S-plot2 creates an interactive, two-dimensional heatmap capturing the similarities and dissimilarities in nucleotide usage between genomic sequences (partial or complete). In S-plot2, whole eukaryotic chromosomes and smaller prokaryotic genomes can be efficiently compared. The tool includes functionality to extract, analyze, and automate BLAST queries of regions of interest within the heatmap. This facilitates the investigation of quickly evolving coding regions, novel coding regions, and laterally transferred elements.
http://www.putonti-lab.com/uploads/4/5/3/0/45307835/s-plot2_tutorial.pdf
http://journals.sagepub.com/doi/pdf/10.1177/1176934318797354
