Issue while calculating LDA effect size

Downstream analysis and statistics LEfSe
1

Hi all,

I am new to using LEfSe.

I was following the tutorials and old forums to use LEfSE and to resolve the errors.

Though, I have got stuck at the second step and getting the following output while calculating LDA Effect size:
Number of significantly discriminative features: 0 ( 0 ) before internal wilcoxon
No features with significant differences between the two classes
Number of discriminative features with abs LDA score > 2.0 : 0

I looked into previous forums where similar issuse was discussed but couldn’t help myself with this.

Attached is the data file I am working with.
feature-table.biom.txt (16.3 KB)

Could anyone please help me in getting through this step? Your help will be greatly appreciated. Thanks

Kind Regards
Ankush

2

Hi Ankush,
It simply means that after analyzing the input features, none of them were significantly different across levels of your group variable (in other words, no significant hits).
Best,
Meg

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