Pairwise comparative analysis of six haplotype assembly methods based on users’ experience

BMC Genomic Data

Table 3 A simple example of comparing two HA algorithms

block.ID	HA1.SNV.num	HA2.SNV.num	SNV.match	hap.match	switch.count
1	2	1	-	-	NA
2	7	4	-	-	NA
3	4	4	match	-	1
4	23	9	-	-	NA
5	2	2	match	match	0
6	2	2	match	match	0

The columns are block ID, number of SNVs in HA1, number of SNVs in HA2, SNV match flag, haplotype match flag, and switch count. “-” means SNV numbers or haplotypes of HA1 and HA2 do not match. In the switch count column, NA means no need to check switch distance because those HA1 and HA2’s SNV numbers do not match. The number (e.g., 0 or 1) in the last column means the number of switches needed

ISSN: 2730-6844