AVATAR specifications

Information


Unique identifier OMICS_25271
Name AVATAR
Software type Application/Script
Interface Command line interface
Restrictions to use None
Output data A summary header and an enumeration of the attractors found.
Operating system Unix/Linux
Programming languages Perl
Computer skills Advanced
Stability Stable
Requirements
Gnuplot
Source code URL http://compbio.igc.gulbenkian.pt/nmd/sites/compbio.igc.gulbenkian.pt.nmd/files/FirefrontAvatar.tar_.gz
Maintained Yes

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Maintainer


  • person_outline Pedro Monteiro <>

Publication for AVATAR

AVATAR in publications

 (2)
PMCID: 5624635
PMID: 28968438
DOI: 10.1371/journal.pone.0185794

[…] there are no oscillations and the positive circuit wip1/p53/mir16 dominates the cell fate process., in we present an estimate of the probabilities of each phenotype for the wild-type case using the avatar algorithm (exact exit probabilities) in ginsim with 750 runs. the other parameters of the algorithm were set to the default values. the algorithm performs an exhaustive search in the state […]

PMCID: 4885885
PMID: 27303434
DOI: 10.3389/fgene.2016.00094

[…] figure ). hence a htg provides an informative view of the dynamics in terms of attractors and their basins of attraction., to quantify attractor reachability, mendes et al. () presented avatar, a monte carlo simulation algorithm adapted to speed up exit from transient cycles and to identify complex attractors if those are not known beforehand. avatar allows to estimate […]


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AVATAR institution(s)
Instituto Gulbenkian de Ciencia, Oeiras, Portugal; Institut de Mathematiques de Luminy, Marseille, France; Instituto de Engenharia de Sistemas e Computadores - Investigaçao e Desenvolvimento (INESC-ID), Lisbon, Portugal; IBET, Oeiras, Portugal
AVATAR funding source(s)
Supported by Fundacao para a Ciencia e a Tecnologia (FCT, Portugal) and grants PTDC/EIA-CCO/099229/2008, PEst-OE/EEI/LA0021/2013 and IF/01333/20133.

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