Next maSigPro: updating maSigPro bioconductor package for RNA-seq time series

作者：Nueda Maria Jose^*; Tarazona Sonia; Conesa Ana

来源：Bioinformatics, 2014, 30(18): 2598-2602.

DOI：10.1093/bioinformatics/btu333

Motivation: The widespread adoption of RNA-seq to quantitatively measure gene expression has increased the scope of sequencing experimental designs to include time-course experiments. maSigPro is an R package specifically suited for the analysis of time-course gene expression data, which was developed originally for microarrays and hence was limited in its application to count data. %26lt;br%26gt;Results: We have updated maSigPro to support RNA-seq time series analysis by introducing generalized linear models in the algorithm to support the modeling of count data while maintaining the traditional functionalities of the package. We show a good performance of the maSigPro-GLM method in several simulated time-course scenarios and in a real experimental dataset.

• 出版日期2014-9-15