How To Install pbhoney on Debian 10

Learn how to install pbhoney on Debian 10 with this tutorial. pbhoney is genomic structural variation discovery

Introduction

In this tutorial we learn how to install pbhoney on Debian 10.

What is pbhoney

pbhoney is:

PBHoney is an implementation of two variant-identification approaches designed to exploit the high mappability of long reads (i.e., greater than 10,000 bp). PBHoney considers both intra-read discordance and soft-clipped tails of long reads to identify structural variants.

PBHoney is part of the PBSuite.

There are three methods to install pbhoney 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 pbhoney Using apt-get

Update apt database with apt-get using the following command.

sudo apt-get update

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

sudo apt-get -y install pbhoney

Install pbhoney Using apt

Update apt database with apt using the following command.

sudo apt update

After updating apt database, We can install pbhoney using apt by running the following command:

sudo apt -y install pbhoney

Install pbhoney 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 pbhoney using aptitude by running the following command:

sudo aptitude -y install pbhoney

How To Uninstall pbhoney on Debian 10

To uninstall only the pbhoney package we can use the following command:

sudo apt-get remove pbhoney

Uninstall pbhoney And Its Dependencies

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

sudo apt-get -y autoremove pbhoney

Remove pbhoney Configurations and Data

To remove pbhoney configuration and data from Debian 10 we can use the following command:

sudo apt-get -y purge pbhoney

Remove pbhoney configuration, data, and all of its dependencies

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

sudo apt-get -y autoremove --purge pbhoney

Dependencies

pbhoney have the following dependencies:

References

Summary

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