1nwijdj+ε where yi is the blue value of the ith hybrid, μ is the average genotypic value, αj is the allele substitution effect of the jth gerp-snp, dj is the dominant […]

PMCID: 5371258
PMID: 28356075
DOI: 10.1186/s12711-017-0311-8

[…] \setlength{\oddsidemargin}{-69pt} \begin{document}$${\mathbf{d}}_{\text{g}}$$\end{document}dg matrices were calculated using definition ii of genomic relationships implemented by the gvcblup package, and variance components of additive, dominance and random residual values were estimated by genomic restricted maximum likelihood estimation (greml) using the greml_ce program […]

PMCID: 4975500
PMID: 27494031
DOI: 10.1371/journal.pone.0160496

[…] genomic confirmation of the relationship between genetic diversity and geographical distances, and provided genomic evidence to the urgency of habitat protection., the 150k snp data in plink and gvcblup formats are freely available at the data repository for university of minnesota (drum), http://hdl.handle.net/11299/174479., understanding genetic diversity including genetic relatedness […]

PMCID: 4899891
PMID: 27276993
DOI: 10.1186/s12711-016-0220-2

[…] these parameterizations, which match with classical quantitative genetics theory [], were carried out using the average information restricted maximum likelihood algorithm [] implemented in the gvcblup package []., goodness of fit for each model was evaluated by the deviance information criterion (dic) value in the training dataset. the superiority of mad over ma was tested by a likelihood […]

PMCID: 4683770
PMID: 26678438
DOI: 10.1186/s12863-015-0301-1

[…] and may fail for extreme heritability levels. formulations of ai-reml for the multi-allelic haplotype model in this article are straightforward extensions of the formulations we implemented for gvcblup []., haplotype analysis and single snp analysis can be analyzed jointly for genomic prediction in the same mixed model by adding single snp effects from our previous work [] to the mixed […]

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GVCBLUP institution(s)
Department of Animal Science, University of Minnesota, Saint Paul, MN, USA

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