Hybrid Error Correction approach and DeNovo Assembly for MinIon Sequencing Long Reads

Hybrid Error Correction approach and DeNovo Assembly for MinIon Sequencing Long Reads

混合纠错方法和从头组装的MinIon 测序长read

Abstract
 A track to solve the problem of errors caused by the third generation of sequencing technology is to use the high coverage of the high quality of short reads generated by the second-generation sequencing technology. This paper presents a new approach for error correction and de novo assembly for long reads. We present MiRCA a hybrid approach based on the sequences alignments that detects and corrects errors for MinIon long reads using Illumina short reads. With this new error correction approach, we were able to make an effective and quick de novo assembly. Experiments on Saccharomyces cerevisiae and the Escherichia coli genomes show that MiRCA is much better than the available tools. MiRCA is tested on Linux platforms and freely available at https://github.com/Mkchouk/MiRCA.

摘要

解决第三代测序技术产生的误差问题的一个途径是利用第二代测序技术产生的高质量短读的高覆盖率。提出了一种用于长读的纠错和从头装配的新方法。我们提出了一种基于序列比对的混合方法，利用Illumina的短读来检测和纠正MinIon长读的错误。有了这种新的纠错方法，我们就能够快速有效地重新组装。在酿酒酵母和大肠杆菌基因组上的实验表明，MiRCA比现有的工具要好得多。MiRCA在Linux平台上进行了测试，可以在https://github.com/Mkchouk/MiRCA免费获得。