How To Install libhts3 on Ubuntu 22.04
Introduction
In this tutorial we learn how to install libhts3
on Ubuntu 22.04.
What is libhts3
libhts3 is:
HTSlib is an implementation of a unified C library for accessing common file formats, such as SAM (Sequence Alignment/Map), CRAM and VCF (Variant Call Format), used for high-throughput sequencing data, and is the core library used by samtools and bcftools. HTSlib only depends on zlib. It is known to be compatible with gcc, g++ and clang.
HTSlib implements a generalized BAM (binary SAM) index, with file extension ‘csi’ (coordinate-sorted index). The HTSlib file reader first looks for the new index and then for the old if the new index is absent.
There are three methods to install libhts3
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 libhts3 Using apt-get
Update apt database with apt-get
using the following command.
sudo apt-get update
After updating apt database, We can install libhts3
using apt-get
by running the following command:
sudo apt-get -y install libhts3
Install libhts3 Using apt
Update apt database with apt
using the following command.
sudo apt update
After updating apt database, We can install libhts3
using apt
by running the following command:
sudo apt -y install libhts3
Install libhts3 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 libhts3
using aptitude
by running the following command:
sudo aptitude -y install libhts3
How To Uninstall libhts3 on Ubuntu 22.04
To uninstall only the libhts3
package we can use the following command:
sudo apt-get remove libhts3
Uninstall libhts3 And Its Dependencies
To uninstall libhts3
and its dependencies that are no longer needed by Ubuntu 22.04, we can use the command below:
sudo apt-get -y autoremove libhts3
Remove libhts3 Configurations and Data
To remove libhts3
configuration and data from Ubuntu 22.04 we can use the following command:
sudo apt-get -y purge libhts3
Remove libhts3 configuration, data, and all of its dependencies
We can use the following command to remove libhts3
configurations, data and all of its dependencies, we can use the following command:
sudo apt-get -y autoremove --purge libhts3
References
Summary
In this tutorial we learn how to install libhts3
package on Ubuntu 22.04 using different package management tools: apt
, apt-get
and aptitude
.