How To Install python3-nanoget on Kali Linux
Introduction
In this tutorial we learn how to install python3-nanoget
on Kali Linux.
What is python3-nanoget
python3-nanoget is:
The Python3 module nanoget provides functions to extract useful metrics from Oxford Nanopore sequencing reads and alignments.
Data can be presented in the following formats, using the following functions:
- sorted bam file process_bam(bamfile, threads)
- standard fastq file process_fastq_plain(fastqfile, ’threads')
- fastq file with metadata from MinKNOW or Albacore process_fastq_rich(fastqfile)
- sequencing_summary file generated by Albacore process_summary(sequencing_summary.txt, ‘readtype’)
Fastq files can be compressed using gzip, bzip2 or bgzip. The data is returned as a pandas DataFrame with standardized headernames for convenient extraction. The functions perform logging while being called and extracting data.
There are three methods to install python3-nanoget
on Kali Linux. We can use apt-get
, apt
and aptitude
. In the following sections we will describe each method. You can choose one of them.
Install python3-nanoget Using apt-get
Update apt database with apt-get
using the following command.
sudo apt-get update
After updating apt database, We can install python3-nanoget
using apt-get
by running the following command:
sudo apt-get -y install python3-nanoget
Install python3-nanoget Using apt
Update apt database with apt
using the following command.
sudo apt update
After updating apt database, We can install python3-nanoget
using apt
by running the following command:
sudo apt -y install python3-nanoget
Install python3-nanoget Using aptitude
If you want to follow this method, you might need to install aptitude on Kali Linux first since aptitude is usually not installed by default on Kali Linux. Update apt database with aptitude
using the following command.
sudo aptitude update
After updating apt database, We can install python3-nanoget
using aptitude
by running the following command:
sudo aptitude -y install python3-nanoget
How To Uninstall python3-nanoget on Kali Linux
To uninstall only the python3-nanoget
package we can use the following command:
sudo apt-get remove python3-nanoget
Uninstall python3-nanoget And Its Dependencies
To uninstall python3-nanoget
and its dependencies that are no longer needed by Kali Linux, we can use the command below:
sudo apt-get -y autoremove python3-nanoget
Remove python3-nanoget Configurations and Data
To remove python3-nanoget
configuration and data from Kali Linux we can use the following command:
sudo apt-get -y purge python3-nanoget
Remove python3-nanoget configuration, data, and all of its dependencies
We can use the following command to remove python3-nanoget
configurations, data and all of its dependencies, we can use the following command:
sudo apt-get -y autoremove --purge python3-nanoget
Dependencies
python3-nanoget have the following dependencies:
References
Summary
In this tutorial we learn how to install python3-nanoget
package on Kali Linux using different package management tools: apt
, apt-get
and aptitude
.