TruSPAdes: barcode assembly of TruSeq synthetic long reads

Anton Bankevich; Pavel A Pevzner

doi:10.1038/nmeth.3737

TruSPAdes: barcode assembly of TruSeq synthetic long reads

Nat Methods. 2016 Mar;13(3):248-50. doi: 10.1038/nmeth.3737. Epub 2016 Feb 1.

Authors

Anton Bankevich¹, Pavel A Pevzner^{1

2}

Affiliations

¹ Center for Algorithmic Biotechnology, Institute for Translational Biomedicine, Saint Petersburg State University, Saint Petersburg, Russia.
² Department of Computer Science and Engineering, University of California at San Diego, La Jolla, California, USA.

PMID: 26828418
DOI: 10.1038/nmeth.3737

Abstract

The recently introduced TruSeq synthetic long read (TSLR) technology generates long and accurate virtual reads from an assembly of barcoded pools of short reads. The TSLR method provides an attractive alternative to existing sequencing platforms that generate long but inaccurate reads. We describe the truSPAdes algorithm (http://bioinf.spbau.ru/spades) for TSLR assembly and show that it results in a dramatic improvement in the quality of metagenomics assemblies.

Publication types

Research Support, Non-U.S. Gov't

MeSH terms

Algorithms*
Base Sequence
Chromosome Mapping / methods*
DNA Barcoding, Taxonomic / methods*
Gene Library
High-Throughput Nucleotide Sequencing / methods*
Molecular Sequence Data
Sequence Alignment / methods
Sequence Analysis, DNA / methods*
Software*