read_sumstats

`read_sumstats()` Read summary statistics from either internal or external file

Provides tools to compute unbiased pleiotropic heritability estimates of complex diseases from genome-wide association studies (GWAS) summary statistics. We estimate pleiotropic heritability from GWAS summary statistics by estimating the proportion of variance explained from an estimated genetic correlation matrix (Bulik-Sullivan et al. 2015 <doi:10.1038/ng.3406>) and employing a Monte-Carlo bias correction procedure to account for sampling noise in genetic correlation estimates.

Yujie Zhao

pleioh2g

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

read_sumstats function

<dl><dt>munged_sumstats</dt>
<dd>Either a dataframe, or a path to a file containing munged summary statistics. Must contain at least columns named `SNP` (rsid), `A1` (effect allele), `A2` (non-effect allele), `N` (total sample size) and `Z` (Z-score)</dd>
<dt>name</dt>
<dd>trait name</dd></dl>

Arguments

Read summary statistics from either internal or external file - refer to ldscr R package (https://github.com/mglev1n/ldscr) — read_sumstats

<dl>

<dt>munged_sumstats</dt>
<dd>Either a dataframe, or a path to a file containing munged summary statistics. Must contain at least columns named `SNP` (rsid), `A1` (effect allele), `A2` (non-effect allele), `N` (total sample size) and `Z` (Z-score)</dd>


<dt>name</dt>
<dd>trait name</dd>

</dl>

read_sumstats: Read summary statistics from either internal or external file - refer to ldscr R package (https://github.com/mglev1n/ldscr)

Description

Usage

Value

Arguments