Visualizing differential methylation events. (a) Horizontal bar plots show thenumber of hyper- and hypomethylation events per chromosome, as a percent of the sites with theminimum coverage and differential. By default this is a 25% change in methylation and all sampleswith 10X coverage. (b) Example of bedgraph file uploaded to UCSC browser. The bedraph file isfor differentially methylated CpGs with at least a 25% difference and q-value <0.01. Hyper- andhypo-methylated bases are color coded. The bar heights correspond to % methylation differencebetween ER+ and ER- sets. ER+, estrogen receptor-alpha expressing; ER-, estrogen receptor-alphanon-expressing. UCSC, University of California Santa Cruz.