Question: error while using genefilter's nsFilter: could not find function "hgug4112a.db_dbconn"
10.0 years ago by
Massimo Pinto • 390
Massimo Pinto • 390 wrote:
Greetings all, I have finally come across to genefilter's nsFIlter(); it looks like it's going to do quite a lot for me in just one call. I called it as follows: > esetGSEA <- nsFilter(esetPROC, require.entrez=TRUE, require.GOBP=TRUE, remove.dupEntrez=TRUE, var.func=IQR, var.cutoff=0.5) Error in do.call(paste(chip, "_dbconn", sep = ""), list()) : could not find function "hgug4112a.db_dbconn" > annotation(esetPROC)  "hgug4112a.db" here's some info on my session: > sessionInfo() R version 2.10.0 (2009-10-26) x86_64-apple-darwin9.8.0 locale:  C attached base packages:  grid tcltk stats graphics grDevices utils datasets methods base other attached packages:  affy_1.24.0 gplots_2.7.3 caTools_1.10 bitops_1.0-4.1 gdata_2.6.1 gtools_2.6.1  hgug4112a.db_2.3.5 org.Hs.eg.db_2.3.6 RSQLite_0.7-3 DBI_0.2-4 Agi4x44PreProcess_1.5.1 genefilter_1.28.0  annotate_1.24.0 AnnotationDbi_1.7.20 limma_3.2.1 Biobase_2.6.0 loaded via a namespace (and not attached):  affyio_1.13.5 preprocessCore_1.7.9 splines_2.10.0 survival_2.35-7 tools_2.10.0 xtable_1.5-5 Thanks a lot, Yours Massimo Massimo Pinto Post Doctoral Research Fellow Enrico Fermi Centre and Italian Public Health Research Institute (ISS), Rome http://claimid.com/massimopinto
ADD COMMENT • link •