How To Install bioperl on Ubuntu
Posted on April 1, 2023 (Last modified on May 20, 2023 )
2 minutes • 397 words
Introduction
In this tutorial we learn how to install bioperl on Ubuntu.
What is bioperl
bioperl is:
The Bioperl project is a coordinated effort to collect computational methods routinely used in bioinformatics into a set of standard CPAN-style, well-documented, and freely available Perl modules. It is well-accepted throughout the community and used in many high-profile projects, e.g., Ensembl.
The recommended packages are needed to run some of the included binaries, for a detailed explanation including the specific Perl modules please see README.Debian.
The suggested package enhances the manual pages.
There are three methods to install bioperl 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 bioperl Using apt-get
Update apt database with apt-get using the following command.
sudo apt-get update
After updating apt database, We can install bioperl using apt-get by running the following command:
sudo apt-get -y install bioperl
Install bioperl Using apt
Update apt database with apt using the following command.
sudo apt update
After updating apt database, We can install bioperl using apt by running the following command:
sudo apt -y install bioperl
Install bioperl 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 bioperl using aptitude by running the following command:
sudo aptitude -y install bioperl
How To Uninstall bioperl on Ubuntu
To uninstall only the bioperl package we can use the following command:
sudo apt-get remove bioperl
Uninstall bioperl And Its Dependencies
To uninstall bioperl and its dependencies that are no longer needed by Ubuntu, we can use the command below:
sudo apt-get -y autoremove bioperl
Remove bioperl Configurations and Data
To remove bioperl configuration and data from Ubuntu we can use the following command:
sudo apt-get -y purge bioperl
Remove bioperl configuration, data, and all of its dependencies
We can use the following command to remove bioperl configurations, data and all of its dependencies, we can use the following command:
sudo apt-get -y autoremove --purge bioperl
Dependencies
bioperl have the following dependencies:
References
Summary
In this tutorial we learn how to install bioperl package on Ubuntu using different package management tools: apt, apt-get and aptitude.