DEGseq: an R package for identifying differentially expressed genes from RNA-seq data.
CONCLUSIONS
High-throughput RNA sequencing (RNA-seq) is rapidly emerging as a major quantitative transcriptome profiling platform. Here, we present DEGseq, an R package to identify differentially expressed genes or isoforms for RNA-seq data from different samples. In this package, we integrated three existing methods, and introduced two novel methods based on MA-plot to detect and visualize gene expression difference.


BACKGROUND
The R package and a quick-start vignette is available at http://bioinfo.au.tsinghua.edu.cn/software/degseq
Wang
Likun
L
MOE Key Laboratory of Bioinformatics and Bioinformatics Division, TNLIST/Department of Automation, Tsinghua, University, Beijing 100084, China.
Feng
Zhixing
Z
Wang
Xi
X
Wang
Xiaowo
X
Zhang
Xuegong
X
D000465:Algorithms; D001483:Base Sequence; D020869:Gene Expression Profiling / Q000379:methods*; D008969:Molecular Sequence Data; D020411:Oligonucleotide Array Sequence Analysis / Q000379:methods*; D011381:Programming Languages; D012313:RNA / Q000235:genetics*; D017423:Sequence Analysis, RNA / Q000379:methods*; D012984:Software
D012313:RNA