Package index • ldsR

ldsR

SNP heritability and genetic correlations

munge(): Munge GWAS summary statistics

ldsc_h2(): Estimate SNP heritability using LDscore regression for a single annotation

ldsc_rg(): Compute the genetic correlation between two traits

Partition Heritability

partition_h2(): Flexible partitioning of heritability

celltype_analysis(): Perform cell-type analysis using partitioned heritability

Helpful functions

liability_h2(): Convert an estimate of observed-scale heritability to liability scale heritability

calc_effective_n(): Calculate the effective sample size of a case-control GWAS

from_tidyGWAS(): Parse GWAS format of tidyGWAS::tidyGWAS()

Read and transform LDscore data

parse_parquet_dir(): Read LDscore format from ldsRs parquet format

ldsc_to_parquet(): Transform a directory of LDscores to parquet format

to_celltype_dataset(): Convert the output of many LDscores to a single dataframe suitable for ldsR

get_annot_names(): Print names of annotations in a ldscore fileset

combine_ld_data(): Combine two ldsc_to_parquet outputs