How To Install augustus on Debian 11

In this tutorial we learn how to install augustus on Debian 11. augustus is gene prediction in eukaryotic genomes

Introduction

In this tutorial we learn how to install augustus on Debian 11.

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 Debian 11. 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 update

After updating apt database, We can install augustus using apt-get by running the following command:

sudo apt-get -y install augustus

Install augustus Using apt

Update apt database with apt using the following command.

sudo apt update

After updating apt database, We can install augustus using apt by running the following command:

sudo apt -y install augustus

Install augustus Using aptitude

If you want to follow this method, you might need to install aptitude first since aptitude is usually not installed by default on Debian. Update apt database with aptitude using the following command.

sudo aptitude update

After updating apt database, We can install augustus using aptitude by running the following command:

sudo aptitude -y install augustus

How To Uninstall augustus on Debian 11

To uninstall only the augustus package we can use the following command:

sudo apt-get remove augustus

Uninstall augustus And Its Dependencies

To uninstall augustus and its dependencies that are no longer needed by Debian 11, we can use the command below:

sudo apt-get -y autoremove augustus

Remove augustus Configurations and Data

To remove augustus configuration and data from Debian 11 we can use the following command:

sudo apt-get -y purge augustus

Remove 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 augustus

Dependencies

augustus have the following dependencies:

References

Summary

In this tutorial we learn how to install augustus package on Debian 11 using different package management tools: apt, apt-get and aptitude.