ddPCRclust

ddPCRclust automates clustering-based analysis and visualization of multiplexed droplet digital PCR (ddPCR) data to quantify up to four DNA or RNA targets per reaction.

Key Features:

• Implementation and compatibility: Implemented as an R package and accepts data from Bio-Rad QX100 and QX200 systems.
• Automated analysis: Performs automated, clustering-based analysis of ddPCR experiments to reduce manual interpretation.
• Multiplexing support: Handles non-orthogonal, multiplexed ddPCR data and quantifies up to four targets per reaction.
• Visualization: Generates visualizations of clustering and quantification results for multiplexed experiments.

Scientific Applications:

• High-throughput quantification: Enables high-throughput quantification of DNA and RNA targets from multiplexed ddPCR experiments.
• Genomics: Supports quantitative assays for genomic studies requiring precise target copy-number estimation.
• Transcriptomics: Supports quantification of RNA targets in transcriptomic analyses.
• Molecular diagnostics: Supports molecular diagnostic applications that require sensitive and specific quantification of genetic targets.
• Multiplex marker detection: Facilitates simultaneous detection and quantification of multiple genetic markers in a single reaction.

Methodology:

Automated analysis applies clustering algorithms to quantify and visualize results from multiplexed ddPCR experiments.