How To Install joingenes on CentOS 8

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 augustus

sudo dnf makecache && sudo dnf -y install augustus

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

What is joingenes and How to Install It?

First things first, you will need access to a server or computer running CentOS 8. This guide was written specifically with a server running CentOS 8 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 joingenes on CentOS 8. 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 joingenes on CentOS 8 using dnf

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

sudo dnf makecache --refresh

After updating database, You can install joingenes using dnf by running the following command:

sudo dnf -y install augustus

Install joingenes on CentOS 8 using yum

Because joingenes is available in CentOS 8’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 joingenes package on your server/computer by running the following command:

sudo yum -y install augustus

How to upgrade (update) a single package joingenes using yum?

To update all the packages available on the system:

yum update

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

yum update augustus

To downgrade a package to an earlier version:

yum downgrade augustus

How to Upgrade joingenes on CentOS 8 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 augustus

How To remove joingenes from CentOS 8

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

sudo dnf remove augustus

Extra info and code examples

AUGUSTUS is a software for gene prediction in eukaryotic genomic sequences that is based on a generalized hidden Markov model (HMM), a probabilistic model of a sequence and its gene structure. After learning gene structures from a reference annotation, AUGUSTUS uses the HMM to recognize genes in a new sequence and annotates it with the regions of identified genes. External hints, e.g. from RNA sequencing, EST or protein alignments etc. can be used to guide and improve the gene finding process. The result is the set of most likely gene structures that comply with all given user constraints, if such gene structures exist. AUGUSTUS already includes prebuilt HMMs for many species, as well as scripts to train custom models using annotated genomes.

Conclusion

You now have a full guide on how to install joingenes using dnf and yum package managers. Also, we showed how to update manually as a single package and different ways to uninstall the joingenes from CentOS 8.

See also: