How To Install delly on Debian 10
Introduction
In this tutorial we learn how to install delly on Debian 10.
What is delly
delly is:
Delly performs Structural variant discovery by integrated paired-end and split-read analysis. It discovers, genotypes and visualizes deletions, tandem duplications, inversions and translocations at single-nucleotide resolution in short-read massively parallel sequencing data. It uses paired-ends, split-reads and read-depth to sensitively and accurately delineate genomic rearrangements throughout the genome.
There are three methods to install delly 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 delly Using apt-get
Update apt database with apt-get using the following command.
sudo apt-get update
After updating apt database, We can install delly using apt-get by running the following command:
sudo apt-get -y install delly
Install delly Using apt
Update apt database with apt using the following command.
sudo apt update
After updating apt database, We can install delly using apt by running the following command:
sudo apt -y install delly
Install delly 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 delly using aptitude by running the following command:
sudo aptitude -y install delly
How To Uninstall delly on Debian 10
To uninstall only the delly package we can use the following command:
sudo apt-get remove delly
Uninstall delly And Its Dependencies
To uninstall delly and its dependencies that are no longer needed by Debian 10, we can use the command below:
sudo apt-get -y autoremove delly
Remove delly Configurations and Data
To remove delly configuration and data from Debian 10 we can use the following command:
sudo apt-get -y purge delly
Remove delly configuration, data, and all of its dependencies
We can use the following command to remove delly configurations, data and all of its dependencies, we can use the following command:
sudo apt-get -y autoremove --purge delly
Dependencies
delly have the following dependencies:
- libboost-date-time1.67.0
- libboost-filesystem1.67.0
- libboost-iostreams1.67.0
- libboost-program-options1.67.0
- libboost-system1.67.0
- libc6
- libgcc1
References
Summary
In this tutorial we learn how to install delly package on Debian 10 using different package management tools: apt, apt-get and aptitude.