Evaluation and Comparison of Multiple Aligners for Next-Generation Sequencing Data Analysis

Next-generation sequencing (NGS) technology has rapidly advanced and generated the massive data volumes. To align and map the NGS data, biologists often randomly select a number of aligners without concerning their suitable feature, high performance, and high accuracy as well as sequence variations...

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Bibliographic Details
Published in:BioMed research international 2014, Vol.2014 (2014), p.1-16
Main Authors: Shang, Jing, Zhu, Fei, Vongsangnak, Wanwipa, Tang, Yi-fei, Zhang, Wenyu, Shen, Bairong
Format: Article
Language:English
Subjects:
Accuracy
Algorithms
Biologists
Biology
Comparative analysis
Data analysis
Databases, Nucleic Acid
Datasets
DNA sequencing
Genome
Genomes
Genomics
Genomics - methods
High-Throughput Nucleotide Sequencing - methods
Humans
Methods
Nucleotide sequencing
Seeds
Sequence Alignment - methods
Sequence Analysis, DNA - methods
Software
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Summary:Next-generation sequencing (NGS) technology has rapidly advanced and generated the massive data volumes. To align and map the NGS data, biologists often randomly select a number of aligners without concerning their suitable feature, high performance, and high accuracy as well as sequence variations and polymorphisms existing on reference genome. This study aims to systematically evaluate and compare the capability of multiple aligners for NGS data analysis. To explore this capability, we firstly performed alignment algorithms comparison and classification. We further used long-read and short-read datasets from both real-life and in silico NGS data for comparative analysis and evaluation of these aligners focusing on three criteria, namely, application-specific alignment feature, computational performance, and alignment accuracy. Our study demonstrated the overall evaluation and comparison of multiple aligners for NGS data analysis. This serves as an important guiding resource for biologists to gain further insight into suitable selection of aligners for specific and broad applications.
ISSN:2314-6133
2314-6141
DOI:10.1155/2014/309650