How To Install qiime on Kali Linux

In this tutorial we learn how to install qiime on Kali Linux. qiime is Quantitative Insights Into Microbial Ecology

Introduction

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

What is qiime

qiime is:

QIIME 2 is a powerful, extensible, and decentralized microbiome analysis package with a focus on data and analysis transparency. QIIME 2 enables researchers to start an analysis with raw DNA sequence data and finish with publication-quality figures and statistical results. Key features:

  • Integrated and automatic tracking of data provenance
  • Semantic type system
  • Plugin system for extending microbiome analysis functionality
  • Support for multiple types of user interfaces (e.g. API, command line, graphical)

QIIME 2 is a complete redesign and rewrite of the QIIME 1 microbiome analysis pipeline. QIIME 2 will address many of the limitations of QIIME 1, while retaining the features that makes QIIME 1 a powerful and widely-used analysis pipeline.

QIIME 2 currently supports an initial end-to-end microbiome analysis pipeline. New functionality will regularly become available through QIIME 2 plugins. You can view a list of plugins that are currently available on the QIIME 2 plugin availability page. The future plugins page lists plugins that are being developed.

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

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

sudo apt-get update

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

sudo apt-get -y install qiime

Install qiime Using apt

Update apt database with apt using the following command.

sudo apt update

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

sudo apt -y install qiime

Install qiime 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 qiime using aptitude by running the following command:

sudo aptitude -y install qiime

How To Uninstall qiime on Kali Linux

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

sudo apt-get remove qiime

Uninstall qiime And Its Dependencies

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

sudo apt-get -y autoremove qiime

Remove qiime Configurations and Data

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

sudo apt-get -y purge qiime

Remove qiime configuration, data, and all of its dependencies

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

sudo apt-get -y autoremove --purge qiime

Dependencies

qiime have the following dependencies:

References

Summary

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