How To Install disulfinder on Ubuntu 21.04

One-liner install command

For those in a hurry, here's a one-line installation command:

sudo apt-get update && sudo apt -y install disulfinder

But if you are interested in the detailed steps with descriptions, the following information is for you.

What is disulfinder and what are the ways to install it?

Before beginning this tutorial, you will need access to a server or computer running Ubuntu 21.04. This guide was written specifically with a server running Ubuntu 21.04 in mind, although it should also work on older, supported versions of the operating system.

Also, make sure you are running a regular, non-root user with sudo privileges configured on your server. When you have an account available, log in as your non-root user to begin.

There are several ways to install disulfinder on Ubuntu 21.04. You can use (links are clickable):

In the following sections, we will describe each method in detail. You can choose one of them or refer to the recommended one.

Install disulfinder using apt-get

First, update apt database with apt-get using the following command.

sudo apt-get update

After updating apt-get database, You can install disulfinder using apt by running the following command:

sudo apt -y install disulfinder

Install disulfinder using apt

Because disulfinder is available in Ubuntu 21.04’s default repositories, it is possible to install it from these repositories using the apt packaging system.

To begin, update apt database with apt using the following command.

sudo apt update

After updating apt database, You can install disulfinder using apt by running the following command:

sudo apt -y install disulfinder

Install disulfinder 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 21.04. Update apt database with aptitude using the following command.

sudo aptitude update

After updating aptitude database, You can install disulfinder by running the following command:

sudo aptitude -y install disulfinder

How to upgrade (update) a single package disulfinder using apt-get?

First, you will need to update packages index. Run update command as usual:

sudo apt-get update

Next, to upgrade only the disulfinder, e.g. single package, you should use the following format with the apt-get command/apt command:

sudo apt-get --only-upgrade install disulfinder

Note that this command will not install any new packages! If you wish to install the package if it doesn't exist you may leave out --only-upgrade part.

sudo apt-get install disulfinder

How To Uninstall disulfinder from Ubuntu 21.04

To uninstall only the disulfinder package you can execute the following command:

sudo apt-get remove disulfinder

Uninstall disulfinder and all its dependencies

To uninstall disulfinder and its dependencies that are no longer needed by Ubuntu 21.04, you can use the command below:

sudo apt-get -y autoremove disulfinder

Remove disulfinder with all configurations and data

To remove disulfinder configuration and data from your system you can run the following purge command:

sudo apt-get -y purge disulfinder

Remove disulfinder completely (configurations, data and all of its dependencies)

And lastly, you can run the next command to remove absolutely everything related to disulfinder package, e.g.: configurations, data and all of its dependencies. Just use this command:

sudo apt-get -y autoremove --purge disulfinder

Extra info and code examples

'disulfinder' is for predicting the disulfide bonding state of cysteines and their disulfide connectivity starting from sequence alone. Disulfide bridges play a major role in the stabilization of the folding process for several proteins. Prediction of disulfide bridges from sequence alone is therefore useful for the study of structural and functional properties of specific proteins. In addition, knowledge about the disulfide bonding state of cysteines may help the experimental structure determination process and may be useful in other genomic annotation tasks. 'disulfinder' predicts disulfide patterns in two computational stages: (1) the disulfide bonding state of each cysteine is predicted by a BRNN-SVM binary classifier; (2) cysteines that are known to participate in the formation of bridges are paired by a Recursive Neural Network to obtain a connectivity pattern.

Conclusion

You now have a full guide on how to install disulfinder using apt, apt-get and aptitude tools. Also, we showed how to update as a single package and different ways to uninstall the disulfinder from Ubuntu 21.04.

See also: