Bioinformatics Tool Development
Annotation of Metabolite Origin via Networks: A tool for predicting putative metabolite origins for microbes or between microbes and host.
AMON uses information in KEGG to determine whether compounds in a metabolome could have been produced by different gene sets from genomes or metagenomes.
Sparse Cooccurrence Network Investigation for Compositional data Pronounced 'scenic'.
SCNIC is a package for the generation and analysis of cooccurrence (positive correlation) networks with compositional microbiome data.
Co-occuring modules of microbes can be defined and summarized for downstream statistical analysis.