Rhythmidia

Rhythmidia calculates circadian periods and growth rates from race tube experiments in Neurospora crassa.

Key Features:

• Race tube analysis: Processes race tube experiments to measure daily oscillations in growth direction and spore formation.
• Period calculation: Computes circadian periods from phenotypic readouts.
• Growth rate analysis: Calculates growth rates of Neurospora alongside circadian period measurements.
• Benchmarked performance: Validated against the current state-of-the-art method for race tube analysis.

Scientific Applications:

• Circadian rhythm quantification: Measures ~24-hour circadian cycles driven by the core molecular oscillator in filamentous fungi.
• Large-scale race tube experiments: Enables efficient processing of high-throughput race tube data that would be time-consuming and error-prone to analyze manually.
• Neurospora crassa circadian biology: Supports studies of this model organism with conserved eukaryotic clock properties.

Methodology:

Rhythmidia is written in Python and implements computational methods for analyzing race tube experiments to derive circadian periods and growth rates.