How To Install r-bioc-isoformswitchanalyzer on Debian 12
Introduction
In this tutorial we learn how to install r-bioc-isoformswitchanalyzer on Debian 12.
What is r-bioc-isoformswitchanalyzer
r-bioc-isoformswitchanalyzer is:
Isoform Switches with Functional Consequences from both short- and long-read RNA-seq data. Analysis of alternative splicing and isoform switches with predicted functional consequences (e.g. gain/loss of protein domains etc.) from quantification of all types of RNASeq by tools such as Kallisto, Salmon, StringTie, Cufflinks/Cuffdiff etc.
There are three methods to install r-bioc-isoformswitchanalyzer 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-isoformswitchanalyzer 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-isoformswitchanalyzer using apt-get by running the following command:
sudo apt-get -y install r-bioc-isoformswitchanalyzer
Install r-bioc-isoformswitchanalyzer Using apt
Update apt database with apt using the following command.
sudo apt update
After updating apt database, We can install r-bioc-isoformswitchanalyzer using apt by running the following command:
sudo apt -y install r-bioc-isoformswitchanalyzer
Install r-bioc-isoformswitchanalyzer 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-isoformswitchanalyzer using aptitude by running the following command:
sudo aptitude -y install r-bioc-isoformswitchanalyzer
How To Uninstall r-bioc-isoformswitchanalyzer on Debian 12
To uninstall only the r-bioc-isoformswitchanalyzer package we can use the following command:
sudo apt-get remove r-bioc-isoformswitchanalyzer
Uninstall r-bioc-isoformswitchanalyzer And Its Dependencies
To uninstall r-bioc-isoformswitchanalyzer and its dependencies that are no longer needed by Debian 12, we can use the command below:
sudo apt-get -y autoremove r-bioc-isoformswitchanalyzer
Remove r-bioc-isoformswitchanalyzer Configurations and Data
To remove r-bioc-isoformswitchanalyzer configuration and data from Debian 12 we can use the following command:
sudo apt-get -y purge r-bioc-isoformswitchanalyzer
Remove r-bioc-isoformswitchanalyzer configuration, data, and all of its dependencies
We can use the following command to remove r-bioc-isoformswitchanalyzer configurations, data and all of its dependencies, we can use the following command:
sudo apt-get -y autoremove --purge r-bioc-isoformswitchanalyzer
Dependencies
r-bioc-isoformswitchanalyzer have the following dependencies:
- r-base-core
- r-api-4.0
- r-api-bioc-3.16
- r-bioc-limma
- r-bioc-dexseq
- r-cran-ggplot2
- r-bioc-bsgenome
- r-cran-plyr
- r-cran-reshape2
- r-cran-gridextra
- r-bioc-biostrings
- r-bioc-iranges
- r-bioc-genomicranges
- r-bioc-drimseq
- r-cran-rcolorbrewer
- r-bioc-rtracklayer
- r-cran-venndiagram
- r-cran-dbi
- r-bioc-genomeinfodb
- r-bioc-tximport
- r-bioc-tximeta
- r-bioc-edger
- r-cran-futile.logger
- r-cran-stringr
- r-cran-dplyr
- r-cran-magrittr
- r-cran-readr
- r-cran-tibble
- r-bioc-xvector
- r-bioc-biocgenerics
- r-cran-rcurl
- r-bioc-biobase
References
Summary
In this tutorial we learn how to install r-bioc-isoformswitchanalyzer package on Debian 12 using different package management tools: apt, apt-get and aptitude.
