Baobab statistics

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Baobab specifications

Information


Unique identifier OMICS_04818
Name Baobab
Software type Package/Module
Interface Graphical user interface
Restrictions to use None
Operating system Unix/Linux, Mac OS, Windows
Programming languages Java
Computer skills Medium
Version 3.31
Stability Stable
Maintained Yes

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Maintainer


  • person_outline Julien Dutheil <>

Publication for Baobab

Baobab in pipeline

2009
PMCID: 2719641
PMID: 19594938
DOI: 10.1186/1471-2229-9-88

[…] v3.68 . frequency based distances were assigned to the consensus tree using fitch (in phylip package). the neighbor-joining shared allele consensus tree was then edited for presentation using baobab [] and adobe illustrator (adobe systems, san jose, ca)., est: expressed sequence tag; bac: bacterial artificial chromosome; bes: bac end sequence; ssr: simple sequence repeat; pcr: polymerase […]


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Baobab in publications

 (3)
PMCID: 2844399
PMID: 20175922
DOI: 10.1186/1756-0381-3-1

[…] format it allows the creation and the interactive modification of a tree, the addition and deletion of nodes, moving of branches and nodes, changing of leaf names and of parameterization settings. baobab allows users to manage sequence files along with a tree. supported formats for input and output include fasta, phylip and clustal []. it does not come with many layout algorithms […]

PMCID: 2719641
PMID: 19594938
DOI: 10.1186/1471-2229-9-88

[…] v3.68 . frequency based distances were assigned to the consensus tree using fitch (in phylip package). the neighbor-joining shared allele consensus tree was then edited for presentation using baobab [] and adobe illustrator (adobe systems, san jose, ca)., est: expressed sequence tag; bac: bacterial artificial chromosome; bes: bac end sequence; ssr: simple sequence repeat; pcr: polymerase […]

PMCID: 2530865
PMID: 18598358
DOI: 10.1186/gb-2008-9-7-r106

[…] initial reference msa (containing gaps). the initial reference tree (composed of 199 branches including internal ones) was also reduced by pruning branches leading to the non-selected leaves using baobab []., the reduced reference tree has 99 branches (including internal branches); the constraint on the topology of the reduced reference tree thus defined 99 possible branching positions […]


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Baobab institution(s)
CNRS UMR 5000 - 'Génome, Populations, Interactions', Université Montpellier 2, France

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