# Analyzing Replicated ChIP Sequencing Data Using Quasi-Likelihood

## Documentation for package ‘BinQuasi’ version 0.1-6

- DESCRIPTION file.
- User guides, package vignettes and other documentation.

## Help Pages

BinQuasi | Analyzing Replicated ChIP Sequencing Data Using Quasi-Likelihood
BQ | Call peaks in replicated ChIP-seq data using BinQuasi
call.peaks | Call peaks from a list of window-level p-values
coef.glm | Extract model coefficients
count.table | Create a matrix of ChIP-seq count data
NBDev | Fit a negative binomial GLM for a given design matrix
PoisDev | Compute Poisson deviances for a given design matrix
QL.fit | Fit quasi-likelihood models to replicated ChIP-seq data partitioned into a count matrix
QL.results | Obtain p- and q-values using results from 'QL.fit'