RT Journal Article
SR Electronic
T1 FreeHi-C: high fidelity Hi-C data simulation for benchmarking and data augmentation
JF bioRxiv
FD Cold Spring Harbor Laboratory
SP 629923
DO 10.1101/629923
A1 Ye Zheng
A1 Sündüz Keleş
YR 2019
UL http://biorxiv.org/content/early/2019/05/14/629923.abstract
AB Ability to simulate realistic high-throughput chromatin conformation (Hi-C) data is foundational for developing and benchmarking statistical and computational methods for Hi-C data analysis. We propose FreeHi-C, a data-driven Hi-C simulator for simulating and augmenting Hi-C datasets. FreeHi-C employs a non-parametric strategy for estimating interaction distribution of genome fragments from a given sample and simulates Hi-C reads from interacting fragments. Data from FreeHi-C exhibit higher fidelity to the biological Hi-C data compared with other tools in its class. FreeHi-C not only enables benchmarking a wide range of Hi-C analysis methods but also boosts the precision and power of differential chromatin interaction detection methods while preserving false discovery rate control through data augmentation.