How To Install snpomatic on Kali Linux

Introduction

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

What is snpomatic

snpomatic is:

High throughput sequencing technologies generate large amounts of short reads. Mapping these to a reference sequence consumes large amounts of processing time and memory, and read mapping errors can lead to noisy or incorrect alignments.

SNP-o-matic is a fast, stringent short-read mapping software. It supports a multitude of output types and formats, for uses in filtering reads, alignments, sequence-based genotyping calls, assisted reassembly of contigs etc.

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

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

sudo apt-get update

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

sudo apt-get -y install snpomatic

Install snpomatic Using apt

Update apt database with apt using the following command.

sudo apt update

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

sudo apt -y install snpomatic

Install snpomatic 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 snpomatic using aptitude by running the following command:

sudo aptitude -y install snpomatic

How To Uninstall snpomatic on Kali Linux

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

sudo apt-get remove snpomatic

Uninstall snpomatic And Its Dependencies

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

sudo apt-get -y autoremove snpomatic

Remove snpomatic Configurations and Data

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

sudo apt-get -y purge snpomatic

Remove snpomatic configuration, data, and all of its dependencies

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

sudo apt-get -y autoremove --purge snpomatic

Dependencies

snpomatic have the following dependencies:

• libc6
• libgcc-s1
• libstdc++6

References

• snpomatic website

Summary

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