FastME pipeline

FastME specifications

Information


Unique identifier OMICS_15882
Name FastME
Interface Web user interface
Restrictions to use None
Input data A data alignment file, a protein alignment file, a distance matrix, and the user's email.
Input format PHYLIP
Output data The inferred phylogenies.
Programming languages C
Computer skills Basic
Version 2.0
Stability Stable
Maintained Yes

Documentation


Maintainer


  • person_outline Olivier Gascuel <>

Information


Unique identifier OMICS_15882
Name FastME
Software type Package/Module
Interface Command line interface
Restrictions to use None
Input data A data alignment file, a protein alignment file, and a distance matrix.
Output data The inferred phylogenies.
Operating system Unix/Linux
Programming languages C
License GNU General Public License version 3.0
Computer skills Advanced
Version 2.0
Stability Stable
Maintained Yes

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Documentation


Maintainer


  • person_outline Olivier Gascuel <>

Publications for FastME

FastME citation

2006
PMCID: 1564419

[…] of combining the two methods of hsp search. accuracy of trees inferred from gbdp distances by three well-known (upgma, nj, and bionj) and two recently described reconstruction methods (stc [49] and fastme [50]) is measured by comparison with current ncbi taxonomy based on c-scores [23]. the c-score is defined as the number of non-trivial splits in the phylogenetic tree under study […]

FastME institution(s)
Institut de Biologie Computationnelle, LIRMM, UMR 5506 CNRS & Université de Montpellier, France
FastME funding source(s)
This work was supported by the Institut Français de Bioinformatique (RENABI-IFB, Investissements d’Avenir).

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