Sentence examples for using the lmfit function from inspiring English sources

Analysis were performed with the limma package [ 32], using the lmFit function.

A linear model was fitted for each gene in a given series of arrays by using the lmFit function.

Afterwards, the linear model was fitted using the lmFit function, which fully models the systematic part of the data.

We, therefore, fit a linear model with date and experimental conditions summarized in Table 1 using the lmFit function in the R Bioconductor package limma (Linear Models for Microarray Data; [ 36]).

Robust multichip average (RMA) [ 107] and print tip lowess normalization [ 108, 109] were performed on the data before differential expression analyses were performed using the lmFit function in LIMMA.

In most cases, all replication is biological, so we generate fits using the lmfit function in limma; for the JZ12 (GSE37068) data set, technical replicates were fit using the duplicateCorrelation function in limma.

After the 'SC-2D+quantile' normalization, the six comparisons (or effects) of interest were estimated by the least squares method using the lmFit Limma function [57] The correlation between the spots of the three dyes within each gel was first estimated using the Limma dupcor function [58].

LIMMA was performed using the lmFit and eBayes functions from the limma R package for the R Statistical Language with default parameters.

The microarray data for each gene were fitted to a simple control versus treatment linear model at each time point/comparison, and statistics were generated using the lmFit and eBayes functions [ 42] of the LIMMA package.

Sample weights based on detection p-values across samples were used in the lmFit function from the Limma package to downweight samples with higher detection p-values.

A linear model containing each of the sample types (as defined by the combination of turmeric or ginger cultivar, time of harvest, and tissue), plus a term to account for differences in intensity due to the labeling fluorochrome (Cy3 vs. Cy5), was then applied to the data using the limma lmFit function.