Question of normalization: LEfSe

Downstream analysis and statistics LEfSe
1

Hi Galaxy team,

I am trying to upload and run LEfSe analysis at web page. And I found that the value after normalization to 1M is not equal to the relative abundance times 1M. Using the feature below as example:

asS’k__Bacteria.p__Firmicutes.c__Erysipelotrichi.o__Erysipelotrichales.f__Erysipelotrichaceae.g__Coprobacillus.s__’

The relative abundance value: aF0.000167604

If directly times 1M from relative abundance: 167.604

Normalized value from LEfSe: aF1933.3784461892012

From what I understand, the relative abundance per sample sums to 1, so if normalize per sample by 1M, I should be able to get the value after multiply by 1M. So I don’t get what happened in the middle. I format the data just like the example data set. It will be appreciated to get any replies.

Thanks!

2

Thanks for reaching out to the bioBakery Lab. Would it be possible for you to provide the input tables ? You would be able to attach the files here in the forum.

Regards,
Sagun