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Table 1 Peak-calling algorithms for ChIP-seq

From: Q&A: ChIP-seq technologies and the study of gene regulation

Name of algorithm Notable features
MACS [23] Uses both a control library and local statistics to minimize bias
SICER [14] Designed for detecting diffusely enriched regions; for example, histone modification
PeakSeq [24] Corrects for reference genome mappability and local statistics
SISSRs [25] High resolution, precise identification of binding-site location
F-seq [26] Uses kernel density estimation