General Linear Mixed Models for Gene-Level Differential Expression

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Documentation for package ‘glmmSeq’ version 0.5.5

• DESCRIPTION file.
• User guides, package vignettes and other documentation.
• Package NEWS.

Help Pages

fcPlot	Plotly or ggplot fold change plots
ggmodelPlot	Mixed model effects plot using ggplot2
glmmQvals	Glmm Sequencing qvalues
glmmRefit	Refit mixed effects model
glmmRefit.GlmmSeq	Refit mixed effects model
glmmRefit.lmmSeq	Refit mixed effects model
glmmSeq	GLMM with negative binomial distribution for sequencing count data
GlmmSeq-class	An S4 class to define the glmmSeq output
lmmSeq	Linear mixed models for data matrix
lmmSeq-class	An S4 class to define the lmmSeq output
maPlot	MA plots
metadata	Minimal metadata from PEAC
modelPlot	Mixed model effects plot
summary.GlmmSeq	Summarise a 'glmmSeq'/'lmmSeq' object
summary.lmmSeq	Summarise a 'glmmSeq'/'lmmSeq' object
tpm	TPM count data from PEAC