Question: R: Manhattan Plot of LRT Values Instead Of -Log10(p)
Hi all!
Do you know how to make a manhattan plot of LRT values instead of -log10(p) for regional heritability mapping analysis?
The results file consists of the following columns:
CHR SNP BP LRT
Many thanks!
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bernatgel
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valentinatsar •
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valentinatsar •
1 answer
Hi, you might want to take a look at kpPlotManhattan from karyoploteR. With it you can create a manhattan plot with correct x coordinates and can plot any values you want. By default it will transform the values with -log10 but you can disable with with "logp=FALSE".
If you need it, you can also create zoomed plots of smaller regions (peaks, for example) and add other data such as genes or virtually anything else.
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