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The Newick utilities: high-throughput phylogenetic tree processing in the UNIX shell

Published in Bioinformatics. 2010, vol. 26, no. 13, p. 1669-1670
Abstract SUMMARY: We present a suite of Unix shell programs for processing any number of phylogenetic trees of any size. They perform frequently-used tree operations without requiring user interaction. They also allow tree drawing as scalable vector graphics (SVG), suitable for high-quality presentations and further editing, and as ASCII graphics for command-line inspection. As an example we include an implementation of bootscanning, a procedure for finding recombination breakpoints in viral genomes. AVAILABILITY: C source code, Python bindings and executables for various platforms are available from http://cegg.unige.ch/newick_utils. The distribution includes a manual and example data. The package is distributed under the BSD License. CONTACT: thomas.junier@unige.ch
Keywords Computational Biology/*methodsComputer GraphicsLikelihood Functions*PhylogenyProgramming LanguagesSequence AlignmentSoftware
PMID: 20472542
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Research group Génomique Evolutionnaire Computationnelle (830)
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JUNIER, Thomas, ZDOBNOV, Evgeny. The Newick utilities: high-throughput phylogenetic tree processing in the UNIX shell. In: Bioinformatics, 2010, vol. 26, n° 13, p. 1669-1670. doi: 10.1093/bioinformatics/btq243 https://archive-ouverte.unige.ch/unige:21032

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Deposited on : 2012-05-23

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