PlasGUN: gene prediction in plasmid metagenomic short reads using deep learning.

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.

SUBMITTER: Fang Z 

PROVIDER: S-EPMC7214025 | biostudies-literature | 2020 May

REPOSITORIES: biostudies-literature