RT Journal Article
SR Electronic
T1 Treemmer: a tool to reduce large phylogenetic datasets with minimal loss of diversity
JF bioRxiv
FD Cold Spring Harbor Laboratory
SP 249391
DO 10.1101/249391
A1 Fabrizio Menardo
A1 Chloé Loiseau
A1 Daniela Brites
A1 Mireia Coscolla
A1 Sebastian M. Gygli
A1 Liliana K. Rutaihwa
A1 Andrej Trauner
A1 Christian Beisel
A1 Sonia Borrell
A1 Sebastien Gagneux
YR 2018
UL http://biorxiv.org/content/early/2018/01/19/249391.abstract
AB Large sequence datasets are difficult to visualize and handle. Additionally, they are often not an adequate representation of the natural diversity, but the result of uncoordinated and convenience sampling. Consequently, they can suffer from redundancy and sampling biases. Here we present Treemmer, a simple tool to evaluate the redundancy of phylogenetic trees and reduce their complexity by eliminating leaves that contribute the least to the tree diversity.Treemmer can reduce the size of datasets with different phylogenetic structures and levels of redundancy while maintaining a sub-sample that is representative of the original diversity.