[BioC] plotPCA error

Janake Wije [guest] guest at bioconductor.org
Thu Oct 4 15:33:23 CEST 2012

I am using DESeq package for RNAseq analyses and I am getting the following errir with plotPCA fucntion:

print(plotPCA(vsd, intgroup=c("condition")))
Error in print(plotPCA(vsd, intgroup = c("condition"))) :
  error in evaluating the argument 'x' in selecting a method for
function 'print': Error: could not find function "plotPCA"


 -- output of sessionInfo(): 

> sessionInfo()
R version 2.15.1 (2012-06-22)
Platform: x86_64-redhat-linux-gnu (64-bit)

 [1] LC_CTYPE=en_US.UTF-8       LC_NUMERIC=C               LC_TIME=en_US.UTF-8       
 [7] LC_PAPER=C                 LC_NAME=C                  LC_ADDRESS=C              

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

other attached packages:
 [1] DESeq_1.8.3         limma_3.12.3        VennDiagram_1.5.1   RColorBrewer_1.0-5 
 [5] pcaMethods_1.42.0   Rcpp_0.9.14         pls_2.3-0           BiocInstaller_1.4.7
 [9] gplots_2.11.0       MASS_7.3-20         KernSmooth_2.23-8   caTools_1.13       
[13] bitops_1.0-4.1      gdata_2.12.0        gtools_2.7.0        locfit_1.5-8       
[17] Biobase_2.16.0      BiocGenerics_0.2.0 

loaded via a namespace (and not attached):
 [1] annotate_1.34.1      AnnotationDbi_1.18.1 DBI_0.2-5            genefilter_1.38.0   
 [5] geneplotter_1.34.0   IRanges_1.14.4       lattice_0.20-6       RSQLite_0.11.1      
 [9] splines_2.15.1       stats4_2.15.1        survival_2.36-14     tools_2.15.1        
[13] XML_3.9-4            xtable_1.7-0    

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