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MphCalcLogL()
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Calculate log likelihood |
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MphEM()
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Perform expectation-maximization algorithm to infer Vg and Ve values for a pair of traits. |
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UpdateRL_B()
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Update B for restricted log likelihood |
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calc_XHiY()
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Calculate XHiY |
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calc_omega()
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Calculate Omega matrices |
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calc_qi()
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Calculate Qi (inverse of Q) and log determinant of Q |
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calc_sigma()
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Calculate Sigma_ee and Sigma_uu matrices |
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center_kinship()
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Center a relatedness matrix, after Zhou's GEMMA function CenterMatrix |
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eigen2()
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Calculate eigendecomposition and return ordered eigenvalues and eigenvectors |
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eigen_proc()
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Eigendecomposition procedure for Vg and Ve |
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gemma2
|
gemma2 |
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stagger_mats()
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Stagger matrices within a larger, block-diagonal matrix |
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update_e()
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Update E |
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update_u()
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Update U matrix |
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update_v()
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Update V_e and V_g |