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Question: Downloaded .ssr file cannot be opened in Galaxy
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gravatar for h.stotz
5 months ago by
h.stotz • 20
European Union
h.stotz • 20 wrote:

Good afternoon,

I successfully accessed a public RNAseq dataset as an .srr file into Galaxy. However, I cannot open this file and now I am downloading the .sra file on my local computer to upload it again into Galaxy. There must be an easier way.

Kind regards,

Henrik
get-data upload rna-seq sra srr • 187 views
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modified 5 months ago by Jennifer Hillman Jackson ♦ 25k • written 5 months ago by h.stotz • 20
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gravatar for Jennifer Hillman Jackson
5 months ago by
Jennifer Hillman Jackson ♦ 25k
United States
Jennifer Hillman Jackson ♦ 25k wrote:

Hello,

Galaxy accepts sra formatted data, not srr.

Use the tool Get Data > EBI SRA to extract the data directly to Galaxy. Or, if a sra FTP link is available (EBI SRA, or another public source), copy the URL into the Upload tool. No need to download it locally and then upload.

FAQ: https://galaxyproject.org/support/#basics

  • Loading Data

Related post with even more details: https://biostar.usegalaxy.org/p/28349/

Thanks! Jen, Galaxy team
ADD COMMENT • link modified 5 months ago • written 5 months ago by Jennifer Hillman Jackson ♦ 25k
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