BINDesignERBINDesignER is the computational protocotol we developed for the optimisation of peptides and for the in-silico maturation of antibody fragments. It is freely available at: https://github.com/migsoler/BINDesignER to make it work, you will need to download few other codes, also freely available for academic use:
and a number of scoring functions. The choice of scoring function will depend on your system. For instance, for antibody fragments we used:
while for peptides optimisation we simply used AutoDock Vina. |
Programming Tutorials:
- C++ Language Tutorial
- HowTo link FORTRAN and C++
- HTML Tutorial (in Italian)
- CSS Tutorial (in Italian)
Useful scripts:
PhD/PostDoc tips:
- How to be a successful scientist: ten commandments for being a successful scientist in academia
- Guide for PhD students (and post-docs) aiming for a successful career in science
- Research is communication: How to write a GREAT research paper (presentation), How to write a paper (30pages book).
- CV templates in LaTeX, and thesis advices for LaTeX users 🙂
- Open positions (PhD/PostDoc): Psi-k (materials), TipTop (physics), CCL (computational chemistry), http://academicpositions.it/
Supervising tips: