How To Install tabix on Ubuntu
Posted on April 1, 2023 (Last modified on May 20, 2023 )
2 minutes • 412 words
Introduction
In this tutorial we learn how to install tabix on Ubuntu.
What is tabix
tabix is:
Tabix indexes files where some columns indicate sequence coordinates: name (usually a chromosome), start and stop. The input data file must be position sorted and compressed by bgzip (provided in this package), which has a gzip like interface. After indexing, tabix is able to quickly retrieve data lines by chromosomal coordinates. Fast data retrieval also works over network if an URI is given as a file name.
This package is built from the HTSlib source, and provides the bgzip, htsfile, and tabix tools.
There are three methods to install tabix 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 tabix Using apt-get
Update apt database with apt-get using the following command.
sudo apt-get update
After updating apt database, We can install tabix using apt-get by running the following command:
sudo apt-get -y install tabix
Install tabix Using apt
Update apt database with apt using the following command.
sudo apt update
After updating apt database, We can install tabix using apt by running the following command:
sudo apt -y install tabix
Install tabix 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 tabix using aptitude by running the following command:
sudo aptitude -y install tabix
How To Uninstall tabix on Ubuntu
To uninstall only the tabix package we can use the following command:
sudo apt-get remove tabix
Uninstall tabix And Its Dependencies
To uninstall tabix and its dependencies that are no longer needed by Ubuntu, we can use the command below:
sudo apt-get -y autoremove tabix
Remove tabix Configurations and Data
To remove tabix configuration and data from Ubuntu we can use the following command:
sudo apt-get -y purge tabix
Remove tabix configuration, data, and all of its dependencies
We can use the following command to remove tabix configurations, data and all of its dependencies, we can use the following command:
sudo apt-get -y autoremove --purge tabix
Dependencies
tabix have the following dependencies:
References
Summary
In this tutorial we learn how to install tabix package on Ubuntu using different package management tools: apt, apt-get and aptitude.