How To Install pscan-tfbs on Kali Linux

In this tutorial we learn how to install pscan-tfbs on Kali Linux. pscan-tfbs is search for transcription factor binding sites

Introduction

In this tutorial we learn how to install pscan-tfbs on Kali Linux.

What is pscan-tfbs

pscan-tfbs is:

Pscan finds Over-represented Transcription Factor Binding Site Motifs in Sequences from Co-Regulated or Co-Expressed Genes.

Pscan is a software tool that scans a set of sequences (e.g. promoters) from co-regulated or co-expressed genes with motifs describing the binding specificity of known transcription factors and assesses which motifs are significantly over- or under-represented, providing thus hints on which transcription factors could be common regulators of the genes studied, together with the location of their candidate binding sites in the sequences. Pscan does not resort to comparisons with orthologous sequences and experimental results show that it compares favorably to other tools for the same task in terms of false positive predictions and computation time. The website is free and open to all users and there is no login requirement.

There are three methods to install pscan-tfbs 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 pscan-tfbs Using apt-get

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

sudo apt-get update

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

sudo apt-get -y install pscan-tfbs

Install pscan-tfbs Using apt

Update apt database with apt using the following command.

sudo apt update

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

sudo apt -y install pscan-tfbs

Install pscan-tfbs 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 pscan-tfbs using aptitude by running the following command:

sudo aptitude -y install pscan-tfbs

How To Uninstall pscan-tfbs on Kali Linux

To uninstall only the pscan-tfbs package we can use the following command:

sudo apt-get remove pscan-tfbs

Uninstall pscan-tfbs And Its Dependencies

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

sudo apt-get -y autoremove pscan-tfbs

Remove pscan-tfbs Configurations and Data

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

sudo apt-get -y purge pscan-tfbs

Remove pscan-tfbs configuration, data, and all of its dependencies

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

sudo apt-get -y autoremove --purge pscan-tfbs

Dependencies

pscan-tfbs have the following dependencies:

References

Summary

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