How To Install r-bioc-gsva on Debian 12

Learn how to install r-bioc-gsva on Debian 12 with this tutorial. r-bioc-gsva is Gene Set Variation Analysis for microarray and RNA-seq data

Introduction

In this tutorial we learn how to install r-bioc-gsva on Debian 12.

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 Debian 12. 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 Debian. 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 Debian 12

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 Debian 12, 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 Debian 12 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

Dependencies

r-bioc-gsva have the following dependencies:

References

Summary

In this tutorial we learn how to install r-bioc-gsva package on Debian 12 using different package management tools: apt, apt-get and aptitude.