e-learning
Unicycler assembly of SARS-CoV-2 genome with preprocessing to remove human genome reads
Abstract
In some research or clinical contexts it is not possible, or very hard, to
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
- How can a genome of interest be assembled against a background of contaminating reads from other genomes?
- How can sequencing data from public sources be turned into assembly-ready polished datasets?
Learning Objectives
- Obtain viral (SARS-CoV-2) sequencing data with contaminating human reads from public sources
- Organize the data into collections and check its quality
- Detect and remove human reads
- Assemble retained reads and explore the results
Licence: Creative Commons Attribution 4.0 International
Keywords: Assembly, covid19
Target audience: Students
Resource type: e-learning
Version: 13
Status: Active
Prerequisites:
- Introduction to Galaxy Analyses
- Mapping
- Quality Control
- Unicycler Assembly
- Using dataset collections
Learning objectives:
- Obtain viral (SARS-CoV-2) sequencing data with contaminating human reads from public sources
- Organize the data into collections and check its quality
- Detect and remove human reads
- Assemble retained reads and explore the results
Date modified: 2024-06-14
Date published: 2020-04-21
Scientific topics: Sequence assembly
External resources:
Activity log
