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Read and collect gene sets from MSigDB in .gmt format #186

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abearab opened this issue Dec 12, 2024 · 2 comments
Open

Read and collect gene sets from MSigDB in .gmt format #186

abearab opened this issue Dec 12, 2024 · 2 comments

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@abearab
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abearab commented Dec 12, 2024

https://docs.gsea-msigdb.org/#MSigDB/MSigDB_SQLite_Database/
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abearab commented Dec 12, 2024

Hi @tshauck – I found this documentation similar to your SQL implementation in biobear! In general, I think it would be great if biobear can handle .gmt format and support collecting data directly from MSigDB.

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tshauck commented Dec 14, 2024

Thanks for the heads up, will have a look!

@abearab abearab mentioned this issue Dec 15, 2024
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@tshauck @abearab