Targeted alignment and end repair elimination increase alignment and methylation measure accuracy for reduced representation bisulfite sequencing data

Table 1 Alignment performance comparison of simulated RRBS reads (10 Million)

Tool	Alignment^a time (hours)	Memory usage (GB)	%Unique reads	%Correct mapped
BISMARK	0.53	8.4	81.03 %	80.79 %
BRAT-BW	2.89	12.69	80.46 %	74.11 %
BSMAP	0.34	2.78	87.20 %	85.92 %
BS-SEEKER2	0.66	5.3	73.28 %	71.85 %
LAST	0.71	16.1	78.11 %	77.96 %
TRACE-RRBS	0.26	8.76	88.59 %	87.45 %
METHYLCODER	2.5	25.83	62.38 %	44.82 %
NOVOALIGN	1.19	16.1	86.59 %	86.59 %

ISSN: 1471-2164