Visual Integration of Genome-Wide Association Studies and Differential Expression Results with the Hidecan R Package.
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Date
2024-09-25
Open Access Location
Authors
Angelin-Bonnet O
Vignes M
Biggs PJ
Baldwin S
Thomson S
Journal Title
Journal ISSN
Volume Title
Publisher
MDPI (Basel, Switzerland)
Rights
(c) 2024 The Author/s
CC BY 4.0
CC BY 4.0
Abstract
Background/Objectives: We present hidecan, an R package for generating visualisations that summarise the results of one or more genome-wide association studies (GWAS) and differential expression analyses, as well as manually curated candidate genes, e.g., extracted from the literature. This tool is applicable to all ploidy levels; we notably provide functionalities to facilitate the visualisation of GWAS results obtained for autotetraploid organisms with the GWASpoly package.
Results: We illustrate the capabilities of hidecan with examples from two autotetraploid potato datasets.
Conclusions: The hidecan package is implemented in R and is publicly available on the CRAN repository and on GitHub. A description of the package, as well as a detailed tutorial, is made available alongside the package. It is also part of the VIEWpoly tool for the visualisation and exploration of results from polyploids computational tools.
Description
Keywords
R package, autotetraploid, differential expression, genome-wide association studies, visualisation, Genome-Wide Association Study, Solanum tuberosum, Software, Humans, Computational Biology
Citation
Angelin-Bonnet O, Vignes M, Biggs PJ, Baldwin S, Thomson S. (2024). Visual Integration of Genome-Wide Association Studies and Differential Expression Results with the Hidecan R Package.. Genes (Basel). 15. 10. (pp. 1244-).