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Table 2 Comparison of computing time*

From: A forward-backward fragment assembling algorithm for the identification of genomic amplification and deletion breakpoints using high-density single nucleotide polymorphism (SNP) array

  CPU time (seconds)
FASeg 181
aCGH 107
DNAcopy 18
GLAD 98
Picard 101
RJaCGH 13778
BioHMM 1619
  1. * Comparison was made in R 2.4.1 on a desktop computer running the Windows XP® operating system. CPU: AMD Athlon 64 3800+ @ 2.4 GHz; RAM: 1.2 Gb. The CPU time for the tumor sample CZ T26 was reported. For FASeg, aCGH, DNAcopy and GLAD, the ten parameters listed in Table 1 were tested and the average CPU time was reported. For Picard, ten maxSeg values between 2 and 20 were tested and the average CPU time was reported. For RJaCGH and BioHMM, the parameters listed in Table 1 were used.