SCORE – Smart Consensus Of RNA Expression – a consensus tool for detecting differentially expressed genes in bacteria

RNA-Sequencing is the current method of choice for studying bacterial transcriptomes. To date, many computational pipelines have been developed to predict differentially expressed genes from RNA-Seq data, but no gold-standard has been widely accepted. Robert Koch Institute researchers present the Snakemake-based tool SCORE which uses a consensus approach founded on a selection of well-established tools for differential gene expression analysis. This allows SCORE to increase the overall prediction accuracy and to merge varying results into a single, human-readable output. SCORE performs all steps for the analysis of bacterial RNA-Seq data, from read preprocessing to the overrepresentation analysis of significantly associated ontologies. Development of consensus approaches like SCORE will help to streamline future RNA-Seq workflows and will fundamentally contribute to the creation of new gold-standards for the analysis of these types of data.

SCORE Workflow

Availability – https://github.com/SiWolf/SCORE

Wolf SA, Epping L, Andreotti S, Reinert K, Semmler T. SCORE: Smart Consensus Of RNA Expression – a consensus tool for detecting differentially expressed genes in bacteria Bioinformatics [online ahead of print]. [abstract]

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