Network Inference & Microbial Ecology Models — Hands-on

Learn how to move from microbiome abundance tables to interpretable ecological networks. You will explore association frameworks, build sparse co-occurrence networks, interpret topology and keystone taxa, and summarize microbial ecology models in a way that supports hypothesis generation, intervention design and downstream simulation work.

Network Inference and Microbial Ecology Models

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Session Index

Session 1 — Microbial Ecology Concepts & Network Thinking Session 2 — From Abundance Tables to Association Matrices Session 3 — Network Topology, Keystone Taxa & Ecology Models Session 4 — Mini Capstone: Microbial Ecology Network Report

Session 1

Fee: Rs 8800

Microbial Ecology Concepts & Network Thinking

Microbial ecology interactions and community structure

competition, mutualism and commensalism niche vs neutral perspectives stability, resilience and regime shifts

Why use networks for microbiome data

moving beyond univariate associations capturing multi taxon interaction patterns bridging to dynamical models and simulations

Limitations of naive co occurrence and correlation views

compositionality and spurious correlations indirect vs direct associations mindset confounding by environment and host factors

Session 2

Fee: Rs 11800

From Abundance Tables to Association Matrices

Preparing microbiome feature tables for network inference

choice of taxonomic or functional resolution prevalence and abundance filtering ideas transformations and scale considerations

Association and correlation frameworks for microbiomes

Spearman and rank based thinking compositionality aware ideas (log ratios, proportionality) sparsity and zero inflation awareness

Sparsity oriented and graphical model perspectives

partial correlation and conditional dependence graphical model style inference concepts controlling density and multiple testing

Session 3

Fee: Rs 14800

Network Topology, Keystone Taxa & Ecology Models

From association matrices to graphs and layouts

edge filtering and thresholding ideas signed vs unsigned networks visualization and layout choices

Network topology and keystone taxon concepts

degree, centrality and hubs modules, communities and guilds candidate keystone taxa thinking

Ecological interpretation and links to dynamical models

network robustness and perturbation ideas hypothesis generation for interventions network views as inputs to simulation models

Session 4

Fee: Rs 18800

Mini Capstone: Microbial Ecology Network Report

End to end network inference on a cohort

Theory plus guided practical

Interpreting modules, hubs and keystone candidates with metadata

linking network features to phenotypes clinical, environmental and industrial examples caveats on causality and over interpretation

Deliverables: adjacency tables, network plots & methods block

association and adjacency matrices network and module visualization panels reusable network analysis methods text

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Network Inference & Microbial Ecology Models Training | Co-Occurrence & Ecological Networks

Network Inference & Microbial Ecology Models — Hands-on