[BioC] Howto Pass List in useDataset of biomaRt

[James W. MacDonald]

Hi Gundala,

I don't think you can use multiple datasets at one time. Probably your 
best bet is to use one dataset to get the required chromosomal 
positions, then switch datasets and re-run the queries.

Best,

Jim



Gundala Viswanath wrote:
> Dear all,
> 
> I want to pass several datasets for useDataset function.
> However I tried this with failure:
> 
>> mart<-useDataset(c("scerevisiae_gene_ensembl","gaculeatus_gene_ensembl"),mart)
> 
> XML declaration allowed only at the start of the document
> Extra content at the end of the document
> Error: 1: XML declaration allowed only at the start of the document
> 2: Extra content at the end of the document
> In addition: Warning message:
> In if (is.na(match(dataset, validDatasets$dataset))) stop(paste("The
> given dataset: ",  :
>   the condition has length > 1 and only the first element will be used
> 
> 
> Is there a way to do it correctly?
> 
> In the end I am trying to extract position of various chromosomes from different
> species using getBM function.
> 
> - Gundala Viswanath
> Jakarta - Indonesia
> 
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-- 
James W. MacDonald, M.S.
Biostatistician
Hildebrandt Lab
8220D MSRB III
1150 W. Medical Center Drive
Ann Arbor MI 48109-5646
734-936-8662