Hi everyone, I’m using LEfSe to look for biomarkers in microbiome data taken from soil samples. My class is “Day” and I am interested in bacteria that are more abundant in Day 14 samples compared to Day 1.
I was able to run the program and get the results where the output is the taxonomy information, the day, and the LDA score. However, I want to know what site the specific biomarkers came from. For instance, one biomarker comes back in the genus Burkholderia, but in my metadata there are multiple samples across different sites that are taxonomically assigned to that genus. How can I tell which specific ASV that biomarker corresponds to? I tried making my “SampleID” the subject, but still didn’t get results with the SampleID information.
Any help is greatly appreciated!