I come from a computer science background (only little knowledge on
Bioinformatics) and I work on this BioInformatics application to be used
in a research institute.
Application need a feature to model protein 3D structure from sequences
and I decided to go with Modeller.
The application should have a simple interface (like web interface at
http://salilab.org/modweb ) .
I went through the Basic modeling tutorial
(http://salilab.org/modeller/tutorial/basic.html) and have several
questions :
1) After step 1 (build_profile.py) we have to select suitable templates
,does the selection criteria is e-value =0 ?
2) After executing 'compare.py' ,we have to select one pdb template from
distance matrix?
How to implement this in selection logic? What criteria does 'ModWeb'
application use? Is there any tools to select the best template using
the distance matrix?