azat-badretdin
commented
1 year ago Thank you for your question, Taruna!
But I was wondering what you think about using NCBI's and TIGRFAM's HMMs for annotation with Prokka
This sounds more like a question to prokka creator.
Do you think I'm crazy for doing so?
No. Sounds like a valid research direction to me.
I suspect that the direction here depends on specific goals you are trying to achieve by using different annotation tools.
Hi @azat-badretdin - I wanted to get some advice from you about using PGAP's databases with another annotation tool. I don't have genus level resolution for my MAGs so I have been having a hard time using PGAP. Thus, I turned to Prokka. But I was wondering what you think about using NCBI's and TIGRFAM's HMMs for annotation with Prokka which already uses HAMAP.
I always get confused about which protein family databases to use; so I thought heck I will just try a few at the same time.
Do you think I'm crazy for doing so?