How To Install r-bioc-bitseq on Ubuntu 22.04
Introduction
In this tutorial we learn how to install r-bioc-bitseq on Ubuntu 22.04.
What is r-bioc-bitseq
r-bioc-bitseq is:
The BitSeq package is targeted for transcript expression analysis and differential expression analysis of RNA-seq data in two stage process. In the first stage it uses Bayesian inference methodology to infer expression of individual transcripts from individual RNA-seq experiments. The second stage of BitSeq embraces the differential expression analysis of transcript expression. Providing expression estimates from replicates of multiple conditions, Log-Normal model of the estimates is used for inferring the condition mean transcript expression and ranking the transcripts based on the likelihood of differential expression.
There are three methods to install r-bioc-bitseq 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-bitseq 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-bitseq using apt-get by running the following command:
sudo apt-get -y install r-bioc-bitseq
Install r-bioc-bitseq Using apt
Update apt database with apt using the following command.
sudo apt update
After updating apt database, We can install r-bioc-bitseq using apt by running the following command:
sudo apt -y install r-bioc-bitseq
Install r-bioc-bitseq 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-bitseq using aptitude by running the following command:
sudo aptitude -y install r-bioc-bitseq
How To Uninstall r-bioc-bitseq on Ubuntu 22.04
To uninstall only the r-bioc-bitseq package we can use the following command:
sudo apt-get remove r-bioc-bitseq
Uninstall r-bioc-bitseq And Its Dependencies
To uninstall r-bioc-bitseq 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-bitseq
Remove r-bioc-bitseq Configurations and Data
To remove r-bioc-bitseq configuration and data from Ubuntu 22.04 we can use the following command:
sudo apt-get -y purge r-bioc-bitseq
Remove r-bioc-bitseq configuration, data, and all of its dependencies
We can use the following command to remove r-bioc-bitseq configurations, data and all of its dependencies, we can use the following command:
sudo apt-get -y autoremove --purge r-bioc-bitseq
References
Summary
In this tutorial we learn how to install r-bioc-bitseq package on Ubuntu 22.04 using different package management tools: apt, apt-get and aptitude.
