How To Install tipp on Ubuntu 22.04
Introduction
In this tutorial we learn how to install tipp on Ubuntu 22.04.
What is tipp
tipp is:
TIPP is a modification of SEPP for classifying query sequences (i.e. reads) using phylogenetic placement.
TIPP inserts each read into a taxonomic tree and uses the insertion location to identify the taxonomic lineage of the read. The novel idea behind TIPP is that rather than using the single best alignment and placement for taxonomic identification, it uses a collection of alignments and placements and considers statistical support for each alignment and placement.
TIPP can also be used for abundance estimation by computing an abundance profile on the reads binned to marker genes in a reference dataset.
There are three methods to install tipp on Ubuntu 22.04. We can use apt-get, apt and aptitude. In the following sections we will describe each method. You can choose one of them.
Install tipp Using apt-get
Update apt database with apt-get using the following command.
sudo apt-get update
After updating apt database, We can install tipp using apt-get by running the following command:
sudo apt-get -y install tipp
Install tipp Using apt
Update apt database with apt using the following command.
sudo apt update
After updating apt database, We can install tipp using apt by running the following command:
sudo apt -y install tipp
Install tipp 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 tipp using aptitude by running the following command:
sudo aptitude -y install tipp
How To Uninstall tipp on Ubuntu 22.04
To uninstall only the tipp package we can use the following command:
sudo apt-get remove tipp
Uninstall tipp And Its Dependencies
To uninstall tipp and its dependencies that are no longer needed by Ubuntu 22.04, we can use the command below:
sudo apt-get -y autoremove tipp
Remove tipp Configurations and Data
To remove tipp configuration and data from Ubuntu 22.04 we can use the following command:
sudo apt-get -y purge tipp
Remove tipp configuration, data, and all of its dependencies
We can use the following command to remove tipp configurations, data and all of its dependencies, we can use the following command:
sudo apt-get -y autoremove --purge tipp
References
Summary
In this tutorial we learn how to install tipp package on Ubuntu 22.04 using different package management tools: apt, apt-get and aptitude.