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Table 2 Space usage for SSHash indexes in bits/\(k\)-mer across different datasets and for the minimizer types proposed in this article

From: The open-closed mod-minimizer algorithm

Minimizer

Human Chr. 13

Whole human

Salmonella-100

Axolotl

Random

7.53

8.70

7.55

9.91

Open-closed (Sect. The open-closed minimizer)

6.45

\((-14.35\%)\)

7.44

\((-14.48\%)\)

6.69

\((-11.39\%)\)

8.54

\((-13.80\%)\)

Open-closed mod (Sect. The extended mod-minimizer)

6.18

\((-17.90\%)\)

7.13

\((-18.05\%)\)

6.46

\((-14.42\%)\)

8.22

\((-17.05\%)\)

  1. The used parameters are \((w,k)=(11,21)\) for all datasets. We show percentages relative to the random minimizer, which is the default option to build SSHash indexes
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Algorithms for Molecular Biology

ISSN: 1748-7188