Benchmarking bulk and single-cell variant-calling approaches on Chromium scRNA-seq and scATAC-seq libraries

Table 3.

Counts of variants found in each modality

scRNA-seq scATAC-seq
EPSRC1 EPSRC2 EPSRC4 EPSRC1 EPSRC2 EPSRC4
Coverage, Mb 466.8 385.7 435.8 2373.2 2015.6 2435.4
WGS variants, count (/Mb) 120,428 (258.4) 122,854 (318.5) 84,070 (192.9) 1,111,673 (468.4) 846,406 (419.9) 1,186,267 (487.1)
URP variants, count (/Mb) 120,815 (258.8) 101,475 (263.1) 200,310 (459.6) 330,710 (139.3) 169,171 (83.9) 271,228 (111.4)
scu-variants, count (/Mb) 661 (1.416) 761 (1.973) 2079 (4.771) 25 (0.011) 9 (0.004) 48 (0.020)

This Article

  1. Genome Res. 34: 1196-1210

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