How To Install r-bioc-rwikipathways on Ubuntu

Posted on April 1, 2023 (Last modified on May 20, 2023 )

2 minutes • 414 words

Introduction

In this tutorial we learn how to install r-bioc-rwikipathways on Ubuntu.

What is `r-bioc-rwikipathways`

r-bioc-rwikipathways is:

WikiPathways is a well-known repository for biological pathways that provides unique tools to the research community for content creation, editing and utilization.

The package rWikiPathways leverages the WikiPathways API to communicate between GNU R and WikiPathways, allowing any pathway to be queried, interrogated and downloaded in both data and image formats. Queries are typically performed based on “Xrefs”, standardized identifiers for genes, proteins and metabolites. Once you can identified a pathway, you can use the WPID (WikiPathways identifier) to make additional queries.

There are three methods to install r-bioc-rwikipathways on Ubuntu. 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-rwikipathways 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-rwikipathways using apt-get by running the following command:

sudo apt-get -y install r-bioc-rwikipathways

Install r-bioc-rwikipathways Using apt

Update apt database with apt using the following command.

sudo apt update

After updating apt database, We can install r-bioc-rwikipathways using apt by running the following command:

sudo apt -y install r-bioc-rwikipathways

Install r-bioc-rwikipathways 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-rwikipathways using aptitude by running the following command:

sudo aptitude -y install r-bioc-rwikipathways

How To Uninstall r-bioc-rwikipathways on Ubuntu

To uninstall only the r-bioc-rwikipathways package we can use the following command:

sudo apt-get remove r-bioc-rwikipathways

Uninstall r-bioc-rwikipathways And Its Dependencies

To uninstall r-bioc-rwikipathways and its dependencies that are no longer needed by Ubuntu, we can use the command below:

sudo apt-get -y autoremove r-bioc-rwikipathways

Remove r-bioc-rwikipathways Configurations and Data

To remove r-bioc-rwikipathways configuration and data from Ubuntu we can use the following command:

sudo apt-get -y purge r-bioc-rwikipathways

Remove r-bioc-rwikipathways configuration, data, and all of its dependencies

We can use the following command to remove r-bioc-rwikipathways configurations, data and all of its dependencies, we can use the following command:

sudo apt-get -y autoremove --purge r-bioc-rwikipathways

Dependencies

r-bioc-rwikipathways have the following dependencies:

References

r-bioc-rwikipathways website

Summary

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