How To Install atac on Debian 9
Introduction
In this tutorial we learn how to install atac on Debian 9.
What is atac
atac is:
atac computes a one-to-one pairwise alignment of large DNA sequences. It first finds the unique k-mers in each sequence, chains them to larger blocks, and fills in spaces between blocks. It was written primarily to transfer annotations between different assemblies of the human genome.
The output is a set of ungapped ‘matches’, and a set of gapped ‘runs’ formed from the matches. Each match or run associates one sequence with the other sequence. The association is ‘unique’, in that there is no other (sizeable) associations for either sequence. Thus, large repeats and duplications are not present in the output - they appear as unmapped regions.
Though the output is always pairwise, atac can cache intermediate results to speed a comparisons of multiple sequences.
This package is part of the Kmer suite.
There are three methods to install atac on Debian 9. We can use apt-get, apt and aptitude. In the following sections we will describe each method. You can choose one of them.
Install atac Using apt-get
Update apt database with apt-get using the following command.
sudo apt-get update
After updating apt database, We can install atac using apt-get by running the following command:
sudo apt-get -y install atac
Install atac Using apt
Update apt database with apt using the following command.
sudo apt update
After updating apt database, We can install atac using apt by running the following command:
sudo apt -y install atac
Install atac 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 atac using aptitude by running the following command:
sudo aptitude -y install atac
How To Uninstall atac on Debian 9
To uninstall only the atac package we can use the following command:
sudo apt-get remove atac
Uninstall atac And Its Dependencies
To uninstall atac and its dependencies that are no longer needed by Debian 9, we can use the command below:
sudo apt-get -y autoremove atac
Remove atac Configurations and Data
To remove atac configuration and data from Debian 9 we can use the following command:
sudo apt-get -y purge atac
Remove atac configuration, data, and all of its dependencies
We can use the following command to remove atac configurations, data and all of its dependencies, we can use the following command:
sudo apt-get -y autoremove --purge atac
Dependencies
atac have the following dependencies:
References
Summary
In this tutorial we learn how to install atac package on Debian 9 using different package management tools: apt, apt-get and aptitude.