add geom_polygon to ggtre objetc

[Oscar Inostroza]

Hello everyone

How could you add a certain polygon as a background in a ggtree object. For example, I built a phenogram with:

p1 <-ggtree (tree_phenogram, aes (color = trait), continuous = TRUE, yscale = "trait") + scale_color_viridis_c () + theme_minimal () + ylim (-1.5,0.6)

 

and as a background, I would like to add a polygon constructed in this way, which represents the 95% CI for the ancestral estimates of the trait

p2 <-ggplot () + geom_polygon (data = data_plot_interval, aes (x = xvals, y = yvals), fill = "gray50") + xlab ("Time") + ylab ("trait") + scale_x_reverse ()

Best regards

I attach a picture of the two charts separately

ps. note that time axis are not in the same order

[Yu, Guangchuang]

already documented in http://yulab-smu.top/treedata-book/faq.html#faq-under-the-tree

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1. G Yu*. Using ggtree to visualize data on tree-like structures. Current Protocols in Bioinformatics. 2020, 69:e96. https://doi.org/10.1002/cpbi.96
2. LG Wang, TTY Lam, S Xu, Z Dai, L Zhou, T Feng, P Guo, CW Dunn, BR Jones, T Bradley, H Zhu, Y Guan, Y Jiang, G Yu*. treeio: an R package for phylogenetic tree input and output with richly annotated and associated data. Molecular Biology and Evolution. 2020, 37(2):599-603. http://dx.doi.org/10.1093/molbev/msz240
3. G Yu*, TTY Lam, H Zhu, Y Guan*. Two methods for mapping and visualizing associated data on phylogeny using ggtree. Molecular Biology and Evolution, 2018, 35(2):3041-3043. https://doi.org/10.1093/molbev/msy194
4. G Yu, DK Smith, H Zhu, Y Guan, TTY Lam*. ggtree: an R package for visualization and annotation of phylogenetic trees with their covariates and other associated data, Methods in Ecology and Evolution, 2017, 8(1):28-36. https://doi.org/10.1111/2041-210X.12628
5. Book: https://yulab-smu.top/treedata-book/
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Guangchuang Yu PhD

Professor, Associate Director

Department of Bioinformatics

School of Basic Medical Sciences

Southern Medical University

Guangzhou, China

www: https://guangchuangyu.github.io

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