How To Install velvet on Ubuntu 18.04
Introduction
In this tutorial we learn how to install velvet on Ubuntu 18.04.
What is velvet
velvet is:
Velvet is a de novo genomic assembler specially designed for short read sequencing technologies, such as Solexa or 454, developed by Daniel Zerbino and Ewan Birney at the European Bioinformatics Institute (EMBL-EBI), near Cambridge, in the United Kingdom.
Velvet currently takes in short read sequences, removes errors then produces high quality unique contigs. It then uses paired read information, if available, to retrieve the repeated areas between contigs.
There are three methods to install velvet 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 velvet Using apt-get
Update apt database with apt-get using the following command.
sudo apt-get update
After updating apt database, We can install velvet using apt-get by running the following command:
sudo apt-get -y install velvet
Install velvet Using apt
Update apt database with apt using the following command.
sudo apt update
After updating apt database, We can install velvet using apt by running the following command:
sudo apt -y install velvet
Install velvet 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 velvet using aptitude by running the following command:
sudo aptitude -y install velvet
How To Uninstall velvet on Ubuntu 18.04
To uninstall only the velvet package we can use the following command:
sudo apt-get remove velvet
Uninstall velvet And Its Dependencies
To uninstall velvet and its dependencies that are no longer needed by Ubuntu 18.04, we can use the command below:
sudo apt-get -y autoremove velvet
Remove velvet Configurations and Data
To remove velvet configuration and data from Ubuntu 18.04 we can use the following command:
sudo apt-get -y purge velvet
Remove velvet configuration, data, and all of its dependencies
We can use the following command to remove velvet configurations, data and all of its dependencies, we can use the following command:
sudo apt-get -y autoremove --purge velvet
References
Summary
In this tutorial we learn how to install velvet package on Ubuntu 18.04 using different package management tools: apt, apt-get and aptitude.
