[R-meta] Jitter points in the contour-enhanced funnel plot

Fri, Jul 20, 2018 1:41 PM

Hello Michael,

Thank you very much for your reply. Yes, I did jitter the effect size or
variance before running rma. But I did not find difference of the funnel
plot plotted using this method.

I am sorry but I really have a question about jittering the points in the
function of "funnel plot". I tried to go through the arguments and I really
do not know where I can put the jitter function in the code. I can't jitter
the regression model itself (as it is an object) and I can't jitter other
arguments as well because the other arguments are related to the graph
itself, for example y-axis and x-axis. I would very much appreciate it if
you can give me more tips here. I am a beginner of R (only knowing how to
run several analyses in R, so my knowledge of creating a function in R is
very limited).

Thanks,
Angeline

On Fri, Jul 20, 2018 at 3:56 AM, Michael Dewey <lists at dewey.myzen.co.uk>
wrote:

Dear Angeline

Yes, that was what I meant. Of course then the result of rma.uni() will be
very slightly different but you are using the funnel plot as what Tukey
called an impact graphic as opposed to an archive graphic so the fact that
the contours may not be in precisely the same place is not going to be
critical to your purposes.

If that does not work then I suggest going through the code of funnel.rma
and finding where it plots the points and then making you own function with
jitter added in to the call(s). That way you would still be using your
original fit.

Michael

On 20/07/2018 00:39, Angeline Tsui wrote:

Dear Michael,

Thank you very much for your reply. I actually tried different plot
symbol, but it didn't help much.

For the jitter function, do you mean that I need to simply use the jitter
function with the effect size or var before running the regression and
later plot the regression model with funnel plot?

Thanks again,
Angeline

On Thu, Jul 19, 2018 at 5:41 AM, Michael Dewey <lists at dewey.myzen.co.uk
<mailto:lists at dewey.myzen.co.uk>> wrote:

    Dear Angeline

    The first thing I would try is using a different plot symbol. A
    hollow circle or a cross might help if the points are not absolutely
    identical. The second thing would be to re-run the meta-analysis
    with the values of yi and sei (or vi) with added jitter, perhaps
    using the jitter() function for that.

    Michael

    On 18/07/2018 14:58, Angeline Tsui wrote:

        Dear all,

        I plotted the studies in my meta-analysis in a contour-enhanced
        funnel
        plot. In my meta-analysis, I have about 140 studies. However,
        when I plot
        the funnel plot, I find that a number of studies (i.e., points)
        overlapped
        with each other in the plot and this leads to an illustration
        that I am not
        plotting all studies in the funnel plot.

        So I am writing to ask if you can teach me how to jitter points
        in the
        funnel plot, so that there could be some spaces between studies
with
        similar effect size?

        Thanks,
        Angeline


    --     Michael
    http://www.dewey.myzen.co.uk/home.html
    <http://www.dewey.myzen.co.uk/home.html>




--
Best Regards,
Angeline

--
Michael
http://www.dewey.myzen.co.uk/home.html

Best Regards,
Angeline

	[[alternative HTML version deleted]]

[R-meta] Jitter points in the contour-enhanced funnel plot

Thread (8 messages)