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The assessment calculations were performed using the default calculation model options implemented in the code.
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Using experimental binding pockets, the optimized box size yields an average RMSD (Fig. 2a), the fraction of binding residues (Fig. 2b) and the fraction of specific contacts (Fig. 2c) of 4.0 Å, 0.92 and 0.58, respectively, whereas the corresponding values for docking calculations using the default box size are 4.9 Å, 0.78 and 0.44 (see the right panel in Fig. 2).
GATK UnifiedGenotyper v 2.1-9 [ 53] was used to detect and genotype putative SNPs, enabling the base-alignment quality (BAQ) calculation and otherwise using the default parameters.
> > you weren't using the default.
Ordering was performed using the default parameters.
MATCH was executed using the default settings.
for base-calling, using the default parameters.
Using the default location is recommended.
The default calculation parameters were adjusted to cope with the large number of markers.
In order to prevent biases due to the setup of virtual screening calculations, we used the default parameters for all programs.
They use the default browser, default email program, default sounds, default keyboard.
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