plot_SP_summary: A line plot summary of sum of pairs score between two...

Description Usage Arguments Note Examples

Description

A line plot summary of sum of pairs score between two multiple sequence alignments

Usage

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plot_SP_summary(x, CS = TRUE, display = TRUE)

Arguments

x

an object of type "pairwise alignment comparison" (typically the summary file generated by compare_alignments)

CS

indicate columns with 100 percent identity using markers on the x-axis (default = TRUE)

display

display this plot (default = TRUE)

Note

This function generates a plot that summarises the columnwise sums of pairs for the two multiple sequence alignments. For each column of the comparison alignment, it plots the proportion of conserved residue pairs as a proportion of the poassible residue pairs. The overall sum of pairs score, reverse sum of pairs score, and column score are also reported as percentages.

Examples

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