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首页> 外文期刊>IEEE/ACM transactions on computational biology and bioinformatics >NGS-FC: A Next-Generation Sequencing Data Format Converter
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NGS-FC: A Next-Generation Sequencing Data Format Converter

机译：NGS-FC：下一代测序数据格式转换器

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摘要

With the widespread implementation of next-generation sequencing (NGS) technologies, millions of sequences have been produced. A lot of databases were created to store and organize the high-throughput sequencing data. Numerous analysis software programs and tools have been developed over the past years. Most of them use specific formats for data representation and storage. Data interoperability becomes a crucial challenge and many tools have been developed to convert NGS data from one format to another. However, most of them were developed for specific and limited formats. Here, we present NGS-FC (Next-Generation Sequencing Format Converter), which provides a framework to support the conversion between several formats. It supports 14 formats now and provides interfaces to enable users to improve the existing converters and add new ones. Moreover, NGS-FC achieved the overall competitive performance in comparison with some existing converters in terms of RAM usage and running time. The software is written in Java and can be executed standalone. The source code and documentation are freely available at http://sysbio.suda.edu.cn/NGS-FC.
机译：随着下一代测序（NGS）技术的广泛实施，已经产生了数百万个序列。创建了许多数据库来存储和组织高通量测序数据。在过去的几年中开发了许多分析软件程序和工具。它们中的大多数使用特定格式进行数据表示和存储。数据互操作性成为一个严峻的挑战，已经开发了许多工具来将NGS数据从一种格式转换为另一种格式。但是，大多数都是针对特定格式和有限格式而开发的。在这里，我们介绍NGS-FC（下一代序列格式转换器），它提供了一个框架来支持几种格式之间的转换。它现在支持14种格式，并提供使用户能够改进现有转换器并添加新转换器的接口。此外，在内存使用和运行时间方面，与某些现有转换器相比，NGS-FC拥有总体竞争优势。该软件用Java编写，可以独立执行。源代码和文档可从http://sysbio.suda.edu.cn/NGS-FC免费获得。

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