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Genonets specifications

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Unique identifier OMICS_15849
Name Genonets
Software type Package/Module
Interface Command line interface
Restrictions to use None
Input data A genotype/phenotype report.
Input format TXT
Output data A pathway or network file.
Operating system Unix/Linux, Mac OS, Windows
Programming languages Python
License MIT License
Computer skills Advanced
Version 1.1.6
Stability Stable
Maintained Yes

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Maintainer


  • person_outline Joshua Payne <>

Publication for Genonets

Genonets citations

 (2)
library_books

RNA mediated gene regulation is less evolvable than transcriptional regulation

2018
PMCID: 5899451
PMID: 29581298
DOI: 10.1073/pnas.1719138115

[…] where s2′ is the reverse complement of s2. for rbps, we calculated the mutational distance between two rna sequences s1 and s2 as m(s1,s2). we constructed genotype networks in this way using the genonets server (), which we also used to measure robustness and evolvability as well as the overlap among genotype networks., we use the nonparametric, one-sided wilcoxon rank sum test of the null […]

library_books

Effect of Population Size and Mutation Rate on the Evolution of RNA Sequences on an Adaptive Landscape Determined by RNA Folding

2017
PMCID: 5666329
PMID: 29104505
DOI: 10.7150/ijbs.19436

[…] dropped below this threshold later on, and then exceeded the threshold once again at a later time, we considered that the sequence underwent only one fixation event., we used the python package genonets to find fitness peaks in the adaptive landscape defined on the genotype network of sequences with the same structure. the package requires a minimal fitness differential δ between two […]


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Genonets institution(s)
Department of Evolutionary Biology and Environmental Studies, University of Zurich, Zurich, Switzerland; Swiss Institute of Bioinformatics, Quartier Sorge-Batiment Genopode, Lausanne, Switzerland; The Santa Fe Institute, Santa Fe, NM, USA
Genonets funding source(s)
Supported by Ambizione program of the Swiss National Science Foundation [PZ00P3-154773]; Forschungskredit program of the University of Zurich [FK-14-076]; Swiss National Science Foundation [31003A 146137]; University Priority Research Program in Evolutionary Biology at the University of Zurich.

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