How To Install r-bioc-tximeta on Debian 12
Introduction
In this tutorial we learn how to install r-bioc-tximeta on Debian 12.
What is r-bioc-tximeta
r-bioc-tximeta is:
Transcript quantification import from Salmon and alevin with automatic attachment of transcript ranges and release information, and other associated metadata. De novo transcriptomes can be linked to the appropriate sources with linkedTxomes and shared for computational reproducibility.
There are three methods to install r-bioc-tximeta 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-tximeta 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-tximeta using apt-get by running the following command:
sudo apt-get -y install r-bioc-tximeta
Install r-bioc-tximeta Using apt
Update apt database with apt using the following command.
sudo apt update
After updating apt database, We can install r-bioc-tximeta using apt by running the following command:
sudo apt -y install r-bioc-tximeta
Install r-bioc-tximeta 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-tximeta using aptitude by running the following command:
sudo aptitude -y install r-bioc-tximeta
How To Uninstall r-bioc-tximeta on Debian 12
To uninstall only the r-bioc-tximeta package we can use the following command:
sudo apt-get remove r-bioc-tximeta
Uninstall r-bioc-tximeta And Its Dependencies
To uninstall r-bioc-tximeta and its dependencies that are no longer needed by Debian 12, we can use the command below:
sudo apt-get -y autoremove r-bioc-tximeta
Remove r-bioc-tximeta Configurations and Data
To remove r-bioc-tximeta configuration and data from Debian 12 we can use the following command:
sudo apt-get -y purge r-bioc-tximeta
Remove r-bioc-tximeta configuration, data, and all of its dependencies
We can use the following command to remove r-bioc-tximeta configurations, data and all of its dependencies, we can use the following command:
sudo apt-get -y autoremove --purge r-bioc-tximeta
Dependencies
r-bioc-tximeta have the following dependencies:
- r-base-core
- r-api-4.0
- r-api-bioc-3.16
- r-bioc-summarizedexperiment
- r-bioc-tximport
- r-cran-jsonlite
- r-bioc-s4vectors
- r-bioc-iranges
- r-bioc-genomicranges
- r-bioc-annotationdbi
- r-bioc-genomicfeatures
- r-bioc-ensembldb
- r-bioc-biocfilecache
- r-bioc-annotationhub
- r-bioc-biostrings
- r-cran-tibble
- r-bioc-genomeinfodb
- r-cran-matrix
References
Summary
In this tutorial we learn how to install r-bioc-tximeta package on Debian 12 using different package management tools: apt, apt-get and aptitude.
