By providing challenges to the metagenomics community based on complex and realistic metagenome benchmark datasets, CAMI — the community-driven initiative for the Critical Assessment of Metagenome Interpretation — has created a comprehensive assessment of the performance of metagenomics software for common analyses. As part of its second contest, CAMI II, it evaluates ~5,000 submissions from 76 software programs and their different versions.
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References
Breitwieser, F. P., Lu, J. & Salzberg, S. L. A review of methods and databases for metagenomic classification and assembly. Brief. Bioinform. 20, 1125–1136 (2019). A Review article outlining common computational methods in metagenomics.
Sczyrba, A. et al. Critical assessment of metagenome interpretation — a benchmark of metagenomics software. Nat. Methods 14, 1063–1071 (2017). This article reports the results of the first CAMI challenge.
Meyer, F. et al. Tutorial: assessing metagenomics software with the CAMI benchmarking toolkit. Nat. Protoc. 16, 1785–1801 (2021). A tutorial article demonstrating how to assess metagenomics software in the CAMI framework.
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This is a summary of: Meyer, F. et al. Critical Assessment of Metagenome Interpretation: the second round of challenges. Nat. Methods https://doi.org/10.1038/s41592-022-01431-4 (2022).
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CAMI II: identifying best practices and issues for metagenomics software. Nat Methods 19, 412–413 (2022). https://doi.org/10.1038/s41592-022-01419-0
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DOI: https://doi.org/10.1038/s41592-022-01419-0
