perform_analysis: Internal function to perform LDSC heritability/covariance...

In pleioh2g: Estimation of Pleiotropic Heritability from Genome-Wide Association Studies (GWAS) Summary Statistics

Internal function to perform LDSC heritability/covariance analysis - refer to ldscr R package (https://github.com/mglev1n/ldscr)

Description

'perform_analysis()' Internal function to perform LDSC heritability/covariance analysis

Usage

perform_analysis(n.blocks, n.snps, weighted.LD, weighted.chi, N.bar, m)

Arguments

n.blocks	Number of blocks
n.snps	Number of SNPs
weighted.LD	wld score
weighted.chi	chi-square
N.bar	Average N after merging
m	Number of SNPs from LD data

Value

A list containing the results of the LDSC heritability/covariance analysis with the following elements:

• reg.tot: Estimated total heritability or covariance (regression coefficient scaled by m).

• tot.se: Standard error of the total heritability/covariance estimate, computed using a block jackknife.

• intercept: LDSC regression intercept.

• intercept.se: Standard error of the intercept, estimated via block jackknife.

• pseudo.values: Vector of pseudo-values from the block jackknife procedure, one per block.

• N.bar: Average sample size across SNPs after merging.

pleioh2g documentation built on March 9, 2026, 5:07 p.m.