Entering edit mode
22 months ago
Amr
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180
How to clean taxonomy file for microbiome analysis in R? should column names be changed? If yes what should be done? I want to perform
That is not a taxonomy file.
This is what a taxonomy file looks like (row names
d__denovoXXX
are the OTU/ASV ID):I guess its a taxonomy file but before cleaning
No! It looks like a transposed ASV/OTU count table were the ASV/OTU id were replaced the corresponding taxonomic string.
So you mean that is an ASV file ? because I have the ASV file
where did you get this file? You should already have ASV/OTU count table, and a taxonomy file that look like the one I posted in my previous comment.