runBNG: a software package for BioNano genomic analysis on the command line

Yuxuan Yuan; Philipp E. Bayer; Huey-Tyng Lee; David Edwards

doi:10.1093/bioinformatics/btx366

runBNG: a software package for BioNano genomic analysis on the command line

Yuxuan Yuan, Philipp E. Bayer, Huey-Tyng Lee, David Edwards

School of Biological Sciences

Research output: Contribution to journal › Article › peer-review

5 Citations (Scopus)

Abstract

We developed runBNG, an open-source software package which wraps BioNano genomic analysis tools into a single script that can be run on the command line. runBNG can complete analyses, including quality control of single molecule maps, optical map de novo assembly, comparisons between different optical maps, super-scaffolding and structural variation detection. Compared to existing software BioNano IrysView and the KSU scripts, the major advantages of runBNG are that the whole pipeline runs on one single platform and it has a high customizability.

Original language	English
Pages (from-to)	3107-3109
Number of pages	3
Journal	Bioinformatics
Volume	33
Issue number	19
DOIs	https://doi.org/10.1093/bioinformatics/btx366
Publication status	Published - 1 Oct 2017

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10.1093/bioinformatics/btx366

2 Finished

Establishing Novel Breeding Methods for Canola Improvement
Batley, J., Edwards, D., Pike, D., Raman, H. & Rae, S.
Australian Research Council, Bayer AG, NSW Department of Trade & Investment
1/02/15 → 31/12/17
Project: Research
Defining the Brassica Pan-genome and Establishing Methods for Gene Conversion Based Crop Improvement
Batley, J., Edwards, D. & Laga, B.
Australian Research Council, Bayer AG
1/01/14 → 30/09/18
Project: Research

Cite this

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abstract = "We developed runBNG, an open-source software package which wraps BioNano genomic analysis tools into a single script that can be run on the command line. runBNG can complete analyses, including quality control of single molecule maps, optical map de novo assembly, comparisons between different optical maps, super-scaffolding and structural variation detection. Compared to existing software BioNano IrysView and the KSU scripts, the major advantages of runBNG are that the whole pipeline runs on one single platform and it has a high customizability.",

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runBNG: a software package for BioNano genomic analysis on the command line

Abstract

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Establishing Novel Breeding Methods for Canola Improvement

Defining the Brassica Pan-genome and Establishing Methods for Gene Conversion Based Crop Improvement

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