How To Install soapdenovo on Ubuntu 18.04
Introduction
In this tutorial we learn how to install soapdenovo on Ubuntu 18.04.
What is soapdenovo
soapdenovo is:
SOAPdenovo is a novel short-read assembly method that can build a de novo draft assembly for the human-sized genomes. The program is specially designed to assemble Illumina GA short reads.
It creates new opportunities for building reference sequences and carrying out accurate analyses of unexplored genomes in a cost effective way.
This version is not maintained anymore, consider using soapdenovo2.
There are three methods to install soapdenovo on Ubuntu 18.04. We can use apt-get, apt and aptitude. In the following sections we will describe each method. You can choose one of them.
Install soapdenovo Using apt-get
Update apt database with apt-get using the following command.
sudo apt-get update
After updating apt database, We can install soapdenovo using apt-get by running the following command:
sudo apt-get -y install soapdenovo
Install soapdenovo Using apt
Update apt database with apt using the following command.
sudo apt update
After updating apt database, We can install soapdenovo using apt by running the following command:
sudo apt -y install soapdenovo
Install soapdenovo 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 soapdenovo using aptitude by running the following command:
sudo aptitude -y install soapdenovo
How To Uninstall soapdenovo on Ubuntu 18.04
To uninstall only the soapdenovo package we can use the following command:
sudo apt-get remove soapdenovo
Uninstall soapdenovo And Its Dependencies
To uninstall soapdenovo and its dependencies that are no longer needed by Ubuntu 18.04, we can use the command below:
sudo apt-get -y autoremove soapdenovo
Remove soapdenovo Configurations and Data
To remove soapdenovo configuration and data from Ubuntu 18.04 we can use the following command:
sudo apt-get -y purge soapdenovo
Remove soapdenovo configuration, data, and all of its dependencies
We can use the following command to remove soapdenovo configurations, data and all of its dependencies, we can use the following command:
sudo apt-get -y autoremove --purge soapdenovo
References
Summary
In this tutorial we learn how to install soapdenovo package on Ubuntu 18.04 using different package management tools: apt, apt-get and aptitude.
