[R] Question regarding R plot

[Akito Y. Kawahara]

Thanks, this is really great!

Just another quick question - if one were to calculate the mean of
this curve, what command would you suggest? "Optimize" doesn't allow
you to search for a mean value since it is only working on one point,
and am just curious if there is a quick way to do this. Sorry for the
basic questions.

On Sat, Apr 17, 2010 at 2:49 PM, David Winsemius <dwinsemius at comcast.net> wrote:
>
> On Apr 17, 2010, at 1:18 PM, David Winsemius wrote:
>
>>
>> On Apr 17, 2010, at 12:45 PM, Charles C. Berry wrote:
>>
>>> On Sat, 17 Apr 2010, Akito Y. Kawahara wrote:
>>>
>>>> Hi, I am new to R, and have a quick question regarding an R script
>>>> that I received from a kind colleague.
>>>>
>>>> I am trying to determine the "peak" (maximum value) of the graph that
>>>> is plotted when executing the following. There is an input file called
>>>> "rates_values.txt" which begins as:
>>>>
>>>> rateValue
>>>> 0.375693
>>>> 0
>>>> 1.71274
>>>> 0
>>>> 0
>>>> 1.02832
>>>> 0
>>>> 0.16343
>>>> 1.02349
>>>> 0
>>>> 0
>>>> 1.47258
>>>> 0.703522
>>>> 0.390541
>>>> 1.83415
>>>>
>>>>
>>>>
>>>> The script, below, must run with the rates_values.txt in the same dir.
>>>>
>>>> #-------
>>>> rates<-read.table("rates_values.txt",header=T)
>>>> attach(rates)
>>>> scores<-function(x){
>>>> l<-length(rateValue)
>>>> total<-0
>>>> for(i in 1:l){
>>>>  value<-16*rateValue[i]*rateValue[i]*x*exp(-4*rateValue[i]*x)
>>>>  total<-total+value
>>>> }
>>>> return(total)
>>>> }
>>>>
>>>>
>>>> #-------
>>>> #preparing the plot
>>>> linewidth=3
>>>> linetype=3
>>>> color="blue"
>>>> xvalue=0.5
>>>>
>>>> plot(scores,xvalue,0,type="n",font.axis=2,xlim=c(xvalue,0))
>>>>
>>>> curve(scores,xvalue,add=TRUE,col=color,lty=linetype,lwd=linewidth,xlim=c(xvalue,0))
>>
>> I was a bit puzzled by these lines, since in most R plotting tasks one
>> uses plot(x, y, ...). So unless the task it to plot some inverse function,
>> then the arguments are reversed. Furthermore, scores was defined above as a
>> function of "x", and yet is being offered to plot with no arguments. What is
>> intended?
>
> Thanks to Charles Berry for advising me that this is an acceptable, if
> somewhat obscure, usage of plot.function().
>
>>
>>
>>>>
>>>> #-------
>>>>
>>>> Can anyone help me figure out how to determine the peak (maximum
>>>> "scores") value in the plot that is generated?
>
> Perhaps this approximation would be effective:
>
>> max(scores(seq(0.5, 0, by=-0.001)))
> [1] 11.67820
>
>
> An alternate approach might be to calculate a smoothing function, but this
> seems to "work" in the sense of giving an answer that matches the results
> from Berry's suggestion:
>
>> optimise( scores, range(rateValue), maximum=TRUE )
> $maximum
> [1] 0.1830172
>
> $objective
> [1] 11.67820
>
>>>
>>>
>>> Yes. Anyone who knows something called 'the calculus' could help. And
>>> they could point out that the 0's in the data really do not matter.
>>>
>>> If the 0's are real data that should influence the result, it seems there
>>> is something wrong with scores() and you might do well to get a consult from
>>> a statistician.
>>>
>>> If you are still determined to solve the problem as stated, see
>>>
>>>        ?optimise
>>>
>>>
>>> Something like
>>>
>>>        optimise( scores, range(rateValue), maximum=TRUE )
>>>
>>> should do it.
>>>
>>> HTH,
>>>
>>> Chuck
>>>
>>>
>>> It should be about 11.7
>>>>
>>>> but I would like to get an exact value. This should be a relatively
>>>> easy question, but I'm new to R, and what I have tried doesn't seem to
>>>> work.
>>>>
>>>> Thanks!
>>>>
>>>> ______________________________________________
>>>> R-help at r-project.org mailing list
>>>> https://stat.ethz.ch/mailman/listinfo/r-help
>>>> PLEASE do read the posting guide
>>>> http://www.R-project.org/posting-guide.html
>>>> and provide commented, minimal, self-contained, reproducible code.
>>>>
>>>
>>> Charles C. Berry                            (858) 534-2098
>>>                                          Dept of Family/Preventive
>>> Medicine
>>> E mailto:cberry at tajo.ucsd.edu               UC San Diego
>>> http://famprevmed.ucsd.edu/faculty/cberry/  La Jolla, San Diego
>>> 92093-0901
>>>
>>> ______________________________________________
>>> R-help at r-project.org mailing list
>>> https://stat.ethz.ch/mailman/listinfo/r-help
>>> PLEASE do read the posting guide
>>> http://www.R-project.org/posting-guide.html
>>> and provide commented, minimal, self-contained, reproducible code.
>>
>> David Winsemius, MD
>> West Hartford, CT
>>
>> ______________________________________________
>> R-help at r-project.org mailing list
>> https://stat.ethz.ch/mailman/listinfo/r-help
>> PLEASE do read the posting guide
>> http://www.R-project.org/posting-guide.html
>> and provide commented, minimal, self-contained, reproducible code.
>
> David Winsemius, MD
> West Hartford, CT
>
> ______________________________________________
> R-help at r-project.org mailing list
> https://stat.ethz.ch/mailman/listinfo/r-help
> PLEASE do read the posting guide http://www.R-project.org/posting-guide.html
> and provide commented, minimal, self-contained, reproducible code.
>



-- 
Akito Y. Kawahara
Department of Entomology
University of Maryland
4112 Plant Sciences Building
College Park, MD 20742-4454
Tel: 301.405.2089
Fax: 301.314.9290
kawahara at umd.edu