CONDOP: an R package for CONdition-Dependent Operon Predictions.

ABSTRACT

The use of high-throughput RNA sequencing to predict dynamic operon structures in prokaryotic genomes has recently gained popularity in bioinformatics. We provide the R implementation of a novel method that uses transcriptomic features extracted from RNA-seq transcriptome profiles to develop ensemble classifiers for condition-dependent operon predictions. The CONDOP package provides a deeper insight into RNA-seq data analysis and allows scientists to highlight the operon organization in the context of transcriptional regulation with a few lines of code. AVAILABILITY AND IMPLEMENTATION CONDOP is implemented in R and is freely available at CRAN. CONTACT vittorio.fortino@helsinki.fiSupplementary information Supplementary data are available at Bioinformatics online.