tntplot: TnT approach
In vjcitn/tnt4dn8: TnT applications with GWAS in dn8 format

tntplot

R Documentation

TnT approach

Description

TnT approach

Usage

tntplot(tab, snpcolor = "lightblue", genecolor = "gold", gt = NULL, maxp = 0.1)

Arguments

`tab`	table
`snpcolor`	character(1)
`genecolor`	character(1)
`gt`	defaults to NULL, otherwise a GeneTrackFromTxDb-like object from TnT
`maxp`	numeric(1) if non-NULL loci with p-values greater than this are excluded

Examples

if (requireNamespace("TnT") & requireNamespace("TxDb.Hsapiens.UCSC.hg38.knownGene")) {
data(gtex_b38_lung_chr20_exc)
cands = avail_syms_gtex()
cands
chk2 = gtex_b38_lung_chr20_exc |> filter_sym(cands[3], radius=5e5) |> as.data.frame()
print(tntplot(chk2))
}

vjcitn/tnt4dn8 documentation built on Sept. 10, 2022, 11:17 a.m.