from QC to gene prediction and phylogenomics

Based on evolutionarily-informed expectations of gene content of near-universal single-copy orthologs, BUSCO metric is complementary to technical metrics like N50.

BUSCO version 4 is released! BUSCO.v3 is still available.

If you ran analyses on eukaryotes using v4.0.0 and v4.0.1, please validate you result with v4.0.2 or higher, as the score may have been underestimated


  • Git source code
  • Docker container
  • Conda package

New in v4

  • Bacteria & archaea revised
  • Auto-lineage selection
  • Automated download of datasets

vs CheckM

  • Scores eukaryotes and prokaryotes
  • Can run on a laptop
  • Better resolution, less overestimates

Obtain BUSCO

Read the user guide for details.

docker pull ezlabgva/busco:v4.1.0_cv1
docker run -u $(id -u) -v $(pwd):/busco_wd ezlabgva/busco:v4.1.0_cv1

..more >> ..source >>

or through conda

conda install -c bioconda -c conda-forge busco=4.0.6
conda activate base

or through conda by creating a new environment (also try this if you encounter problems with the command above)

conda create -n your_env_name -c bioconda -c conda-forge busco=4.0.6 python=3.x
conda activate your_env_name


git clone https://gitlab.com/ezlab/busco.git

..more >>

The BUSCO software now directly downloads the necessary datasets, specified by the user or automatically selected.

To display all available datasets

busco --list-datasets

You can also select and download them manually and see a list with the number of marker genes.

Earlier versions: v3, v2, v1

Documentation and support

User guide Issues board

You can also write to: support[at]orthodb.org.

Cite us

Seppey M., Manni M., Zdobnov E.M. (2019) BUSCO: Assessing Genome Assembly and Annotation Completeness. In: Kollmar M. (eds) Gene Prediction. Methods in Molecular Biology, vol 1962. Humana, New York, NY. 2019 doi.org/10.1007/978-1-4939-9173-0_14. PMID:31020564

more & stats >>

"Core" genes

BUSCO sampling space adapted from