chimeraslayer command not found

In this troubleshooting guide we learn how to fix chimeraslayer command not found error message

Introduction

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

chimeraslayer: command not found

or when using sudo you get the following error message

sudo: chimeraslayer: command not found

In Ubuntu chimeraslayer is provided by chimeraslayer package.

chimeraslayer is:

ChimeraSlayer is a chimeric sequence detection utility, compatible with near-full length Sanger sequences and shorter 454-FLX sequences (~500bp).

Chimera Slayer involves the following series of steps that operate to flag chimeric 16S rRNA sequences:

the ends of a query sequence are searched against an included database of reference chimera-free 16S sequences to identify potential parents of a chimera
candidate parents of a chimera are selected as those that form a branched best scoring alignment to the NAST-formatted query sequence
the NAST alignment of the query sequence is improved in a ‘chimera-aware’ profile-based NAST realignment to the selected reference parent sequences
an evolutionary framework is used to flag query sequences found to exhibit greater sequence homology to an in silico chimera formed between any two of the selected reference parent sequences.

To run Chimera Slayer, you need NAST-formatted sequences generated by the nast-ier utility.

ChimeraSlayer is part of the microbiomeutil suite.

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

sudo apt-get -y install chimeraslayer

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

You can also use apt command to install chimeraslayer.

sudo apt -y install chimeraslayer

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

sudo aptitude install chimeraslayer

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