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Table 2 Computational performance

From: DBS: a fast and informative segmentation algorithm for DNA copy number analysis

Method Time (s) Trend Line
Test 1
(26 K, 1 Chr.)
Test 2
(160 K, 1 Chr.)
Affymetrix SNP 6.0 (868 K, 22 Chr.) Slope R2
In BACOM 0.592 18.769 34.818 1.999 0.988
 CBS 1.442 6.249 80.551 0.984 0.963
 PCF 0.393 2.638 10.256 0.968 0.979
 DBS 0.093 0.524 2.167 0.968 0.986
  1. The computation time (in seconds) is shown for DNAcopy v1.52.0 (CBS), copynumber v1.18 (PCF), in BACOM, and DBS (ToolSeg) on the 26 K / 160 K simulation data set (10 samples) and on the values from an Affymetrix SNP 6.0 Array data set (10 samples). The slope of linear trend lines represents the computational complexity of each algorithm, which are shown in Fig. 5. All tests were performed on a PC with a 2.5GHz Intel i5 CPU with 8 GB of memory running Windows 10 and Java 8 (64-bit)