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macrosyntR : Drawing automatically ordered Oxford Grids from standard genomic files in R

View ORCID ProfileSami El Hilali, View ORCID ProfileRichard R. Copley
doi: https://doi.org/10.1101/2023.01.26.525673
Sami El Hilali
1Laboratoire de Biologie du Développement de Villefranche-sur-mer (LBDV), Sorbonne Université, CNRS, 06230 Villefranche-sur-mer, France
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  • For correspondence: elhilali.sami@gmail.com
Richard R. Copley
1Laboratoire de Biologie du Développement de Villefranche-sur-mer (LBDV), Sorbonne Université, CNRS, 06230 Villefranche-sur-mer, France
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Abstract

Macrosynteny refers to the conservation of chromosomal to sub-chromosomal domains across species and its conservation can provide insight on the evolution of animal genomes. Pairwise comparison of de-novo assembled genomes based on predicted protein sequences often use a graphical visualization called an Oxford grid. We implemented an R package to draw Oxford grids from standard genomic file formats. The package can automatically order the chromosomes, to improve interpretability, and is thus helpful for both exploratory data analysis and production of publication quality graphics.

Competing Interest Statement

The authors have declared no competing interest.

Footnotes

  • https://CRAN.R-project.org/package=macrosyntR

  • https://github.com/SamiLhll/macrosyntR

Copyright 
The copyright holder for this preprint is the author/funder, who has granted bioRxiv a license to display the preprint in perpetuity. It is made available under a CC-BY-NC-ND 4.0 International license.
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Posted January 27, 2023.
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macrosyntR : Drawing automatically ordered Oxford Grids from standard genomic files in R
Sami El Hilali, Richard R. Copley
bioRxiv 2023.01.26.525673; doi: https://doi.org/10.1101/2023.01.26.525673
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macrosyntR : Drawing automatically ordered Oxford Grids from standard genomic files in R
Sami El Hilali, Richard R. Copley
bioRxiv 2023.01.26.525673; doi: https://doi.org/10.1101/2023.01.26.525673

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