This is the Linux app named BiomeNet whose latest release can be downloaded as BiomeNet.zip. It can be run online in the free hosting provider OnWorks for workstations.
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BiomeNet
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DESCRIPTION
Metagenomics yields enormous numbers of microbial sequences that can be assigned a metabolic function. Using such data to infer community-level metabolic divergence is hindered by the lack of a suitable statistical framework. Here, we describe a novel hierarchical Bayesian model, called BiomeNet (Bayesian inference of metabolic networks), for inferring differential prevalence of metabolic networks among microbial communities. To infer the structure of community-level metabolic interactions, BiomeNet applies a mixed-membership modelling framework to enzyme abundance information. The basic idea is that the mixture components of the model (metabolic reactions, subnetworks, and networks) are shared across all groups (microbiome samples), but the mixture proportions vary from group to group. Through this framework, the model can capture nested structures within the data. BiomeNet is unique in modeling each metagenome sample as a mixture of complex metabolic systems (metabosystems).
Audience
Science/Research
Programming Language
C++, S/R
Categories
This is an application that can also be fetched from https://sourceforge.net/projects/biomenet/. It has been hosted in OnWorks in order to be run online in an easiest way from one of our free Operative Systems.
