[R] How to stack two Stack manhattan plots?

[cpoiw@rt m@iii@g oii chemo@org@uk]

On 2020-06-11 14:54, Ana Marija wrote:
> Hello,
> 
> I expected it to look like this:
> https://imgur.com/a/pj40c
> 

Ah - so all on the one plot? - so you don't want a facet. It puts two 
plots side by side (or 22)

> where x-axis would be CHR, there is 22 of them
>> unique(tmp.tidy$CHR)
>  [1]  1  2  3  4  5  6  7  8  9 10 11 12 13 14 15 16 17 18 19 20 21 22
> 

You have 22 plots all appearing side by size as part of the facet

I think you want color=CHR - but I don't know what your current color 
setting is doing.

> I also have two phenotypes (keys) which I would like to compare
>> unique(tmp.tidy$key)
> [1] "Pold" "Pnew"
> 

So did you want to Facet those?