HiPiler

http://hipiler.higlass.io/docs

Methods

linear multiple view multiple scale multiple focus contiguous no abstraction linear orthogonal arrangement within interconnection segment sparse type segment contiguous type point sparse type point contiguous type

Tool

Access Format web application
Supported Files other
License MIT
Tool name

HiPiler
Tool Link http://hipiler.higlass.io/
Documentation http://hipiler.higlass.io/docs

Paper

HiPiler: Visual Exploration of Large Genome Interaction Matrices with Interactive Small Multiples.

Lekschas F, Bach B, Kerpedjiev P, Gehlenborg N, Pfister H. HiPiler: Visual Exploration of Large Genome Interaction Matrices with Interactive Small Multiples. IEEE Trans Vis Comput Graph. ieeexplore.ieee.org; 2018;24: 522–531.

Abstract

This paper presents an interactive visualization interface-HiPiler-for the exploration and visualization of regions-of-interest in large genome interaction matrices. Genome interaction matrices approximate the physical distance of pairs of regions on the genome to each other and can contain up to 3 million rows and columns with many sparse regions. Regions of interest (ROIs) can be defined, e.g., by sets of adjacent rows and columns, or by specific visual patterns in the matrix. However, traditional matrix aggregation or pan-and-zoom interfaces fail in supporting search, inspection, and comparison of ROIs in such large matrices. In HiPiler, ROIs are first-class objects, represented as thumbnail-like 'snippets'. Snippets can be interactively explored and grouped or laid out automatically in scatterplots, or through dimension reduction methods. Snippets are linked to the entire navigable genome interaction matrix through brushing and linking. The design of HiPiler is based on a series of semi-structured interviews with 10 domain experts involved in the analysis and interpretation of genome interaction matrices. We describe six exploration tasks that are crucial for analysis of interaction matrices and demonstrate how HiPiler supports these tasks. We report on a user study with a series of data exploration sessions with domain experts to assess the usability of HiPiler as well as to demonstrate respective findings in the data.