Q:
I am writing to your regarding the code to analyse ASE in RNA-seq data present within this Article, specifically the beta diversity evaluation and application test. I was wondering if the code is available, I would like to apply it compare samples.

A:
The code for calling allele-specific sites is available at
https://github.com/gersteinlab/alleleDB

The specific scripts for the beta-binomial test are
alleledb_calcOverdispersion.R
alleledb_alleleseqBetabinomial.R