How To Install pbbamtools on Kali Linux

In this tutorial we learn how to install pbbamtools on Kali Linux. pbbamtools is processing Pacific Biosciences binary alignment/map files

Introduction

In this tutorial we learn how to install pbbamtools on Kali Linux.

What is pbbamtools

pbbamtools is:

The BAM format is a binary, compressed, record-oriented container format for raw or aligned sequence reads. The associated SAM format is a text representation of the same data. The specifications for BAM/SAM are maintained by the SAM/BAM Format Specification Working Group.

PacBio-produced BAM files are fully compatible with the BAM specification, but makes use of the extensibility mechanisms of the BAM specification to encode PacBio-specific information.

This package provides command-line utilities for working with PacBio BAM files.

There are three methods to install pbbamtools on Kali Linux. We can use apt-get, apt and aptitude. In the following sections we will describe each method. You can choose one of them.

Install pbbamtools Using apt-get

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

sudo apt-get update

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

sudo apt-get -y install pbbamtools

Install pbbamtools Using apt

Update apt database with apt using the following command.

sudo apt update

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

sudo apt -y install pbbamtools

Install pbbamtools Using aptitude

If you want to follow this method, you might need to install aptitude on Kali Linux first since aptitude is usually not installed by default on Kali Linux. Update apt database with aptitude using the following command.

sudo aptitude update

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

sudo aptitude -y install pbbamtools

How To Uninstall pbbamtools on Kali Linux

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

sudo apt-get remove pbbamtools

Uninstall pbbamtools And Its Dependencies

To uninstall pbbamtools and its dependencies that are no longer needed by Kali Linux, we can use the command below:

sudo apt-get -y autoremove pbbamtools

Remove pbbamtools Configurations and Data

To remove pbbamtools configuration and data from Kali Linux we can use the following command:

sudo apt-get -y purge pbbamtools

Remove pbbamtools configuration, data, and all of its dependencies

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

sudo apt-get -y autoremove --purge pbbamtools

Dependencies

pbbamtools have the following dependencies:

References

Summary

In this tutorial we learn how to install pbbamtools package on Kali Linux using different package management tools: apt, apt-get and aptitude.