How To Install python-pairix-examples on Debian 12
Introduction
In this tutorial we learn how to install python-pairix-examples on Debian 12.
What is python-pairix-examples
python-pairix-examples is:
Pairix is a tool for indexing and querying on a block-compressed text file containing pairs of genomic coordinates.
Pairix is a stand-alone C program that was written on top of tabix as a tool for the 4DN-standard pairs file format describing Hi-C data: pairs_format_specification.md
However, Pairix can be used as a generic tool for indexing and querying any bgzipped text file containing genomic coordinates, for either 2D- or 1D- indexing and querying.
For example: given the custom text file below, you want to extract specific lines from the Pairs file further below. An awk command would read the Pairs file from beginning to end. Pairix creates an index and uses it to access the file from a relevant position by taking advantage of bgzf compression, allowing for a fast query on large files.
This package contains some example data to test the package.
There are three methods to install python-pairix-examples on Debian 12. 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-pairix-examples 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-pairix-examples using apt-get by running the following command:
sudo apt-get -y install python-pairix-examples
Install python-pairix-examples Using apt
Update apt database with apt using the following command.
sudo apt update
After updating apt database, We can install python-pairix-examples using apt by running the following command:
sudo apt -y install python-pairix-examples
Install python-pairix-examples 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-pairix-examples using aptitude by running the following command:
sudo aptitude -y install python-pairix-examples
How To Uninstall python-pairix-examples on Debian 12
To uninstall only the python-pairix-examples package we can use the following command:
sudo apt-get remove python-pairix-examples
Uninstall python-pairix-examples And Its Dependencies
To uninstall python-pairix-examples and its dependencies that are no longer needed by Debian 12, we can use the command below:
sudo apt-get -y autoremove python-pairix-examples
Remove python-pairix-examples Configurations and Data
To remove python-pairix-examples configuration and data from Debian 12 we can use the following command:
sudo apt-get -y purge python-pairix-examples
Remove python-pairix-examples configuration, data, and all of its dependencies
We can use the following command to remove python-pairix-examples configurations, data and all of its dependencies, we can use the following command:
sudo apt-get -y autoremove --purge python-pairix-examples
Dependencies
python-pairix-examples have the following dependencies:
References
Summary
In this tutorial we learn how to install python-pairix-examples package on Debian 12 using different package management tools: apt, apt-get and aptitude.
