How To Install minia on Ubuntu 22.04
Introduction
In this tutorial we learn how to install minia on Ubuntu 22.04.
What is minia
minia is:
What was referred to as “next-generation” DNA sequencing up to the year 2020 delivered only “short” reads up to ~600 base pairs in length that would then have to be puzzled by random overlaps in their sequence towards a complete genome. This is the genome assembly. And there are many biological pitfalls on long stretches of low complexity regions and copy number variations and other sorts of redundancies that render this difficult.
This package provides a short-read DNA sequence assembler based on a de Bruijn graph, capable of assembling a human genome on a desktop computer in a day.
The output of Minia is a set of contigs, i.e. stretches of gap-free linear overlaps of short reads. In the best possible case this is a whole chromosome.
Minia produces results of similar contiguity and accuracy to other de Bruijn assemblers (e.g. Velvet).
There are three methods to install minia on Ubuntu 22.04. We can use apt-get, apt and aptitude. In the following sections we will describe each method. You can choose one of them.
Install minia Using apt-get
Update apt database with apt-get using the following command.
sudo apt-get update
After updating apt database, We can install minia using apt-get by running the following command:
sudo apt-get -y install minia
Install minia Using apt
Update apt database with apt using the following command.
sudo apt update
After updating apt database, We can install minia using apt by running the following command:
sudo apt -y install minia
Install minia 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 minia using aptitude by running the following command:
sudo aptitude -y install minia
How To Uninstall minia on Ubuntu 22.04
To uninstall only the minia package we can use the following command:
sudo apt-get remove minia
Uninstall minia And Its Dependencies
To uninstall minia and its dependencies that are no longer needed by Ubuntu 22.04, we can use the command below:
sudo apt-get -y autoremove minia
Remove minia Configurations and Data
To remove minia configuration and data from Ubuntu 22.04 we can use the following command:
sudo apt-get -y purge minia
Remove minia configuration, data, and all of its dependencies
We can use the following command to remove minia configurations, data and all of its dependencies, we can use the following command:
sudo apt-get -y autoremove --purge minia
References
Summary
In this tutorial we learn how to install minia package on Ubuntu 22.04 using different package management tools: apt, apt-get and aptitude.
