PlasGUN：使用深度学习进行质粒宏基因组短读测序中的基因预测。
PlasGUN: gene prediction in plasmid metagenomic short reads using deep learning.
机构信息
State Key Laboratory for Turbulence and Complex Systems, Department of Biomedical Engineering, College of Engineering and Center for Quantitative Biology, Peking University, Beijing 100871, China.
出版信息
Bioinformatics. 2020 May 1;36(10):3239-3241. doi: 10.1093/bioinformatics/btaa103.
Abstract
SUMMARY
We present the first tool of gene prediction, PlasGUN, for plasmid metagenomic short-read data. The tool, developed based on deep learning algorithm of multiple input Convolutional Neural Network, demonstrates much better performance when tested on a benchmark dataset of artificial short reads and presents more reliable results for real plasmid metagenomic data than traditional gene prediction tools designed primarily for chromosome-derived short reads.
AVAILABILITY AND IMPLEMENTATION
The PlasGUN software is available at http://cqb.pku.edu.cn/ZhuLab/PlasGUN/ or https://github.com/zhenchengfang/PlasGUN/.
SUPPLEMENTARY INFORMATION
Supplementary data are available at Bioinformatics online.
摘要
摘要
我们提出了第一个用于质粒宏基因组短读数据的基因预测工具 PlasGUN。该工具基于多输入卷积神经网络的深度学习算法开发，在人工短读数据集的基准测试中表现出更好的性能，并为真正的质粒宏基因组数据提供比主要针对染色体衍生短读设计的传统基因预测工具更可靠的结果。
可用性和实现
PlasGUN 软件可在 http://cqb.pku.edu.cn/ZhuLab/PlasGUN/ 或 https://github.com/zhenchengfang/PlasGUN/ 获得。
补充信息
补充数据可在生物信息学在线获得。
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