Hi Carton. On Mon, 23 Aug 2004 21:15:41 +0800, Carton Chen wrote:
> Dear Kim, > I saw the new version of Artemis. I downloaded it, add the ,command > suffix and test ran it a little bit. I like it. It is significantly > faster. more responsive, and more convenient. > A thought occurred to me recently regarding Artemis. It would be great > if you let the ORF arrows show info regarding their codon preferences > in color: Different colors (say from Red to orange to yellow to green > to blue to cyan) for different range (100 to 0%) of G/C in the third > position of codon, This way one may look at the ORF and readily decide > which one is likely coding in G+C rich or G+C poor genomes. That's an interesting suggestion. I'm CCing this to the Artemis mailing list so others can comment. > Another alternative of course is to give the ORF the same color that > matches the corresponding curve in the CC Frame Plot. That would be > very helpful, too. That sort of thing has been discussed in the past, but it never made it to the top of the priority list. > Another suggestion: > At least in prokaryote mode (if there is), the initial ORF mapped > should start with the first potential initiation codon after the last > stop codon, not just the first codon after. The latter adds a lot extra > work - at least one initial move for each potential ORF. I'm sure there is reason for this behaviour. I'll leave it to others to comment. Kim.
