GoPeaks: histone modification peak calling for CUT&Tag
2022
William M. Yashar | Garth Kong | Jake VanCampen | Brittany M. Curtiss | Daniel J. Coleman | Lucia Carbone | Galip Gürkan Yardimci | Julia E. Maxson | Theodore P. Braun
Abstract Genome-wide mapping of histone modifications is critical to understanding transcriptional regulation. CUT&Tag is a new method for profiling histone modifications, offering improved sensitivity and decreased cost compared with ChIP-seq. Here, we present GoPeaks, a peak calling method specifically designed for histone modification CUT&Tag data. We compare the performance of GoPeaks against commonly used peak calling algorithms to detect histone modifications that display a range of peak profiles and are frequently used in epigenetic studies. We find that GoPeaks robustly detects genome-wide histone modifications and, notably, identifies a substantial number of H3K27ac peaks with improved sensitivity compared to other standard algorithms.
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