UcarLab/BiFET: Bias-free Footprint Enrichment Test

BiFET identifies TFs whose footprints are over-represented in target regions compared to background regions after correcting for the bias arising from the imbalance in read counts and GC contents between the target and background regions. For a given TF k, BiFET tests the null hypothesis that the target regions have the same probability of having footprints for the TF k as the background regions while correcting for the read count and GC content bias. For this, we use the number of target regions with footprints for TF k, t_k as a test statistic and calculate the p-value as the probability of observing t_k or more target regions with footprints under the null hypothesis.

Getting started

Package details

Bioconductor views ATACSeq DNaseSeq Epigenetics GeneRegulation Genetics RIPSeq Software Transcription
MaintainerAhrim Youn <[email protected]>
LicenseGPL-3
Version1.1.8
Package repositoryView on GitHub
Installation Install the latest version of this package by entering the following in R:
install.packages("devtools")
library(devtools)
install_github("UcarLab/BiFET")
UcarLab/BiFET documentation built on Oct. 3, 2018, 8:27 p.m.