Shotgun Metagenomics Data Analysis Workshop (30-Day, Online)
Profile microbial taxonomy, reconstruct metagenome-assembled genomes (MAGs), and annotate metabolic pathways.
Next batch
- Duration: 30 days, 6 modules, online
- Fee: MRP ₹5,000 (incl. GST)
About this workshop
Shotgun metagenomics sequences all the DNA in a community instead of a single marker gene, so it can show not only which organisms are present but also what they are able to do. It also allows genomes to be recovered from the mixture. This workshop starts with removing host DNA and profiling taxa directly from the reads, then moves to assembling the mixed data and grouping contigs into draft genomes, or bins, whose completeness and contamination you will assess. You predict genes and annotate their functions, including metabolic pathways and resistance genes. The final modules compare diversity and abundance between groups and connect organisms to functions, so you can answer who is there and what they are doing.
Our research: Explore our team's published microbiome investigations: Tina Roy et al. (2025), Advancement in rhizospheric microbial diversity analysis: an updated perspective (DOI: 10.1007/s13562-025-01013-3) and Tina Roy et al. (2024), Rhizosphere Microbiome-Assisted Approaches for Biotic Stress Management (DOI: 10.1007/978-981-97-4239-4_8).
Tools and pipelines you will use
This workshop emphasizes standard, open-source bioinformatics tools widely used in peer-reviewed genomics literature:
What you will learn
Module 1
Foundations
Week 1
Module 2
Host removal and profiling
Module 3
Assembly and binning
Module 4
Functional profiling
Module 5
Comparative analysis
Module 6
Mini-project and report
Week 4
What you receive & prerequisites
What you receive
- 30 days of structured online self-paced access & mentor guidance
- Curated real-world NGS benchmark datasets
- Reusable pipeline scripts and command-line code templates
- Independent capstone mini-project evaluation
- Certificate of Completion issued by Xenoi Biotech Pvt. Ltd.
Prerequisites & setup
- Basic life science background (B.Sc., M.Sc., B.Tech, or research scholar)
- No prior programming or Linux experience required (covered in Module 1)
- Laptop or PC with 8 GB RAM and internet access
- Remote compute setup instructions provided during onboarding
Frequently asked questions
Is this Whole-genome (shotgun) metagenomics workshop delivered online?
Yes. All Xenoi Biotech workshops are delivered 100% online, allowing researchers and students across India and internationally to participate with remote compute support.
How long is the workshop and what is the workload?
The workshop runs for 30 days across 6 structured modules. Learners typically dedicate 1 to 2 flexible hours per day to work through pipeline commands, code exercises, and the mini-project.
Who is this workshop designed for?
It is built for B.Sc., M.Sc., and Ph.D. students, postdoctoral researchers, faculty members, and industry professionals in biotechnology, biochemistry, microbiology, and medicine who need to analyze NGS datasets independently.
What will I learn in this workshop?
You will learn host decontamination with KneadData, exact k-mer taxonomic profiling with Kraken2 and Bracken, de novo metagenome assembly with MEGAHIT, MAG binning with MetaBAT2, CheckM quality scoring, and metabolic pathway quantification in HUMAnN 3.
What are the fees, dates, and enrollment details?
The workshop fee is MRP ₹5,000, inclusive of GST. Batch dates are shared on enquiry. Use the Enrol now button to reserve your place or receive the upcoming schedule.
Fees, dates and batches
The workshop fee is MRP ₹5,000 (incl. GST). Batch dates and onboarding materials are shared upon enquiry.
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