Figure 1.

Overview of the ArchAlign algorithm. (a) High-resolution chromatin structural data from regions of interest are converted into log₂ ratios and aligned within a user defined alignment frame. (b) ArchAlign has two options for aligning chromatin structural patterns: 1, single-best-pair uses the two regions with the highest similarity, by Pearson or Spearman correlation or by Euclidian distance, to seed a single progressive alignment; 2, seed sampling is a more comprehensive search of the possible alignment space, which uses every region within the alignment as a possible seed for an independent alignment. The best alignment is selected as the one that maximizes the correlation across all regions in the alignment frame.