GraphFromFasta command not found

Introduction

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

GraphFromFasta: command not found

or when using sudo you get the following error message

sudo: GraphFromFasta: command not found

Solutions to GraphFromFasta: command not found

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

In Ubuntu GraphFromFasta is provided by trinityrnaseq package.

trinityrnaseq is:

Trinity represents a novel method for the efficient and robust de novo reconstruction of transcriptomes from RNA-seq data. Trinity combines three independent software modules: Inchworm, Chrysalis, and Butterfly, applied sequentially to process large volumes of RNA-seq reads. Trinity partitions the sequence data into many individual de Bruijn graphs, each representing the transcriptional complexity at a given gene or locus, and then processes each graph independently to extract full-length splicing isoforms and to tease apart transcripts derived from paralogous genes.

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

sudo apt-get -y install trinityrnaseq

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

You can also use apt command to install trinityrnaseq.

sudo apt -y install trinityrnaseq

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

sudo aptitude install trinityrnaseq

Summary

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