How To Install r-bioc-gsva on Ubuntu 22.04
Introduction
In this tutorial we learn how to install r-bioc-gsva
on Ubuntu 22.04.
What is r-bioc-gsva
r-bioc-gsva is:
Gene Set Variation Analysis (GSVA) is a non-parametric, unsupervised method for estimating variation of gene set enrichment through the samples of a expression data set. GSVA performs a change in coordinate systems, transforming the data from a gene by sample matrix to a gene- set by sample matrix, thereby allowing the evaluation of pathway enrichment for each sample. This new matrix of GSVA enrichment scores facilitates applying standard analytical methods like functional enrichment, survival analysis, clustering, CNV-pathway analysis or cross- tissue pathway analysis, in a pathway-centric manner.
There are three methods to install r-bioc-gsva
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 r-bioc-gsva Using apt-get
Update apt database with apt-get
using the following command.
sudo apt-get update
After updating apt database, We can install r-bioc-gsva
using apt-get
by running the following command:
sudo apt-get -y install r-bioc-gsva
Install r-bioc-gsva Using apt
Update apt database with apt
using the following command.
sudo apt update
After updating apt database, We can install r-bioc-gsva
using apt
by running the following command:
sudo apt -y install r-bioc-gsva
Install r-bioc-gsva 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 r-bioc-gsva
using aptitude
by running the following command:
sudo aptitude -y install r-bioc-gsva
How To Uninstall r-bioc-gsva on Ubuntu 22.04
To uninstall only the r-bioc-gsva
package we can use the following command:
sudo apt-get remove r-bioc-gsva
Uninstall r-bioc-gsva And Its Dependencies
To uninstall r-bioc-gsva
and its dependencies that are no longer needed by Ubuntu 22.04, we can use the command below:
sudo apt-get -y autoremove r-bioc-gsva
Remove r-bioc-gsva Configurations and Data
To remove r-bioc-gsva
configuration and data from Ubuntu 22.04 we can use the following command:
sudo apt-get -y purge r-bioc-gsva
Remove r-bioc-gsva configuration, data, and all of its dependencies
We can use the following command to remove r-bioc-gsva
configurations, data and all of its dependencies, we can use the following command:
sudo apt-get -y autoremove --purge r-bioc-gsva
References
Summary
In this tutorial we learn how to install r-bioc-gsva
package on Ubuntu 22.04 using different package management tools: apt
, apt-get
and aptitude
.