iDOM

iDOM enables statistical analysis and visualization of dissolved organic matter (DOM) data derived from Fourier transform ion cyclotron resonance mass spectrometry (FT-ICR MS) to bridge chemical characterization and ecological interpretation.

Key Features:

• Molecular trait calculation: Computes molecular traits from DOM compositional data.
• Molecular class assignment: Assigns molecular classes to DOM compounds.
• Compositional analysis: Analyzes chemical diversity and dissimilarity of DOM.
• Data integration: Integrates environmental and microbial explanatory data to explore relationships between DOM and abiotic or biotic drivers.
• DOM assembly quantification: Quantifies DOM assembly processes using advanced statistical functions.
• Dark matter analysis: Assesses effects of uncharacterized molecules (dark matter) on molecular interactions.
• Ecological network analysis: Analyzes ecological networks between DOM and microbial communities.
• Response analysis: Explores responses of DOM-microbe interactions to environmental changes such as experimental warming.

Scientific Applications:

• Biogeochemical cycle research: Supports study of DOM-microbial interactions in aquatic and terrestrial ecosystems.
• Climate change studies: Analyzes DOM and microbial community responses to experimental warming.
• Molecular ecology: Links DOM chemical characterization to ecological theory and interpretation.

Methodology:

iDOM is implemented as an R package with functions for basic and advanced statistical analyses and visualization of FT-ICR MS-derived DOM data, handling molecular compositional data, molecular traits, and uncharacterized molecules (dark matter).