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Table 4 Generation of sampling warmup points using dynamic load balancing

From: VFFVA: dynamic load balancing enables large-scale flux variability analysis

Model createWarmupMATLAB createWarmupVF
Cores 1 1 2 4 8 16 32
Ecoli_core 149 2.8 1.8 0.8 0.7 0.5 0.5
P_putida 385 12.5 13 8 4 2 2
EcoliK12 801 49 43 23 10.4 9.5 9.1
Recon2 11346 288 186 30 32 24 21
E_Matrix NA* 602 508 130 52 43 43
Ec_Matrix NA* 5275 4986 924 224 118 117
  1. *The generation of warmup points of E_Matrix and Ec_Matrix models did not converge after 20000s. The creation of warmup points can vary widely between runs as it involves the generation of a random c vector in the linear program. The runs were repeated three times and the average was reported.
  2. The run times of the generation of 30,0000 warmup points for sampling of six metabolic models using the standard serial implementation createWarmupMATLAB and the dynamic load balanced implementation createWarmupVF
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BMC Bioinformatics

ISSN: 1471-2105

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