How To Install clonalframe on Debian 11
Introduction
In this tutorial we learn how to install clonalframe on Debian 11.
What is clonalframe
clonalframe is:
ClonalFrame identifies the clonal relationships between the members of a sample, while also estimating the chromosomal position of homologous recombination events that have disrupted the clonal inheritance.
ClonalFrame can be applied to any kind of sequence data, from a single fragment of DNA to whole genomes. It is well suited for the analysis of MLST data, where 7 gene fragments have been sequenced, but becomes progressively more powerful as the sequenced regions increase in length and number up to whole genomes. However, it requires the sequences to be aligned. If you have genomic data that is not aligned, it is recommend to use Mauve which produces alignment of whole bacterial genomes in exactly the format required for analysis with ClonalFrame.
There are three methods to install clonalframe 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 clonalframe Using apt-get
Update apt database with apt-get using the following command.
sudo apt-get update
After updating apt database, We can install clonalframe using apt-get by running the following command:
sudo apt-get -y install clonalframe
Install clonalframe Using apt
Update apt database with apt using the following command.
sudo apt update
After updating apt database, We can install clonalframe using apt by running the following command:
sudo apt -y install clonalframe
Install clonalframe 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 clonalframe using aptitude by running the following command:
sudo aptitude -y install clonalframe
How To Uninstall clonalframe on Debian 11
To uninstall only the clonalframe package we can use the following command:
sudo apt-get remove clonalframe
Uninstall clonalframe And Its Dependencies
To uninstall clonalframe and its dependencies that are no longer needed by Debian 11, we can use the command below:
sudo apt-get -y autoremove clonalframe
Remove clonalframe Configurations and Data
To remove clonalframe configuration and data from Debian 11 we can use the following command:
sudo apt-get -y purge clonalframe
Remove clonalframe configuration, data, and all of its dependencies
We can use the following command to remove clonalframe configurations, data and all of its dependencies, we can use the following command:
sudo apt-get -y autoremove --purge clonalframe
Dependencies
clonalframe have the following dependencies:
References
Summary
In this tutorial we learn how to install clonalframe package on Debian 11 using different package management tools: apt, apt-get and aptitude.