Happy new year, 2023. I am doing genome assembly and annotation. I have a problem doing the functional annotation part of it since I am new and still learning this. I have done the following:
- Assembled the genome (using Verkko and Hifiasm) and assessed the assembly quality
- Did the transcriptome assembly using trinity
- Run MAKER and BRAKER annotation pipelines successfully and I have the gff files.
- I did extract the proteins and transcript sequences from the maker results.
Now I am supposed to add the functional annotation and meta-data to the MAKER gff file for me to get the actual gene names. I tried to use MAKER tutorial but this seems not to work as advertised on their tutorial. I was wondering if someone can guide me in doing the last part (adding annotation and meta-data) since it is the only step which is giving me some problems. I was to get the actual gene names (symbols). I tried the AGAT (Juke34) but I am not getting the right right gene symbols. Look forward to your help.