How To Install libseqlib2 on Kali Linux

In this tutorial we learn how to install libseqlib2 on Kali Linux. libseqlib2 is C++ htslib/bwa-mem/fermi interface for interrogating sequence data

Introduction

In this tutorial we learn how to install libseqlib2 on Kali Linux.

What is libseqlib2

libseqlib2 is:

C++ API and command line tool that provides a rapid and user-friendly interface to BAM/SAM/CRAM files, global sequence alignment operations and sequence assembly. Four C libraries perform core operations in SeqLib: HTSlib for BAM access, BWA-MEM and BLAT for sequence alignment and Fermi for error correction and sequence assembly. Benchmarking indicates that SeqLib has lower CPU and memory requirements than leading C++ sequence analysis APIs. Minimal SeqLib code can extract, error-correct and assemble reads from a CRAM file and then align with BWA-MEM. SeqLib also provides additional capabilities, including chromosome-aware interval queries and read plotting. Command line tools are available for performing integrated error correction, micro-assemblies and alignment.

There are three methods to install libseqlib2 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 libseqlib2 Using apt-get

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

sudo apt-get update

After updating apt database, We can install libseqlib2 using apt-get by running the following command:

sudo apt-get -y install libseqlib2

Install libseqlib2 Using apt

Update apt database with apt using the following command.

sudo apt update

After updating apt database, We can install libseqlib2 using apt by running the following command:

sudo apt -y install libseqlib2

Install libseqlib2 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 libseqlib2 using aptitude by running the following command:

sudo aptitude -y install libseqlib2

How To Uninstall libseqlib2 on Kali Linux

To uninstall only the libseqlib2 package we can use the following command:

sudo apt-get remove libseqlib2

Uninstall libseqlib2 And Its Dependencies

To uninstall libseqlib2 and its dependencies that are no longer needed by Kali Linux, we can use the command below:

sudo apt-get -y autoremove libseqlib2

Remove libseqlib2 Configurations and Data

To remove libseqlib2 configuration and data from Kali Linux we can use the following command:

sudo apt-get -y purge libseqlib2

Remove libseqlib2 configuration, data, and all of its dependencies

We can use the following command to remove libseqlib2 configurations, data and all of its dependencies, we can use the following command:

sudo apt-get -y autoremove --purge libseqlib2

Dependencies

libseqlib2 have the following dependencies:

References

Summary

In this tutorial we learn how to install libseqlib2 package on Kali Linux using different package management tools: apt, apt-get and aptitude.