frenkiboy/gcapc

ChIP-seq Peak Caller Aware of GC Effects

gcapc: GC effects aware peak caller

Introduction

ChIP-seq has been widely utilized as the standard technology to detect protein binding regions, where peak calling algorithms were developed particularly to serve the analysis. Existing peak callers lack of power on ranking peaks' significance due to sequencing technology might undergo sequence context biases, e.g. GC bias. gcapc is designed to address this deficiency by modeling GC effects into peak calling.

Installation

gcapc is an R-package using following installation.

library(devtools)
install_github("tengmx/gcapc")

After installation, the package can be loaded into R.

library(gcapc)

Using gcapc

Details of using this package, please see the vignette.

gcapc has been submitted to Bioconductor, and will be available there shortly.