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Table 3 Computation times for enumerating all tryptic compositions with different maximum lengths, with and without maximum mass limit

From: A parallel method for enumerating amino acid compositions and masses of all theoretical peptides

L

Computation Time

 

maxMass = 3 kDa

no mass limit

25

19 min

29 min

30

11 min

1 h 20 min

35

8 min

5 h 38 min

40

8 min

38 h 28 min

45

14 min

> 96 h

50

29 min

-

  1. Parameters of the job table were: start ≤ 7, Lmax,2 = 20, Lmax,3 = 24, Lmax,4 = 28, Lmax,5 = 34, Lmax,6 = 40. Computations were done using 71 work processes executed on a cluster with 12 Intel Xeon X5650 CPUs running Windows HPC Server 2008.
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BMC Bioinformatics

ISSN: 1471-2105

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