Fig. 2From: SMAP: a streamlined methylation analysis pipeline for bisulfite sequencingEffects of bias correction in overlapping regions of PE reads (schematic). Me: Methylated site. a The overlapping region of a pair of PE reads. The C bases in position a and c are not in overlapping regions. However, the C base in position b is in an overlapping region of the pair of reads. b A case assuming methylated reads have the same proportion as unmethylated reads (i.e., methylation rate is 50 %). c The upper panel shows a case assuming that unmethylated samples were sequenced by PE sequencing and methylated samples were sequenced by SE sequencing. The lower panel shows a case in which unmethylated samples were sequenced by SE sequencing whereas methylated samples were sequenced by PE sequencingBack to article page