How To Install r-bioc-tfbstools on Kali Linux
Introduction
In this tutorial we learn how to install r-bioc-tfbstools
on Kali Linux.
What is r-bioc-tfbstools
r-bioc-tfbstools is:
TFBSTools is a package for the analysis and manipulation of transcription factor binding sites. It includes matrices conversion between Position Frequency Matirx (PFM), Position Weight Matirx (PWM) and Information Content Matrix (ICM). It can also scan putative TFBS from sequence/alignment, query JASPAR database and provides a wrapper of de novo motif discovery software.
There are three methods to install r-bioc-tfbstools
on Kali Linux. 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-tfbstools 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-tfbstools
using apt-get
by running the following command:
sudo apt-get -y install r-bioc-tfbstools
Install r-bioc-tfbstools Using apt
Update apt database with apt
using the following command.
sudo apt update
After updating apt database, We can install r-bioc-tfbstools
using apt
by running the following command:
sudo apt -y install r-bioc-tfbstools
Install r-bioc-tfbstools Using aptitude
If you want to follow this method, you might need to install aptitude on Kali Linux first since aptitude is usually not installed by default on Kali Linux. Update apt database with aptitude
using the following command.
sudo aptitude update
After updating apt database, We can install r-bioc-tfbstools
using aptitude
by running the following command:
sudo aptitude -y install r-bioc-tfbstools
How To Uninstall r-bioc-tfbstools on Kali Linux
To uninstall only the r-bioc-tfbstools
package we can use the following command:
sudo apt-get remove r-bioc-tfbstools
Uninstall r-bioc-tfbstools And Its Dependencies
To uninstall r-bioc-tfbstools
and its dependencies that are no longer needed by Kali Linux, we can use the command below:
sudo apt-get -y autoremove r-bioc-tfbstools
Remove r-bioc-tfbstools Configurations and Data
To remove r-bioc-tfbstools
configuration and data from Kali Linux we can use the following command:
sudo apt-get -y purge r-bioc-tfbstools
Remove r-bioc-tfbstools configuration, data, and all of its dependencies
We can use the following command to remove r-bioc-tfbstools
configurations, data and all of its dependencies, we can use the following command:
sudo apt-get -y autoremove --purge r-bioc-tfbstools
Dependencies
r-bioc-tfbstools have the following dependencies:
- r-base-core
- r-api-4.0
- r-api-bioc-3.12
- r-bioc-biobase
- r-bioc-biostrings
- r-bioc-biocgenerics
- r-bioc-biocparallel
- r-bioc-bsgenome
- r-cran-catools
- r-bioc-cner
- r-bioc-dirichletmultinomial
- r-bioc-genomeinfodb
- r-bioc-genomicranges
- r-cran-gtools
- r-bioc-iranges
- r-cran-dbi
- r-cran-rsqlite
- r-bioc-rtracklayer
- r-bioc-seqlogo
- r-bioc-s4vectors
- r-cran-tfmpvalue
- r-cran-xml
- r-bioc-xvector
- libc6
References
Summary
In this tutorial we learn how to install r-bioc-tfbstools
package on Kali Linux using different package management tools: apt
, apt-get
and aptitude
.