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bioRxiv · 10.1101/249391

Treemmer: a tool to reduce large phylogenetic datasets with minimal loss of diversity

Menardo, F.·Loiseau, C.·Brites, D.·Coscolla, M.·Gygli, S.·Rutaihwa, L.·Trauner, A.·Beisel, C.·Borrell, S.·Gagneux, S.
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Abstract

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.\n\nTreemmer 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.

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Menardo, F., Loiseau, C., Brites, D., Coscolla, M., Gygli, S., Rutaihwa, L., Trauner, A., Beisel, C., Borrell, S., Gagneux, S.. 2018-01-19. Treemmer: a tool to reduce large phylogenetic datasets with minimal loss of diversity. https://doi.org/10.1101/249391

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