How To Install ivar on Kali Linux

In this tutorial we learn how to install ivar on Kali Linux. ivar is functions broadly useful for viral amplicon-based sequencing

Introduction

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

What is ivar

ivar is:

iVar is a computational package that contains functions broadly useful for viral amplicon-based sequencing. Additional tools for metagenomic sequencing are actively being incorporated into iVar. While each of these functions can be accomplished using existing tools, iVar contains an intersection of functionality from multiple tools that are required to call iSNVs and consensus sequences from viral sequencing data across multiple replicates. iVar provided the following functions:

  1. trimming of primers and low-quality bases,
  2. consensus calling,
  3. variant calling - both iSNVs and insertions/deletions, and
  4. identifying mismatches to primer sequences and excluding the corresponding reads from alignment files.

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

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

sudo apt-get update

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

sudo apt-get -y install ivar

Install ivar Using apt

Update apt database with apt using the following command.

sudo apt update

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

sudo apt -y install ivar

Install ivar 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 ivar using aptitude by running the following command:

sudo aptitude -y install ivar

How To Uninstall ivar on Kali Linux

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

sudo apt-get remove ivar

Uninstall ivar And Its Dependencies

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

sudo apt-get -y autoremove ivar

Remove ivar Configurations and Data

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

sudo apt-get -y purge ivar

Remove ivar configuration, data, and all of its dependencies

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

sudo apt-get -y autoremove --purge ivar

Dependencies

ivar have the following dependencies:

References

Summary

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