EMMIXcontrasts2: EMMIXcontrasts:

In andrewthomasjones/EMMIXcontrasts: Contrasts in Mixed Effects for EMMIX Model with Random Effects

Description

For forming contrasts in the mixed effects for mixtures of linear mixed models fitted to the gene profiles as described in Ng, S. K., McLachlan, G. J., Wang, K., Nagymanyoki, Z., Liu, S., & Ng, S. W. (2014). Inference on differences between classes using cluster-specific contrasts of mixed effects. Biostatistics, 16(1), 98-112. This enables the detection of differentially expressed genes in a wide variety of experimental settings. Functions to generat p-values based on the empirical null distribution are also provided.

Main Functions

emmixwire: Fits a mixture of linear mixed models to the dataset.

scores.wire: Computes the contrasts.

wj2.permuted: Estimates the null distribution.

pvalue.wire: Calcualtes the p-values.

See vignette('EMMIXContrasts-An-Introduction') for more details.

andrewthomasjones/EMMIXcontrasts documentation built on June 26, 2019, 5:46 a.m.