Metagenome Assembly and Binning MAGs — Hands-on

Learn how to go from cleaned shotgun metagenomic reads to assembled contigs and high quality metagenome assembled genomes (MAGs) . You will compare assembly strategies, configure binning and refinement workflows, and produce MAG reports aligned with community quality guidelines.

Metagenome Assembly and Binning MAGs

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Session Index

Session 1 — Metagenome Assembly Concepts & Strategies Session 2 — Assembly Workflows, Parameters & QC Session 3 — Binning Strategies, Refinement & MAG Curation Session 4 — Mini Capstone: MAGs from Reads

Session 1

Fee: Rs 8800

Metagenome Assembly Concepts & Strategies

Assembly goals in metagenomics

contigs and scaffolds MAG recovery strain and plasmid context

Assembly paradigms and graph concepts

de Bruijn graphs k mer spectra complexity and repeats

Per sample vs co assembly strategies

when to co assemble cohorts heterogeneity and coverage resource and runtime trade offs

Session 2

Fee: Rs 11800

Assembly Workflows, Parameters & QC

Short and long read assembly workflows

short read only assemblies hybrid assembly concepts resource planning and parallelism

Parameter selection and optimization thinking

k mer size choices minimum contig length coverage filters and heuristics

Assembly QC metrics and interpretation

N50 and L50 assembly size vs expected misassembly and contamination signals

Session 3

Fee: Rs 14800

Binning Strategies, Refinement & MAG Curation

Binning based on composition and coverage

tetranucleotide composition differential coverage profiles co assembly coverage matrices

Combining and refining bins from multiple tools

consensus and dereplication logic manual curation workflows avoiding chimeric bins

Initial MAG curation and tracking

naming conventions versioned bin sets metadata for downstream QA tools

Session 4

Fee: Rs 18800

Mini Capstone: MAGs from Reads

End to end assembly and binning on a cohort

Theory plus guided practical

MAG selection, QC summary and basic annotation view

completeness and contamination metrics basic taxonomic placement prioritizing MAGs for downstream analysis

Deliverables: assemblies, bin sets and methods text

FASTA assemblies and MAGs QC tables and plots reproducible workflow description

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Metagenome Assembly and Binning MAGs Training | Assembly Strategies & MAG Recovery

Metagenome Assembly and Binning MAGs — Hands-on