[R-meta] Jitter points in the contour-enhanced funnel plot
@ngelinet@ui @ending from gm@il@com
Fri Jul 20 22:41:47 CEST 2018
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
On Fri, Jul 20, 2018 at 3:56 AM, Michael Dewey <lists using dewey.myzen.co.uk>
> 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.
> 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,
>> On Thu, Jul 19, 2018 at 5:41 AM, Michael Dewey <lists using dewey.myzen.co.uk
>> <mailto:lists using 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.
>> On 18/07/2018 14:58, Angeline Tsui wrote:
>> Dear all,
>> I plotted the studies in my meta-analysis in a contour-enhanced
>> 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)
>> 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
>> similar effect size?
>> -- Michael
>> Best Regards,
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