[BioC] question about edgeR smearPlot

[Ann Loraine]

Hello,

I am writing with a question about edgeR function smearPlot.

I made a smear plot but am seeing rows of orange points below and
above (-5,-5) and (5,5) respectively.

Here are the commands I used to make the plot:

n.shoot = sum(summary(decideTestsDGE(et.shoot,p.value=0.05))[c(1,3),])
plotSmear(et.root,de.tags=rownames(topTags(et.root,n=n.root)$table),main="Root")
abline(h = c(-2, 2), col = "dodgerblue")

In case the attachment doesn't go through I put the plot on-line
(temporarily) at http://vm142-20.iplantcollaborative.org/pl.png/

Best wishes,

Ann
-------------- next part --------------
A non-text attachment was scrubbed...
Name: pl.png
Type: image/png
Size: 79161 bytes
Desc: not available
URL: <https://stat.ethz.ch/pipermail/bioconductor/attachments/20120828/8d3a973c/attachment.png>