How To Install python-htseq on Debian 10

Learn how to install python-htseq on Debian 10 with this tutorial. python-htseq is Python high-throughput genome sequencing read analysis utilities

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.