How To Install mmseqs2 on Debian 11
Introduction
In this tutorial we learn how to install mmseqs2 on Debian 11.
What is mmseqs2
mmseqs2 is:
MMseqs2 (Many-against-Many sequence searching) is a software suite to search and cluster huge proteins/nucleotide sequence sets. MMseqs2 is open source GPL-licensed software implemented in C++ for Linux, MacOS, and (as beta version, via cygwin) Windows. The software is designed to run on multiple cores and servers and exhibits very good scalability. MMseqs2 can run 10000 times faster than BLAST. At 100 times its speed it achieves almost the same sensitivity. It can perform profile searches with the same sensitivity as PSI-BLAST at over 400 times its speed.
There are three methods to install mmseqs2 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 mmseqs2 Using apt-get
Update apt database with apt-get using the following command.
sudo apt-get update
After updating apt database, We can install mmseqs2 using apt-get by running the following command:
sudo apt-get -y install mmseqs2
Install mmseqs2 Using apt
Update apt database with apt using the following command.
sudo apt update
After updating apt database, We can install mmseqs2 using apt by running the following command:
sudo apt -y install mmseqs2
Install mmseqs2 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 mmseqs2 using aptitude by running the following command:
sudo aptitude -y install mmseqs2
How To Uninstall mmseqs2 on Debian 11
To uninstall only the mmseqs2 package we can use the following command:
sudo apt-get remove mmseqs2
Uninstall mmseqs2 And Its Dependencies
To uninstall mmseqs2 and its dependencies that are no longer needed by Debian 11, we can use the command below:
sudo apt-get -y autoremove mmseqs2
Remove mmseqs2 Configurations and Data
To remove mmseqs2 configuration and data from Debian 11 we can use the following command:
sudo apt-get -y purge mmseqs2
Remove mmseqs2 configuration, data, and all of its dependencies
We can use the following command to remove mmseqs2 configurations, data and all of its dependencies, we can use the following command:
sudo apt-get -y autoremove --purge mmseqs2
Dependencies
mmseqs2 have the following dependencies:
References
Summary
In this tutorial we learn how to install mmseqs2 package on Debian 11 using different package management tools: apt, apt-get and aptitude.