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biocore / mmvec

Neural networks for microbe-metabolite interaction analysis
BSD 3-Clause "New" or "Revised" License
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mmvec metagenomic full abundance table or sub-selected table #136

Open luzhang321 opened 4 years ago

luzhang321 commented 4 years ago

Hi :)

I have a little question related to the input. I have a full species table from MetaPhlAn. And I also have a sub-table after selecting some species that I am interested in.
Same in metabolites table. My data is targeted metabolites data from LC/GC-MS. I have a full table also a selective table with only the ones I am interested in.

So my question is: the two types of input will have different results. May I use the full table or the selective table? Do you have any suggestions?

Best, Lu

mortonjt commented 4 years ago

We haven't done rigorous testing of this. But I would expext that the ranks between the two runs should have the same ordering.

On Sun, Jun 21, 2020, 7:57 AM Lulu notifications@github.com wrote:

Hi :)

I have a little question related to the input. I have a full species table from MetaPhlAn. And I also have a sub-table after selecting some species that I am interested in. Same in metabolites table. My data is targeted metabolites data from LC/GC-MS. I have a full table also a selective table with only the ones I am interested in.

So my question is: the two types of input will have different results. May I use the full table or the selective table? Do you have any suggestions?

Best, Lu

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