How To Install bowtie on Debian 10
Introduction
In this tutorial we learn how to install bowtie on Debian 10.
What is bowtie
bowtie is:
This package addresses the problem to interpret the results from the latest (2010) DNA sequencing technologies. Those will yield fairly short stretches and those cannot be interpreted directly. It is the challenge for tools like Bowtie to give a chromosomal location to the short stretches of DNA sequenced per run.
Bowtie aligns short DNA sequences (reads) to the human genome at a rate of over 25 million 35-bp reads per hour. Bowtie indexes the genome with a Burrows-Wheeler index to keep its memory footprint small: typically about 2.2 GB for the human genome (2.9 GB for paired-end).
There are three methods to install bowtie 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 bowtie Using apt-get
Update apt database with apt-get using the following command.
sudo apt-get update
After updating apt database, We can install bowtie using apt-get by running the following command:
sudo apt-get -y install bowtie
Install bowtie Using apt
Update apt database with apt using the following command.
sudo apt update
After updating apt database, We can install bowtie using apt by running the following command:
sudo apt -y install bowtie
Install bowtie 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 bowtie using aptitude by running the following command:
sudo aptitude -y install bowtie
How To Uninstall bowtie on Debian 10
To uninstall only the bowtie package we can use the following command:
sudo apt-get remove bowtie
Uninstall bowtie And Its Dependencies
To uninstall bowtie and its dependencies that are no longer needed by Debian 10, we can use the command below:
sudo apt-get -y autoremove bowtie
Remove bowtie Configurations and Data
To remove bowtie configuration and data from Debian 10 we can use the following command:
sudo apt-get -y purge bowtie
Remove bowtie configuration, data, and all of its dependencies
We can use the following command to remove bowtie configurations, data and all of its dependencies, we can use the following command:
sudo apt-get -y autoremove --purge bowtie
Dependencies
bowtie have the following dependencies:
References
Summary
In this tutorial we learn how to install bowtie package on Debian 10 using different package management tools: apt, apt-get and aptitude.