ArticleBioinformatics (Oxford, England)2023
Efficient computation of contributional diversity metrics from microbiome data with FuncDiv.
Article in Bioinformatics (Oxford, England), 2023. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 3 papers.
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Who cites it
3 citing papers in PubMed.
- A gut-derivedmBio · 2025Article
- Taxonomic and Functional Dynamics of Bacterial Communities During Drift Seaweed Vermicomposting.Microorganisms · 2024Article
- Exploring the microbiome of oral epithelial dysplasia as a predictor of malignant progression.BMC oral health · 2023Article
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Authors and funding
4 authors.
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Abstract
motivationMicrobiome datasets with taxa linked to the functions (e.g. genes) they encode are becoming more common as metagenomics sequencing approaches improve. However, these data are challenging to analyze due to their complexity. Summary metrics, such as the alpha and beta diversity of taxa contributing to each function (i.e. contributional diversity), represent one approach to investigate these data, but currently there are no straightforward methods for doing so.
resultsWe addressed this gap by developing FuncDiv, which efficiently performs these computations. Contributional diversity metrics can provide novel insights that would be impossible to identify without jointly considering taxa and functions. AVAILABILITY AND IMPLEMENTATION: FuncDiv is distributed under a GNU Affero General Public License v3.0 and is available at https://github.com/gavinmdouglas/FuncDiv. SUPPLEMENTARY INFORMATION: Supplementary data are available at Bioinformatics online.
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