EBSeq-HMM: A Bayesian approach for identifying gene-expression changes in ordered RNA-seq experiments

Ning Leng and Christina Kendziorski

University of Wisconsin Madison

Contact email: nleng@wisc.edu, kendzior@biostat.wisc.edu






R/EBSeqHMM is an R package for gene and isoform expression path analysis across multiple ordered biological conditions in an RNA-seq experiment. The R/EBSeqHMM package may be downloaded below. A vignette is also available there. It provides the syntax required for identifying differentially expressed (DE) genes and isoforms in a time-course RNA-seq experiment as well for classifying DE genes into expression paths (as noted in the vignette, the commands for isoform level analysis are the same as those required for gene-level analysis).

Installation

Vignette

References

Updates

  • 10/14/2014 EBSeqHMM is available on Bioconductor now.
  • 06/24/2014 EBSeqHMM 0.0.4 is released