How To Install chimeraslayer on Ubuntu 22.04
Introduction
In this tutorial we learn how to install chimeraslayer
on Ubuntu 22.04.
What is chimeraslayer
chimeraslayer is:
ChimeraSlayer is a chimeric sequence detection utility, compatible with near-full length Sanger sequences and shorter 454-FLX sequences (~500bp).
Chimera Slayer involves the following series of steps that operate to flag chimeric 16S rRNA sequences:
- the ends of a query sequence are searched against an included database of reference chimera-free 16S sequences to identify potential parents of a chimera
- candidate parents of a chimera are selected as those that form a branched best scoring alignment to the NAST-formatted query sequence
- the NAST alignment of the query sequence is improved in a ‘chimera-aware’ profile-based NAST realignment to the selected reference parent sequences
- an evolutionary framework is used to flag query sequences found to exhibit greater sequence homology to an in silico chimera formed between any two of the selected reference parent sequences.
To run Chimera Slayer, you need NAST-formatted sequences generated by the nast-ier utility.
ChimeraSlayer is part of the microbiomeutil suite.
There are three methods to install chimeraslayer
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 chimeraslayer Using apt-get
Update apt database with apt-get
using the following command.
sudo apt-get update
After updating apt database, We can install chimeraslayer
using apt-get
by running the following command:
sudo apt-get -y install chimeraslayer
Install chimeraslayer Using apt
Update apt database with apt
using the following command.
sudo apt update
After updating apt database, We can install chimeraslayer
using apt
by running the following command:
sudo apt -y install chimeraslayer
Install chimeraslayer 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 chimeraslayer
using aptitude
by running the following command:
sudo aptitude -y install chimeraslayer
How To Uninstall chimeraslayer on Ubuntu 22.04
To uninstall only the chimeraslayer
package we can use the following command:
sudo apt-get remove chimeraslayer
Uninstall chimeraslayer And Its Dependencies
To uninstall chimeraslayer
and its dependencies that are no longer needed by Ubuntu 22.04, we can use the command below:
sudo apt-get -y autoremove chimeraslayer
Remove chimeraslayer Configurations and Data
To remove chimeraslayer
configuration and data from Ubuntu 22.04 we can use the following command:
sudo apt-get -y purge chimeraslayer
Remove chimeraslayer configuration, data, and all of its dependencies
We can use the following command to remove chimeraslayer
configurations, data and all of its dependencies, we can use the following command:
sudo apt-get -y autoremove --purge chimeraslayer
References
Summary
In this tutorial we learn how to install chimeraslayer
package on Ubuntu 22.04 using different package management tools: apt
, apt-get
and aptitude
.