NanoForms: an integrated server for processing, analysis and assembly of raw sequencing data of microbial genomes, from Oxford Nanopore technology

• Main Authors: Cmil, M. (Author), Czmil, A. (Author), Czmil, S. (Author), Gawor, J. (Author), Pietal, M. (Author), Plewczynski, D. (Author), Sochacka-Pietal, M. (Author), Strzalka, D. (Author), Wołkowicz, T. (Author), Wronski, M. (Author)
• Format: Article
• Language: English
• Published: PeerJ Inc. 2022
• Subjects: Article; bioinformatics; Bioinformatics; data processing; DNA assembly; DNA sequencing; gene mapping; gene sequence; genomics; Genomics; high throughput sequencing; human; learning algorithm; microbial gene; microbial genome; Microbial genomes; molecular genetics; nanopore sequencing; NGS; Oxford Nanopore; Webserver
• Online Access: View Fulltext in Publisher

 Background. Next Generation Sequencing (NGS) techniques dominate today’s landscape of genetics and genomics research. Though Illumina still dominates worldwide sequencing, Oxford Nanopore is one of the leading technologies currently being used by biologists, medics and geneticists across various applications. Oxford Nanopore is automated and relatively simple for conducting experiments, but generates gigabytes of raw data, to be processed by often ambiguous set of alternative bioinformatics command-line tools, and genomics frameworks which require a knowledge of bioinformatics to run. Results. We established an inter-collegiate collaboration across experimentalists and bioinformaticians in order to provide a novel bioinformatics tool, free for academics. This tool allows people without extensive bioinformatics knowledge to simply process their raw genome sequencing data. Currently, due to ICT resources’ maintenance reasons, our server is only capable of handling small genomes (up to 15 Mb). In this paper, we introduce our tool, NanoForms: an intuitive and integrated web server for the processing and analysis of raw prokaryotic genome data, coming from Oxford Nanopore. NanoForms is freely available for academics at the following locations: http://nanoforms.tech (webserver) and https://github.com/czmilanna/nanoforms (GitHub source repository). Copyright 2022 Czmil et al.