Investigating Pangenome Graphs Using Wheat Panache

Philipp E Bayer; David Edwards

doi:10.1007/978-1-0716-3389-2_2

Investigating Pangenome Graphs Using Wheat Panache

Methods Mol Biol. 2023:2703:23-29. doi: 10.1007/978-1-0716-3389-2_2.

Authors

Philipp E Bayer¹, David Edwards²

Affiliations

¹ Centre for Applied Bioinformatics and School of Biological Sciences, The University of Western Australia, Perth, WA, Australia.
² Centre for Applied Bioinformatics and School of Biological Sciences, The University of Western Australia, Perth, WA, Australia. dave.edwards@uwa.edu.au.

PMID: 37646934
DOI: 10.1007/978-1-0716-3389-2_2

Abstract

Pangenome graphs quickly become the central data structure representing the diversity of variation we see across related genomes. Pangenome graphs have been published for some species, including plants of agronomic interest. However, visualizing these graphs is not easy as the graphs are large, and variants within these graphs are complex. Tools are needed to visualize graph data structures. Here, we present a workflow to search and visualize a wheat pangenome graph using Wheat Panache. The approach presented assists researchers interested in wheat genomics.

Keywords: Genomics; Graph visualization; Pangenome graph; Website; Wheat panache.

MeSH terms

Agriculture*
Genomics
Humans
Research Personnel
Triticum* / genetics
Workflow