Reference-free inference of tumor phylogenies from single-cell sequencing data

BMC Genomics

Table 1 Distribution of k-mer counts found in the breast tumor single-nucleus sequencing data.

k-mer	Size of k-mer space	Observed k-mer space	Reduced space of k-mers
5-mer	4⁵ = 1024	1024	1024
10-mer	4¹⁰ = 1048576	1048576	1002150
15-mer	4¹⁵ = 1073741824	1010206155	749386
20-mer	4²⁰ = 1.0995 × 10¹²	5667547542	128425
25-mer	4²⁵ = 1.1259 × 10¹⁵	1087589480	11966

Column 1 lists the different "k"s explored. Columns 2 and 3 describe the total number of possible unique k-mers for a given k and the actual number of unique k-mers observed in the data respectively. Column 4 describes the k-mer counts after adjusting for sparsity and amplification noise.

ISSN: 1471-2164