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Last seen 10.4 years ago
Dear All,
I am having trouble running this example code from the lumi-vignette:
library(lumi)
## load example data
data(example.lumi)
if (require(lumiHumanIDMapping)) {
nuIDs <- featureNames(example.lumi)
mappingInfo <- nuID2EntrezID(nuIDs, lib.mapping=lumiHumanIDMapping)
head(mappingInfo)
}
Then I am seeing this:
Error in paste("package", package, sep = ":") :
cannot coerce type 'closure' to vector of type 'character'
I have come across this problem first when I tried to annotate my own
data, but it seems also to happen on my system with every of the nuID
mapping commands.
Thanks for your help and advise in advance!
Best
Franzef
-- output of sessionInfo():
R version 3.0.3 (2014-03-06)
Platform: x86_64-apple-darwin10.8.0 (64-bit)
locale:
[1] de_DE.UTF-8/de_DE.UTF-8/de_DE.UTF-8/C/de_DE.UTF-8/de_DE.UTF-8
attached base packages:
[1] parallel stats graphics grDevices utils datasets
methods base
other attached packages:
[1] lumiHumanIDMapping_1.10.0 RSQLite_0.11.4 DBI_0.2-7
[4] AnnotationDbi_1.22.6 lumi_2.12.0 Biobase_2.20.0
[7] BiocGenerics_0.6.0
loaded via a namespace (and not attached):
[1] affy_1.38.1 affyio_1.28.0 annotate_1.38.0
beanplot_1.1
[5] BiocInstaller_1.10.2 Biostrings_2.28.0 colorspace_1.2-2
GenomicRanges_1.12.4
[9] grid_3.0.3 illuminaio_0.2.0 IRanges_1.18.1
KernSmooth_2.23-10
[13] lattice_0.20-27 limma_3.16.5 MASS_7.3-29
Matrix_1.1-2
[17] matrixStats_0.8.1 mclust_4.1 methylumi_2.6.1
mgcv_1.7-28
[21] minfi_1.6.0 multtest_2.16.0 nleqslv_2.0
nlme_3.1-113
[25] nor1mix_1.1-4 preprocessCore_1.22.0 R.methodsS3_1.4.2
RColorBrewer_1.0-5
[29] reshape_0.8.4 siggenes_1.34.0 splines_3.0.3
stats4_3.0.3
[33] survival_2.37-7 tools_3.0.3 XML_3.95-0.2
xtable_1.7-1
[37] zlibbioc_1.6.0
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