How To Install t-coffee on Kali Linux

In this tutorial we learn how to install t-coffee on Kali Linux. t-coffee is Multiple Sequence Alignment

Introduction

In this tutorial we learn how to install t-coffee on Kali Linux.

What is `t-coffee`

t-coffee is:

T-Coffee is a multiple sequence alignment package. Given a set of sequences (Proteins or DNA), T-Coffee generates a multiple sequence alignment. Version 2.00 and higher can mix sequences and structures.

T-Coffee allows the combination of a collection of multiple/pairwise, global or local alignments into a single model. It can also estimate the level of consistency of each position within the new alignment with the rest of the alignments. See the pre-print for more information

T-Coffee has a special called M-Coffee that makes it possible to combine the output of many multiple sequence alignment packages. In its published version, it uses MUSCLE, PROBCONS, POA, DiAlign-TS, MAFFT, Clustal?W, PCMA and T-Coffee. A special version has been made for Debian, DM-Coffee, that uses only free software by replacing Clustal?W by Kalign. Using the 8 Methods of M-Coffee can sometimes be a bit heavy. You can use a subset of your favorite methods if you prefer.

There are three methods to install t-coffee 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 t-coffee Using apt-get

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

sudo apt-get update

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

sudo apt-get -y install t-coffee

Install t-coffee Using apt

Update apt database with apt using the following command.

sudo apt update

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

sudo apt -y install t-coffee

Install t-coffee 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 t-coffee using aptitude by running the following command:

sudo aptitude -y install t-coffee

How To Uninstall t-coffee on Kali Linux

To uninstall only the t-coffee package we can use the following command:

sudo apt-get remove t-coffee

Uninstall t-coffee And Its Dependencies

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

sudo apt-get -y autoremove t-coffee

Remove t-coffee Configurations and Data

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

sudo apt-get -y purge t-coffee

Remove t-coffee configuration, data, and all of its dependencies

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

sudo apt-get -y autoremove --purge t-coffee

Dependencies

t-coffee have the following dependencies:

References

t-coffee website

Summary

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