[BioC] plotSmear() function in edgeR

[Umhang, Martin]

Hi all,



I have used edgeR to analyse my Illumina RNAseq data. It generally works fine and I get biologically meaningfull DGE results.



I appreciate that plotSmear() is able to visualize the tags with no counts in one of the libraries. I am unsure however, as to what value is used to plot these tags on the logFC-Axis.



I have not been able to find this in the edgeR-manual or Mark Robinson's /Davis McCarthy's paper. Any ideas on this would be appreciated!



Best,



martin
______________________________________________________________________________________________________________________
Martin Umhang
PhD Student
D-Biol, ETH Zürich
LFW, E54
Universitätstr. 2
8092 Zürich

Tel.: 044 6325948 (Lab)
        044 6323839 (Office)