How To Install svim on Debian 12
Introduction
In this tutorial we learn how to install svim
on Debian 12.
What is svim
svim is:
SVIM is a structural variant caller for long sequencing reads. It is able to detect, classify and genotype five different classes of structural variants. Unlike existing methods, SVIM integrates information from across the genome to precisely distinguish similar events, such as tandem and interspersed duplications and simple insertions.
There are three methods to install svim
on Debian 12. We can use apt-get
, apt
and aptitude
. In the following sections we will describe each method. You can choose one of them.
Install svim Using apt-get
Update apt database with apt-get
using the following command.
sudo apt-get update
After updating apt database, We can install svim
using apt-get
by running the following command:
sudo apt-get -y install svim
Install svim Using apt
Update apt database with apt
using the following command.
sudo apt update
After updating apt database, We can install svim
using apt
by running the following command:
sudo apt -y install svim
Install svim 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 svim
using aptitude
by running the following command:
sudo aptitude -y install svim
How To Uninstall svim on Debian 12
To uninstall only the svim
package we can use the following command:
sudo apt-get remove svim
Uninstall svim And Its Dependencies
To uninstall svim
and its dependencies that are no longer needed by Debian 12, we can use the command below:
sudo apt-get -y autoremove svim
Remove svim Configurations and Data
To remove svim
configuration and data from Debian 12 we can use the following command:
sudo apt-get -y purge svim
Remove svim configuration, data, and all of its dependencies
We can use the following command to remove svim
configurations, data and all of its dependencies, we can use the following command:
sudo apt-get -y autoremove --purge svim
Dependencies
svim have the following dependencies:
- python3-cpuinfo
- python3-edlib
- python3-matplotlib
- python3-numpy
- python3-pysam
- python3-pyspoa
- python3-scipy
- python3
References
Summary
In this tutorial we learn how to install svim
package on Debian 12 using different package management tools: apt
, apt-get
and aptitude
.