write.model: Automate writing model syntax using EFA output

In MichelNivard/GenomicSEM: Structural equation modeling based on GWAS summary statistics

Automate writing model syntax using EFA output

Description

Function to automate writing model syntax based on EFA loadings. This is most likely to be useful when examining larger numbers of traits (e.g., > 10).

Usage

write.model(Loadings,S_LD,cutoff,fix_resid=TRUE,bifactor=FALSE,mustload=FALSE,common=FALSE, ...)

Arguments

Loadings	The matrix of EFA loadings. Note that the number of columns in this matrix determines how many factors are specifeid in the model.
S_LD	The LDSC genetic covariance matrix
cutoff	The EFA standardized loadings cutoff to determine which traits should load on a factor
fix_resid	Whether to apply constraint on all variables to keep residual variances above .001. Default is TRUE.
bifactor	Whether to specify a bifactor model in which a general factor predicts all included traits and the remaining factors are specifided to be orthogonal of one another.
mustload	Whether all variables should load on at least one factor, even if they dont meet the threshold specified using the cutoff argument.
common	Whether to specify a common factor model.

Value

The function outputs model syntax that can be used to run the model using the usermodel function in Genomic SEM.

MichelNivard/GenomicSEM documentation built on Dec. 19, 2024, 8:01 a.m.