How To Install pynast on Ubuntu 18.04
Introduction
In this tutorial we learn how to install pynast on Ubuntu 18.04.
What is pynast
pynast is:
The package provices a reimplementation of the Nearest Alignment Space Termination tool in Python. It was prepared for next generation sequencers.
Given a set of sequences and a template alignment, PyNAST will align the input sequences against the template alignment, and return a multiple sequence alignment which contains the same number of positions (or columns) as the template alignment. This facilitates the analysis of new sequences in the context of existing alignments, and additional data derived from existing alignments such as phylogenetic trees. Because any protein or nucleic acid sequences and template alignments can be provided, PyNAST is not limited to the analysis of 16s rDNA sequences.
There are three methods to install pynast 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 pynast Using apt-get
Update apt database with apt-get using the following command.
sudo apt-get update
After updating apt database, We can install pynast using apt-get by running the following command:
sudo apt-get -y install pynast
Install pynast Using apt
Update apt database with apt using the following command.
sudo apt update
After updating apt database, We can install pynast using apt by running the following command:
sudo apt -y install pynast
Install pynast 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 pynast using aptitude by running the following command:
sudo aptitude -y install pynast
How To Uninstall pynast on Ubuntu 18.04
To uninstall only the pynast package we can use the following command:
sudo apt-get remove pynast
Uninstall pynast And Its Dependencies
To uninstall pynast and its dependencies that are no longer needed by Ubuntu 18.04, we can use the command below:
sudo apt-get -y autoremove pynast
Remove pynast Configurations and Data
To remove pynast configuration and data from Ubuntu 18.04 we can use the following command:
sudo apt-get -y purge pynast
Remove pynast configuration, data, and all of its dependencies
We can use the following command to remove pynast configurations, data and all of its dependencies, we can use the following command:
sudo apt-get -y autoremove --purge pynast
References
Summary
In this tutorial we learn how to install pynast package on Ubuntu 18.04 using different package management tools: apt, apt-get and aptitude.
