BactMAP

BactMAP integrates, analyzes, and visualizes bacterial microscopy data as an R package to enable quantitative, high-throughput single-cell analyses of bacterial cellular processes.

Key Features:

• Integration Capability: Transforms cell segmentation and spot detection outputs from multiple segmentation and detection programs into standardized data for downstream analysis.
• Standardization for Comparison: Standardizes outputs to enable consistent comparisons across datasets within a single analysis pipeline.
• Customization Options: Provides customizable analysis and output layout options for tailored data processing and visualization.
• Advanced Statistical Tools: Performs statistical analyses using standard R practices.
• Graphical Output Compatibility: Generates ggplot2-compatible graphical outputs for adjustable plotting.

Scientific Applications:

• Cell cycle and protein dynamics visualization: Visualizes cell cycle parameters and protein dynamics at single-cell resolution.
• Comparative bacterial cell cycle analysis: Has been applied to analyze Bacillus subtilis and Staphylococcus aureus cell cycle data.
• Replication fork dynamics discovery: Helped reveal that DNA replication forks in Streptococcus pneumoniae dissociate and reassociate prior to cell division following Z-ring formation at new quarter positions.

Methodology:

Transforms cell segmentation and spot detection outputs from multiple segmentation/detection programs into standardized data structures, applies statistical analyses using standard R methods, and produces ggplot2-compatible plots.