plotSNPtype: LocusExplorer - SNP type plot

In oncogenetics/oncofunco: Custom function for Oncogenetics team

LocusExplorer - SNP type plot

Description

SNP type plot for LocusExplorer.

Usage

plotSNPtype(
  assoc = NULL,
  xStart = NULL,
  xEnd = NULL,
  pad = TRUE,
  title = NULL,
  typedColName = "TYPED",
  typedValue = 2,
  colTyped = "#003333",
  colImputed = "#669999"
)

Arguments

assoc	SNP association results, data.frame object with c("SNP","BP","P") columns. Required.
xStart, xEnd	Region range, zoom, minimum BP and maximum BP, advised to keep this less than 5Mb.
pad	Default is TRUE, to align plots pad strings with spaces, using oncofunco::strPadLeft().
title	character string for plot title. Default is NULL, i.e.: no plot title.
typedColName	Column name in assoc data.frame to indicate typed/imputed SNPs, default "TYPED".
typedValue	Value for typed SNPs, default is 2.
colTyped	Colour for typed SNPs, default "#003333".
colImputed	Colour for imputed SNPs, default "#669999".

Value

a ggplot object

Author(s)

Tokhir Dadaev

oncogenetics/oncofunco documentation built on March 9, 2024, 5:23 p.m.