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Intertwining phylogenetic trees and networks
Univ Massachusetts, Boston, MA 02125 USA.
Nelson Mandela Univ, Port Elizabeth, South Africa.
Uppsala University, Disciplinary Domain of Science and Technology, Biology, Department of Organismal Biology, Systematic Biology.
Univ Vienna, Vienna, Austria.
2017 (English)In: Methods in Ecology and Evolution, ISSN 2041-210X, E-ISSN 2041-210X, Vol. 8, no 10, p. 1212-1220Article in journal (Refereed) Published
Abstract [en]

1. The fields of phylogenetic tree and network inference have dramatically advanced in the past decade, but independently with few attempts to bridge them.

2. Here we provide a framework, implemented in the phangorn library in R, to transfer information between trees and networks.

3. This includes: (i) identifying and labelling equivalent tree branches and network edges, (ii) transferring tree branch support to network edges, and (iii) mapping bipartition support from a sample of trees (e.g. from bootstrapping or Bayesian inference) onto network edges.

4. ability to readily combine tree and network information should lead to more comprehensive evolutionary comparisons and inferences.

Place, publisher, year, edition, pages
2017. Vol. 8, no 10, p. 1212-1220
Keywords [en]
exploratory data analysis, networks, PHANGORN, R, trees
National Category
Biological Systematics
Identifiers
URN: urn:nbn:se:uu:diva-334806DOI: 10.1111/2041-210X.12760ISI: 000412858600005OAI: oai:DiVA.org:uu-334806DiVA, id: diva2:1160712
Available from: 2017-11-28 Created: 2017-11-28 Last updated: 2018-01-10Bibliographically approved

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Morrison, David A.

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