e-learning
Remove contamination and host reads
Abstract
Metagenomic sequencing captures all DNA present in a sample, including the microbial community, host DNA, and potential environmental or external contaminants (such as human DNA introduced during sample handling or sequencing).
About This Material
This is a Hands-on Tutorial from the GTN which is usable either for individual self-study, or as a teaching material in a classroom.
Questions this will address
- What preprocessing steps are required to obtain cleaned reads for downstream analysis?
- How can we identify and remove contaminant or host-derived reads from raw sequencing data?
Learning Objectives
- Identify reads originating from contaminants or host genomes.
- Remove those reads to produce high-quality, clean metagenomic data suitable for downstream analyses.
Licence: Creative Commons Attribution 4.0 International
Keywords: Microbiome
Target audience: Students
Resource type: e-learning
Version: 1
Status: Active
Prerequisites:
Introduction to Galaxy Analyses
Learning objectives:
- Identify reads originating from contaminants or host genomes.
- Remove those reads to produce high-quality, clean metagenomic data suitable for downstream analyses.
Date modified: 2025-12-18
Date published: 2025-12-18
Scientific topics: Metagenomics, Microbial ecology
External resources:
Activity log
