nebula-package {nebula}R Documentation

Negative Binomial Mixed Models Using Large-Sample Approximation for Differential Expression Analysis of ScRNA-Seq Data

Description

A fast negative binomial mixed model for conducting association analysis of multi-subject single-cell data. It can be used for identifying marker genes, differential expression and co-expression analyses. The model includes subject-level random effects to account for the hierarchical structure in multi-subject single-cell data.

Details

nebula is an R package for performing association analysis using a fast negative binomial mixed model for multi-subject single-cell data.

Author(s)

Liang He

Maintainer: Liang He <liang.he@duke.edu>

References

He. L, Kulminski, A.M., NEBULA: a fast negative binomial mixed model for differential expression and co-expression analysis of large-scale single-cell data. 2020

Examples

library(nebula)
data(sample_data)
pred = model.matrix(~X1+X2+cc,data=sample_data$pred)
re = nebula(count=sample_data$count,id=sample_data$sid,pred=pred)

[Package nebula version 1.1.7 Index]