GCphase: an SNP phasing method using a graph partition and error correction algorithm

BMC Bioinformatics

Table 2 Evaluation results based on Pacbio datasets

Sample	Method	Block num	SNP num (%)	SW	SW rate(%)	HMD	HMD rate (%)
Pacbio 50 ×	GCphase	12,689	96.89	132	0.15	1247	1.14
	HapCUT2	13,716	95.85	451	0.51	1449	1.44
	LongPhase	14,198	96.92	177	0.19	1761	2.09
	WhatsHap	13,876	95.98	168	0.20	708	1.05
Pacbio 30 ×	GCphase	13,607	96.67	130	0.15	710	0.77
	HapCUT2	14,602	95.73	488	0.55	2162	2.30
	LongPhase	15,149	96.78	175	0.20	1741	1.89
	WhatsHap	14,814	95.88	232	0.27	1344	1.53
Pacbio 20 ×	GCphase	14,644	96.23	120	0.14	855	1.27
	HapCUT2	15,541	95.62	496	0.56	2061	1.97
	LongPhase	16,142	96.64	175	0.19	1318	1.59
	WhatsHap	15,820	95.8	242	0.30	1047	1.20

ISSN: 1471-2105