[EMBOSS] Sixpack/transeq frame translation

[Yogi Sundaravadanam]

>Do you mean the reverse frames are numbered differently? We followed 
>the
>convention used by the Staden package.
YES! 

>Would a -alternative option be useful in sixpack?
YES... is there an alternative option for sixpack, though?
 
Yogi 

-----Original Message-----
From: Peter Rice [mailto:pmr at ebi.ac.uk] 
Sent: Wednesday, 20 June 2007 11:21 PM
To: Yogi Sundaravadanam
Cc: emboss
Subject: Re: [EMBOSS] Sixpack/transeq frame translation

Yogi Sundaravadanam wrote:
> Sixpack/transeq translations don’t match BLAST translation. This is
> giving me such grief.  After some research, I found out that there’s an
> –alternate option in ‘transeq’ that translate the nucleic sequence to a
> peptide, the BLAST way. Is it possible to do the same for Sixpack? 

I am not sure what you mean by "BLAST translation".

Do you mean the reverse frames are numbered differently? We followed the 
convention used by the Staden package.

Would a -alternative option be useful in sixpack?

regards,

Peter Rice