mr.raps.scatterplot: Scatter plot with annotation

In qingyuanzhao/mr.raps: Two Sample Mendelian Randomization using Robust Adjusted Profile Score

Scatter plot with annotation

Description

Scatter plot with annotation

Usage

mr.raps.scatterplot(
  data,
  annotate = TRUE,
  annotate.genes = NULL,
  rank.method = c("pval.both", "pval.selection", "pval.exposure"),
  num.snps = 10,
  fit = mr.raps(data, FALSE),
  alpha = 0.8
)

Arguments

data	A data frame (see mr.raps).
annotate	Annotating the points? (rsid, chromosome, position)
annotate.genes	Further annotation of closest genes? See example.
rank.method	How to select strongest SNPs for plot?
num.snps	How many SNPs are shown?
fit	A mr.raps fit.

Examples

data(bmi.sbp)
mr.raps.scatterplot(bmi.sbp)


require(bumphunter)
require(TxDb.Hsapiens.UCSC.hg38.knownGene)
genes <- annotateTranscripts(TxDb.Hsapiens.UCSC.hg38.knownGene)
mr.raps.scatterplot(bmi.sbp, annotate.genes = genes)

qingyuanzhao/mr.raps documentation built on June 4, 2022, 3:04 a.m.