[R] How to stack two Stack manhattan plots?

Ana Marija
Thu, 11 Jun 2020 21:50:31 -0000

Thank you so much it is getting better (see attach) when I do:
ggplot( data = tmp.tidy) +geom_point( aes(y = -log10(value),x CHR,color=key)
,position = "jitter", size=0.5 )

is there is a way to have separation between every chromosome shown
better and also every number of chromosome shown on the x-axis?

On Thu, Jun 11, 2020 at 4:39 PM <cpolwart at chemo.org.uk>
wrote:
>
> Your dots are too big!
>
> Add
>
> geom_points(... , size = 1
>
> May need to play... 0.5 or 0.1?
>
> On 11 Jun 2020 22:26, Ana Marija <sokovic.anamarija at gmail.com>
wrote:
>
> I tried it,
> ggplot( data = tmp.tidy) +geom_point( aes(y = BP,x = CHR,color=key)
> ,position = "jitter" )
> I got the attached
>
> On Thu, Jun 11, 2020 at 4:18 PM <cpolwart at chemo.org.uk> wrote:
> >
> > Try adding
> > position = "jitter" to the geom_point(...
> >
> >
> >
> > On 11 Jun 2020 21:41, Ana Marija <sokovic.anamarija at
gmail.com> wrote:
> >
> > Hello,
> >
> > I tried your code and this is what I got
> >
> > I really need two groups side by side shown per chromosome as it is
here:
> > https://imgur.com/a/pj40c
> > on the image there are 4 groups I do have only two
> >
> > On Thu, Jun 11, 2020 at 11:52 AM <cpolwart at chemo.org.uk>
wrote:
> > >
> > > On 2020-06-11 15:59, Ana Marija wrote:
> > > > yes all in one plot.
> > > > So I want key (and therefore color)to be "Pold"
and "Pnew" as those I
> > > > am comparing per CHR
> > > > so I used facet_wrap(~CHR) to create a graph per chromosome
(on x-axis)
> > > > On the end x-axis would have two strikes of Pold and Pnew
(different
> > > > colors) per one chromosome, and CHR would go from 1 to 22
> > > >
> > >
> > >
> > > ggplot( data = tmp.tidy) +
> > > geom_point( aes(
> > >              y = BP,
> > >              x = CHR,
> > >              color=key) )
> > >
> > > ?
> >
> >
>
>