How To Install maffilter-examples on Ubuntu 20.04
Introduction
In this tutorial we learn how to install maffilter-examples
on Ubuntu 20.04.
What is maffilter-examples
maffilter-examples is:
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.
This package provides example data for maffilter.
There are three methods to install maffilter-examples
on Ubuntu 20.04. We can use apt-get
, apt
and aptitude
. In the following sections we will describe each method. You can choose one of them.
Install maffilter-examples Using apt-get
Update apt database with apt-get
using the following command.
sudo apt-get update
After updating apt database, We can install maffilter-examples
using apt-get
by running the following command:
sudo apt-get -y install maffilter-examples
Install maffilter-examples Using apt
Update apt database with apt
using the following command.
sudo apt update
After updating apt database, We can install maffilter-examples
using apt
by running the following command:
sudo apt -y install maffilter-examples
Install maffilter-examples 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. Update apt database with aptitude
using the following command.
sudo aptitude update
After updating apt database, We can install maffilter-examples
using aptitude
by running the following command:
sudo aptitude -y install maffilter-examples
How To Uninstall maffilter-examples on Ubuntu 20.04
To uninstall only the maffilter-examples
package we can use the following command:
sudo apt-get remove maffilter-examples
Uninstall maffilter-examples And Its Dependencies
To uninstall maffilter-examples
and its dependencies that are no longer needed by Ubuntu 20.04, we can use the command below:
sudo apt-get -y autoremove maffilter-examples
Remove maffilter-examples Configurations and Data
To remove maffilter-examples
configuration and data from Ubuntu 20.04 we can use the following command:
sudo apt-get -y purge maffilter-examples
Remove maffilter-examples configuration, data, and all of its dependencies
We can use the following command to remove maffilter-examples
configurations, data and all of its dependencies, we can use the following command:
sudo apt-get -y autoremove --purge maffilter-examples
References
Summary
In this tutorial we learn how to install maffilter-examples
package on Ubuntu 20.04 using different package management tools: apt
, apt-get
and aptitude
.