Comparison of fusion gene quantification by droplet digital PCR (ddPCR) in 687 blood and bone marrow samples from 55 patients with pediatric CML with results from monitoring BCR‐ABL1 transcripts by routine quantitative reverse transcription PCR (RT‐qPCR) demonstrated that the results of both approaches were highly correlated and had high sensitivity for assessment of pediatric CML. This evidence concerns the gene BCR and chronic myelogenous leukemia, BCR-ABL1 positive.