mhtplot {ENmix}R Documentation

P value manhattan plot

Description

P value manhattan plot

Usage

        mhtplot(dat,color="bg",sigthre=NULL,markprobe=NULL,
                 markcolor="red", outf="mht.jpg")

Arguments

dat

A data frame from bed format file with colname name "V1","V2", "V3","V4","V5", V1 indicate chromosome (1,2,3,...,X,Y), V2 and V3 are chromosome position (V3 is an optional variable), V4 is for P value and V5 for name of CpGs

color

Color scheme of manhattan plot, "bg" indicate "black and gray"

sigthre

P value of significant threshold line

markprobe

A list of CpGs to be marked out

markcolor

Color code for marked probe

outf

figure file name, default "mht.jpg"

Details

Draw manhattan plot based on bed file format input file. Optional and colored marks fo a subset of probes

Author(s)

Zongli Xu


[Package ENmix version 1.25.1 Index]