How To Install htslib-test on Kali Linux

Introduction

In this tutorial we learn how to install htslib-test on Kali Linux.

What is htslib-test

htslib-test is:

HTSlib is an implementation of a unified C library for accessing common file formats, such as SAM (Sequence Alignment/Map), CRAM and VCF (Variant Call Format), used for high-throughput sequencing data, and is the core library used by samtools and bcftools. HTSlib only depends on zlib. It is known to be compatible with gcc, g++ and clang.

HTSlib implements a generalized BAM (binary SAM) index, with file extension ??csi?? (coordinate-sorted index). The HTSlib file reader first looks for the new index and then for the old if the new index is absent.

This package contains test files and scripts for the HTSlib.

There are three methods to install htslib-test 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 htslib-test Using apt-get

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

sudo apt-get update

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

sudo apt-get -y install htslib-test

Install htslib-test Using apt

Update apt database with apt using the following command.

sudo apt update

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

sudo apt -y install htslib-test

Install htslib-test 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 htslib-test using aptitude by running the following command:

sudo aptitude -y install htslib-test

How To Uninstall htslib-test on Kali Linux

To uninstall only the htslib-test package we can use the following command:

sudo apt-get remove htslib-test

Uninstall htslib-test And Its Dependencies

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

sudo apt-get -y autoremove htslib-test

Remove htslib-test Configurations and Data

To remove htslib-test configuration and data from Kali Linux we can use the following command:

sudo apt-get -y purge htslib-test

Remove htslib-test configuration, data, and all of its dependencies

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

sudo apt-get -y autoremove --purge htslib-test

Dependencies

htslib-test have the following dependencies:

• perl

References

• htslib-test website

Summary

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