How To Install ucsc_genes2gff on Ubuntu 21.04

In this guide, we’ll discuss How To Install ucsc_genes2gff on Ubuntu 21.04. Also, we will demonstrate how to uninstall and update ucsc_genes2gff.

One-liner install command

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

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

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

What is ucsc_genes2gff 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 ucsc_genes2gff 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 ucsc_genes2gff 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 ucsc_genes2gff using apt by running the following command:

sudo apt -y install gbrowse

Install ucsc_genes2gff using apt

Because ucsc_genes2gff 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 ucsc_genes2gff using apt by running the following command:

sudo apt -y install gbrowse

Install ucsc_genes2gff 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 ucsc_genes2gff by running the following command:

sudo aptitude -y install gbrowse

How to upgrade (update) a single package ucsc_genes2gff 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 ucsc_genes2gff, e.g. single package, you should use the following format with the apt-get command/apt command:

sudo apt-get --only-upgrade install gbrowse

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.

How To Uninstall ucsc_genes2gff from Ubuntu 21.04

To uninstall only the ucsc_genes2gff package you can execute the following command:

sudo apt-get remove gbrowse

Uninstall ucsc_genes2gff and all its dependencies

To uninstall ucsc_genes2gff and its dependencies that are no longer needed by Ubuntu 21.04, you can use the command below:

sudo apt-get -y autoremove gbrowse

Remove ucsc_genes2gff with all configurations and data

To remove ucsc_genes2gff configuration and data from your system you can run the following purge command:

sudo apt-get -y purge gbrowse

Remove ucsc_genes2gff completely (configurations, data and all of its dependencies)

And lastly, you can run the next command to remove absolutely everything related to ucsc_genes2gff package, e.g.: configurations, data and all of its dependencies. Just use this command:

sudo apt-get -y autoremove --purge gbrowse

Extra info and code examples

Generic Genome Browser is a simple but highly configurable web-based genome browser. It is a component of the Generic Model Organism Systems Database project (GMOD). Some of its features: * Simultaneous bird's eye and detailed views of the genome; * Scroll, zoom, center; * Attach arbitrary URLs to any annotation; * Order and appearance of tracks are customizable by administrator and end-user; * Search by annotation ID, name, or comment; * Supports third party annotation using GFF formats; * Settings persist across sessions; * DNA and GFF dumps; * Connectivity to different databases, including BioSQL and Chado; * Multi-language support; * Third-party feature loading; * Customizable plug-in architecture (e.g. run BLAST, dump & import many formats, find oligonucleotides, design primers, create restriction maps, edit features).

Conclusion

You now have a full guide on how to install ucsc_genes2gff using apt, apt-get and aptitude tools. Also, we showed how to update as a single package and different ways to uninstall the ucsc_genes2gff from Ubuntu 21.04.

See also:

How To Install ucsc_genes2gff on Ubuntu 21.04

How To Install ucsc_genes2gff on Kali Linux

How To Install ucsc_genes2gff on Debian 11

How To Install ucsc_genes2gff on Fedora 34

How To Install ucsc_genes2gff on CentOS 8

How To Install ucsc_genes2gff on Ubuntu 22.04

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