title: gtrellis: an R/Bioconductor package for making genome-level Trellis graphics.
abstract: BACKGROUND
  Trellis graphics are a visualization method that splits data by one or more categorical variables and displays subsets of the data in a grid of panels. Trellis graphics are broadly used in genomic data analysis to compare statistics over different categories in parallel and reveal multivariate relationships. However, current software packages to produce Trellis graphics have not been designed with genomic data in mind and lack some functionality that is required for effective visualization of genomic data.
  
  
  RESULTS
  Here we introduce the gtrellis package which provides an efficient and extensible way to visualize genomic data in a Trellis layout. gtrellis provides highly flexible Trellis layouts which allow efficient arrangement of genomic categories on the plot. It supports multiple-track visualization, which makes it straightforward to visualize several properties of genomic data in parallel to explain complex relationships. In addition, gtrellis provides an extensible framework that allows adding user-defined graphics.
  
  
  CONCLUSIONS
  The gtrellis package provides an easy and effective way to visualize genomic data and reveal high dimensional relationships on a genome-wide scale. gtrellis can be flexibly extended and thus can also serve as a base package for highly specific purposes. gtrellis makes it easy to produce novel visualizations, which can lead to the discovery of previously unrecognized patterns in genomic data.
authors.affiliation: Division of Theoretical Bioinformatics (B080), German Cancer Research Center (DKFZ), Im Neuenheimer Feld 280, 69120, Heidelberg, Germany.|Heidelberg Center for Personalized Oncology (DKFZ-HIPO), German Cancer Research Center (DKFZ), Im Neuenheimer Feld 280, 69120, Heidelberg, Germany.
authors.forename: Zuguang
authors.initials: Z
authors.lastname: Gu
authors.affiliation: Division of Theoretical Bioinformatics (B080), German Cancer Research Center (DKFZ), Im Neuenheimer Feld 280, 69120, Heidelberg, Germany.|Heidelberg Center for Personalized Oncology (DKFZ-HIPO), German Cancer Research Center (DKFZ), Im Neuenheimer Feld 280, 69120, Heidelberg, Germany.|Department for Bioinformatics and Functional Genomics, Institute for Pharmacy and Molecular Biotechnology (IPMB) and BioQuant Center, Heidelberg University, Im Neuenheimer Feld 267, 69120, Heidelberg, Germany.
authors.forename: Roland
authors.initials: R
authors.lastname: Eils
authors.affiliation: Division of Theoretical Bioinformatics (B080), German Cancer Research Center (DKFZ), Im Neuenheimer Feld 280, 69120, Heidelberg, Germany. m.schlesner@dkfz.de.
authors.forename: Matthias
authors.initials: M
authors.lastname: Schlesner
mesh_terms: D003196:Computer Graphics; D030541:Databases, Genetic; D015894:Genome, Human; D023281:Genomics / Q000379:methods; D006801:Humans; D008962:Models, Theoretical; D016415:Sequence Alignment; D012984:Software
keywords: Genomic data visualization; Software; Trellis graphics