TPMS: a set of utilities for querying collections of gene trees.

ABSTRACT:

Background

The information in large collections of phylogenetic trees is useful for many comparative genomic studies. Therefore, there is a need for flexible tools that allow exploration of such collections in order to retrieve relevant data as quickly as possible.

Results

In this paper, we present TPMS (Tree Pattern-Matching Suite), a set of programs for handling and retrieving gene trees according to different criteria. The programs from the suite include utilities for tree collection building, specific tree-pattern search strategies and tree rooting. Use of TPMS is illustrated through three examples: systematic search for incongruencies in a large tree collection, a short study on the Coelomata/Ecdysozoa controversy and an evaluation of the level of support for a recently

SUBMITTER: Bigot T 

PROVIDER: S-EPMC3655882 | biostudies-literature | 2013 Mar

REPOSITORIES: biostudies-literature