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Investigating Pangenome Graphs Using Wheat Panache

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Plant Genomic and Cytogenetic Databases

Part of the book series: Methods in Molecular Biology ((MIMB,volume 2703))

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.

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Author information

Authors and Affiliations

  1. Centre for Applied Bioinformatics and School of Biological Sciences, The University of Western Australia, Perth, WA, Australia

    Philipp E. Bayer & David Edwards

Authors
  1. Philipp E. Bayer
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  2. David Edwards
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Corresponding author

Correspondence to David Edwards .

Editor information

Editors and Affiliations

  1. Botanical Institute of Barcelona IBB (CSIC-Barcelona City Council), Barcelona, Spain

    Sònia Garcia

  2. Botanical Institute of Barcelona, IBB (CSIC-Barcelona City Council), Barcelona, Spain

    Neus Nualart

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© 2023 The Author(s), under exclusive license to Springer Science+Business Media, LLC, part of Springer Nature

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Bayer, P.E., Edwards, D. (2023). Investigating Pangenome Graphs Using Wheat Panache. In: Garcia, S., Nualart, N. (eds) Plant Genomic and Cytogenetic Databases. Methods in Molecular Biology, vol 2703. Humana, New York, NY. https://doi.org/10.1007/978-1-0716-3389-2_2

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  • DOI: https://doi.org/10.1007/978-1-0716-3389-2_2

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  • Publisher Name: Humana, New York, NY

  • Print ISBN: 978-1-0716-3388-5

  • Online ISBN: 978-1-0716-3389-2

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