CONDOP: an R package for CONdition-Dependent Operon Predictions

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Abstract

Summary: 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.fi

Supplementary information: Supplementary data are available at Bioinformatics online.

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