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Can I use BioSample identifiers? #26

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Michelle-Pena opened this issue Apr 3, 2024 · 3 comments
Open

Can I use BioSample identifiers? #26

Michelle-Pena opened this issue Apr 3, 2024 · 3 comments
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@Michelle-Pena
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Hi, I have a list of SRR and CFSAN numbers. Is the code going to work for those?
@kblin kblin added the question label Apr 4, 2024
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kblin commented Apr 4, 2024

ncbi-acc-download directly uses the Entrez API. I'm not sure if that supports those identifiers. I know it doesn't do genome assembly IDs.

@Michelle-Pena
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Thank you!!! Do you by chance recommend any other pipeline that would work?

@kblin
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kblin commented Apr 5, 2024

The NCBI's datasets tool seems pretty flexible, but I think it also only does Assembly and BioProject IDs.

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@kblin @Michelle-Pena