Summary.tax and relative abundance per sample

Commands in mothur
1

Hello,

I’m wanting to get the relative abundances in each sample for my ASV analysis. I ran the classify.otu and got the counts and am wondering if I can use the summary.tax with the relabund=T to change this into relative abundances. I think I need a name file so I don’t loose my samples, if I just run the summary.tax on my taxonomy file I only get one output per taxa, not for each sample (which I need). However, I’m unsure how to generate a name file as those don’t get autogenerated with the current SOP.

Any help/suggestions would be much appreciated :slight_smile: :slight_smile:

Many thanks, JM

2

You might want to check out get.relabund

Pat

3

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