View source: R/componentplot.R
componentplot | R Documentation |
The function takes a square sequence similarity matrix and calculates the number of independent components in which the sequence similarity between the members is greater than a specified value (between 0 and 1). It creates a plots showing the number of components corresponding to a given cutoff value. 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: csmatyi@protonmail.com March 19, 2023
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 |
A plot showing the number of components as a function of the cutoff threshold.
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>
componentplot(xenarthra,0.75,0.9)
componentplot(xenarthra)
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