Hybrid Genome Assembly of Short and Long Reads in Galaxy

Tazro Ohta; Yuh Shiwa

doi:10.1007/978-1-0716-2996-3_2

Hybrid Genome Assembly of Short and Long Reads in Galaxy

Methods Mol Biol. 2023:2632:15-30. doi: 10.1007/978-1-0716-2996-3_2.

Authors

Tazro Ohta¹, Yuh Shiwa²

Affiliations

¹ Database Center for Life Science, Joint Support-Center for Data Science Research, Research Organization of Information and Systems, Mishima, Shizuoka, Japan.
² Laboratory of Bioinformatics, Department of Molecular Microbiology, Faculty of Life Sciences, Tokyo University of Agriculture, Setagaya, Tokyo, Japan. y3shiwa@nodai.ac.jp.

PMID: 36781718
DOI: 10.1007/978-1-0716-2996-3_2

Abstract

Galaxy is a web browser-based data analysis platform that is widely used in biology. Public Galaxy instances allow the analysis of data and interpretation of results without requiring software installation. NanoGalaxy is a public Galaxy instance with tools and workflows for nanopore data analysis. This chapter describes the steps involved in performing genome assembly using short and long reads in NanoGalaxy.

Keywords: Galaxy; Hybrid genome assembly; Long-read sequencing; Nanopore sequencing; Visualizations; Workflow.

Publication types

Research Support, Non-U.S. Gov't

MeSH terms

High-Throughput Nucleotide Sequencing / methods
Nanopores*
Sequence Analysis, DNA / methods
Software*
Web Browser
Workflow