Entering edit mode
5 weeks ago
Pratibha kadam
•
0
I am posting to increase my understanding on the resistance genes from CARD database.
I have downloaded the latest RGI 6.0.3 and I have run RGI bwt as I have the wastewater data from Illumina. I am getting 4500 ARGs as an output for each sample.
When I did the co-occurance analysis of bacterial taxa found from Kraken2, and ARG genes from RGI, I am getting 2.5M correlations of bacteria and ARG based on spearman rank correlation. Even though if I filter the correlation data based on correlation >0.9 and p value <0.01, 2500000 significant correlations remain.
I want to know are there a way to reduce the ARG based on some criteria or how to reduce the number of genes to focus on significant genes.
I am I doing it right way?
