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bioRxiv · 10.1101/143081

ANNOgesic: A Pipeline To Translate Bacterial/Archaeal RNA-Seq Data Into High-Resolution Genome Annotations

Yu, S.-H.·Vogel, J.·Foerstner, K. U.
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Abstract

To understand the gene regulation of an organism of interest, a comprehensive genome annotation is essential. While some features, such as coding sequences, can be computationally predicted with high accuracy based purely on the genomic sequence, others, such as promoter elements or non-coding RNAs are harder to detect. RNA-Seq has proven to be an efficient method to identify these genomic features and to improve genome annotations. However, processing and integrating RNA-Seq data in order to generate high-resolution annotations is challenging, time consuming and requires numerous different steps. We have constructed a powerful and modular tool called ANNOgesic that provides the required analyses and simplifies RNA-Seq-based bacterial and archaeal genome annotation. It can integrate data from conventional RNA-Seq and dRNA-Seq, predicts and annotates numerous features, including small non-coding RNAs, with high precision. The software is available under an open source license (ISCL) at https://pypi.org/project/ANNOgesic/.

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Yu, S.-H., Vogel, J., Foerstner, K. U.. 2017-05-27. ANNOgesic: A Pipeline To Translate Bacterial/Archaeal RNA-Seq Data Into High-Resolution Genome Annotations. https://doi.org/10.1101/143081

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