How To Install r-cran-gprofiler2 on Debian 12
Introduction
In this tutorial we learn how to install r-cran-gprofiler2 on Debian 12.
What is r-cran-gprofiler2
r-cran-gprofiler2 is:
A toolset for functional enrichment analysis and visualization, gene/protein/SNP identifier conversion and mapping orthologous genes across species via ‘g:Profiler’ (https://biit.cs.ut.ee/gprofiler). The main tools are: (1) ‘g:GOSt’ - functional enrichment analysis and visualization of gene lists; (2) ‘g:Convert’ - gene/protein/transcript identifier conversion across various namespaces; (3) ‘g:Orth’ - orthology search across species; (4) ‘g:SNPense’ - mapping SNP rs identifiers to chromosome positions, genes and variant effects This package is an R interface corresponding to the 2019 update of ‘g:Profiler’ and provides access to ‘g:Profiler’ for versions ’e94_eg41_p11’ and higher. See the package ‘gProfileR’ for accessing older versions from the ‘g:Profiler’ toolset.
There are three methods to install r-cran-gprofiler2 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-cran-gprofiler2 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-cran-gprofiler2 using apt-get by running the following command:
sudo apt-get -y install r-cran-gprofiler2
Install r-cran-gprofiler2 Using apt
Update apt database with apt using the following command.
sudo apt update
After updating apt database, We can install r-cran-gprofiler2 using apt by running the following command:
sudo apt -y install r-cran-gprofiler2
Install r-cran-gprofiler2 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-cran-gprofiler2 using aptitude by running the following command:
sudo aptitude -y install r-cran-gprofiler2
How To Uninstall r-cran-gprofiler2 on Debian 12
To uninstall only the r-cran-gprofiler2 package we can use the following command:
sudo apt-get remove r-cran-gprofiler2
Uninstall r-cran-gprofiler2 And Its Dependencies
To uninstall r-cran-gprofiler2 and its dependencies that are no longer needed by Debian 12, we can use the command below:
sudo apt-get -y autoremove r-cran-gprofiler2
Remove r-cran-gprofiler2 Configurations and Data
To remove r-cran-gprofiler2 configuration and data from Debian 12 we can use the following command:
sudo apt-get -y purge r-cran-gprofiler2
Remove r-cran-gprofiler2 configuration, data, and all of its dependencies
We can use the following command to remove r-cran-gprofiler2 configurations, data and all of its dependencies, we can use the following command:
sudo apt-get -y autoremove --purge r-cran-gprofiler2
Dependencies
r-cran-gprofiler2 have the following dependencies:
- r-base-core
- r-api-4.0
- r-cran-jsonlite
- r-cran-rcurl
- r-cran-ggplot2
- r-cran-plotly
- r-cran-tidyr
- r-cran-crosstalk
- r-cran-gridextra
- r-cran-viridislite
- r-cran-dplyr
References
Summary
In this tutorial we learn how to install r-cran-gprofiler2 package on Debian 12 using different package management tools: apt, apt-get and aptitude.
