Hello, biostars!

Previously I have performed annotation of GO terms for my transcriptome by blasting my sequences against Swissprot I performing a direct transfer. Despite the results making sense, I think this is a rather naive approach. I was looking over the literature and I read the papers on InterPro, Eggnog and PANNZER2, which all can output GO terms. Since my main objective with the Gene enrichment analysis I will perform is to understand the biological landscape I'm thinking about annotating with Interpro to get the functional domains and supplement that annotation with eggNOG GO terms

I realize this is a rather open question, but I was wondering about the advantages and disadvantages of the several methods to avoid wasting too much time testing several tools and comparing them

Thanks for the attention