GEMMA Multivariate Linear Mixed Model

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Documentation for package ‘gemma2’ version 0.1.3

• DESCRIPTION file.
• User guides, package vignettes and other documentation.
• Package NEWS.

Help Pages

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