[BioC] Go terms attributes not available on Biomart ensembl

[Wolfgang Huber]

Konika

thanks. Your 'sample code' is incomplete. How did you define the object 
'ensembl'?

	Best wishes
	Wolfgang


chawla scripsit 05/15/2011 11:53 PM:
> Hi
> I have used BiomaRt to retrieve GO terms for affymetrix probe Ids using
> mart ensembl.
> But suddenly all the GO terms attributes have vanished from the list of
> attributes.
> I used the sample code to test.
>
>  > affyids = c("202763_at", "209310_s_at", "207500_at")
>  > getBM(attributes = c("affy_hg_u133_plus_2",
> "go_biological_process_id", "chromosome_name", "start_position",
> + "end_position", "band"), filters = "affy_hg_u133_plus_2", values =
> affyids, mart = ensembl)
> Error in getBM(attributes = c("affy_hg_u133_plus_2",
> "go_biological_process_id", :
> Invalid attribute(s): go_biological_process_id
> Please use the function 'listAttributes' to get valid attribute names
>
> I am thus unable to reproduce previous results.
> Have no idea how this could happen, If anyone can help it will be great.
> Thanks
> Konika
>
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-- 


Wolfgang Huber
EMBL
http://www.embl.de/research/units/genome_biology/huber