R codes used in the paper.
Data sets are available publically at the Gene Expression Omnibus (GEO) database (www.ncbi.nlm.nih.gov/geo/) under accession numbers GSE79783.
HpaII annotation http://wasp.einstein.yu.edu/downloads/anno_hpaii/anno_hpaii_hg19.txt.bz2
MspI reference http://wasp.einstein.yu.edu/downloads/anno_hpaii/mspi_hg19.hcount.bz2
Angle file - "angle_only_final.txt"
Batch and biological information - "batch.txt"
Expression htseq count file - "submission_htseq.union.out.txt"
All files are available upon a request.