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[Tutorial] Installing Autodock-Vina-develop package on Ubuntu.

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[Tutorial] Installing Autodock-Vina-develop package on Ubuntu.

Autodock-Vina-develop [1,2] package offers some extra features in addition to Autodock Vina. It includes AutoDock4.2 and Vina scoring functions, a batch mode for virtual screening using Autodock Vina, capable of writing and loading external AutoDock maps, hydrated docking protocol, and so on. In this article, we are going to install this package on Ubuntu.

Preparing system

Open a terminal by pressing Ctrl+Alt+T. Update and upgrade your system using the following commands:

$ sudo apt-get update

$ sudo apt-get upgrade

Downloading Autodock-Vina-develop package

Change to a directory where you want to download the software, let’s say ‘Downloads‘.

$ cd Downloads/

You can either download it from GitHub or past the following command:

$ wget https://github.com/ccsb-scripps/AutoDock-Vina/archive/refs/heads/develop.zip

Installing Autodock-Vina-develop package

Now, unzip the downloaded file.

$ unzip Autodock-Vina-develop

You will see a new directory namely, ‘Autodock-Vina-develop‘.


References

  1. J. Eberhardt, D. Santos-Martins, A. F. Tillack, and S. Forli. (2021). AutoDock Vina 1.2.0: New Docking Methods, Expanded Force Field, and Python Bindings. Journal of Chemical Information and Modeling.
  2. O. Trott and A. J. Olson. (2010). AutoDock Vina: improving the speed and accuracy of docking with a new scoring function, efficient optimization, and multithreading. Journal of computational chemistry, 31(2), 455-461.

Tariq is founder of Bioinformatics Review and CEO at IQL Technologies. His areas of expertise include algorithm design, phylogenetics, MicroArray, Plant Systematics, and genome data analysis. If you have questions, reach out to him via his homepage.

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