In yl883/iDESC: iDESC: Identifying differential expression in single-cell RNA sequencing data with multiple subjects

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iDESC

The goal of iDESC is to identify differential expressed gene signatures between two groups in single cell RNA-seq considering subject effect with zero-inflated negative binomial mixed model.

Installation

You can install the released version of iDESC from GitHub with:

devtools::install_github("yl883/iDESC")

Example

This is a basic example which shows you how to solve a common problem:

library(iDESC)
## basic example code
data(IPF_example)
mat=IPF_example$mat
meta=IPF_example$meta
sequencing_depth=IPF_example$meta$sequencing_depth
str(meta)
result=iDESC(mat,meta,subject_var="subject",group_var="disease",
             norm_opt="User",user_sf = sequencing_depth,span = 0.7)

yl883/iDESC documentation built on Aug. 2, 2022, 1:21 a.m.