How To Install python-htseq on Debian 10
Introduction
In this tutorial we learn how to install python-htseq on Debian 10.
What is python-htseq
python-htseq is:
HTSeq can be used to performing a number of common analysis tasks when working with high-throughput genome sequencing reads:
- Getting statistical summaries about the base-call quality scores to study the data quality.
- Calculating a coverage vector and exporting it for visualization in a genome browser.
- Reading in annotation data from a GFF file.
- Assigning aligned reads from an RNA-Seq experiments to exons and genes.
This package contains the Python 2 module.
There are three methods to install python-htseq on Debian 10. We can use apt-get, apt and aptitude. In the following sections we will describe each method. You can choose one of them.
Install python-htseq Using apt-get
Update apt database with apt-get using the following command.
sudo apt-get update
After updating apt database, We can install python-htseq using apt-get by running the following command:
sudo apt-get -y install python-htseq
Install python-htseq Using apt
Update apt database with apt using the following command.
sudo apt update
After updating apt database, We can install python-htseq using apt by running the following command:
sudo apt -y install python-htseq
Install python-htseq 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 Debian. Update apt database with aptitude using the following command.
sudo aptitude update
After updating apt database, We can install python-htseq using aptitude by running the following command:
sudo aptitude -y install python-htseq
How To Uninstall python-htseq on Debian 10
To uninstall only the python-htseq package we can use the following command:
sudo apt-get remove python-htseq
Uninstall python-htseq And Its Dependencies
To uninstall python-htseq and its dependencies that are no longer needed by Debian 10, we can use the command below:
sudo apt-get -y autoremove python-htseq
Remove python-htseq Configurations and Data
To remove python-htseq configuration and data from Debian 10 we can use the following command:
sudo apt-get -y purge python-htseq
Remove python-htseq configuration, data, and all of its dependencies
We can use the following command to remove python-htseq configurations, data and all of its dependencies, we can use the following command:
sudo apt-get -y autoremove --purge python-htseq
Dependencies
python-htseq have the following dependencies:
References
Summary
In this tutorial we learn how to install python-htseq package on Debian 10 using different package management tools: apt, apt-get and aptitude.