[R] Fixed! Thanks all:RE: scatterplot to boxplot translation?

[Vining, Kelly]

Thanks to David and Jorge - both of your helpful suggestions got me to the desired endpoint. In case anyone else has this question: I boxplotted my y variable data, but did the "cut" operation on the x variable in order to conserve the order of the y data. I see another suggestion coming in from another user that basically says this. 

So, my working line of code was:

boxplot(count$RPKM ~ cut(count$C_count, breaks=4)

Much appreciation to everyone who responded...thanks for helping with a naïve question without making me feel stupid.

This discussion board is very, very good.

--Kelly V.

-----Original Message-----
From: David Winsemius [mailto:dwinsemius at comcast.net] 
Sent: Friday, December 09, 2011 11:58 AM
To: Uwe Ligges
Cc: Vining, Kelly; r-help at r-project.org
Subject: Re: [R] scatterplot to boxplot translation?


On Dec 9, 2011, at 2:50 PM, Uwe Ligges wrote:

>
>
> On 09.12.2011 20:41, Vining, Kelly wrote:
>> Thanks for the tip on "cut," seems like it should work. I must still 
>> be missing something, though. Here, I'm cutting on the y variable, 
>> then attempting the boxplot:
>>
>> cutRPKM<- cut(count$RPKM, breaks=4)
>>
>> head(cutRPKM)
>> [1] (-0.0995,24.8] (-0.0995,24.8] (-0.0995,24.8] (-0.0995,24.8] 
>> (-0.0995,24.8] [6] (-0.0995,24.8]
>> Levels: (-0.0995,24.8] (24.8,49.8] (49.8,74.7] (74.7,99.6]
>>
>> boxplot(as.numeric(cutRPKM))
>>
>> This gives me a single box instead of five boxes. ??
>
>
> You obviously want:
>
> boxplot(count$RPKM ~ cut(count$RPKM, breaks=seq(0, max(count$RPKM),
> by=100)))

In that context (having defined a cut-variable with single-integer break argument),  would have thought this should work:

  boxplot(count$RPKM ~ cutRPKM)

--
David.

>
>
> Uwe Ligges
>
>
>> Thanks again,
>> --Kelly V.
>> ________________________________________
>> From: David Winsemius [dwinsemius at comcast.net]
>> Sent: Friday, December 09, 2011 11:14 AM
>> To: Vining, Kelly
>> Cc: r-help at r-project.org
>> Subject: Re: [R] scatterplot to boxplot translation?
>>
>> On Dec 9, 2011, at 2:11 PM, Vining, Kelly wrote:
>>
>>> My apologies if anyone is seeing this twice...looks like my previous 
>>> message didn't come through...
>>>
>>> Dear UseRs,
>>> I have a feeling this is a relatively simple question, but I'm 
>>> having a hard time getting my head around it. I have a simple x-y 
>>> scatterplot with many points, as shown below(attached). I'd like to 
>>> make a boxplot of this by interval, such that there is one box 
>>> representing the points in the 0-100 interval, one for the 101-200 
>>> interval, and so on. How do I structure my R data frame to be able 
>>> to generate such a boxplot?
>>>
>>
>> ?cut
>>
>>>
>>> From: r-help-bounces at r-project.org 
>>> [mailto:r-help-bounces at r-project.org
>>> ] On Behalf Of Vining, Kelly
>>> Sent: Friday, December 09, 2011 11:01 AM
>>> To: r-help at r-project.org
>>> Subject: [R] scatterplot to boxplot translation?
>>>
>>>
>>> <C_count_vs_RPKM.png>______________________________________________
>>> 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