How To Install r-bioc-demixt on Debian 11
Introduction
In this tutorial we learn how to install r-bioc-demixt
on Debian 11.
What is r-bioc-demixt
r-bioc-demixt is:
When studying cancer cells from tumors excised from patients, the samples will be a mixture of tumors and healthy cells, e.g. from invading immune cells. For comparing samples, the interest may be more on comparing the transcriptome of the tumors themselves.
This package prepares the statistical separation (deconvolution) of RNAseq or microarray generated expression data for two or three components.
There are three methods to install r-bioc-demixt
on Debian 11. 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-demixt 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-demixt
using apt-get
by running the following command:
sudo apt-get -y install r-bioc-demixt
Install r-bioc-demixt Using apt
Update apt database with apt
using the following command.
sudo apt update
After updating apt database, We can install r-bioc-demixt
using apt
by running the following command:
sudo apt -y install r-bioc-demixt
Install r-bioc-demixt 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-demixt
using aptitude
by running the following command:
sudo aptitude -y install r-bioc-demixt
How To Uninstall r-bioc-demixt on Debian 11
To uninstall only the r-bioc-demixt
package we can use the following command:
sudo apt-get remove r-bioc-demixt
Uninstall r-bioc-demixt And Its Dependencies
To uninstall r-bioc-demixt
and its dependencies that are no longer needed by Debian 11, we can use the command below:
sudo apt-get -y autoremove r-bioc-demixt
Remove r-bioc-demixt Configurations and Data
To remove r-bioc-demixt
configuration and data from Debian 11 we can use the following command:
sudo apt-get -y purge r-bioc-demixt
Remove r-bioc-demixt configuration, data, and all of its dependencies
We can use the following command to remove r-bioc-demixt
configurations, data and all of its dependencies, we can use the following command:
sudo apt-get -y autoremove --purge r-bioc-demixt
Dependencies
r-bioc-demixt have the following dependencies:
- r-base-core
- r-api-4.0
- r-api-bioc-3.12
- r-cran-rcpp
- r-bioc-summarizedexperiment
- r-cran-knitr
- r-cran-kernsmooth
- r-cran-matrixcalc
- r-cran-matrixstats
- r-cran-truncdist
- r-cran-base64enc
- r-cran-ggplot2
- libc6
- libgcc-s1
- libgomp1
- libstdc++6
References
Summary
In this tutorial we learn how to install r-bioc-demixt
package on Debian 11 using different package management tools: apt
, apt-get
and aptitude
.