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NanoPipe-a web server for nanopore MinION sequencing data analysis.

Victoria Shabardina1, Tabea Kischka1, Felix Manske1

  • 1Institue of Bioinformatics, University of Muenster, Niels-Stensen-Strasse 14, Muenster, 48149, Germany.

Gigascience
|January 29, 2019
PubMed
Summary
This summary is machine-generated.

NanoPipe software simplifies MinION sequencing data analysis for all biologists. This user-friendly tool provides essential bioinformatics analysis, making advanced DNA sequencing accessible to researchers without extensive computational expertise.

Keywords:
MinIONOxford Nanoporebioinformatics softwarelong-reads sequencingsequencing technologies

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Area of Science:

  • Genomics and Bioinformatics
  • Molecular Biology
  • Next-Generation Sequencing (NGS)

Background:

  • Third-generation long-read sequencing technologies, like Oxford Nanopore Technologies' MinION, are revolutionizing biological and medical research.
  • The MinION device offers accessible, field-deployable DNA sequencing but is hampered by a lack of user-friendly analysis tools.
  • A need exists for automated, powerful analysis solutions to enable widespread adoption of MinION technology by biologists.

Purpose of the Study:

  • To develop NanoPipe, a user-friendly software solution for analyzing MinION sequencing data.
  • To provide effortless and reliable bioinformatics analysis for both experienced bioinformaticians and wet-lab biologists with minimal computational knowledge.
  • To facilitate the adoption of MinION technology across diverse biological research fields.

Main Methods:

  • NanoPipe was specifically designed with MinION sequencing technology's characteristics in mind, incorporating adjusted alignment parameters.
  • The software supports alignment for a wide range of target species and sequences.
  • A descriptive usage guide is provided to assist users in performing NanoPipe analyses.

Main Results:

  • NanoPipe delivers comprehensive analysis results, including alignment statistics, consensus sequences, and polymorphism data.
  • The tool offers visualization of sequence alignments.
  • Efficiency was demonstrated through several test cases, confirming the tool's performance.

Conclusions:

  • NanoPipe software provides effortless and reliable analysis of MinION sequencing data.
  • It empowers both experienced bioinformaticians and novice wet-lab biologists to analyze sequencing data effectively.
  • The study outlines the fundamental algorithm for MinION sequencing analysis, aiding users with minimal bioinformatics background.