How To Install kraken-translate on Debian 11

In this guide, we’ll discuss How To Install kraken-translate on Debian 11. Also, we will demonstrate how to uninstall and update kraken-translate.

One-liner install command

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

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

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

What is kraken-translate and what are the ways to install it?

Before beginning this tutorial, you will need access to a server or computer running Debian 11. This guide was written specifically with a server running Debian 11 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 kraken-translate on Debian 11. 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 kraken-translate 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 kraken-translate using apt by running the following command:

sudo apt -y install kraken

Install kraken-translate using apt

Because kraken-translate is available in Debian 11’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 kraken-translate using apt by running the following command:

sudo apt -y install kraken

Install kraken-translate 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 Debian 11. Update apt database with aptitude using the following command.

sudo aptitude update

After updating aptitude database, You can install kraken-translate by running the following command:

sudo aptitude -y install kraken

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

sudo apt-get --only-upgrade install kraken

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 kraken-translate from Debian 11

To uninstall only the kraken-translate package you can execute the following command:

sudo apt-get remove kraken

Uninstall kraken-translate and all its dependencies

To uninstall kraken-translate and its dependencies that are no longer needed by Debian 11, you can use the command below:

sudo apt-get -y autoremove kraken

Remove kraken-translate with all configurations and data

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

sudo apt-get -y purge kraken

Remove kraken-translate completely (configurations, data and all of its dependencies)

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

sudo apt-get -y autoremove --purge kraken

Extra info and code examples

Kraken is a system for assigning taxonomic labels to short DNA sequences, usually obtained through metagenomic studies. Previous attempts by other bioinformatics software to accomplish this task have often used sequence alignment or machine learning techniques that were quite slow, leading to the development of less sensitive but much faster abundance estimation programs. Kraken aims to achieve high sensitivity and high speed by utilizing exact alignments of k-mers and a novel classification algorithm. In its fastest mode of operation, for a simulated metagenome of 100 bp reads, Kraken processed over 4 million reads per minute on a single core, over 900 times faster than Megablast and over 11 times faster than the abundance estimation program MetaPhlAn. Kraken's accuracy is comparable with Megablast, with slightly lower sensitivity and very high precision.

Conclusion

You now have a full guide on how to install kraken-translate using apt, apt-get and aptitude tools. Also, we showed how to update as a single package and different ways to uninstall the kraken-translate from Debian 11.

See also:

How To Install kraken-translate on Debian 11

How To Install kraken-translate on Fedora 34

How To Install kraken-translate on Kali Linux

How To Install kraken-translate on CentOS 8

How To Install kraken-translate on Ubuntu 22.04

How To Install kraken-translate on Ubuntu 21.04

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