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Welcome to the SimPlot++ wiki

Simplot++ is an open-source multi-platform application designed by Stéphane Samson, Étienne Lord and Vladimir Makarenkov (Université du Québec à Montréal). It is implemented in Python. SimPlot++ produces publication-ready SimPlot and BootScan plots using 43 nucleotide and 20 amino acid distance models. Intergenic and intragenic recombination events can be identified using Phi, χ2, NSS and Proportion tests. Simplot++ also generates and analyzes interactive sequence similarity networks, while supporting multi-processing and providing distance calculability diagnostics.

SimPlot++ offers the following features:

• Create and save consensus sequences (representing a given sequence group)
• Run a SimPlot (sequence similarity plot) analysis
• Run a BootScan analysis
• Identify informative sites
• Create and analyze sequence similarity networks
• Run Phi, NSS and χ2 statistical tests to detect recombination
• Provide distance calculability diagnostics

Reference: S Samson, É Lord, V Makarenkov (2022), SimPlot++: a Python application for representing sequence similarity and detecting recombination. Bioinformatics 38 (11), 3118–3120

Please email us at : samson.stephane.3@courrier.uqam.ca or makarenkov.vladimir@uqam.ca for any question or feedback.