How To Install bamclipper on Ubuntu 22.04
Introduction
In this tutorial we learn how to install bamclipper on Ubuntu 22.04.
What is bamclipper
bamclipper is:
Remove gene-specific primer sequences from SAM/BAM alignments of PCR amplicons by soft-clipping.
bamclipper.sh soft-clips gene-specific primers from BAM alignment file based on genomic coordinates of primer pairs in BEDPE format.
There are three methods to install bamclipper 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 bamclipper Using apt-get
Update apt database with apt-get using the following command.
sudo apt-get update
After updating apt database, We can install bamclipper using apt-get by running the following command:
sudo apt-get -y install bamclipper
Install bamclipper Using apt
Update apt database with apt using the following command.
sudo apt update
After updating apt database, We can install bamclipper using apt by running the following command:
sudo apt -y install bamclipper
Install bamclipper 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 bamclipper using aptitude by running the following command:
sudo aptitude -y install bamclipper
How To Uninstall bamclipper on Ubuntu 22.04
To uninstall only the bamclipper package we can use the following command:
sudo apt-get remove bamclipper
Uninstall bamclipper And Its Dependencies
To uninstall bamclipper and its dependencies that are no longer needed by Ubuntu 22.04, we can use the command below:
sudo apt-get -y autoremove bamclipper
Remove bamclipper Configurations and Data
To remove bamclipper configuration and data from Ubuntu 22.04 we can use the following command:
sudo apt-get -y purge bamclipper
Remove bamclipper configuration, data, and all of its dependencies
We can use the following command to remove bamclipper configurations, data and all of its dependencies, we can use the following command:
sudo apt-get -y autoremove --purge bamclipper
References
Summary
In this tutorial we learn how to install bamclipper package on Ubuntu 22.04 using different package management tools: apt, apt-get and aptitude.
