How To Install qcat on Ubuntu
Posted on April 1, 2023 (Last modified on May 20, 2023 )
2 minutes • 382 words
Introduction
In this tutorial we learn how to install qcat on Ubuntu.
What is qcat
qcat is:
Qcat is a command-line tool for demultiplexing Oxford Nanopore reads from FASTQ files. It accepts basecalled FASTQ files and splits the reads into separate FASTQ files based on their barcode. Qcat makes the demultiplexing algorithms used in albacore/guppy and EPI2ME available to be used locally with FASTQ files. Currently qcat implements the EPI2ME algorithm.
There are three methods to install qcat 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 qcat Using apt-get
Update apt database with apt-get using the following command.
sudo apt-get update
After updating apt database, We can install qcat using apt-get by running the following command:
sudo apt-get -y install qcat
Install qcat Using apt
Update apt database with apt using the following command.
sudo apt update
After updating apt database, We can install qcat using apt by running the following command:
sudo apt -y install qcat
Install qcat 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 qcat using aptitude by running the following command:
sudo aptitude -y install qcat
How To Uninstall qcat on Ubuntu
To uninstall only the qcat package we can use the following command:
sudo apt-get remove qcat
Uninstall qcat And Its Dependencies
To uninstall qcat and its dependencies that are no longer needed by Ubuntu, we can use the command below:
sudo apt-get -y autoremove qcat
Remove qcat Configurations and Data
To remove qcat configuration and data from Ubuntu we can use the following command:
sudo apt-get -y purge qcat
Remove qcat configuration, data, and all of its dependencies
We can use the following command to remove qcat configurations, data and all of its dependencies, we can use the following command:
sudo apt-get -y autoremove --purge qcat
Dependencies
qcat have the following dependencies:
References
Summary
In this tutorial we learn how to install qcat package on Ubuntu using different package management tools: apt, apt-get and aptitude.