manhWngr {gQTLstats}R Documentation

manhattan plot with named GRanges

Description

manhattan plot with named GRanges

Usage

manhWngr(store, probeid = "ENSG00000183814.10", sym = "LIN9", fdrsupp, namedGR, slstyle = "NCBI", xlab.in = sym, ylab.in = "-log10 FDR", applyFDRfilter = TRUE)

Arguments

store

instance of ciseStore-class

probeid

name of feature identifier to use for cis association

sym

symbol for feature identifier

fdrsupp

instance of FDRsupp-class

namedGR

GRanges instance with 'name' in mcols element

slstyle

seqlevelsStyle

xlab.in

x axis label

ylab.in

y axis label

applyFDRfilter

if TRUE, use the filter defined in the filterUsed element of the object supplied as fdrsupp on the output

Examples

require(geuvStore2)
require(gQTLBase)
store = makeGeuvStore2()
data(hmm878)
data(filtFDR)
manhWngr(store, fdrsupp=filtFDR, namedGR=hmm878)

[Package gQTLstats version 1.21.3 Index]