Programs in Physics & Physical Chemistry
|[Licence| Download | New Version Template] aezv_v1_0.tar.gz(182 Kbytes)|
|Manuscript Title: Geant4-DNA simulations using complex DNA geometries generated by the DnaFabric tool|
|Authors: S. Meylan, U. Vimont, S. Incerti, I. Clairand, C. Villagrasa|
|Program title: DnaFabric|
|Catalogue identifier: AEZV_v1_0|
Distribution format: tar.gz
|Journal reference: Comput. Phys. Commun. 204(2016)159|
|Programming language: C++.|
|Computer: Computer with a GPU and OpenGL3.3 compatible drivers.|
|Operating system: Linux (Ubuntu).|
|RAM: 4 gigabytes|
|Keywords: DnaFabric, Real-time rendering, model, 3D, Simulation.|
|Classification: 3, 14, 20.|
External routines: Qt5 and OpenGL3.3
Nature of problem:
Simulations implying DNA geometrical models often show limitations to support the huge number of DNA constituents. In order to allow users to build, visualise and perform calculations on detailed DNA models including hundreds of thousands of DNA elements, a dedicated framework is needed.
The DnaFabric library is a framework that allows users to easily build their own DNA models, display them and perform calculations. The DnaFabric includes: hierarchically organised DNA models (binary-executable example named "Fibre"), a dedicated 3D render engine, an optimised OpenGL interface and some multi-threading facilities.
The DnaFabric uses 3D technologies from the computer graphics world allowing the rendering of huge DNA models in real-time.
Three examples are provided in the Examples folder. The "Basic" example describes how to set-up a simple DnaFabric user-application. The "Fibre" example shows the two DNA fibre models used for the calculations in this paper. The "MovingSpheres" example, demonstrates how to implement a simulation interacting with the DNA geometrical model.
Once a user application is started, an auto-generated window will show the 3D model. The efficiency of the rendering depends highly on the user hardware. However, the user can customise each of the rendered elements contained in its application to adjust the required computer power.
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