SimPlot++: a Python application for representing sequence similarity and detecting recombination
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Motivation: Accurate detection of sequence similarity and homologous recombination are essential parts of many evolutionary analyses. Results: We have developed SimPlot++, an open-source multiplatform application implemented in Python to produce publication-quality SimPlot and BootScan similarity plots quickly using 26 different nucleotide and amino acid distance models, to detect intergenic and intragenic recombination events using Phi, Max-X2, NSS and proportion tests, and to generate and analyze interactive sequence similarity networks. SimPlot++ supports multiprocessing and provides distance calculability diagnostics. Availability: SimPlot++ is freely available on GitHub as both an executable (for Windows) and Python scripts (for Windows/Linux/MacOS) at: https://github.com/Stephane-S/Simplot_PlusPlus.
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