The application discloses a method and
system for correcting Hi-C
sequence alignment by fusing
DNA methylation information, and the method comprises the following steps: obtaining a preliminary alignment result of Hi-C sequencing of a sample
genome relative to a
reference genome and a
methylation site map; obtaining a corresponding candidate alignment position and an original
sequence alignment score of each read pair; positioning an alignment interval on the
reference genome at both ends of each candidate alignment position; based on the
methylation site map, counting the number of methylation sites covered at both ends of the candidate alignment position to obtain a methylation penalty
score representing biological consistency; obtaining a recalibration comprehensive
score based on the methylation penalty score, reordering all candidate alignment positions of the read pair, calculating an alignment quality update value of each candidate position, and outputting a corrected alignment result. The application solves the problem that in a
polyploid and a highly repetitive
genome, multiple alignment of Hi-C reads cannot accurately determine the real source position.