multiDE

multiDE: A dimension reduced model based statistical method for differential expression analysis using RNA-sequencing data from multiple conditions

Guangliang Kang, Li Du, and Hong Zhang*

Institute of Biostatistics, School of Life Sciences, Fudan University

*zhanghfd@fudan.edu.cn

Based on a dimension reduced ANOVA model, the R package ‘multiDE’ conducts differential expression (DE) analysis using high throughput next-generation RNA-seq read count data generated from samples of multiple conditions. The samples across all conditions can be either matched or unmatched. The package provides log2-fold change estimates and their standard errors, Wald test p-value of DE analysis for each gene.

 

R package can be downloaded at http://github.com/zhanghfd/multiDE/

R script for installing multiDE:

library(‘devtools’);

install_github(‘zhanghfd/multiDE’);


Reference

Kang G, Du L, Zhang H (2016). multiDE: A dimension reduced model based statistical method for differential expression analysis using RNA-sequencing data from multiple conditions. BMC Bioinformatics 67: 248.