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MicrobialGenomics-IrsicaixaOrg / microfunk

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[FEATURE] Implement MaAsLin2 for Differential Analysis of Functional Annotations #10

Closed xec-cm closed 5 months ago

xec-cm commented 5 months ago

A proposal to implement MaAsLin2 for differential analysis of functional annotations in our project. MaAsLin2 is a powerful tool for multivariable association analysis of microbial meta'omics data.

The implementation of MaAsLin2 would allow us to identify associations between microbial meta'omics data and metadata or environmental factors, which could provide valuable insights into the functional roles of microbiota in different conditions.

Here's a rough idea of how to use MaAsLin2 in R:


# Run MaAsLin2
fit_data <- Maaslin2(
    input_data, 
    metadata, 
    'output_folder', 
    transform = 'NONE',
    fixed_effects = c('Metadata1', 'Metadata2')
)
github-actions[bot] commented 5 months ago

Branch issue-10-_FEATURE_Implement_MaAsLin2_for_Differential_Analysis_of_Functional_Annotations created!