How To Install fastml on Debian 10
Introduction
In this tutorial we learn how to install fastml on Debian 10.
What is fastml
fastml is:
FastML is a bioinformatics tool for the reconstruction of ancestral sequences based on the phylogenetic relations between homologous sequences. FastML runs several algorithms that reconstruct the ancestral sequences with emphasis on an accurate reconstruction of both indels and characters. For character reconstruction the previously described FastML algorithms are used to efficiently infer the most likely ancestral sequences for each internal node of the tree. Both joint and the marginal reconstructions are provided. For indels reconstruction the sequences are first coded according to the indel events detected within the multiple sequence alignment (MSA) and then a state-of-the-art likelihood model is used to reconstruct ancestral indels states. The results are the most probable sequences, together with posterior probabilities for each character and indel at each sequence position for each internal node of the tree. FastML is generic and is applicable for any type of molecular sequences (nucleotide, protein, or codon sequences).
There are three methods to install fastml on Debian 10. We can use apt-get, apt and aptitude. In the following sections we will describe each method. You can choose one of them.
Install fastml Using apt-get
Update apt database with apt-get using the following command.
sudo apt-get update
After updating apt database, We can install fastml using apt-get by running the following command:
sudo apt-get -y install fastml
Install fastml Using apt
Update apt database with apt using the following command.
sudo apt update
After updating apt database, We can install fastml using apt by running the following command:
sudo apt -y install fastml
Install fastml 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. Update apt database with aptitude using the following command.
sudo aptitude update
After updating apt database, We can install fastml using aptitude by running the following command:
sudo aptitude -y install fastml
How To Uninstall fastml on Debian 10
To uninstall only the fastml package we can use the following command:
sudo apt-get remove fastml
Uninstall fastml And Its Dependencies
To uninstall fastml and its dependencies that are no longer needed by Debian 10, we can use the command below:
sudo apt-get -y autoremove fastml
Remove fastml Configurations and Data
To remove fastml configuration and data from Debian 10 we can use the following command:
sudo apt-get -y purge fastml
Remove fastml configuration, data, and all of its dependencies
We can use the following command to remove fastml configurations, data and all of its dependencies, we can use the following command:
sudo apt-get -y autoremove --purge fastml
Dependencies
fastml have the following dependencies:
References
Summary
In this tutorial we learn how to install fastml package on Debian 10 using different package management tools: apt, apt-get and aptitude.