plotAvgProf2

peak

weightCol

TxDb

upstream

downstream

xlab

ylab

conf

facet

free_y

verbose


plot the profile of peaks that align to flank sequences of TSS


This package implements functions to retrieve the nearest genes
around the peak, annotate genomic region of the peak, statstical methods
for estimate the significance of overlap among ChIP peak data sets, and
incorporate GEO database for user to compare the own dataset with those
deposited in database. The comparison can be used to infer cooperative
regulation and thus can be used to generate hypotheses. Several
visualization functions are implemented to summarize the coverage of the
peak experiment, average profile and heatmap of peaks binding to TSS
regions, genomic annotation, distance to TSS, and overlap of peaks or
genes.

plotAvgProf2: plotAvgProf

Description

Usage

Arguments

Value