gofasta is a command-line utility developed to handle SARS-CoV-2 alignments, but should be useful more generally for handling consensus genomes of any microbial pathogen. It has been used on datasets of millions of sequences, including by the United Kingdom's daily SARS-CoV-2 genome processing pipelines, Pangolin and Civet.

• Version: 1.2.3
• Added: May, 2025
• Link: https://github.com/virus-evolution/gofasta

See versions which are available:

$ module avail gofasta

Load one version into your environment and run it:

$ module load gofasta/1.2.3
$ gofasta

Notes from the sysadmin during installation:

$ sudo dnf install golang
$ cd /var/scratch
$ git clone https://github.com/virus-evolution/gofasta.git -b v1.2.3
$ cd gofasta
$ go build -o gofasta
$ sudo mkdir -p /export/apps/gofasta/1.2.3/bin
$ sudo cp gofasta /export/apps/gofasta/1.2.3/bin
$ sudo dnf remove golang