How To Install pplacer on Kali Linux

In this tutorial we learn how to install pplacer on Kali Linux. pplacer is phylogenetic placement and downstream analysis

Introduction

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

What is pplacer

pplacer is:

Pplacer places reads on a phylogenetic tree. guppy (Grand Unified Phylogenetic Placement Yanalyzer) yanalyzes them. rppr is a helpful tool for working with reference packages.

Pplacer places query sequences on a fixed reference phylogenetic tree to maximize phylogenetic likelihood or posterior probability according to a reference alignment. Pplacer is designed to be fast, to give useful information about uncertainty, and to offer advanced visualization and downstream analysis.

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

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

sudo apt-get update

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

sudo apt-get -y install pplacer

Install pplacer Using apt

Update apt database with apt using the following command.

sudo apt update

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

sudo apt -y install pplacer

Install pplacer 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 pplacer using aptitude by running the following command:

sudo aptitude -y install pplacer

How To Uninstall pplacer on Kali Linux

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

sudo apt-get remove pplacer

Uninstall pplacer And Its Dependencies

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

sudo apt-get -y autoremove pplacer

Remove pplacer Configurations and Data

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

sudo apt-get -y purge pplacer

Remove pplacer configuration, data, and all of its dependencies

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

sudo apt-get -y autoremove --purge pplacer

Dependencies

pplacer have the following dependencies:

References

Summary

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