NAFlex Tutorials
NAFlex is an on-line web server that offers a variety of simulation methods to obtain a dynamic view of a Nucleic Acid Structures and also a set of analysis packages for mining the resulting nucleic acids trajectories. In this help section user can find a set of tutorials explaining step by step what to do for using the most important functionalities of the server:
-
Atomistic Molecular Dynamics Setup Tutorial
:
How to properly prepare a nucleic acid structure in order to use it in a Molecular Dynamics Simulation. -
Nucleic Acids Flexibility Analysis Tutorial
:
How to run the set of different Flexibility analysis offered by the server from a Molecular Dynamics trajectory: Helical Parameters, Principal Components (PCA), HB/Stacking energies, NMR-observables, etc. -
Coarse-Grained Trajectory Analysis Tutorial
:
How to run the set of Flexibility analysis offered by the server from a Coarse-Grained generated trajectory: Distance Contact Maps and Stiffness Constants (the later only for Elastic Mesoscopic Model).
NAFlex Overview
