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



CONDOP is implemented in R and is freely available at CRAN.



vittorio.fortino@helsinki.fiSupplementary information: Supplementary data are available at Bioinformatics online.
Institute of Biotechnology, University of Helsinki, Helsinki, Finland.
Vittorio
V
Fortino
NeuRoNe Lab, DISA-MIS, University of Salerno, Fisciano, Italy.
Roberto
R
Tagliaferri
Institute of Biotechnology, University of Helsinki, Helsinki, Finland.
Dario
D
Greco
D059014:High-Throughput Nucleotide Sequencing; D009876:Operon; D012313:RNA; D017423:Sequence Analysis, RNA; D012984:Software
D012313:RNA