Lisa A. Ouellette, Robert W. Reid, Steven G. Blanchard Jr., and Cory R. Brouwer (2017) LinkageMapView – Rendering High Resolution Linkage and QTL Maps. Bioinformatics.
Department of Bioinformatics and Genomics, University of North Carolina Charlotte, 150 Research Campus
Drive, Suite 3333, Kannapolis, NC, USA.
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, publicationready
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.