how about the format of the input_file?

Provides code and example data for analyzing GWAS data with a network-based approach. Finds modules of genes that are enriched for GWAS signal and have high confidence biological coherence.
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wu yiming
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Joined: Thu Sep 08, 2016 5:45 am

how about the format of the input_file?

Post by wu yiming » Tue Sep 20, 2016 6:48 am

The function of STAMS_reademe file is teaching us to construct the mapped_data? I suppose that a detailed describtion of input_file would be very helpful. I have obtained the results from VEGAS, but not sure how to use it in the STAMS. Hope to your reply.
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Sara Hillenmeyer
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Joined: Mon Jan 24, 2011 4:28 pm

Re: how about the format of the input_file?

Post by Sara Hillenmeyer » Mon Feb 27, 2017 4:32 pm

I recommend using the STRINGdb R package to map the output of VEGAS to STRING identifiers. There are a lot of ways to map gene names to STRING ids, and they have a very comprehensive treatment of the problem.
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