Hybrid Assembly & MAG Curation — Hands-on

Learn how to combine short and long reads to generate high quality metagenome assembled genomes (MAGs) . This module walks through hybrid assembly design, binning, refinement and curation so you can produce robust MAG catalogues for taxonomic and functional downstream analyses.

Hybrid Assembly & MAG Curation

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Session Index

Session 1 — Hybrid Sequencing Design for MAGs Session 2 — Hybrid Assembly Workflows (Short + Long Reads) Session 3 — Binning, Refinement & MAG QA/QC Session 4 — Mini Capstone: Curated MAG Catalogue

Session 1

Fee: Rs 8800

Hybrid Sequencing Design for MAGs

Why hybrid assembly for metagenomes and MAGs

short vs long read strengths and weaknesses resolving repeats, plasmids and mobile elements impact on MAG continuity and accuracy

Study design for hybrid metagenomic projects

depth targets for short and long reads sample selection and pooling strategies technical and biological replicates planning

Input data QC checkpoints before hybrid assembly

quality and adapter trimming for short reads length and quality distribution for long reads host read removal and contamination screening

Session 2

Fee: Rs 11800

Hybrid Assembly Workflows (Short + Long Reads)

Assembly strategies for hybrid metagenomes

short read first vs long read first approaches co assembly vs sample wise assemblies handling highly uneven coverage

Running hybrid assembly tools step by step

preparing input files and configs monitoring resource usage and run logs common failure modes and fixes

Evaluating assembly quality and contig sets

N50, length distributions and coverage checking for chimeric contigs and artefacts preparing contigs for binning workflows

Session 3

Fee: Rs 14800

Binning, Refinement & MAG QA/QC

Genome binning from hybrid assemblies

coverage and composition based binning using multiple binners for consensus bins handling low abundance and rare genomes

MAG refinement and decontamination strategies

splitting and merging candidate bins removing contaminant contigs by coverage and taxonomy improving completeness with targeted searches

MAG QA/QC and basic taxonomic assignment

completeness and contamination metrics quality tiers and reporting standards assigning MAGs to known and novel taxa

Session 4

Fee: Rs 18800

Mini Capstone: Curated MAG Catalogue

End to end hybrid assembly and MAG workflow

theory plus guided practical on a real dataset

Building a MAG catalogue ready for downstream analysis

final MAG set with quality annotations simple functional and taxonomic summaries export formats for pangenome and pathway tools

Deliverables: curated MAGs, metadata sheet and report

MAG FASTA files and quality table R or Python analysis notebook PDF or HTML hybrid assembly and MAG report

PDF

Hybrid Assembly & MAG Curation Training | Hybrid Metagenome Assembly & Genome Binning

Hybrid Assembly & MAG Curation — Hands-on