How To Install augustus on Kali Linux
Introduction
In this tutorial we learn how to install augustus on Kali Linux.
What is augustus
augustus is:
AUGUSTUS is a software for gene prediction in eukaryotic genomic sequences that is based on a generalized hidden Markov model (HMM), a probabilistic model of a sequence and its gene structure. After learning gene structures from a reference annotation, AUGUSTUS uses the HMM to recognize genes in a new sequence and annotates it with the regions of identified genes. External hints, e.g. from RNA sequencing, EST or protein alignments etc. can be used to guide and improve the gene finding process. The result is the set of most likely gene structures that comply with all given user constraints, if such gene structures exist. AUGUSTUS already includes prebuilt HMMs for many species, as well as scripts to train custom models using annotated genomes.
There are three methods to install augustus 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 augustus Using apt-get
Update apt database with apt-get using the following command.
sudo apt-get updateAfter updating apt database, We can install augustus using apt-get by running the following command:
sudo apt-get -y install augustusInstall augustus Using apt
Update apt database with apt using the following command.
sudo apt updateAfter updating apt database, We can install augustus using apt by running the following command:
sudo apt -y install augustusInstall augustus 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 augustus using aptitude by running the following command:
sudo aptitude -y install augustusHow To Uninstall augustus on Kali Linux
To uninstall only the augustus package we can use the following command:
sudo apt-get remove augustusUninstall augustus And Its Dependencies
To uninstall augustus and its dependencies that are no longer needed by Kali Linux, we can use the command below:
sudo apt-get -y autoremove augustusRemove augustus Configurations and Data
To remove augustus configuration and data from Kali Linux we can use the following command:
sudo apt-get -y purge augustusRemove augustus configuration, data, and all of its dependencies
We can use the following command to remove augustus configurations, data and all of its dependencies, we can use the following command:
sudo apt-get -y autoremove --purge augustusDependencies
augustus have the following dependencies:
References
Summary
In this tutorial we learn how to install augustus package on Kali Linux using different package management tools: apt, apt-get and aptitude.