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QUAST

QUAST evaluates genome assemblies by computing various metrics. The bundle packages version 5.3.0.

Usage example

The following command can be executed in the terminal to load the bundle:

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module load quast

The module makes the following commands available:

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quast
quast-download-gridss
quast-download-silva
icarus.py
metaquast.py
quast-lg.py
quast.py

Run pet list -t quast for a list of examples. The examples were taken from DENBI Nanopore training course and DENBI NFDI simplevm metagenomics workshop.

The quast_shell command can be used to access a shell in the bundle.

Performance notes

No performance notes available

QUAST should be run on a system with at least 32 GB of RAM and 8 threads.

Benchmarks

No benchmarks available.

Community guides and tutorials

  • No community guides available.

Official site and documentation

Licensing information

QUAST is licensed under the GPLv2 license.

Primary citation

Alla Mikheenko, Vladislav Saveliev, Pascal Hirsch, Alexey Gurevich, WebQUAST: online evaluation of genome assemblies, Nucleic Acids Research (2023) 51 (W1): W601–W606. doi

External guides and resources

  • If you know of a guide/tutorial that you have found useful, please help us share it by contacting the HPC staff at hpc@ufs.ac.za