Unlocking the Metagenome: Pipeline for Microbiome Data Analysis.- Targeted Metagenomics using Next Generation Sequencing Methods.- Exploring the Ocean's Microbial World: Techniques and Protocols for Microbiome Research.- Shotgun Metagenomic Analysis of Microbial Community Dynamics in Wastewater Treatment Through Constructed Wetlands.- Dilution-to-Stimulation: A Method for Selecting Polymer-Transforming Microbial Consortia.- Computational Microbial and Viral Ecology Analysis.- Identifying Differential Network Properties and Driver Microbes in Microbial Association Networks using CompNet and NetShift.- Estimating Effective Pairwise Interactions to Predict the Structures of Microbial Communities (EPICS).
- Evaluating Metabolic Support in Pairwise Microbial Communities Using MetQuest.- Constraint-Based Metabolic Modelling Approach for Microbial Communities.- Constraint-Based Modelling of Microbial Communities for Metabolite Production.- Personalized Constraint-Based Modeling of Microbial Communities from Metagenomic Data.- Predicting Interspecies Metabolic Dependencies in Microbial Communities by Integrating Flux Coupling Analysis with SteadyCom.- Describing and Designing Microbial Community Metabolic Models In Silico: A Comprehensive Protocol Utilizing FLYCOP.- Dynamic Simulation of Growth and Cross-Feeding in Microbiomes with µbialSim.- LambdaPy and LambdaR: Thermodynamics-Based Biogeochemical Reaction Modeling Packages for Integrating High-Resolution Mass Spectrometry Data.