Computational Tools and Models
Computation Of Microbial Ecosystems in Time and Space (COMETS)
COMETS on GitHub. Learn more about the software and the Segrè Lab at Boston University.
Metabolite, Annotation and Gene Integration (MAGI)
MAGI is a tool to quickly find and score consensus between metabolite identifications and gene annotations.
Scripts for analyzing multispecies microbial community yields and taxonomic composition as functions of environmental complexity.
Scripts to run evolutionary search algorithms for microbial community design.
Web-based visualization, analysis and management of mass spectrometry imaging data.
Metabolite Atlas is a Python-based workflow for efficient and accurate analysis of mass spectrometry datasets.
Various data analysis tools for metabolomic and other information.
Experimental Data in Databases
Web of Microbes (WoM)
Other Experimental Data
Microbial Community Field Surveys Reveal Abundant Pseudomonas Population in Sorghum Rhizosphere Composed of Many Closely Related Phylotypes: [doi]:10.3389/fmicb.2021.598180. NCBI repository/repositories and accession number(s): SRP130758, SRP130755, SRP130757, SRP130767, SRP130775, SRP135653, SRP165130, PRJNA692505.
Dynamic root exudate chemistry and microbial substrate preferences drive patterns in rhizosphere microbial community assembly: [doi]:10.1038/s41564-018-0129-3. Global Natural Products Social Molecular Networking accession number(s): MSV000081804, MSV000081808, MSV000081810. Supplementary data.