How To Install python-ngs on Debian 10

Learn how to install python-ngs on Debian 10 with this tutorial. python-ngs is Next Generation Sequencing language Bindings (Python bindings)

Introduction

In this tutorial we learn how to install python-ngs on Debian 10.

What is python-ngs

python-ngs is:

NGS is a new, domain-specific API for accessing reads, alignments and pileups produced from Next Generation Sequencing. The API itself is independent from any particular back-end implementation, and supports use of multiple back-ends simultaneously. It also provides a library for building new back-end “engines”. The engine for accessing SRA data is contained within the sister repository ncbi-vdb.

The API is currently expressed in C++, Java and Python languages. The design makes it possible to maintain a high degree of similarity between the code in one language and code in another - especially between C++ and Java.

Python bindings.

There are three methods to install python-ngs 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-ngs 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-ngs using apt-get by running the following command:

sudo apt-get -y install python-ngs

Install python-ngs Using apt

Update apt database with apt using the following command.

sudo apt update

After updating apt database, We can install python-ngs using apt by running the following command:

sudo apt -y install python-ngs

Install python-ngs 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-ngs using aptitude by running the following command:

sudo aptitude -y install python-ngs

How To Uninstall python-ngs on Debian 10

To uninstall only the python-ngs package we can use the following command:

sudo apt-get remove python-ngs

Uninstall python-ngs And Its Dependencies

To uninstall python-ngs and its dependencies that are no longer needed by Debian 10, we can use the command below:

sudo apt-get -y autoremove python-ngs

Remove python-ngs Configurations and Data

To remove python-ngs configuration and data from Debian 10 we can use the following command:

sudo apt-get -y purge python-ngs

Remove python-ngs configuration, data, and all of its dependencies

We can use the following command to remove python-ngs configurations, data and all of its dependencies, we can use the following command:

sudo apt-get -y autoremove --purge python-ngs

Dependencies

python-ngs have the following dependencies:

References

Summary

In this tutorial we learn how to install python-ngs package on Debian 10 using different package management tools: apt, apt-get and aptitude.