How to download multiple expression datasets from EBI database using ArrayExpress

Question

[deepue]

Hi,

I would like to download 560+ experiments from the ArrayExpress database. I have tried to download few experiments manually using the ArrayExpress function from the ArrayExpress R package.

ArrayExpress("E-BUGS-58"), ArrayExpress("E-BUGS-64")...

I couldn't find functions either to download multiple experiments at a time or parallelize the download. Could you please advise if there are options available to download multiple experiments by parallelizing the downloading.

Answer 1

[GenoMax]

Via FTP, assuming this is the same thing as what you are looking at: ftp://ftp.ebi.ac.uk/pub/databases/arrayexpress/data/experiment/BUGS/

[deepue]

Thanks for the link, it is useful for downloading the entire BUGS set of experiments. I have to download only subset of them.

[GenoMax]

Then use a script to download what you need.