How To Install presto on Ubuntu
Posted on April 1, 2023 (Last modified on May 20, 2023 )
3 minutes • 452 words
Introduction
In this tutorial we learn how to install presto on Ubuntu.
What is presto
presto is:
pRESTO is a toolkit for processing raw reads from high-throughput sequencing of B cell and T cell repertoires.
Dramatic improvements in high-throughput sequencing technologies now enable large-scale characterization of lymphocyte repertoires, defined as the collection of trans-membrane antigen-receptor proteins located on the surface of B cells and T cells. The REpertoire Sequencing TOolkit (pRESTO) is composed of a suite of utilities to handle all stages of sequence processing prior to germline segment assignment. pRESTO is designed to handle either single reads or paired-end reads. It includes features for quality control, primer masking, annotation of reads with sequence embedded barcodes, generation of unique molecular identifier (UMI) consensus sequences, assembly of paired-end reads and identification of duplicate sequences. Numerous options for sequence sorting, sampling and conversion operations are also included.
There are three methods to install presto on Ubuntu. We can use apt-get, apt and aptitude. In the following sections we will describe each method. You can choose one of them.
Install presto Using apt-get
Update apt database with apt-get using the following command.
sudo apt-get update
After updating apt database, We can install presto using apt-get by running the following command:
sudo apt-get -y install presto
Install presto Using apt
Update apt database with apt using the following command.
sudo apt update
After updating apt database, We can install presto using apt by running the following command:
sudo apt -y install presto
Install presto 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 presto using aptitude by running the following command:
sudo aptitude -y install presto
How To Uninstall presto on Ubuntu
To uninstall only the presto package we can use the following command:
sudo apt-get remove presto
Uninstall presto And Its Dependencies
To uninstall presto and its dependencies that are no longer needed by Ubuntu, we can use the command below:
sudo apt-get -y autoremove presto
Remove presto Configurations and Data
To remove presto configuration and data from Ubuntu we can use the following command:
sudo apt-get -y purge presto
Remove presto configuration, data, and all of its dependencies
We can use the following command to remove presto configurations, data and all of its dependencies, we can use the following command:
sudo apt-get -y autoremove --purge presto
Dependencies
presto have the following dependencies:
References
Summary
In this tutorial we learn how to install presto package on Ubuntu using different package management tools: apt, apt-get and aptitude.