iqtree2 command not found

In this troubleshooting guide we learn how to fix iqtree2 command not found error message

Introduction

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

iqtree2: command not found

or when using sudo you get the following error message

sudo: iqtree2: command not found

In Ubuntu iqtree2 is provided by iqtree package.

iqtree is:

IQ-TREE is a very efficient maximum likelihood phylogenetic software with following key features among others:

A novel fast and effective stochastic algorithm to estimate maximum likelihood trees. IQ-TREE outperforms both RAxML and PhyML in terms of likelihood while requiring similar amount of computing time (see Nguyen et al., 2015)
An ultrafast bootstrap approximation to assess branch supports (see Minh et al., 2013).
A wide range of substitution models for binary, DNA, protein, codon, and morphological alignments.
Ultrafast model selection for all data types, 10 to 100 times faster than jModelTest and ProtTest.
Finding best partition scheme like PartitionFinder.
Partitioned models with mixed data types for phylogenomic (multi- gene) alignments, allowing for separate, proportional, or joint branch lengths among genes.
Supporting the phylogenetic likelihod library (PLL) (see Flouri et al., 2014)

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

sudo apt-get -y install iqtree

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

You can also use apt command to install iqtree.

sudo apt -y install iqtree

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

sudo aptitude install iqtree

In this tutorial we learn how to fix iqtree2 command not found error in Ubuntu / Debian / Kali Linux or Raspbian distribution.