extract_EST command not found

Introduction

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

extract_EST: command not found

or when using sudo you get the following error message

sudo: extract_EST: command not found

Solutions to extract_EST: command not found

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

In Ubuntu extract_EST is provided by estscan package.

estscan is:

ESTScan is a program that can detect coding regions in DNA sequences, even if they are of low quality. ESTScan will also detect and correct sequencing errors that lead to frameshifts. ESTScan is not a gene prediction program , nor is it an open reading frame detector. In fact, its strength lies in the fact that it does not require an open reading frame to detect a coding region. As a result, the program may miss a few translated amino acids at either the N or the C terminus, but will detect coding regions with high selectivity and sensitivity.

ESTScan takes advantages of the bias in hexanucleotide usage found in coding regions relative to non-coding regions. This bias is formalized as an inhomogeneous 3-periodic fifth-order Hidden Markov Model (HMM). Additionally, the HMM of ESTScan has been extended to allows insertions and deletions when these improve the coding region statistics.

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

sudo apt-get -y install estscan

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

You can also use apt command to install estscan.

sudo apt -y install estscan

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

sudo aptitude install estscan

Summary

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