How To Install r-bioc-nanostringqcpro on Debian 12
Introduction
In this tutorial we learn how to install r-bioc-nanostringqcpro on Debian 12.
What is r-bioc-nanostringqcpro
r-bioc-nanostringqcpro is:
NanoStringQCPro provides a set of quality metrics that can be used to assess the quality of NanoString mRNA gene expression data – i.e. to identify outlier probes and outlier samples. It also provides different background subtraction and normalization approaches for this data. It outputs suggestions for flagging samples/probes and an easily sharable html quality control output.
There are three methods to install r-bioc-nanostringqcpro 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-nanostringqcpro 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-nanostringqcpro using apt-get by running the following command:
sudo apt-get -y install r-bioc-nanostringqcpro
Install r-bioc-nanostringqcpro Using apt
Update apt database with apt using the following command.
sudo apt update
After updating apt database, We can install r-bioc-nanostringqcpro using apt by running the following command:
sudo apt -y install r-bioc-nanostringqcpro
Install r-bioc-nanostringqcpro 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-nanostringqcpro using aptitude by running the following command:
sudo aptitude -y install r-bioc-nanostringqcpro
How To Uninstall r-bioc-nanostringqcpro on Debian 12
To uninstall only the r-bioc-nanostringqcpro package we can use the following command:
sudo apt-get remove r-bioc-nanostringqcpro
Uninstall r-bioc-nanostringqcpro And Its Dependencies
To uninstall r-bioc-nanostringqcpro and its dependencies that are no longer needed by Debian 12, we can use the command below:
sudo apt-get -y autoremove r-bioc-nanostringqcpro
Remove r-bioc-nanostringqcpro Configurations and Data
To remove r-bioc-nanostringqcpro configuration and data from Debian 12 we can use the following command:
sudo apt-get -y purge r-bioc-nanostringqcpro
Remove r-bioc-nanostringqcpro configuration, data, and all of its dependencies
We can use the following command to remove r-bioc-nanostringqcpro configurations, data and all of its dependencies, we can use the following command:
sudo apt-get -y autoremove --purge r-bioc-nanostringqcpro
Dependencies
r-bioc-nanostringqcpro have the following dependencies:
- r-base-core
- r-api-4.0
- r-api-bioc-3.16
- r-bioc-annotationdbi
- r-bioc-org.hs.eg.db
- r-bioc-biobase
- r-cran-knitr
- r-cran-nmf
- r-cran-rcolorbrewer
- r-cran-png
References
Summary
In this tutorial we learn how to install r-bioc-nanostringqcpro package on Debian 12 using different package management tools: apt, apt-get and aptitude.
