Comments (5)
If you update to the newest MicEco version you can now use the shape="ellipse"
argument, which might make it possible to make a plot with all overlaps
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Dear Camille,
Optimal euler plots are often not theoretically possible to make with more than 3 groups, so the function will just plot the best fitting one, which can exclude some non-zero overlaps.
In the next version of MicEco I will add a message warning the user if some taxa are excluded in the plot.
Best, Jakob
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Thanks Jacob, do you now based on which criteria are those overlaps eliminated? Is there a way to keep them even though the figure looks ugly?
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As far as I know it's not possible. The function uses the R package eulerr, and you can see how it works here: https://cran.r-project.org/web/packages/eulerr/vignettes/under-the-hood.html
It is possible to make quasi-proportional Venn diagrams with nVennR, however I think they can be hard to read: https://cran.r-project.org/web/packages/nVennR/vignettes/nVennR.html
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Ok thanks, maybe I'll stick with Venn diagrams then, as the Euler plot gives the false impression that no OTUs are shared between all forest types.
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Related Issues (20)
- Change order of grouping categories in Venn diagram HOT 2
- Plot ASV counts and relative abundance HOT 5
- ps_venn some advice (percent and label)? HOT 1
- Installation failed HOT 2
- fraction setting and OTUs in venn plot HOT 4
- Supported groups HOT 2
- Can we display percentages for each group rather than across all groups ps_euler HOT 1
- Number of reads to sample when using rarefy_rrna HOT 2
- Using community_rrna with Silva reference database for taxonomy HOT 4
- Error in rep(rrna.rev, times = x[i, ]) : invalid 'times' argument HOT 2
- ps_venn ran fine the first time and then get an error; ps_euler runs fine. HOT 6
- label and percent/count font size and space in between? HOT 1
- ps_venn HOT 3
- ps_venn and ps_euler -- obtain list of shared and not-shared OTUs? HOT 2
- ps_venn HOT 6
- Installation on R (4.0.4) - issue HOT 2
- request to add in export list of unique OTUs and shared OTU HOT 7
- Citation HOT 1
- Font size in ps_venn HOT 4
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