sum_stats: Simulate summary statistics

In jean997/causeSims: Generate Summary Statistic Data and Analyze with a Variety of MR Methods

Description

Simulate summary statistics

Usage

sum_stats(
  snps,
  evd_list,
  n_copies = 30,
  n1,
  n2,
  h1,
  h2,
  neffect1,
  neffect2,
  gamma,
  eta,
  q,
  tau,
  omega,
  cores,
  ld_prune_pval_thresh = 0.001,
  r2_thresh = 0.1
)

Arguments

snps	SNP info data frame
evd_list	List of eigen value decompositions for LD regions
n_copies	How many times to replicate chromosome 19
n1	Sample size in study 1
n2	sample size in study 2
h1	Expected heritability of trait 1
h2	Expected heritability of trait 2
neffect1	Average number of trait 1 effect snps
neffect2	Average number of trait 2 effect snps. Note that this is in addition to SNPs that effect Y through M.
gamma	gamma
eta	eta
q	q
tau	tau = h1*(gamma^2)/h2 Proportion of Y heritability explained by M through causal mechanism
omega	omega = h1*(eta)^2/h2 omega*q^2 is proportion of Y heritability explained by M through confounder mechanism

jean997/causeSims documentation built on Sept. 4, 2020, 4:29 p.m.