Qu, Y.; Wang, Y.; Yan, W.; Tang, H.; Chen, Q.

SpacerScope is a genome-wide off-target profiling tool for RNA-guided nucleases that combines binary vectorization, bitwise prefiltering, compact 2-bit substitution search, and right-end-anchored indel validation. In the evaluated datasets, it recovered all 6,142 parameter-defined true off-target sites from CIRCLE-seq and showed improved detection of indel-containing candidate sites relative to the previous tools tested here. SpacerScope provides interpretable event-level annotations and empirical risk scores for downstream guide assessment.