How To Install miniasm on Ubuntu 22.04
Introduction
In this tutorial we learn how to install miniasm on Ubuntu 22.04.
What is miniasm
miniasm is:
Miniasm is an experimental very fast OLC-based de novo assembler for noisy long reads. It takes all-vs-all read self-mappings (typically by minimap) as input and outputs an assembly graph in the GFA format. Different from mainstream assemblers, miniasm does not have a consensus step. It simply concatenates pieces of read sequences to generate the final unitig sequences. Thus the per-base error rate is similar to the raw input reads.
There are three methods to install miniasm 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 miniasm Using apt-get
Update apt database with apt-get using the following command.
sudo apt-get update
After updating apt database, We can install miniasm using apt-get by running the following command:
sudo apt-get -y install miniasm
Install miniasm Using apt
Update apt database with apt using the following command.
sudo apt update
After updating apt database, We can install miniasm using apt by running the following command:
sudo apt -y install miniasm
Install miniasm 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 miniasm using aptitude by running the following command:
sudo aptitude -y install miniasm
How To Uninstall miniasm on Ubuntu 22.04
To uninstall only the miniasm package we can use the following command:
sudo apt-get remove miniasm
Uninstall miniasm And Its Dependencies
To uninstall miniasm and its dependencies that are no longer needed by Ubuntu 22.04, we can use the command below:
sudo apt-get -y autoremove miniasm
Remove miniasm Configurations and Data
To remove miniasm configuration and data from Ubuntu 22.04 we can use the following command:
sudo apt-get -y purge miniasm
Remove miniasm configuration, data, and all of its dependencies
We can use the following command to remove miniasm configurations, data and all of its dependencies, we can use the following command:
sudo apt-get -y autoremove --purge miniasm
References
Summary
In this tutorial we learn how to install miniasm package on Ubuntu 22.04 using different package management tools: apt, apt-get and aptitude.
