get_isolated_topos: get isolated topologies

In k-hench/GenomicOriginsScripts: Provides the R scripts for the paper "Ancestral variation, hybridization and modularity fuel a marine radiation"

Description

is_isolated finds all topologies where a species is isolated

Usage

get_isolated_topos(topo_plots, left_neighbour, pops)

Arguments

topo_plots	tibble containing the topologies (in column 'phylo')
left_neighbour	string (species identifier for left neighbor)
pops	all populations within the topology

Details

First the distance matrixes of all topologies are created and attached to the topologies. Then, the isolation status of a species is determined based on the distance matrixes and the topologies are filtered for the isolation cases.

The index number of those topologies is exported.

See Also

Other Figure 5: ax_scl(), cross_spec(), custom_annoplot(), dist_tibble(), distances_tree(), get_clr(), get_dist(), get_gxp_long(), get_neighbour_topos(), is_isolated(), min_dist(), no_title(), plot_curtain(), plot_fish_zoom(), plot_fst_poptree(), plot_leg(), plot_panel_anno(), plot_panel_delta_dxy(), plot_panel_dxy(), plot_panel_fst(), plot_panel_gxp(), plot_panel_twisst(), prep_data(), theme_panels()

k-hench/GenomicOriginsScripts documentation built on July 24, 2021, 3:05 p.m.