How To Install maffilter 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 maffilter

sudo dnf makecache && sudo dnf -y install maffilter

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

What is maffilter 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 maffilter 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 maffilter 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 maffilter using dnf by running the following command:

sudo dnf -y install maffilter

Install maffilter on CentOS 8 using yum

Because maffilter 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 maffilter package on your server/computer by running the following command:

sudo yum -y install maffilter

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

To update all the packages available on the system:

yum update

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

yum update maffilter

To downgrade a package to an earlier version:

yum downgrade maffilter

How to Upgrade maffilter 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 maffilter

How To remove maffilter from CentOS 8

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

sudo dnf remove 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 dnf and yum package managers. Also, we showed how to update manually as a single package and different ways to uninstall the maffilter from CentOS 8.

See also: