extraBinomial-package: Extra-binomial approach for pooled sequencing data

Description Details Author(s) References


This package tests for differences in minor allele frequency between groups and is based on extra-binomial variation model for pooled sequencing data.


Package: extraBinomial
Type: Package
Version: 2.1
Date: 2012-07-09
License: GPL-3

To use the function exbio, simply define two matrices R, R.alt with the same dimensions (rows index SNPs and columns index pools), a vector cc indicating the case and control status, number of chromosomes (n) and then do: exbio(R, R.alt, cc, n) to yield the estimated allele frequencies and p-value based on extra-binomial model.


Xin Yang, Chris Wallace

Maintainer: Xin Yang <xin.yang@cimr.cam.ac.uk>


Yang et al. "Extra-binomial variation approach for analysis of pooled DNA sequencing data", under review.

extraBinomial documentation built on May 2, 2019, 2:15 a.m.