[Baypiggies] upper case, lower case, and....?
nstinemates at gmail.com
Fri Apr 1 20:19:58 CEST 2011
My knowledge of chemistry is not very good, so please forgive my basic
Are protein sequences a pre-determined length?
Are the sequences in a way which can be parsed easily?
If so, you can basically create a parser for protein sequences, convert them
to some data structure which you can iterate through, and do whatever you
want with the sequences which contain a phospho serine character.
Does that make sense? With some of the rules in place, I can give guidance
on how to write it.
On Fri, Apr 1, 2011 at 5:13 PM, Dirk Bergstrom <dirk at otisbean.com> wrote:
> On 04/01/2011 06:01 AM, Vikram K wrote:
> > I have this protein sequence (each character represents an amino acid):
> > My problem is that i wish to distinguish the phospho serine character
> > the rest of the small case letters in the modified protein sequence shown
> > above.
> > Any suggestions?
> *) Color
> Use ANSI escapes on the terminal, or css in html. This is, IMNSHO, the
> rightest solution, as it gives you many degrees of freedom and is easy
> to see (as long as you don't end up with "angry fruit salad"). See:
> *) Font weight
> Most terminals support bold via ANSI escapes. If you're in html/print
> you've also got italics, underlined and strikeout. Not as good as
> color, but usable in a B&W print article.
> *) Whitespace
> RGSYGYIK TTAVEIDYDsLKR KKNSLNAVPP
> *) Other characters
> *) Depth
> On a 3D/holographic display, you can put the modified sequence above or
> below the rest of the protein.
> Dirk Bergstrom dirk at otisbean.com
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