ClonalFrame command not found

Introduction

When you run more command in linux terminal / console, you get the following error message

ClonalFrame: command not found

or when using sudo you get the following error message

sudo: ClonalFrame: command not found

Solutions to ClonalFrame: command not found

How To Fix ClonalFrame: command not found in Ubuntu / Debian / Kali Linux / Raspbian

In Ubuntu ClonalFrame is provided by clonalframe package.

clonalframe is:

ClonalFrame identifies the clonal relationships between the members of a sample, while also estimating the chromosomal position of homologous recombination events that have disrupted the clonal inheritance.

ClonalFrame can be applied to any kind of sequence data, from a single fragment of DNA to whole genomes. It is well suited for the analysis of MLST data, where 7 gene fragments have been sequenced, but becomes progressively more powerful as the sequenced regions increase in length and number up to whole genomes. However, it requires the sequences to be aligned. If you have genomic data that is not aligned, it is recommend to use Mauve which produces alignment of whole bacterial genomes in exactly the format required for analysis with ClonalFrame.

To fix this problem, we can install more using the command below.

sudo apt-get -y install clonalframe

This command might take some time to finish depending on your machine internet connection.

You can also use apt command to install clonalframe.

sudo apt -y install clonalframe

Or if you have aptitude installed you can use the following command.

sudo aptitude install clonalframe

Summary

In this tutorial we learn how to fix ClonalFrame command not found error in Ubuntu / Debian / Kali Linux or Raspbian distribution.