read.topologies: Read geophytter+ simplex topologies file
In grady/geophyttertools: Plotting tools for geophytter+ output

Description Usage Arguments Value Author(s) Examples

Reads the file and returns a list with the simplex and the tree topologies. The simplex is a data frame with the probability weight vector, the tree topology index, and the (x,y) projection of the simplex onto cartesian coordinates. The tree topologies is an ape::multiPhylo object with the trees corresponding to the indices in the simplex dataframe.

1	read.topologies(file)

file

filename to read

a list with elements simplex and trees (see Details)

Grady Weyenberg

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filename <- system.file("extdata", "lungfish_topologies.txt.gz",
                        package="geophyttertools")
lungfish.tops <- read.topologies(filename)