How To Install tree-ppuzzle on Kali Linux

In this tutorial we learn how to install tree-ppuzzle on Kali Linux. tree-ppuzzle is Parallelized reconstruction of phylogenetic trees by maximum likelihood

Introduction

In this tutorial we learn how to install tree-ppuzzle on Kali Linux.

What is `tree-ppuzzle`

tree-ppuzzle is:

TREE-PUZZLE (the new name for PUZZLE) is an interactive console program that implements a fast tree search algorithm, quartet puzzling, that allows analysis of large data sets and automatically assigns estimations of support to each internal branch. TREE-PUZZLE also computes pairwise maximum likelihood distances as well as branch lengths for user specified trees. Branch lengths can also be calculated under the clock-assumption. In addition, TREE-PUZZLE offers a novel method, likelihood mapping, to investigate the support of a hypothesized internal branch without computing an overall tree and to visualize the phylogenetic content of a sequence alignment.

This is the parallelized version of tree-puzzle.

There are three methods to install tree-ppuzzle 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 tree-ppuzzle Using apt-get

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

sudo apt-get update

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

sudo apt-get -y install tree-ppuzzle

Install tree-ppuzzle Using apt

Update apt database with apt using the following command.

sudo apt update

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

sudo apt -y install tree-ppuzzle

Install tree-ppuzzle 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 tree-ppuzzle using aptitude by running the following command:

sudo aptitude -y install tree-ppuzzle

How To Uninstall tree-ppuzzle on Kali Linux

To uninstall only the tree-ppuzzle package we can use the following command:

sudo apt-get remove tree-ppuzzle

Uninstall tree-ppuzzle And Its Dependencies

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

sudo apt-get -y autoremove tree-ppuzzle

Remove tree-ppuzzle Configurations and Data

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

sudo apt-get -y purge tree-ppuzzle

Remove tree-ppuzzle configuration, data, and all of its dependencies

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

sudo apt-get -y autoremove --purge tree-ppuzzle

Dependencies

tree-ppuzzle have the following dependencies:

References

tree-ppuzzle website

Summary

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