How To Install maffilter on Kali Linux

One-liner install command

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

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

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

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

Before beginning this tutorial, you will need access to a server or computer running Kali Linux. This guide was written specifically with a server running Kali Linux 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 maffilter on Kali Linux. 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 maffilter 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 maffilter using apt by running the following command:

sudo apt -y install maffilter

Install maffilter using apt

Because maffilter is available in Kali Linux’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 maffilter using apt by running the following command:

sudo apt -y install maffilter

Install maffilter 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 Kali Linux. Update apt database with aptitude using the following command.

sudo aptitude update

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

sudo aptitude -y install maffilter

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

sudo apt-get --only-upgrade install maffilter

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 maffilter

How To Uninstall maffilter from Kali Linux

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

sudo apt-get remove maffilter

Uninstall maffilter and all its dependencies

To uninstall maffilter and its dependencies that are no longer needed by Kali Linux, you can use the command below:

sudo apt-get -y autoremove maffilter

Remove maffilter with all configurations and data

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

sudo apt-get -y purge maffilter

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

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

sudo apt-get -y autoremove --purge maffilter

Extra info and code examples

MafFilter applies a series of "filters" to a MAF file, in order to clean it, extract data and computer statistics while keeping track of the associated meta-data such as genome coordinates and quality scores. * It can process the alignment to remove low-quality / ambiguous / masked regions. * It can export data into a single or multiple alignment file in format such as Fasta or Clustal. * It can read annotation data in GFF or GTF format, and extract the corresponding alignment. * It can perform sliding windows calculations. * It can reconstruct phylogeny/genealogy along the genome alignment. * It can compute population genetics statistics, such as site frequency spectrum, number of fixed/polymorphic sites, etc.

Conclusion

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

See also: