How To Install umis on Debian 11
Introduction
In this tutorial we learn how to install umis
on Debian 11.
What is umis
umis is:
Umis provides tools for estimating expression in RNA-Seq data which performs sequencing of end tags of transcript, and incorporate molecular tags to correct for amplification bias.
There are four steps in this process.
- Formatting reads
- Filtering noisy cellular barcodes
- Pseudo-mapping to cDNAs
- Counting molecular identifiers
There are three methods to install umis
on Debian 11. We can use apt-get
, apt
and aptitude
. In the following sections we will describe each method. You can choose one of them.
Install umis Using apt-get
Update apt database with apt-get
using the following command.
sudo apt-get update
After updating apt database, We can install umis
using apt-get
by running the following command:
sudo apt-get -y install umis
Install umis Using apt
Update apt database with apt
using the following command.
sudo apt update
After updating apt database, We can install umis
using apt
by running the following command:
sudo apt -y install umis
Install umis 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 umis
using aptitude
by running the following command:
sudo aptitude -y install umis
How To Uninstall umis on Debian 11
To uninstall only the umis
package we can use the following command:
sudo apt-get remove umis
Uninstall umis And Its Dependencies
To uninstall umis
and its dependencies that are no longer needed by Debian 11, we can use the command below:
sudo apt-get -y autoremove umis
Remove umis Configurations and Data
To remove umis
configuration and data from Debian 11 we can use the following command:
sudo apt-get -y purge umis
Remove umis configuration, data, and all of its dependencies
We can use the following command to remove umis
configurations, data and all of its dependencies, we can use the following command:
sudo apt-get -y autoremove --purge umis
Dependencies
umis have the following dependencies:
- libc6
- python3
- python3
- python3-click
- python3-pandas
- python3-pysam
- python3-regex
- python3-scipy
- python3-toolz
- python3
References
Summary
In this tutorial we learn how to install umis
package on Debian 11 using different package management tools: apt
, apt-get
and aptitude
.