The ddPCR system provides absolute quantification of target DNA or RNA molecules for EvaGreen or probe-based digital PCR applications. Applications and examples of the QX200 Droplet Digital PCR System include copy number variation analysis (cancer biomarker studies), pathogen detection, rare mutation and sequence detection, gene expression (mRNA and miRNA), NGS library analysis, and food testing/evaluation of GMO. The ddPCR technology enables high-throughput digital PCR while using lower sample and reagent volumes thus reducing overall cost compared to qPCR methods. The method is based on water-oil emulsion droplet technology where a sample is fractionated into 20,000 droplets. PCR amplification of the template molecule occurs in each droplet. Sample partitioning allows for reliable precision which removes PCR bias found in qPCR.