Genome Assembly Using Galaxy
This workshop will cover the concepts of de novo assembly and initial annotation of a genome from short-read NGS data. You will be introduced to the widely-used de novo assembly pipeline, including quality checking, trimming, concepts of filtering, concepts of annotation and use a selection of tools to identify genomic features of interest.
The workshop will be based in Galaxy, a platform that provides a simple and user-friendly interface to bioinformatics tools.
Recommended Participants
Biologists and bioinformaticians interested in genome sequencing and the assembly process, particularly for bacteria. No prior bioinformatics knowledge is required.
Learning Objectives
Perform QC evaluation and filtering on next-generation sequencing data
Carry out a bacterial genome assembly using the Galaxy interface
Generate preliminary annotation data for a bacterial genome sequence
Use comparative genomics approaches to identify large genomic insertions and deletions
Syllabus
Tools and workflows of de novo genome assembly
Online resources for bacterial genome annotation
Identifying genomic features of interest, including insertions, deletions and duplications
Use of the Galaxy platform for genome analysis
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