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The Harbord test suggested asymmetry of the funnel plot (coefficient = −2.043, SE = 0.547, p = 0.033).
This is allowable in the theory behind the competition assay as long as the dose response between the factor and product of the side reaction has a Hill plot coefficient n equal to 1.
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For determining the discriminating variables between classes, loading plots, coefficient plots, variable importance in the projection (VIP) from PLS-DA models, and p-values (<10-3) of the t-tests on the variables arising from the coefficient plot and VIP were considered.
According to the plot of coefficient of determination versus distance), two neighboring SNPs were considered to be linked if their correlation coefficient was greater than 0.25.
Open image in new window Fig. 4 Box plot of coefficient of variation in different grid sizes.
To find an optimal PDF, nine types of PDF were tested using the Kolmogorov Smirnov (K S) and Probability Plot Correlation Coefficient (PPCC) goodness-of-fit methods.
The Simple Matching, Soerensen, and multi-plot similarity coefficient and distance decay analyses were applied for examining beta diversity.
Table 3 Parameter estimates for the model relating relative residual in absolute form and plot sizes Coefficients Parameter estimates p-value Intercept 0.5060 <0.0001 Plot size −0.0002 <0.0001.
To summarize correlations, we plot correlation coefficients using dot and boxplots.
We plotted the coefficient of variation (CV) of gene expression in each of the sleep groups as compared to its coefficient of variation at baseline.
By plotting the coefficient associated with each probe-set against a range of λ values so called regularisations curves are obtained.
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