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Question: How do you load GEO data into Galaxy
1
gravatar for einstr
4.1 years ago by
einstr • 20
United States
einstr • 20 wrote:

how do i load files from GEO? these are compressed files of either SRA or TAR files.
rna-seq • 2.3k views
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modified 3.8 years ago by Martin Čech ♦♦ 4.9k • written 4.1 years ago by einstr • 20

Can you give us some example of such data? Link?

ADD REPLY • link written 4.1 years ago by Martin Čech ♦♦ 4.9k
0
gravatar for Jennifer Hillman Jackson
4.1 years ago by
Jennifer Hillman Jackson ♦ 25k
United States
Jennifer Hillman Jackson ♦ 25k wrote:

Hello,

Please try the tool "Get Data: EBI SRA". Search for GEO and locate the experiment. Sequence data per experiment can be loaded directly from a link under the table heading "Galaxy".

Best, Jen, Galaxy team
ADD COMMENT • link written 4.1 years ago by Jennifer Hillman Jackson ♦ 25k

I understand that Get Data: EBI SRA works for getting SRA information, as ENA mirrors NCBI's SRA. However, GEO data (e.g. microarray data) is not accessible from EBI... Suggestions?

ADD REPLY • link written 3.5 years ago by mrals89 • 50
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