Departamento de Fruticultura Subtropical y Mediterránea, Instituto de Hortofruticultura Subtropical y Mediterránea La Mayora (IHSM-CSIC-UMA), Málaga 29010, Spain.
Department of Bioscience, Universita degli Studi di Milano, Milan 20133, Italy.
Bioinformatics. 2022 Aug 10;38(16):4048-4050. doi: 10.1093/bioinformatics/btac412.
EasyGDB is an easy-to-implement low-maintenance tool developed to create genomic data management web platforms. It can be used for any species, group of species, or multiple genome or annotation versions. EasyGDB provides a framework to develop a web portal that includes the general information about species, projects and members, and bioinformatics tools such as file downloads, BLAST, genome browser, annotation search, gene expression visualization, annotation and sequence download, and gene ids and orthologs lookup. The code of EasyGDB facilitates data maintenance and update for non-experienced bioinformaticians, using BLAST databases to store and retrieve sequence data in gene annotation pages and bioinformatics tools, and JSON files to customize metadata. EasyGDB is a highly customizable tool. Any section and tool can be enabled or disabled like a switch through a single configuration file. This tool aims to simplify the development of genomics portals in non-model species, providing a modern web style with embedded interactive bioinformatics tools to cover all the common needs derived from genomics projects.
The code and manual to use EasyGDB can be found at https://github.com/noefp/easy_gdb.
EasyGDB 是一个易于实现、低维护的工具，用于创建基因组数据管理的网络平台。它可以用于任何物种、物种组或多个基因组或注释版本。EasyGDB 提供了一个框架来开发一个网络门户，其中包括有关物种、项目和成员的一般信息，以及生物信息学工具，如文件下载、BLAST、基因组浏览器、注释搜索、基因表达可视化、注释和序列下载，以及基因 ID 和同源基因查找。EasyGDB 的代码便于非专业生物信息学家进行数据维护和更新，使用 BLAST 数据库在基因注释页面和生物信息学工具中存储和检索序列数据，并使用 JSON 文件自定义元数据。EasyGDB 是一个高度可定制的工具。任何部分和工具都可以通过单个配置文件像开关一样启用或禁用。该工具旨在简化非模式物种的基因组学门户的开发，提供具有嵌入式交互式生物信息学工具的现代网络风格，以满足来自基因组学项目的所有常见需求。
可以在 https://github.com/noefp/easy_gdb 上找到使用 EasyGDB 的代码和手册。
