Displaying 2 results from an estimated 2 matches for "mmusculus_gene_ensembl".
2009 Jun 16
1
Error using getBM() to query BioMart archives
...f the mouse genome which was last included in ensembl mart
46. I selected this mart and the mouse dataset as follows:
mart<-useMart(biomart="ensembl_mart_46", host="www.biomart.org",
path="/biomart/martservice", port=80, archive=TRUE)
mart<-useDataset("mmusculus_gene_ensembl", mart=mart)
I'm able to list the available attributes and filters just fine, but
when I attempt to actually retrieve data using getBM() I receive the
following error:
> genes<-getBM(attributes=c("ensembl_gene_id", "external_gene_id",
"description&qu...
2007 Jan 26
0
[BioC] problem with biomaRt getHomolog function
...A recent change in the
BioMart suite enables the biomaRt package to retrieve both the id you
use to query and the ids in the result of the query.
Here's an example:
rat.entrezgene.ID=c("24842","83502","24205")
mouse.mart <- useMart("ensembl","mmusculus_gene_ensembl")
rat.mart<- useMart("ensembl", "rnorvegicus_gene_ensembl")
mouse.homolog<-getHomolog(id =rat.entrezgene.ID, from.mart =
rat.mart,from.type = "entrezgene",to.type="entrezgene",
to.mart=mouse.mart)
> mouse.homolog
V1 V2
1 24842 22059
2...