Table 2 Summary of a subset of results found in this analysis
From: Evaluation of whole-genome DNA methylation sequencing library preparation protocols
Short Name | Kapa | NEB | PBAT | Swift | Low NEB | Low Swift | ||||||
|---|---|---|---|---|---|---|---|---|---|---|---|---|
Sample | A | B | A | B | A | B | A | B | A | B | A | B |
# Sequenced Reads (Millions) | 347.5 | 607.9 | 355.6 | 389.9 | 127.9 | 124.1 | 395.8 | 368.2 | 453.7 | 408.6 | 392.7 | 449.8 |
Low Quality Bases Trimmed (R1) | 2.3 | 1.8 | 1.0 | 1.0 | 0.9 | 0.9 | 0.6 | 0.6 | 1.2 | 1.1 | 1.1 | 0.8 |
Low Quality Bases Trimmed (R2) | 2.0 | 1.7 | 1.1 | 1.0 | 5.9 | 3.4 | 0.7 | 0.7 | 1.2 | 1.2 | 1.0 | 0.8 |
Insert Size | 208.1 | 228.0 | 285.4 | 297.8 | 299.3 | 300.6 | 222.1 | 225.0 | 291.4 | 290.8 | 217.9 | 223.8 |
Duplicate Rate | 27.5 | 32.4 | 9.5 | 9.9 | 13.5 | 11.0 | 12.8 | 12.1 | 18.0 | 16.2 | 30.7 | 26.9 |
% CpGs Covered | 74.0 | 72.3 | 87.5 | 87.6 | 81.8 | 82.6 | 85.6 | 85.2 | 87.6 | 87.6 | 85.5 | 85.3 |
% CpG Retention | 81.6 | 79.0 | 78.5 | 75.6 | 74.0 | 71.1 | 80.3 | 77.5 | 77.8 | 74.8 | 79.4 | 76.9 |