How To Install profbval on Ubuntu 20.04
Introduction
In this tutorial we learn how to install profbval
on Ubuntu 20.04.
What is profbval
profbval is:
PROFbval can be useful for both protein structure and function predictions. For instance, a biologist can locate potentially antigenic determinants by identifying the most flexible residues on the protein surface. Additionally, a crystallographer can locate residues that potentially have high experimental B-values.
PROFbval takes the following input, further described on profbval(1):
- a protein sequence in a FASTA file
- secondary structure and solvent accessibility prediction by prof(1)
- an HSSP file
Background: the mobility of a given residue on the protein surface is related to its functional role. Therefore, identification of extremely rigid or flexible residues on the protein surface is helpful for identifying functionally important residues in proteins. A common measure of atom mobility in proteins is B-value data from x-ray crystallography structures. PROFbval is the first tool to predict normalized backbone B-values from amino-acid sequence.
There are three methods to install profbval
on Ubuntu 20.04. We can use apt-get
, apt
and aptitude
. In the following sections we will describe each method. You can choose one of them.
Install profbval Using apt-get
Update apt database with apt-get
using the following command.
sudo apt-get update
After updating apt database, We can install profbval
using apt-get
by running the following command:
sudo apt-get -y install profbval
Install profbval Using apt
Update apt database with apt
using the following command.
sudo apt update
After updating apt database, We can install profbval
using apt
by running the following command:
sudo apt -y install profbval
Install profbval 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 profbval
using aptitude
by running the following command:
sudo aptitude -y install profbval
How To Uninstall profbval on Ubuntu 20.04
To uninstall only the profbval
package we can use the following command:
sudo apt-get remove profbval
Uninstall profbval And Its Dependencies
To uninstall profbval
and its dependencies that are no longer needed by Ubuntu 20.04, we can use the command below:
sudo apt-get -y autoremove profbval
Remove profbval Configurations and Data
To remove profbval
configuration and data from Ubuntu 20.04 we can use the following command:
sudo apt-get -y purge profbval
Remove profbval configuration, data, and all of its dependencies
We can use the following command to remove profbval
configurations, data and all of its dependencies, we can use the following command:
sudo apt-get -y autoremove --purge profbval
References
Summary
In this tutorial we learn how to install profbval
package on Ubuntu 20.04 using different package management tools: apt
, apt-get
and aptitude
.