Displaying 2 results from an estimated 2 matches for "ensembl_gene_id".
2009 Jul 26
1
splitting multiple data in one column into multiple rows with one entry per column
Dear R colleagues,
I annotated a list of single nuclotide polymorphiosms (SNP) with the
corresponding genes using biomaRt. The result is the following
data.frame (pasted from R):
snp ensembl_gene_id
1 rs8032583
2 rs1071600 ENSG00000101605
3 rs13406898 ENSG00000167165
4 rs7030479 ENSG00000107249
5 rs1244414 ENSG00000165629
6 rs1005636...
2009 Jun 16
1
Error using getBM() to query BioMart archives
...;, 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", "chromosome_name", "start_position", "transcript_start"),
+ filters=c("chromosome_name","start","end"),
+ values=list(12,40000000,70000000),
+ mart=mart)
Error in listFilters(...