How To Install libsnpeff-java on Debian 12

Learn how to install libsnpeff-java on Debian 12 with this tutorial. libsnpeff-java is genetic variant annotation and effect prediction toolbox - lib

Introduction

In this tutorial we learn how to install libsnpeff-java on Debian 12.

What is libsnpeff-java

libsnpeff-java is:

SnpEff is a variant annotation and effect prediction tool. It annotates and predicts the effects of variants on genes (such as amino acid changes).

The inputs are predicted variants (SNPs, insertions, deletions and MNPs). The input file is usually obtained as a result of a sequencing experiment, and it is usually in variant call format (VCF).

SnpEff analyzes the input variants. It annotates the variants and calculates the effects they produce on known genes (e.g. amino acid changes).

This package contains the library.

There are three methods to install libsnpeff-java 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 libsnpeff-java Using apt-get

Update apt database with apt-get using the following command.

sudo apt-get update

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

sudo apt-get -y install libsnpeff-java

Install libsnpeff-java Using apt

Update apt database with apt using the following command.

sudo apt update

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

sudo apt -y install libsnpeff-java

Install libsnpeff-java 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 libsnpeff-java using aptitude by running the following command:

sudo aptitude -y install libsnpeff-java

How To Uninstall libsnpeff-java on Debian 12

To uninstall only the libsnpeff-java package we can use the following command:

sudo apt-get remove libsnpeff-java

Uninstall libsnpeff-java And Its Dependencies

To uninstall libsnpeff-java and its dependencies that are no longer needed by Debian 12, we can use the command below:

sudo apt-get -y autoremove libsnpeff-java

Remove libsnpeff-java Configurations and Data

To remove libsnpeff-java configuration and data from Debian 12 we can use the following command:

sudo apt-get -y purge libsnpeff-java

Remove libsnpeff-java configuration, data, and all of its dependencies

We can use the following command to remove libsnpeff-java configurations, data and all of its dependencies, we can use the following command:

sudo apt-get -y autoremove --purge libsnpeff-java

Dependencies

libsnpeff-java have the following dependencies:

References

Summary

In this tutorial we learn how to install libsnpeff-java package on Debian 12 using different package management tools: apt, apt-get and aptitude.