From GEO to Galaxy

rna-seq
#1

Hello, is it possible to upload FASTQ (without downloading it in my PC) in Galaxy from NCBI GEO that does not have a SRR accesion name? I can only find it in Bioproject. Thanks.

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#2

go to Get DATA and then EBI SRA ENA… . and after that you can put your bioproject number in the search box.

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#3

and from there? I cannot find my data there. Just the study and some more random info.

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#4

search for some bio project number or srp number or study number…if you can not find it in paper, search your paper in GEO DATASETS

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#5

There is no SRP number, I searched in GEO DATASETS. Found it. But I don’t know how to send it in GALAXY just with the bio project and GEO number ( without downloading in my PC). Am I missing something?

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#6


Is there any way I can use the links from those to upload the samples in Galaxy?

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#7

I also tried the FTP upload. However I can’t sign in. It doesn’t even mention any error.

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#8

OK, so I arrived at the conclusion that the raw data for this particular study is not available. Actually it says right here

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#9

yes. if you find it in geodata set. you should paste the project or sra number to address i told you last comment. then you will see your data. after that you should send it to galaxy just by clicking on your data on galaxy column.

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#10

try the GSE code .see if its working

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