cichlid: Cichlid dataset

Description Usage Format Details

Description

A dataset containing a phylogenetic network and trait data for cichlid species

Usage

1

Format

A list with two items:

phy.graph

the phylogenetic network in ape::evonet format

trait

a vector of trait data

final.se

a vector of standard error

Details

The tree is made by doing a tree search with mitochondrial data from Kobmuller, S., N. Duftner, K. M. Sefc, M. Aibara,M. Stipacek, M. Blanc, B. Egger, and C. Sturmbauer. 2007.Reticulate phylogeny of gastropod-shell-breeding cichlids from Lake Tanganyika: the result of repeated introgressive hybridization. BMC Evolutionary Biology 7:7.

https://bmcevolbiol.biomedcentral.com/articles/10.1186/1471-2148-7-7

We then added hybridization events based on their cartoon Fig. 4: https://media.springernature.com/full/springer-static/image/art

Hybridization events with solid lines (coeval events) were modeled as going from the later of the source or descendant nodes.

Hybridization events with dotted lines, indicating ghost lineages, went from the MRCA of the source clade to the MRCA of the recipient taxon.

Trait data comes from fishbase.


bomeara/BMhyb documentation built on Aug. 15, 2018, 11:13 p.m.