ColorTree specifications

Information


Unique identifier OMICS_15682
Name ColorTree
Software type Application/Script
Interface Command line interface
Restrictions to use None
Input data A tree file in Newick or NEXUS format, a user-defined configuration file detailing the desired customizations
Output data The customized phylogenic tree
Operating system Unix/Linux, Mac OS, Windows
Programming languages Perl
License GNU General Public License version 2.0
Computer skills Advanced
Version 1.1
Stability Stable
Requirements
BioPerl
Source code URL https://storage.googleapis.com/google-code-archive-downloads/v2/code.google.com/colortree/colorTree.pl
Maintained Yes

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Documentation


Maintainer


  • person_outline Martin Lercher <>

Publication for ColorTree

ColorTree in publications

 (2)
PMCID: 5337931
PMID: 28262734
DOI: 10.1038/srep43566

[…] mega 5.2. the maximum likelihood method was used with the general reversible gtr+i+c4 model. the tree was rooted with the virus gsgd. the coloring and visualization of the tree were done with script colortree.pl and dendroscope, respectively. the detailed phylogenetic tree file is available at http://www.computationalbiology.cn/material/., the time and country for the mrcas of major acs […]

PMCID: 3093408
PMID: 21589882
DOI: 10.1371/journal.pone.0019832

[…] constructed using clustalw (1.83) with pairwise deletions, pairwise distances, kimura amino acid correction and 1000 bootstraps. trees were visualized using dendroscope (v.2.3) and colored using colortree . dot-matrices were calculated with biopython ., we thank michael c. zody at broad institute for providing useful and valuable insights during the entire study, as well as the dog-human […]


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ColorTree institution(s)
Bioinformatics, Heinrich-Heine University Duesseldorf, Germany; European Molecular Biology Laboratory (EMBL), Heidelberg, Germany

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