twas_finemap: FOCUS-like gene-level finemapping

In bhattacharya-a-bt/isoTWAS: Isoform-level transcriptome-wide association studies

FOCUS-like gene-level finemapping

Description

The function runs probabilistic finemapping on the gene/isoform-level

Usage

twas_finemap(
  res.df,
  z = "Z",
  Omega,
  V,
  max_enum = 3,
  cutoff = 0.9,
  verbose = F
)

Arguments

res.df	data.frame, TWAS results that at least has Z scores and transcript names
z	character, column name for Z scores
Omega	matrix, matrix of SNP to transcript effect in same order as res.df
V	matrix, LD matrix in the same order as Omega
max_enum	numeric, max number of causals in the credible set
cutoff	numeric, proportion of posterior explained by credible set
verbose	logical, verbose

Value

data frame of res.df with pips and whether isoform is in credible set

bhattacharya-a-bt/isoTWAS documentation built on Jan. 9, 2025, 10:25 p.m.