SnpHub

SnpHub is a Shiny/R-based server framework for retrieving, analysing, and visualizing large-scale genomic variation data that can be easily set up on any Linux server. After a pre-building process based on the provided VCF files and genome annotation files, the local server allows users to interactively access single-nucleotide polymorphisms and small insertions/deletions with annotation information by locus or gene and to define sample sets through a web page. Users can freely analyse and visualize genomic variations in heatmaps, phylogenetic trees, haplotype networks, or geographical maps. Sample-specific sequences can be accessed as replaced by detected sequence variations.SnpHub是一款基于Shiny/R的服务器框架，用于检索、分析与可视化大规模基因组变异数据，可便捷部署于任意Linux服务器。在基于提供的VCF（Variant Call Format）文件与基因组注释文件完成预构建流程后，该本地服务器可支持用户通过网页端交互式地按基因座或基因检索带有注释信息的单核苷酸多态性（single-nucleotide polymorphisms）与小插入缺失变异，并自定义样本集。用户可自由对基因组变异开展热图、系统发育树、单倍型网络或地理地图形式的分析与可视化，还可获取经检测到的序列变异替换后的样本特异性序列。

搜集汇总

背景与挑战

背景概述

SnpHub是一个基于Shiny/R的Web服务器框架，专为在实验室环境中探索大规模基因组变异数据而设计。该框架可轻松部署在Linux服务器上，支持用户通过网页交互式访问和分析单核苷酸多态性及小片段插入/缺失等变异信息，并提供热图、系统发育树等多种可视化工具。