Skinner Mitchell E, Holmes Ian H
University of California at Berkeley, Berkeley, California, USA.
Curr Protoc Bioinformatics. 2010 Dec;Chapter 9:Unit 9.13. doi: 10.1002/0471250953.bi0913s32.
JBrowse is a Web-based tool for visualizing genomic data. Unlike most other Web-base genome browsers, JBrowse exploits the capabilities of the user's Web browser to make scrolling and zooming fast and smooth. It supports the browsers used by almost all Internet users, and is relatively simple to install. JBrowse can utilize multiple types of data in a variety of common genomic data formats, including genomic feature data in bioperl databases, GFF files, BED files, and quantitative data in wiggle files. This unit describes how to obtain the JBrowse software, set it up on a Linux or Mac OS X computer running as a Web server, and incorporate genome annotation data from multiple sources into JBrowse. After completing the protocols described in this unit, the reader will have a Web site that other users can visit to browse the genomic data.
JBrowse是一款用于可视化基因组数据的基于网络的工具。与大多数其他基于网络的基因组浏览器不同，JBrowse利用用户网络浏览器的功能，使滚动和缩放快速且流畅。它支持几乎所有互联网用户使用的浏览器，并且安装相对简单。JBrowse可以利用多种常见基因组数据格式的多种类型数据，包括生物perl数据库中的基因组特征数据、GFF文件、BED文件以及wiggle文件中的定量数据。本单元描述了如何获取JBrowse软件，在作为网络服务器运行的Linux或Mac OS X计算机上进行设置，以及将来自多个来源的基因组注释数据整合到JBrowse中。完成本单元中描述的协议后，读者将拥有一个其他用户可以访问以浏览基因组数据的网站。
