meta mode and translation table 4

[tseemann]

Doug

Can you have a look at this Prodigal question/issue posted to Prokka?

tseemann/prokka#112

[davidbur]

+1
When applying -p meta disregards -g xx.
I tried -p meta -g 25 and stop codons were assigned for UGA codons.

Thanks.

[ShaiberAlon]

Hi,

Any plans on addressing this?

I run into a very similar problem to that @davidbur mentioned above:
I try to use -p meta -g 25, and while UGA is not assigned to stop codon, it is translated to tryptophan (translation table 4) instead of glycine (translation table 25). If I use -p single -g 25 then UGA is translated to glycine properly.

Thank you!

[hyattpd]

This will be supported in the Go version (user will be able to specify which genetic codes of the pre-built models they want to use).

[ShaiberAlon]

Hi @hyattpd , thanks for following-up on this! What is the Go version?

[hyattpd]

New version that I am developing... I'll post more in the main README for Prodigal once it's closer to done.