outlierAssociations: Outlier Associations

In asalzy/mrtryxhelpR: Helper functions for the tryx package

Outlier Associations

Description

Function finds associations of outliers with candidate traits from MR-Base (https://www.mrbase.org/) and adds these to an output list readable by the mrtryx package

Usage

outlierAssociations(
  dat,
  id_list = "default",
  search_correction = "none",
  search_threshold = ifelse(search_correction == "none", 5e-08, 0.05),
  min_sample_size = 5000,
  min_SNP_number = 1e+05,
  use_proxies = FALSE
)

Arguments

dat	Output from IdentifyOutliers function
id_list	The list of trait IDs to search through for candidate associations. The default is the high priority traits in available_outcomes().
search_correction	Default = "none", but can select from ("holm", "hochberg", "hommel", "bonferroni", "BH", "BY", "fdr", "none").
search_threshold	If search_correction = "none" then the p-value threshold for detecting an association between an outlier and a candidate trait is by default 5e-8. Otherwise it is 0.05.
min_sample_size	When selecting GWAS studies from MR-Base, state the minimum sample size acceptable. Default is 5000.
use_proxies	Whether to use proxies when looking up associations. FALSE by default for speed.
min_SNP_numberWhen	When selecting GWAS studies from MR-Base, state the minimum SNP number acceptable. Default is 5000.

Value

List

asalzy/mrtryxhelpR documentation built on May 6, 2023, 11:52 p.m.