Exploring effective approaches for haplotype block phasing

BMC Bioinformatics

Table 2 Incorrect haplotype block percentage (%) obtained by the tools when applied on chromosomes 1, 6, and 17

Tool	Chr1	Chr6	Chr17
Consensus haplotype	0.45	0.41	0.46
BEAGLE	0.46	0.43	0.49
SHAPEIT2	0.47	0.42	0.51
EAGLE2	0.48	0.44	0.48
HAPI-UR	1.26	1.27	1.25
IMPUTE	1.17	1.18	1.47
fastPHASE	0.54	0.5	0.58
MaCH	-	-	0.54

Numbers in bold are the minimum error obtained by any approach while underlined numbers are the minimum error for a single tool. MaCH was excluded from the tests applied on chromosome 1, and 6 due to extensive performance time

ISSN: 1471-2105