[BioC] getAnnMap: package hugene10stv1 not available
Claudia [guest]
guest at bioconductor.org
Sun Nov 3 22:15:34 CET 2013
Hello,
I'm trying to analyze some array data with Bioconductor and I receive the following errore when I try to filter with GeneFilter: Error: getAnnMap: package hugene10stv1 not available.
This is the script I'm currently using:
setwd("C:/raw")
library(affy)
library("genefilter")
mydata <- ReadAffy()
pData(mydata)<-read.table("phenodata.txt", header=T,
row.names=1, sep="\t")
eset <- rma(mydata)
esetf<-nsFilter(eset)
Annotation is hugene10stv1. I have already installed hugene10stv1cdf and hugene10stv1probe packages but I receive the same error every time I try to filter my set.
Any help would be very much appreciated.
Thanks a lot
Claudia
-- output of sessionInfo():
> sessionInfo()
R version 3.0.2 (2013-09-25)
Platform: i386-w64-mingw32/i386 (32-bit)
locale:
[1] LC_COLLATE=Italian_Italy.1252 LC_CTYPE=Italian_Italy.1252
[3] LC_MONETARY=Italian_Italy.1252 LC_NUMERIC=C
[5] LC_TIME=Italian_Italy.1252
attached base packages:
[1] parallel stats graphics grDevices utils datasets methods
[8] base
other attached packages:
[1] hugene10stv1cdf_2.13.0 AnnotationDbi_1.24.0 genefilter_1.44.0
[4] affy_1.40.0 Biobase_2.22.0 BiocGenerics_0.8.0
loaded via a namespace (and not attached):
[1] affyio_1.30.0 annotate_1.40.0 BiocInstaller_1.12.0
[4] DBI_0.2-7 IRanges_1.20.4 preprocessCore_1.24.0
[7] RSQLite_0.11.4 splines_3.0.2 stats4_3.0.2
[10] survival_2.37-4 tools_3.0.2 XML_3.98-1.1
[13] xtable_1.7-1 zlibbioc_1.8.0
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