[R] colour of label points on a boxplot

[John Kane]

It would really help if you could reduce the information below to a small reproducible example, that is, some small bit of code that a reader can paste into R and poke around at.  

For sending a small sample dataset have a look at ?dput

I believe that this problem has been discussed on the R-help list before and you might find something about it with a search (RSiteSearch()) or using Google but it is hard to tell without an example.



--- On Thu, 8/5/10, alison waller <alison.waller at embl.de> wrote:

> From: alison waller <alison.waller at embl.de>
> Subject: [R] colour of label points on a boxplot
> To: r-help at r-project.org
> Received: Thursday, August 5, 2010, 7:36 AM
> Hi all,
> 
> I have 6 datasets(dataframes Assem_ContigsLen7 through
> all_ContigsLen12)
> containing 3 columns (contig_id, contig_length,
> read_count).
> 
> Each dataset is composed of 3 types of contigs (assemblies
> of genomic
> fragments), 1- all Bacterial fragments, 2 - all Viral
> fragments, 3 -
> mixed fragments.
> 
> I identified the type of contig through a merge with
> another table with
> just contig_id and contig_type as below:
> 
> AssemViral_ContigsLen<-merge(Assem_ContigsLen,allViral_contigs,by.x="contig_id",by.y="X.Contid.ID",all.x=FALSE)
>  
> Below is a boxplot for
> 
> boxplot(Assem_ContigsLen7$length,Assem_ContigsLen8$length,Assem_ContigsLen9$length,Assem_ContigsLen10$length,Assem_ContigsLen11$length,Assem_ContigsLen12$length,main="100species_rep2",ylab="Contig_length")
> 
> 
> All of the longer contigs in the sixth data set are
> allViral.
> 
> How can I colour or label these?
> I tried overlaying 2 boxplots of different colours (using
> add=TRUE), but
> the individual points of the whiskers aren't coloured (and
> I can't
> figure out how to do so)
> I experimented with using points, but there isn't a general
> function
> that I can apply to all 6 datasets to identify the allViral
> contigs.
> 
> specific questions;
> 1 -how can I color the data points that represent the
> whiskers in a boxplot?
> 2 - Can I identify and colour subsets of datapoints within
> a boxplot?
> 3- any other suggestions?
> 
> Thank you,
> 
> Alison
> 
> 
> 
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