MiscMetabar

MiscMetabar streamlines the description, transformation, exploration, and reproducibility of metabarcoding analyses in R for researchers in ecology, microbiology, and environmental science.

Key Features:

• Data description and transformation: Simplifies stages from data description to transformation for metabarcoding datasets.
• Exploration and visualization: Provides tools for in-depth exploration and visualization of metabarcoding datasets.
• Reproducibility and workflow management: Integrates with the targets package to manage workflows and ensure reproducible analyses in R.
• dada2 integration: Uses dada2 for high-resolution sample inference from amplicon data and sequence variant identification.
• phyloseq integration: Uses phyloseq to combine microbiome census data with taxonomic classifications for ecological analysis.

Scientific Applications:

• Metabarcoding analysis: Analysis of complex biological samples via metabarcoding to characterize community composition and diversity.
• Microbiome and microbial ecology: Census and ecological analysis of microbial communities using amplicon sequence variant inference and taxonomic integration.
• Environmental and ecological studies: Applications in ecology and environmental science for biodiversity monitoring and community analysis.

Methodology:

Relies on the R packages dada2 for high-resolution amplicon sequence variant inference, phyloseq for integrating microbiome census data with taxonomic classifications, and targets for managing complex, reproducible workflows.