enrich: Estimate enrichment of model parameter for a user specified...

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

Estimate enrichment of model parameter for a user specified model

Description

Function to take output from multivariable S-LDSC and estimate enrichment of model parameter for user specified model

Usage

enrich(s_covstruc, model = "",params,fix= "regressions",std.lv=FALSE,rm_flank=TRUE,tau=FALSE,base=TRUE,toler=NULL,fixparam=NULL, ...)

Arguments

s_covstruc	Output from the multivariable S-LDSC function of Genomic SEM (s_ldsc)
model	Model to be specified using lavaan notation
params	Parameters of interest to be examined for enrichment (e.g., factor variances).
fix	What components of the model should be fixed for follow-up enrichment models. Default = "regressions", which will fix all regression parameters.
std.lv	Optional argument to denote whether all latent variables are standardized using unit variance identification (default = FALSE)
rm_flank	Optional argument to denote whether flanking window annotations should automatically be removed from output (default = TRUE)
tau	Optional argument to denote whether the user wants to use the tau genetic covariance matrices, as opposed to the default zero-order matrices, for estimation of enrichment (default = FALSE)
base	Optional argument to denote whether the user wants to include the full model output from the genome-wide (i.e., baseline) matrix (default = TRUE)
toler	Optional argument to manually set tolerance for matrix inverison.
fixparam	Optional argument to manually fix paramters when estimating the model within annotations

Value

Function to take output from multivariable S-LDSC and estimate enrichment of model parameter for user specified model

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