How To Install prottest on Kali Linux
Introduction
In this tutorial we learn how to install prottest on Kali Linux.
What is prottest
prottest is:
PROTTEST (ModelTest’s relative) is a program for selecting the model of protein evolution that best fits a given set of sequences (alignment). This java program is based on the Phyml program (for maximum likelihood calculations and optimization of parameters) and uses the PAL library as well. Models included are empirical substitution matrices (such as WAG, LG, mtREV, Dayhoff, DCMut, JTT, VT, Blosum62, CpREV, RtREV, MtMam, MtArt, HIVb, and HIVw) that indicate relative rates of amino acid replacement, and specific improvements (+I:invariable sites, +G: rate heterogeneity among sites, +F: observed amino acid frequencies) to account for the evolutionary constraints impossed by conservation of protein structure and function. ProtTest uses the Akaike Information Criterion (AIC) and other statistics (AICc and BIC) to find which of the candidate models best fits the data at hand.
There are three methods to install prottest on Kali Linux. We can use apt-get, apt and aptitude. In the following sections we will describe each method. You can choose one of them.
Install prottest Using apt-get
Update apt database with apt-get using the following command.
sudo apt-get updateAfter updating apt database, We can install prottest using apt-get by running the following command:
sudo apt-get -y install prottestInstall prottest Using apt
Update apt database with apt using the following command.
sudo apt updateAfter updating apt database, We can install prottest using apt by running the following command:
sudo apt -y install prottestInstall prottest Using aptitude
If you want to follow this method, you might need to install aptitude on Kali Linux first since aptitude is usually not installed by default on Kali Linux. Update apt database with aptitude using the following command.
sudo aptitude updateAfter updating apt database, We can install prottest using aptitude by running the following command:
sudo aptitude -y install prottestHow To Uninstall prottest on Kali Linux
To uninstall only the prottest package we can use the following command:
sudo apt-get remove prottestUninstall prottest And Its Dependencies
To uninstall prottest and its dependencies that are no longer needed by Kali Linux, we can use the command below:
sudo apt-get -y autoremove prottestRemove prottest Configurations and Data
To remove prottest configuration and data from Kali Linux we can use the following command:
sudo apt-get -y purge prottestRemove prottest configuration, data, and all of its dependencies
We can use the following command to remove prottest configurations, data and all of its dependencies, we can use the following command:
sudo apt-get -y autoremove --purge prottestDependencies
prottest have the following dependencies:
References
Summary
In this tutorial we learn how to install prottest package on Kali Linux using different package management tools: apt, apt-get and aptitude.