How To Install pbbamtools on Debian 10
Introduction
In this tutorial we learn how to install pbbamtools
on Debian 10.
What is pbbamtools
pbbamtools is:
The BAM format is a binary, compressed, record-oriented container format for raw or aligned sequence reads. The associated SAM format is a text representation of the same data. The specifications for BAM/SAM are maintained by the SAM/BAM Format Specification Working Group.
PacBio-produced BAM files are fully compatible with the BAM specification, but makes use of the extensibility mechanisms of the BAM specification to encode PacBio-specific information.
This package provides command-line utilities for working with PacBio BAM files.
There are three methods to install pbbamtools
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 pbbamtools Using apt-get
Update apt database with apt-get
using the following command.
sudo apt-get update
After updating apt database, We can install pbbamtools
using apt-get
by running the following command:
sudo apt-get -y install pbbamtools
Install pbbamtools Using apt
Update apt database with apt
using the following command.
sudo apt update
After updating apt database, We can install pbbamtools
using apt
by running the following command:
sudo apt -y install pbbamtools
Install pbbamtools 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 pbbamtools
using aptitude
by running the following command:
sudo aptitude -y install pbbamtools
How To Uninstall pbbamtools on Debian 10
To uninstall only the pbbamtools
package we can use the following command:
sudo apt-get remove pbbamtools
Uninstall pbbamtools And Its Dependencies
To uninstall pbbamtools
and its dependencies that are no longer needed by Debian 10, we can use the command below:
sudo apt-get -y autoremove pbbamtools
Remove pbbamtools Configurations and Data
To remove pbbamtools
configuration and data from Debian 10 we can use the following command:
sudo apt-get -y purge pbbamtools
Remove pbbamtools configuration, data, and all of its dependencies
We can use the following command to remove pbbamtools
configurations, data and all of its dependencies, we can use the following command:
sudo apt-get -y autoremove --purge pbbamtools
Dependencies
pbbamtools have the following dependencies:
References
Summary
In this tutorial we learn how to install pbbamtools
package on Debian 10 using different package management tools: apt
, apt-get
and aptitude
.