evaluate‐busco

This action uses BUSCO (Benchmarking Universal Single-Copy Ortholog assessment tool) to assess the quality of assembled MAGs and generates visualizations summarizing the results.

For the full description of the action's inputs, outputs and parameters run qiime moshpit evaluate-busco --help in the terminal.

Inputs

• bins (SampleData[MAGs]): MAGs to be analyzed.
• busco-db (ReferenceDB[BUSCO]): BUSCO database. This input is optional. If provided BUSCO will run in offline mode. If not provided the required BUSCO database will be downloaded.

Outputs

• visualization: Visualizations summarizing the results of the analysis.

Citation

@article{key0,
 author = {Manni, Mosè and Berkeley, Matthew R and Seppey, Mathieu and Simão, Felipe A and Zdobnov, Evgeny M},
 doi = {10.1093/molbev/msab199},
 editor = {Kelley, Joanna},
 issn = {1537-1719},
 journal = {Molecular Biology and Evolution},
 language = {en},
 month = {September},
 number = {10},
 pages = {4647--4654},
 shorttitle = {BUSCO Update},
 title = {BUSCO Update: Novel and Streamlined Workflows along with Broader and Deeper Phylogenetic Coverage for Scoring of Eukaryotic, Prokaryotic, and Viral Genomes},
 url = {https://academic.oup.com/mbe/article/38/10/4647/6329644},
 urldate = {2023-08-09},
 volume = {38},
 year = {2021}
}