How To Install minimap on Ubuntu
Posted on April 1, 2023 (Last modified on May 20, 2023 )
2 minutes • 421 words
Introduction
In this tutorial we learn how to install minimap on Ubuntu.
What is minimap
minimap is:
Minimap is an experimental tool to efficiently find multiple approximate mapping positions between two sets of long biological sequences, such as between DNA reads and reference genomes, between genomes and between long noisy reads. Minimap does not generate alignments as of now and because of this, it is usually tens of times faster than mainstream aligners. It does not replace mainstream aligners, but it can be useful when you want to quickly identify long approximate matches at moderate divergence among a huge collection of sequences. For this task, it is much faster than most existing tools.
There are three methods to install minimap on Ubuntu. We can use apt-get, apt and aptitude. In the following sections we will describe each method. You can choose one of them.
Install minimap Using apt-get
Update apt database with apt-get using the following command.
sudo apt-get update
After updating apt database, We can install minimap using apt-get by running the following command:
sudo apt-get -y install minimap
Install minimap Using apt
Update apt database with apt using the following command.
sudo apt update
After updating apt database, We can install minimap using apt by running the following command:
sudo apt -y install minimap
Install minimap 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 Ubuntu. Update apt database with aptitude using the following command.
sudo aptitude update
After updating apt database, We can install minimap using aptitude by running the following command:
sudo aptitude -y install minimap
How To Uninstall minimap on Ubuntu
To uninstall only the minimap package we can use the following command:
sudo apt-get remove minimap
Uninstall minimap And Its Dependencies
To uninstall minimap and its dependencies that are no longer needed by Ubuntu, we can use the command below:
sudo apt-get -y autoremove minimap
Remove minimap Configurations and Data
To remove minimap configuration and data from Ubuntu we can use the following command:
sudo apt-get -y purge minimap
Remove minimap configuration, data, and all of its dependencies
We can use the following command to remove minimap configurations, data and all of its dependencies, we can use the following command:
sudo apt-get -y autoremove --purge minimap
Dependencies
minimap have the following dependencies:
References
Summary
In this tutorial we learn how to install minimap package on Ubuntu using different package management tools: apt, apt-get and aptitude.