Hi,

I am trying to plot different graphs using cummerRbund for bacterial 
transcriptome.
I get all the plots except the volcano plot.

I am using : tophat-1.3.3.Linux_x86_64, samtools-0.1.12a, 
cufflinks-1.2.0.Linux_x86_64

I get following error:

library("cummeRbund")
cuff = readCufflinks()
cuff
gene = genes(cuff)
v = csVolcano(gene)
v
Error in grid.pretty(range) :
   infinite axis extents [GEPretty(-1.79769e+308,1.79769e+308,5)]

Can someone please explain where am i going wrong?

R session info is given below:

sessionInfo()
R version 2.14.0 (2011-10-31)
Platform: x86_64-unknown-linux-gnu (64-bit)

locale:
  [1] LC_CTYPE=en_US.UTF-8       LC_NUMERIC=C
  [3] LC_TIME=en_US.UTF-8        LC_COLLATE=en_US.UTF-8
  [5] LC_MONETARY=en_US.UTF-8    LC_MESSAGES=en_US.UTF-8
  [7] LC_PAPER=C                 LC_NAME=C
  [9] LC_ADDRESS=C               LC_TELEPHONE=C
[11] LC_MEASUREMENT=en_US.UTF-8 LC_IDENTIFICATION=C

attached base packages:
[1] grid      stats     graphics  grDevices utils     datasets  methods
[8] base

other attached packages:
[1] cummeRbund_1.0.0 ggplot2_0.8.9    proto_0.3-9.2    reshape_0.8.4
[5] plyr_1.6         RSQLite_0.10.0   DBI_0.2-5

-- 

Regards,
Chintan Vora
Sr. Research Associate
Xcelris Labs Ltd.
Old Premchandnagar Road,
Bodakdev, Ahmedabad-380 054 India.
Tel: +91-79-66197777/66311114
Fax: +91-79-66309341
Email: chintan.vora@xcelrislabs.com
Website: www.xcelrisgenomics.com



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