I’m curious as to whether anyone has strong opinions on doing presence/absence analyses, and if so, how to do them well.
I have a dataset in which I separated samples into several different sterile tubes, then stored them at different temperatures and storage durations. A committee member is asking me to conduct presence/absence analysis to identify whether specific taxa are blooming or dying during storage. However, how does one guarantee that blooming/dying isn’t an artifact of sequencing depth? Also, what would be a significant finding? Would it relate to a specific detection limit?
Any thoughts would be greatly appreciated!