Ouellette Lisa A, Reid Robert W, Blanchard Steven G, Brouwer Cory R
Department of Bioinformatics and Genomics, University of North Carolina Charlotte, Kannapolis, NC, USA.
Bioinformatics. 2018 Jan 15;34(2):306-307. doi: 10.1093/bioinformatics/btx576.
Linkage and quantitative trait loci (QTL) maps are critical tools for the study of the genetic basis of complex traits. With the advances in sequencing technology over the past decade, linkage map densities have been increasing dramatically, while the visualization tools have not kept pace. LinkageMapView is a free add-on package written in R that produces high resolution, publication-ready visualizations of linkage and QTL maps. While there is software available to generate linkage map graphics, none are freely available, produce publication quality figures, are open source and can run on all platforms. LinkageMapView can be integrated into map building pipelines as it seamlessly incorporates output from R/qtl and also accepts simple text or comma delimited files. There are numerous options within the package to build highly customizable maps, allow for linkage group comparisons, and annotate QTL regions.
连锁图谱和数量性状基因座（QTL）图谱是研究复杂性状遗传基础的关键工具。在过去十年中，随着测序技术的进步，连锁图谱的密度急剧增加，而可视化工具却未能跟上步伐。LinkageMapView是一个用R编写的免费附加包，可生成高分辨率、适合发表的连锁图谱和QTL图谱可视化结果。虽然有软件可用于生成连锁图谱图形，但没有一个是免费可用的、能生成符合发表质量的图形、开源且能在所有平台上运行的。LinkageMapView可以集成到图谱构建流程中，因为它能无缝整合R/qtl的输出，还接受简单文本或逗号分隔文件。该包中有许多选项可用于构建高度可定制的图谱、进行连锁群比较以及注释QTL区域。
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