Fig. 3

Distribution of signal and noise values using data from great burdock. Boxplot for signal and noise Hi-C contact values along contig end sizes, using the raw links data (a) and normalized links data (b). For each contig end size, both the signal and noise values are normalized by the median of noise values. Signal to noise ratio (SNR) along contig end sizes calculated from the raw links data (c) and normalized links data (d). The contact values from adjacent contig ends and non-adjacent contigs ends are taken as signal and noise contact values, respectively. The signal to noise ratio, is defined as the median of signal contact values divided by the median of noise contact values. Both the boxplot distribution and the signal to noise curve showed that the difference between signal and noise contact values will become smaller as the contig end size grows larger