How To Install r-cran-spp on Ubuntu

Posted on April 1, 2023 (Last modified on May 20, 2023 )

3 minutes • 453 words

Introduction

In this tutorial we learn how to install r-cran-spp on Ubuntu.

What is `r-cran-spp`

r-cran-spp is:

R package for anlaysis of ChIP-seq and other functional sequencing data

Assess overall DNA-binding signals in the data and select appropriate quality of tag alignment.
Discard or restrict positions with abnormally high number of tags.
Calculate genome-wide profiles of smoothed tag density and save them in WIG files for viewing in other browsers.
Calculate genome-wide profiles providing conservative statistical estimates of fold enrichment ratios along the genome. These can be exported for browser viewing, or thresholded to determine regions of significant enrichment/depletion.
Determine statistically significant point binding positions
Assess whether the set of point binding positions detected at a current sequencing depth meets saturation criteria, and if does not, estimate what sequencing depth would be required to do so.

There are three methods to install r-cran-spp on Ubuntu. 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-cran-spp 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-cran-spp using apt-get by running the following command:

sudo apt-get -y install r-cran-spp

Install r-cran-spp Using apt

Update apt database with apt using the following command.

sudo apt update

After updating apt database, We can install r-cran-spp using apt by running the following command:

sudo apt -y install r-cran-spp

Install r-cran-spp 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 Ubuntu. Update apt database with aptitude using the following command.

sudo aptitude update

After updating apt database, We can install r-cran-spp using aptitude by running the following command:

sudo aptitude -y install r-cran-spp

How To Uninstall r-cran-spp on Ubuntu

To uninstall only the r-cran-spp package we can use the following command:

sudo apt-get remove r-cran-spp

Uninstall r-cran-spp And Its Dependencies

To uninstall r-cran-spp and its dependencies that are no longer needed by Ubuntu, we can use the command below:

sudo apt-get -y autoremove r-cran-spp

Remove r-cran-spp Configurations and Data

To remove r-cran-spp configuration and data from Ubuntu we can use the following command:

sudo apt-get -y purge r-cran-spp

Remove r-cran-spp configuration, data, and all of its dependencies

We can use the following command to remove r-cran-spp configurations, data and all of its dependencies, we can use the following command:

sudo apt-get -y autoremove --purge r-cran-spp

Dependencies

r-cran-spp have the following dependencies:

References

r-cran-spp website

Summary

In this tutorial we learn how to install r-cran-spp package on Ubuntu using different package management tools: apt, apt-get and aptitude.