Entering edit mode
1 day ago
ijarne
▴
10
I am performing an enrichment analysis on using Pfam (protein domain families). In order to get the Pfam data I have generated an API call to Interpro and downloaded the data from my background protein list and also my "problem protein list".
When retrieving the database I noticed an score that each annotation has, which is obtained with the hidden Markov model model Pfam uses to annotate the domains to each protein (each part of the protein), after seeing this and not being too familiar with these kind of models.
Do I need to filter the Pfam annotations based on this score or can I run my analyses based on all the annotations without taking into account a previous filtering based on this score metric ?
It would help if you posted an example output and command to know which score you are referring to.