miaozhun/DEsingle: DEsingle for detecting three types of differential expression in single-cell RNA-seq data

DEsingle is an R package for differential expression (DE) analysis of single-cell RNA-seq (scRNA-seq) data. It defines and detects 3 types of differentially expressed genes between two groups of single cells, with regard to different expression status (DEs), differential expression abundance (DEa), and general differential expression (DEg). DEsingle employs Zero-Inflated Negative Binomial model to estimate the proportion of real and dropout zeros and to define and detect the 3 types of DE genes. Results showed that DEsingle outperforms existing methods for scRNA-seq DE analysis, and can reveal different types of DE genes that are enriched in different biological functions.

Getting started

Package details

AuthorZhun Miao <miaoz13@tsinghua.org.cn>
Bioconductor views DifferentialExpression GeneExpression ImmunoOncology Preprocessing RNASeq Sequencing SingleCell Software Transcriptomics
MaintainerZhun Miao <miaoz13@tsinghua.org.cn>
URL https://miaozhun.github.io/DEsingle/
Package repositoryView on GitHub
Installation Install the latest version of this package by entering the following in R:
miaozhun/DEsingle documentation built on Jan. 25, 2023, 4:27 p.m.