[BioC] Point plot against labels and reordering

[Daniel Brewer]

Hi,

I am getting really frustrated with trying to create a specific plot.  I
have the following matrix (monkey):
    Exon      PRC1     PRC2     PRC3
1  0_110 2.0132845 1.484080 1.923869
2   0_34 2.6528139 1.141114 1.242584
3   0_78 1.6247146 1.230726 1.592407
4     10 1.4471323 1.137777 1.426656
5     11 1.5471201 1.204736 1.500566
6      2 1.0423570 1.104883 1.087180
7      3 0.9563367 1.017354 1.067159
8      4 1.4577586 1.166938 1.422878
9      5 1.5081813 1.177205 1.494983
10     6 1.4432391 1.144851 1.396613
11     7 1.6995243 1.337146 1.643418
12     8 1.3848549 1.096389 1.357165
13     9 1.4995867 1.162944 1.444809

Exon is the Exon number of a label saying which two exons the probe is
in-between.  That column should be treated as labels, not numeric.

What I would like to be able to do is plot for example PRC1 on the
y-axis and the Exon as the x-axis labels (just evenly spaced not a
numeric scale).  Secondly I would like to be able to reorder the labels
for the plot.

The closest I have got is:
plot(monkey$Exon,monkey$PRC1)

But that seems to be producing a boxplot rather than points.  If I put
type="p" it makes no difference and if I try and reorder the matrix it
does not make any difference either e.g.
monkey$Exon[c(6,7,2,8,9,10,11,3,12,13,4,5,1)]

monkey$Exon is a factor object

Any help would be great.

Dan

-- 
**************************************************************

Daniel Brewer, Ph.D.

Institute of Cancer Research
Email: daniel.brewer at icr.ac.uk

**************************************************************

The Institute of Cancer Research: Royal Cancer Hospital, a charitable Company Limited by Guarantee, Registered in England under Company No. 534147 with its Registered Office at 123 Old Brompton Road, London SW7 3RP.

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