cutoffplot {matrixcut}

Draws a Plot Showing the Number of Similarity Values as a Function of the Cutoff Value.

Description

The function takes a square sequence similarity matrix and creates a plot showing the number of similarity values above a given cutoff value, drawn on the x-axis, ranging from 0 to 1. The function also depicts the inflection point with a vertical line. Upper and lower bounds can be provided between which the inflection point will be found (if it exists).

Version 0.0.1. Author: Dr. Matthew Cserhati Email: [e-mail] March 19, 2023

Arguments

mx

a square sequence similarity matrix

lower_bound

lower bounds for calculating the inflection point in, default = 0

upper_bound

upper bounds for calculating the inflection point in, default = 1

Value

A plot showing the number of similarity values as a function of the cutoff threshold.

References

Mullner. <ArXiv:1109.2378>

Cserhati, Carter. (2020, Journal of Creation 34(3):41-50), <https://dl0.creation.com/articles/p137/c13759/j34-3_64-73.pdf>

Examples

cutoffplot(liliales,0.7,0.85)
cutoffplot(liliales)