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The product formed was estimated from the slope of line formed by fitting a standard linear plot.
Finally, LOD and LOQ were expressed as mutant-type frequencies by fitting a standard curve generated by the standard plasmid DNA pools.
The approach begins by fitting a standard limma linear model to all CpG sites in parallel [ 26].
The conditional covariance matrix of y given u can be obtained by fitting a standard multiple trait animal model (MTAM, [ 17]) and obtaining the estimated residual covariance matrix, here represented by R 0 *.
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Adjustment for covariates was made by firstly fitting a standard logistic regression model to the individual-level data, including terms for the covariates of interest, but excluding the intervention effect.
Fold changes and standard errors were obtained by fitting a linear model to each gene and standard errors were smoothed by empirical Bayes.
However, if the uncertainty spread in the estimate for P blast) is much greater than that of P magmatic eruption), and the experts gave a broader distribution, this aspect may not be captured properly by fitting a Dirichlet distribution in the standard way with least squares (with all three percentiles weighted equally).
Sub-diffraction localization of molecules is accomplished by computing the centroid of local neighborhoods, by a radial symmetry approach (Parthasarathy, 2012), or by fitting a suitable PSF model using standard or weighted non-linear least-squares methods, or using maximum-likelihood estimation (Mortensen et al., 2010).
Fold changes and standard errors were obtained by fitting a linear model to each gene expression values and standard errors were smoothed based on the empirical Bayes method.
Further, we estimated the fold change and standard errors by fitting a linear model (using the lmFit function) for each gene given the groups of arrays and then compute a moderated t-statistics of differential expression by applying empirical Bayes at a level of 0.05.
By fitting an ordinary ORM with robust standard errors for clustered data instead of fitting a variance components model (a multilevel model for ordinal responses), we were treating the within-cluster dependence as a "nuisance" and not as a phenomenon that we were interested in [36].
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