[BioC] biomaRt * search
Paul Hammer
paul.hammer at p-t-p.de
Thu Nov 5 18:10:21 CET 2009
Dear folks,
I try to search for all PDE genes within the biomaRt Ensembl database. I
am looking for a simple code for searching with the * symbol like under
linux (e.g. grep function). here my imaginary, not working code:
library(biomaRt)
ensembl = useMart("ensembl", dataset = "hsapiens_gene_ensembl")
PDE_infos = getBM(attributes = c("hgnc_symbol", "ensembl_gene_id"),
filters = "hgnc_symbol", values = "*PDE*", mart = ensembl)
Is there any easy way to do such a * search? I mean I could first
download all genes and then I could filter via regular expression for
PDE genes. But I guess there is a way to use * in R or?
Thanks,
Paul
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