[英]Error message when using Biomart hsapiens_gene_ensembl dataset. Anyone know how to solve?
这是我用来尝试连接到 hsapiens 数据集的代码:
> mart <- biomaRt::useMart(biomart = "ENSEMBL_MART_ENSEMBL",
+ dataset = "hsapiens_gene_ensembl",
+ host = "www.ensembl.org")
这是出现在控制台中的错误消息:
Error in useDataset(mart = mart, dataset = dataset, verbose = verbose) :
The given dataset:
hsapiens_gene_ensembl , is not valid.
Correct dataset names can be obtained with the listDatasets function.
我很困惑为什么我会收到这个错误,因为它说这个数据集是一个无效的数据集,但我检查了它确实是有效的。
您需要使用host = "http://www.ensembl.org"
参数:
mart <- biomaRt::useMart(biomart = "ENSEMBL_MART_ENSEMBL",
dataset = "hsapiens_gene_ensembl",
host = "http://www.ensembl.org")
str(mart)
# Formal class 'Mart' [package "biomaRt"] with 8 slots
# ..@ biomart : chr "ENSEMBL_MART_ENSEMBL"
# ..@ host : chr "http://www.ensembl.org:80/biomart/martservice"
# ..@ vschema : chr "default"
# ..@ version : chr(0)
# ..@ dataset : chr "hsapiens_gene_ensembl"
# ...
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