How To Install abpoa on Debian 12
Introduction
In this tutorial we learn how to install abpoa on Debian 12.
What is abpoa
abpoa is:
abPOA is an extended version of Partial Order Alignment (POA) that performs adaptive banded dynamic programming (DP) with an SIMD implementation. abPOA can perform multiple sequence alignment (MSA) on a set of input sequences and generate a consensus sequence by applying the heaviest bundling algorithm to the final alignment graph.
abPOA can generate high-quality consensus sequences from error-prone long reads and offer significant speed improvement over existing tools.
abPOA supports three alignment modes (global, local, extension) and flexible scoring schemes that allow linear, affine and convex gap penalties. It right now supports SSE2/SSE4.1/AVX2 vectorization.
For more information please refer to the paper1 published in Bioinformatics.
There are three methods to install abpoa 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 abpoa Using apt-get
Update apt database with apt-get using the following command.
sudo apt-get update
After updating apt database, We can install abpoa using apt-get by running the following command:
sudo apt-get -y install abpoa
Install abpoa Using apt
Update apt database with apt using the following command.
sudo apt update
After updating apt database, We can install abpoa using apt by running the following command:
sudo apt -y install abpoa
Install abpoa 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 abpoa using aptitude by running the following command:
sudo aptitude -y install abpoa
How To Uninstall abpoa on Debian 12
To uninstall only the abpoa package we can use the following command:
sudo apt-get remove abpoa
Uninstall abpoa And Its Dependencies
To uninstall abpoa and its dependencies that are no longer needed by Debian 12, we can use the command below:
sudo apt-get -y autoremove abpoa
Remove abpoa Configurations and Data
To remove abpoa configuration and data from Debian 12 we can use the following command:
sudo apt-get -y purge abpoa
Remove abpoa configuration, data, and all of its dependencies
We can use the following command to remove abpoa configurations, data and all of its dependencies, we can use the following command:
sudo apt-get -y autoremove --purge abpoa
Dependencies
abpoa have the following dependencies:
References
Summary
In this tutorial we learn how to install abpoa package on Debian 12 using different package management tools: apt, apt-get and aptitude.
