1、安装"biomaRt"包
if (!requireNamespace("BiocManager", quietly = TRUE))
install.packages("BiocManager")
BiocManager::install("biomaRt")
library("biomaRt")
2、"ensembl_transcript_id_version" 转 "refseq_mrna", "ensembl_gene_id", "hgnc_symbol"
输入文件file.txt如下所示：
转换命令如下：
values<- read.table("file.txt",header=F)
ensembl<- useMart("ensembl", dataset="hsapiens_gene_ensembl")
new=getBM(attributes=c("ensembl_transcript_id_version","refseq_mrna", "ensembl_gene_id", "hgnc_symbol"), filters = "ensembl_transcript_id_version", values = values, mart= ensembl)
输出文件new如下所示：
