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Both of the following code blocks give similar errors:
```
from pybiomart import Server
server = Server(host='http://www.ensembl.org')
dataset = (server.marts['ENSEMBL_MART_ENSEMBL']
…
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I made a strange observation. When I see the PlasmoDB gene Database, I see that there are `5254` genes but when using Biomart, I get only `4903` genes. Various characterized genes such as `"PBANKA_010…
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Works without issue for all genes that I've tried:
```r
ensembl = useMart("ensembl", dataset = "hsapiens_gene_ensembl")
getSequence(
id = gene_id$ensembl_gene_id,
type = "ensembl_gene_i…
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I am trying to access 5' and 3' UTR Ensembl sequence page attributes (`"5utr"` and `"3utr"`) using `getBM()` but encounter the following error:
> Error in read.table(text = postRes, sep = "\t", hea…
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Hello,
the gene in question is ENSG00000006062.
I can retrieve its full sequence fine, but I cannot retrieve upstream of it (for whatever reason).
The error I get from the website is (https://…
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When you enter this address you get a 404 error, making package completely impossible to work with.
The only link working is this one:
http://useast.ensembl.org/biomart/martview
And it doesn't have th…
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```
host=stringr::str_split("${params.biomart_host}", "/biomart")[[1]][[1]]
ensembl = useMart("ensembl",dataset="${params.biomart_dataset}", host=host)
goterms = getBM(attributes = c("e…
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When I use the creat_cellphonedb_file() function to generate the input files for CellPhoneDB, I encountered the following error:
`creat_cellphonedb_file(sce, Sample)`
Ensembl site unresponsive, …
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Very interesting application!!!
Could you please share how you transfer the wormID to human homolog or human homolog symbol to wormIDs to make the predictions? The biomart doesn't work recently.
Tha…
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Hi,
I was trying to retrieve data for Rattus Norvegicus 79 from ensembl using the get_data.sh
I found that the file ensembl1.txt gives the error:
Query ERROR: caught BioMart::Exception::Usage: Attribu…