I am playing around with various ways of filtering my bacterial 16S sequences prior to clustering and analysis. It makes me a little bit nervous because I get different results depending on what filtering algorithm / program I use. I have tried PyroNoise and V-Xtractor as well as some trivial Python filtering but I have a hard time evaluating the output as to what makes sense and what does not. How do you filter your 16S sequences?
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User 8255 •
1 answer
Getting different results for different filtering methods is the norm rather than the exception. The question is more about how substantial the differences are. The results probably diverge for weak abundances. I would say try to see how the well supported conclusions hold up.
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