Introduction
In this tutorial we learn how to install estscan on Ubuntu 22.04.
What is estscan
estscan is:
ESTScan is a program that can detect coding regions in DNA sequences,
even if they are of low quality. ESTScan will also detect and correct
sequencing errors that lead to frameshifts. ESTScan is not a gene
prediction program , nor is it an open reading frame detector. In fact,
its strength lies in the fact that it does not require an open reading
frame to detect a coding region. As a result, the program may miss a
few translated amino acids at either the N or the C terminus, but will
detect coding regions with high selectivity and sensitivity.
ESTScan takes advantages of the bias in hexanucleotide usage found in
coding regions relative to non-coding regions. This bias is formalized
as an inhomogeneous 3-periodic fifth-order Hidden Markov Model
(HMM). Additionally, the HMM of ESTScan has been extended to allows
insertions and deletions when these improve the coding region statistics.
There are three methods to install estscan on Ubuntu 22.04. We can use apt-get, apt and aptitude. In the following sections we will describe each method. You can choose one of them.
Install estscan Using apt-get
Update apt database with apt-get using the following command.
sudo apt-get update
After updating apt database, We can install estscan using apt-get by running the following command:
sudo apt-get -y install estscan
Install estscan Using apt
Update apt database with apt using the following command.
sudo apt update
After updating apt database, We can install estscan using apt by running the following command:
sudo apt -y install estscan
Install estscan 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 estscan using aptitude by running the following command:
sudo aptitude -y install estscan
How To Uninstall estscan on Ubuntu 22.04
To uninstall only the estscan package we can use the following command:
sudo apt-get remove estscan
Uninstall estscan And Its Dependencies
To uninstall estscan and its dependencies that are no longer needed by Ubuntu 22.04, we can use the command below:
sudo apt-get -y autoremove estscan
Remove estscan Configurations and Data
To remove estscan configuration and data from Ubuntu 22.04 we can use the following command:
sudo apt-get -y purge estscan
Remove estscan configuration, data, and all of its dependencies
We can use the following command to remove estscan configurations, data and all of its dependencies, we can use the following command:
sudo apt-get -y autoremove --purge estscan
References
Summary
In this tutorial we learn how to install estscan package on Ubuntu 22.04 using different package management tools: apt, apt-get and aptitude.
