How To Install tree-puzzle on Ubuntu
Posted on April 1, 2023 (Last modified on May 20, 2023 )
2 minutes • 420 words
Introduction
In this tutorial we learn how to install tree-puzzle on Ubuntu.
What is tree-puzzle
tree-puzzle 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.
There are three methods to install tree-puzzle on Ubuntu. 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-puzzle 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-puzzle using apt-get by running the following command:
sudo apt-get -y install tree-puzzle
Install tree-puzzle Using apt
Update apt database with apt using the following command.
sudo apt update
After updating apt database, We can install tree-puzzle using apt by running the following command:
sudo apt -y install tree-puzzle
Install tree-puzzle Using aptitude
If you want to follow this method, you might need to install aptitude first since aptitude is usually not installed by default on Ubuntu. Update apt database with aptitude using the following command.
sudo aptitude update
After updating apt database, We can install tree-puzzle using aptitude by running the following command:
sudo aptitude -y install tree-puzzle
How To Uninstall tree-puzzle on Ubuntu
To uninstall only the tree-puzzle package we can use the following command:
sudo apt-get remove tree-puzzle
Uninstall tree-puzzle And Its Dependencies
To uninstall tree-puzzle and its dependencies that are no longer needed by Ubuntu, we can use the command below:
sudo apt-get -y autoremove tree-puzzle
Remove tree-puzzle Configurations and Data
To remove tree-puzzle configuration and data from Ubuntu we can use the following command:
sudo apt-get -y purge tree-puzzle
Remove tree-puzzle configuration, data, and all of its dependencies
We can use the following command to remove tree-puzzle configurations, data and all of its dependencies, we can use the following command:
sudo apt-get -y autoremove --purge tree-puzzle
Dependencies
tree-puzzle have the following dependencies:
References
Summary
In this tutorial we learn how to install tree-puzzle package on Ubuntu using different package management tools: apt, apt-get and aptitude.