Are you using the latest release?
Yes
Describe the bug
I believe there is some weird data issue in the Eggnog distribution associated with funannotate. In my genome I have the gene "Parasitic phase-specific protein PSP-1" / "RTA3" (sequence at bottom, for curiosity).
But here "RTA3" gets matched to "Envelope glycoprotein gp160":
https://raw.githubusercontent.com/nextgenusfs/gene2product/master/ncbi_cleaned_gene_products.txt
(Search for RTA3 in that file)
So this causes the gene to incorrectly be annotated as Envelope glycoprotein gp160.
It looks like there are 12 of these faulty annotations in that file.
I don't see any examples in NCBI of this issue in submitted genomes. I am new to eukaryotic genome annotation for NCBI, and maybe the correct thing to do is just not used the eggnog annotations? I'll default to that for now.
What command did you issue?
funannotate annotate --eggnog
Are you using the latest release?
Yes
Describe the bug
I believe there is some weird data issue in the Eggnog distribution associated with funannotate. In my genome I have the gene "Parasitic phase-specific protein PSP-1" / "RTA3" (sequence at bottom, for curiosity).
But here "RTA3" gets matched to "Envelope glycoprotein gp160":
https://raw.githubusercontent.com/nextgenusfs/gene2product/master/ncbi_cleaned_gene_products.txt
(Search for RTA3 in that file)
So this causes the gene to incorrectly be annotated as Envelope glycoprotein gp160.
It looks like there are 12 of these faulty annotations in that file.
I don't see any examples in NCBI of this issue in submitted genomes. I am new to eukaryotic genome annotation for NCBI, and maybe the correct thing to do is just not used the eggnog annotations? I'll default to that for now.
What command did you issue?
funannotate annotate --eggnog