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Thanks. I think it's a good idea to r<FONT SIZE="3">ead codon usage tables directly on kasuka website. </FONT><BR>
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Le mer 10/03/2004 à 10:29, Peter Rice a écrit :
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<PRE><FONT COLOR="#737373" SIZE="3"><I>Carole Louis wrote:
> Thank you. I'm looking for Spodoptera frugiperda. I thought it was
> Espo.cut but it seems very different of the table I found at
> </FONT><A HREF="http://www.kazusa.or.jp/codon/"><FONT SIZE="3">http://www.kazusa.or.jp/codon/</FONT></A><FONT COLOR="#737373" SIZE="3">.
Spo.cut would be Schizosaccharomyces pombe.
After you run cutgextract on the cutg database from
ftp.ebi.ac.uk/pub/databases/cutg you should have
ESpodoptera_frugiperda.cut which comes from the gbinv.codons file.
The kazusa service looks interesting ... I wonder whether EMBOSS could
read codon usage tables directly from there on request... I will try to
make that work if there is enough interest.
>>----- Original Message -----
>> From: Carole Louis
>> To: Liste Emboss
>>
>> I extracted the CUTG database with cutgextract without any
>> problem but I'd like to have a more explicite name for my .cut
>> files ? Is it possible to obtain it ?
We are working on improving the naming and descriptions of codon usage
files - for EMBOSS 2.9.0. This will have to include cutgextract output.
Does anyone need the codon usage files included in the EMBOSS
distribution? We would like to "retire" the old ones (the long names)
and rename (and update) the cutg ones.
regards,
Peter Rice</I></FONT></PRE>
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-- <BR>
Carole Louis <<A HREF="mailto:louis@gtptech.com">louis@gtptech.com</A>><BR>
GTP Technology
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