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DanilKrivonos / FunFun

ITS based fungi annotator
MIT License
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test funfun on 16s fasta file #2

Open SueFletcher opened 11 months ago

SueFletcher commented 11 months ago

Hello,

Thank you for providing such a useful tool. I recently applied Qiime2 to analyze my 16S data, generating both a FASTA file and an OTU abundance file( The Qiime2 pipeline I employed has been validated successfully)

Out of curiosity, I decided to test your tool on my 16S data. Surprisingly, it generated a result that I find peculiar since it is expected to work specifically with ITS data. Could you please provide some insights or clarification on this matter?

Thank you for your assistance.

DanilKrivonos commented 11 months ago

Hello, It's quite strange. FunFun only uses information at a distance between ITS neighbors, but the algorithm does not check in any way what sequences are fed to it as input. Could you please share your 16S OTU for which you obtained gene content prediction. Can you also share which parameters you used for FunFun. I note that any results obtained using FunFun not on fungal ITS sequences are not correct, since the database of k-mers vectors was obtained specifically for fungal ITS. Thanks for the interesting question,
Danil

SueFletcher commented 11 months ago

@DanilKrivonos Can you share your email if you don't mind so that I can send you the files?

DanilKrivonos commented 11 months ago

You can write to me here danil01060106@gmail.com