How To Install r-bioc-variantannotation on Debian 9
Introduction
In this tutorial we learn how to install r-bioc-variantannotation
on Debian 9.
What is r-bioc-variantannotation
r-bioc-variantannotation is:
This BioConductor package provides R functions to annotate variants, compute amino acid coding changess and to predict coding outcomes.
There are three methods to install r-bioc-variantannotation
on Debian 9. 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-variantannotation 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-variantannotation
using apt-get
by running the following command:
sudo apt-get -y install r-bioc-variantannotation
Install r-bioc-variantannotation Using apt
Update apt database with apt
using the following command.
sudo apt update
After updating apt database, We can install r-bioc-variantannotation
using apt
by running the following command:
sudo apt -y install r-bioc-variantannotation
Install r-bioc-variantannotation 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-variantannotation
using aptitude
by running the following command:
sudo aptitude -y install r-bioc-variantannotation
How To Uninstall r-bioc-variantannotation on Debian 9
To uninstall only the r-bioc-variantannotation
package we can use the following command:
sudo apt-get remove r-bioc-variantannotation
Uninstall r-bioc-variantannotation And Its Dependencies
To uninstall r-bioc-variantannotation
and its dependencies that are no longer needed by Debian 9, we can use the command below:
sudo apt-get -y autoremove r-bioc-variantannotation
Remove r-bioc-variantannotation Configurations and Data
To remove r-bioc-variantannotation
configuration and data from Debian 9 we can use the following command:
sudo apt-get -y purge r-bioc-variantannotation
Remove r-bioc-variantannotation configuration, data, and all of its dependencies
We can use the following command to remove r-bioc-variantannotation
configurations, data and all of its dependencies, we can use the following command:
sudo apt-get -y autoremove --purge r-bioc-variantannotation
Dependencies
r-bioc-variantannotation have the following dependencies:
- r-base-core
- r-api-3
- r-bioc-biocgenerics
- r-bioc-genomeinfodb
- r-bioc-genomicranges
- r-bioc-summarizedexperiment
- r-bioc-rsamtools
- r-cran-dbi
- r-bioc-biobase
- r-bioc-s4vectors
- r-bioc-iranges
- r-bioc-xvector
- r-bioc-biostrings
- r-bioc-annotationdbi
- r-bioc-bsgenome
- r-bioc-rtracklayer
- r-bioc-genomicfeatures
- libc6
- zlib1g
References
Summary
In this tutorial we learn how to install r-bioc-variantannotation
package on Debian 9 using different package management tools: apt
, apt-get
and aptitude
.