melt_dist: Melt a square distance matrix into long format

In andersgs/harrietr: Wrangle Phylogenetic Distance Matrices and Other Utilities

Description

This will take a square distance matrix, and will transform in to long format. It will remove upper triangle, and diagonal elements, so you end with only (n)*(n-1)/2 rows, where n are the total number of rows in the distance matrix.

Usage

melt_dist(dist, order = NULL, dist_name = "dist")

Arguments

dist	An object of class matrix, it must be square
order	A character vector of size n with the order of the columns and rows (default: NULL)
dist_name	A string to name the distance column in the output (default: dist)

Value

A data.frame with three columns: (1) iso1; (2) iso2; (3) dist. iso1 and iso2 indicate the pair being compared, and dist indicates the distance between that pair.

Examples

## Not run: 
data(woodmouse)
dist <- ape::dist(woodmouse, model = 'N', as.matrix = TRUE)
dist_df <- melt_dist(dist)

## End(Not run)

andersgs/harrietr documentation built on May 12, 2019, 2:41 a.m.