bolt command not found

Introduction

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

bolt: command not found

or when using sudo you get the following error message

sudo: bolt: command not found

Solutions to bolt: command not found

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

In Ubuntu bolt is provided by bolt-lmm package.

bolt-lmm is:

The BOLT-LMM software package currently consists of two main algorithms, the BOLT-LMM algorithm for mixed model association testing, and the BOLT-REML algorithm for variance components analysis (i.e., partitioning of SNP-heritability and estimation of genetic correlations).

The BOLT-LMM algorithm computes statistics for testing association between phenotype and genotypes using a linear mixed model. By default, BOLT-LMM assumes a Bayesian mixture-of-normals prior for the random effect attributed to SNPs other than the one being tested. This model generalizes the standard infinitesimal mixed model used by previous mixed model association methods, providing an opportunity for increased power to detect associations while controlling false positives. Additionally, BOLT-LMM applies algorithmic advances to compute mixed model association statistics much faster than eigendecomposition-based methods, both when using the Bayesian mixture model and when specialized to standard mixed model association.

The BOLT-REML algorithm estimates heritability explained by genotyped SNPs and genetic correlations among multiple traits measured on the same set of individuals. BOLT-REML applies variance components analysis to perform these tasks, supporting both multi-component modeling to partition SNP-heritability and multi-trait modeling to estimate correlations. BOLT-REML applies a Monte Carlo algorithm that is much faster than eigendecomposition-based methods for variance components analysis at large sample sizes.

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

sudo apt-get -y install bolt-lmm

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

You can also use apt command to install bolt-lmm.

sudo apt -y install bolt-lmm

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

sudo aptitude install bolt-lmm

Summary

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