Table 2

Performance of k-base encoding

k (encoding width)

Time in s (0 SNPs)

Time in s (1 SNP)

Time in s (2 SNPs)


1

7

7

7


2

65

65

65


3

403

346

403


4

2178

2166

2178


5

23464

23460

23466


Performance time (in seconds) of k-base encoding assuming a real-word per-base error-ate on 50 bp reads presented in Table 1.

Homer et al. BMC Bioinformatics 2010 11:347   doi:10.1186/1471-2105-11-347

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