Tutorial: Basic Bioinformatics Software Installation on Ubuntu (Linux)

In this article, we are going to install some basic bioinformatics tools on Ubuntu from the repository. These tools include BLAST, HMMER, MUSCLE, MAFFT, several NGS analysis tools, and so on. This will be applicable to Ubuntu 16.04 or above.

Preparing system

Open a terminal by pressing Ctrl+Alt+T. Update and upgrade your system using the following commands:

$ sudo apt-get update

$ sudo apt-get upgrade

Installing NCBI-BLAST+

$ sudo apt-get install -y ncbi-blast+

Installing HMMER

$ sudo apt-get install -y hmmer

Installing Jalview

$ sudo apt-get install -y jalview

Installing Abyss

$ sudo apt-get install -y abyss

Installing Jmol

$ sudo apt-get install -y jmol

Installing MAFFT

$ sudo apt-get install -y mafft

Installing MUSCLE

$ sudo apt-get install -y muscle

Installing CLUSTAL OMEGA

$ sudo apt-get install -y clustalo

Installing CLUSTALX

$ sudo apt-get install -y clustalx

Installing Mrbayes

$ sudo apt-get install -y mrbayes

Installing Njplot

$ sudo apt-get install -y njplot

Installing Phylip

$ sudo apt-get install -y phylip

Installing Phyml

$ sudo apt-get install -y phyml

Installing Pymol

$ sudo apt-get install -y pymol

Installing Rasmol

$ sudo apt-get install -y rasmol

Installing Readseq

$ sudo apt-get install -y readseq

Installing T-Coffee

$ sudo apt-get install -y t-coffee

Installing Avogadro

$ sudo apt-get install -y avogadro

Installing Bamtools

$ sudo apt-get install -y bamtools

These are some common bioinformatics tools that can be easily installed on Ubuntu 16.04 or above.