How To Install qcumber on Ubuntu
Posted on April 1, 2023 (Last modified on May 20, 2023 )
2 minutes • 361 words
Introduction
In this tutorial we learn how to install qcumber on Ubuntu.
What is qcumber
qcumber is:
QCPipeline is a tool for quality control. The workflow is as follows:
- Quality control with FastQC
- Trim Reads with Trimmomatic
- Quality control of trimmed reads with FastQC
- Map reads against reference using bowtie2
- Classify reads with Kraken
There are three methods to install qcumber 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 qcumber Using apt-get
Update apt database with apt-get using the following command.
sudo apt-get update
After updating apt database, We can install qcumber using apt-get by running the following command:
sudo apt-get -y install qcumber
Install qcumber Using apt
Update apt database with apt using the following command.
sudo apt update
After updating apt database, We can install qcumber using apt by running the following command:
sudo apt -y install qcumber
Install qcumber 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 qcumber using aptitude by running the following command:
sudo aptitude -y install qcumber
How To Uninstall qcumber on Ubuntu
To uninstall only the qcumber package we can use the following command:
sudo apt-get remove qcumber
Uninstall qcumber And Its Dependencies
To uninstall qcumber and its dependencies that are no longer needed by Ubuntu, we can use the command below:
sudo apt-get -y autoremove qcumber
Remove qcumber Configurations and Data
To remove qcumber configuration and data from Ubuntu we can use the following command:
sudo apt-get -y purge qcumber
Remove qcumber configuration, data, and all of its dependencies
We can use the following command to remove qcumber configurations, data and all of its dependencies, we can use the following command:
sudo apt-get -y autoremove --purge qcumber
Dependencies
qcumber have the following dependencies:
References
Summary
In this tutorial we learn how to install qcumber package on Ubuntu using different package management tools: apt, apt-get and aptitude.