Hi All, I am trying to extract gene list from chromosome number and position, for that I am using biomaRt in R but I am getting error messages as shown below. Also below is the code I am using for extraction.
library("biomaRt") listMarts() ensembl <- useMart("ensembl") datasets <- listDatasets(ensembl) ensembl = useDataset("rnorvegicus_gene_ensembl",mart=ensembl) AT_AC_Gene <- read.csv("AT-AC-methylkit_biomart-4-7-21.csv",header=T) attributes <- c("external_gene_name","ensembl_gene_id","start_position","end_position","rgd_symbol","chromosome_name") filters <- c("chromosome_name","start","end") values <- list(AT_AC_Gene$chr,AT_AC_Gene$start,AT_AC_Gene$end) final_1 <- getBM(attributes=attributes, filters=filters, values=values, mart=ensembl) The code runs well without any error but the final1 output has 0 observations of 6 variables. Why? Can anyone help me with this? Thanks, Puja [[alternative HTML version deleted]] ______________________________________________ R-help@r-project.org mailing list -- To UNSUBSCRIBE and more, see https://stat.ethz.ch/mailman/listinfo/r-help PLEASE do read the posting guide http://www.R-project.org/posting-guide.html and provide commented, minimal, self-contained, reproducible code.