How To Install cd-hit on Fedora 34

One-liner Install Command

If you are only interested in the installation command, here is a quick answer for you:

sudo yum makecache && sudo yum -y install cd-hit

sudo dnf makecache && sudo dnf -y install cd-hit

But if you are interested in the details with step-by-step instructions, the following information will be helpful.

What is cd-hit and How to Install It?

First things first, you will need access to a server or computer running Fedora 34. This guide was written specifically with a server running Fedora 34 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 cd-hit on Fedora 34. 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 cd-hit on Fedora 34 using dnf

First, update dnf packages database with dnf by running the next command:

sudo dnf makecache --refresh

After updating database, You can install cd-hit using dnf by running the following command:

sudo dnf -y install cd-hit

Install cd-hit on Fedora 34 using yum

Because cd-hit is available in Fedora 34’s default repositories, it is possible to install it from these repositories using the yum packaging system.

To begin, update local packages database with yum using the following command.

sudo yum makecache --refresh

Now can install cd-hit package on your server/computer by running the following command:

sudo yum -y install cd-hit

How to upgrade (update) a single package cd-hit using yum?

To update all the packages available on the system:

yum update

If you want to update a specific package like cd-hit in this example you should use the following command:

yum update cd-hit

To downgrade a package to an earlier version:

yum downgrade cd-hit

How to Upgrade cd-hit on Fedora 34 with dnf?

When you run the dnf update, all system packages with available updates are updated. However, if you want to upgrade a single package, then you would have to pass the package name as the argument to the dnf update command.

dnf update cd-hit

How To remove cd-hit from Fedora 34

To uninstall only the cd-hit package you can execute the following command:

sudo dnf remove cd-hit

Extra info and code examples

cd-hit contains a number of programs designed to quickly group sequences. cd-hit groups proteins into clusters that meet a user-defined similarity threshold. cd-hit-est is similar to cd-hit, but designed to group nucleotide sequences (without introns). cd-hit-est-2d is similar to cd-hit-2d but designed to compare two nucleotide datasets. A number of other related programs are also in this package. Please see the cd-hit user manual, also part of this package, for further information.

Conclusion

You now have a full guide on how to install cd-hit using dnf and yum package managers. Also, we showed how to update manually as a single package and different ways to uninstall the cd-hit from Fedora 34.

See also: