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PhySIC specifications

Information


Unique identifier OMICS_08820
Name PhySIC
Alternative name PHYlogenetic Signal with Induction and non-Contradiction
Software type Package/Module
Interface Command line interface
Restrictions to use None
Operating system Unix/Linux, Mac OS
Programming languages C++
Computer skills Advanced
Stability Stable
Maintained Yes

Versioning


No version available

Maintainer


  • person_outline Celine Scornavacca

Information


Unique identifier OMICS_08820
Name PhySIC
Alternative name PHYlogenetic Signal with Induction and non-Contradiction
Interface Web user interface
Restrictions to use None
Programming languages C++
Computer skills Basic
Stability Stable
Maintained Yes

Maintainer


  • person_outline Celine Scornavacca

Publication for PHYlogenetic Signal with Induction and non-Contradiction

PhySIC citations

 (3)
library_books

Polynomial Supertree Methods Revisited

2011
Adv Bioinformatics
PMCID: 3249592
PMID: 22229028
DOI: 10.1155/2011/524182

[…] dded in our software framework EPoS (http://bio.informatik.uni-jena.de/epos/) []. MMC trees were generated using Rod Page's implementation (http://darwin.zoology.gla.ac.uk/~rpage/supertree/). For the PhySIC and PhySIC_IST supertrees, we used the implementations provided by the authors of the corresponding papers (http://www.atgc-montpellier.fr/physic/binaries.php, http://www.atgc-montpellier.fr/ph […]

call_split

An experimental study of Quartets MaxCut and other supertree methods

2011
PMCID: 3101644
PMID: 21504600
DOI: 10.1186/1748-7188-6-7
call_split See protocol

[…] on three ways of encoding the source trees as sets of quartet trees and then applying QMC, as described above. Finally, we computed supertrees using five other methods: Q-Imp, RFS, MinFlip, SFIT, and PhySIC (See Appendix [Additional file ] for details on software and commands used).Because MinFlip, RFS, and PhySIC require that the source trees be rooted, we rooted each source tree at the midpoint […]

library_books

Constructing majority rule supertrees

2010
PMCID: 2826330
PMID: 20047658
DOI: 10.1186/1748-7188-5-2

[…] asic ILP formulation compare well with the published ones. For Drosophila A we obtained exactly the same tree reported in []. For Primates, the output is exactly the same as [], which was produced by PhySIC method. The coincidence with PhySIC is noteworthy, since this supertree is less controversial than the MRP, Mincut, and PhySICPC supertrees reported in []. The reason for the coincidence may li […]

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PhySIC institution(s)
Institut des Sciences de l'Evolution (ISEM, UMR 5554 CNRS), Université Montpellier II, Montpellier, France; Laboratoire d'Informatique, de Robotique et de Microélectronique de Montpellier (LIRMM, UMR 5506, CNRS), Université Montpellier II, Montpellier, France

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