ALE specifications


Unique identifier OMICS_14973
Name Amalgamated likelihood estimation
Software type Package/Module
Interface Command line interface
Restrictions to use None
Input data A dated binary species tree, a set of conditional clade probabilities obtained from a Markov Chain Monte Carlo sample of gene tree topologies.
Output data The reconciled gene trees.
Operating system Unix/Linux
Programming languages C++
License Other
Computer skills Advanced
Stability Stable
Maintained Yes



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  • person_outline Gergely Szöllősi <>

ALE article

ALE institution(s)
Laboratoire de Biométrie et Biologie Evolutive, Centre National de la Recherche Scientifique, Unité Mixte de Recherche 5558, Université Lyon 1, Villeurbanne, France; Université de Lyon, Lyon, France; ELTE-MTA “Lendület” Biophysics Research Group, Budapest, Hungary; Laboratory of Bioinformatics, Faculty of Biology, Adam Mickiewicz University, Pozńan, Poland; Université Claude Bernard Lyon 1, UMR CNRS 5558 - LBBE, Lyon, France; Department of Integrative Biology, University of California, Berkeley, CA, USA; Institut National de Recherche en Informatique et en Automatique Rhône-Alpes, Montbonnot, France
ALE funding source(s)
This work was supported by the Marie Curie Fellowship 253642 “Geneforest” and the Albert Szent-Györgyi Call-Home Researcher Scholarship A1-SZGYA-FOK-13-0005, by a Human Frontier Science Program fellowship, and by the French Agence Nationale de la Recherche (ANR) through Grant (ANR-10-BINF-01-01) “Ancestrome”.

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