How To Install cutesv on Ubuntu
Posted on April 1, 2023 (Last modified on May 20, 2023 )
2 minutes • 423 words
Introduction
In this tutorial we learn how to install cutesv on Ubuntu.
What is cutesv
cutesv is:
Long-read sequencing enables the comprehensive discovery of structural variations (SVs). However, it is still non-trivial to achieve high sensitivity and performance simultaneously due to the complex SV characteristics implied by noisy long reads.
cuteSV is a sensitive, fast and scalable long-read-based SV detection approach. cuteSV uses tailored methods to collect the signatures of various types of SVs and employs a clustering-and-refinement method to analyze the signatures to implement sensitive SV detection. Benchmarks on real Pacific Biosciences (PacBio) and Oxford Nanopore Technology (ONT) datasets demonstrate that cuteSV has better yields and scalability than state-of-the-art tools.
There are three methods to install cutesv 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 cutesv Using apt-get
Update apt database with apt-get using the following command.
sudo apt-get update
After updating apt database, We can install cutesv using apt-get by running the following command:
sudo apt-get -y install cutesv
Install cutesv Using apt
Update apt database with apt using the following command.
sudo apt update
After updating apt database, We can install cutesv using apt by running the following command:
sudo apt -y install cutesv
Install cutesv 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 cutesv using aptitude by running the following command:
sudo aptitude -y install cutesv
How To Uninstall cutesv on Ubuntu
To uninstall only the cutesv package we can use the following command:
sudo apt-get remove cutesv
Uninstall cutesv And Its Dependencies
To uninstall cutesv and its dependencies that are no longer needed by Ubuntu, we can use the command below:
sudo apt-get -y autoremove cutesv
Remove cutesv Configurations and Data
To remove cutesv configuration and data from Ubuntu we can use the following command:
sudo apt-get -y purge cutesv
Remove cutesv configuration, data, and all of its dependencies
We can use the following command to remove cutesv configurations, data and all of its dependencies, we can use the following command:
sudo apt-get -y autoremove --purge cutesv
Dependencies
cutesv have the following dependencies:
References
Summary
In this tutorial we learn how to install cutesv package on Ubuntu using different package management tools: apt, apt-get and aptitude.