This repository contains code used to produce figures and tables presented in our 2016 publication 'Long noncoding RNAs in B-cell development and activation'.
Initial sequence data processing was done using CGAT Pipelines. Specifically: i) mapping RNA-seq and ChIP-seq data was done with pipeline_mapping.py, ii) transcript assembly was done with pipeline_rnaseqtranscripts.py, iii) initial lncRNA detection was done with pipeline_rnaseqlncrna.py, and iv) irreprpducibility discovery rate (IDR) analysis was done with pipeline_idr.py.