Scalable Implementation of Generalized mixed models using GDS files in Phenome-Wide Association Studies

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Documentation for package ‘SAIGEgds’ version 1.6.0

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SAIGEgds-package Scalable Implementation of Generalized mixed models in Phenome-Wide Association Studies using GDS files
glmmHeritability Heritability estimation
pACAT Cauchy Combination Test
pACAT2 Cauchy Combination Test
SAIGEgds Scalable Implementation of Generalized mixed models in Phenome-Wide Association Studies using GDS files
seqAssocGLMM_SPA P-value calculation
seqAssocGLMM_spaACAT_O ACAT-V tests
seqAssocGLMM_spaACAT_V ACAT-V tests
seqAssocGLMM_spaBurden Burden tests
seqFitNullGLMM_SPA Fit the null model with GRM
seqGLMM_GxG_spa SNP Interaction Testing
seqSAIGE_LoadPval Load the association results