Hi, I am trying to use prokka to annotate a bacteriophage genome. The following command runs through prokka phage_genome.fasta --kingdom Viruses --gcode 11 however, everything is annotated as "hypothetical protein". I tried using swissprot as a template, using the command prokka phage_genome.fasta --kingdom Viruses --gcode 11 --proteins uniprot_sprot.fasta (swissprot database was downloaded from https://www.uniprot.org/downloads and unzipped), but then I get annotations that are clearly not viral. Can you advise how I could fix this pipeline? Many thanks.
Hi, I am trying to use prokka to annotate a bacteriophage genome. The following command runs through
prokka phage_genome.fasta --kingdom Viruses --gcode 11however, everything is annotated as "hypothetical protein". I tried using swissprot as a template, using the commandprokka phage_genome.fasta --kingdom Viruses --gcode 11 --proteins uniprot_sprot.fasta(swissprot database was downloaded from https://www.uniprot.org/downloads and unzipped), but then I get annotations that are clearly not viral. Can you advise how I could fix this pipeline? Many thanks.