How To Install prime-phylo on Ubuntu 18.04
Introduction
In this tutorial we learn how to install prime-phylo on Ubuntu 18.04.
What is prime-phylo
prime-phylo is:
PrIME (Probabilistic Integrated Models of Evolution) is a package supporting inference of evolutionary parameters in a Bayesian framework using Markov chain Monte Carlo simulation. A distinguishing feature of PrIME is that the species tree is taken into account when analyzing gene trees.
The input data to PrIME is a multiple sequence alignment in FASTA format and the output data contains trees in Newick format.
There are three methods to install prime-phylo on Ubuntu 18.04. We can use apt-get, apt and aptitude. In the following sections we will describe each method. You can choose one of them.
Install prime-phylo Using apt-get
Update apt database with apt-get using the following command.
sudo apt-get update
After updating apt database, We can install prime-phylo using apt-get by running the following command:
sudo apt-get -y install prime-phylo
Install prime-phylo Using apt
Update apt database with apt using the following command.
sudo apt update
After updating apt database, We can install prime-phylo using apt by running the following command:
sudo apt -y install prime-phylo
Install prime-phylo 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 prime-phylo using aptitude by running the following command:
sudo aptitude -y install prime-phylo
How To Uninstall prime-phylo on Ubuntu 18.04
To uninstall only the prime-phylo package we can use the following command:
sudo apt-get remove prime-phylo
Uninstall prime-phylo And Its Dependencies
To uninstall prime-phylo and its dependencies that are no longer needed by Ubuntu 18.04, we can use the command below:
sudo apt-get -y autoremove prime-phylo
Remove prime-phylo Configurations and Data
To remove prime-phylo configuration and data from Ubuntu 18.04 we can use the following command:
sudo apt-get -y purge prime-phylo
Remove prime-phylo configuration, data, and all of its dependencies
We can use the following command to remove prime-phylo configurations, data and all of its dependencies, we can use the following command:
sudo apt-get -y autoremove --purge prime-phylo
References
Summary
In this tutorial we learn how to install prime-phylo package on Ubuntu 18.04 using different package management tools: apt, apt-get and aptitude.
