HiGlass: web-based visual exploration and analysis of genome interaction maps

We present HiGlass, an open source visualization tool built on web technologies that provides a rich interface for rapid, multiplex, and multiscale navigation of 2D genomic maps alongside 1D genomic tracks, allowing users to combine various data types, synchronize multiple visualization modalities,...

Descripción completa

Detalles Bibliográficos
Autores principales: Kerpedjiev, Peter, Abdennur, Nezar, Lekschas, Fritz, McCallum, Chuck, Dinkla, Kasper, Strobelt, Hendrik, Luber, Jacob M., Ouellette, Scott B., Azhir, Alaleh, Kumar, Nikhil, Hwang, Jeewon, Lee, Soohyun, Alver, Burak H., Pfister, Hanspeter, Mirny, Leonid A., Park, Peter J., Gehlenborg, Nils
Formato: Online Artículo Texto
Lenguaje:English
Publicado: BioMed Central 2018
Materias:
Software
Acceso en línea:https://www.ncbi.nlm.nih.gov/pmc/articles/PMC6109259/
https://www.ncbi.nlm.nih.gov/pubmed/30143029
http://dx.doi.org/10.1186/s13059-018-1486-1
_version_ 1783350292825243648
author Kerpedjiev, Peter
Abdennur, Nezar
Lekschas, Fritz
McCallum, Chuck
Dinkla, Kasper
Strobelt, Hendrik
Luber, Jacob M.
Ouellette, Scott B.
Azhir, Alaleh
Kumar, Nikhil
Hwang, Jeewon
Lee, Soohyun
Alver, Burak H.
Pfister, Hanspeter
Mirny, Leonid A.
Park, Peter J.
Gehlenborg, Nils
author_facet Kerpedjiev, Peter
Abdennur, Nezar
Lekschas, Fritz
McCallum, Chuck
Dinkla, Kasper
Strobelt, Hendrik
Luber, Jacob M.
Ouellette, Scott B.
Azhir, Alaleh
Kumar, Nikhil
Hwang, Jeewon
Lee, Soohyun
Alver, Burak H.
Pfister, Hanspeter
Mirny, Leonid A.
Park, Peter J.
Gehlenborg, Nils
author_sort Kerpedjiev, Peter
collection PubMed
description We present HiGlass, an open source visualization tool built on web technologies that provides a rich interface for rapid, multiplex, and multiscale navigation of 2D genomic maps alongside 1D genomic tracks, allowing users to combine various data types, synchronize multiple visualization modalities, and share fully customizable views with others. We demonstrate its utility in exploring different experimental conditions, comparing the results of analyses, and creating interactive snapshots to share with collaborators and the broader public. HiGlass is accessible online at http://higlass.io and is also available as a containerized application that can be run on any platform. ELECTRONIC SUPPLEMENTARY MATERIAL: The online version of this article (10.1186/s13059-018-1486-1) contains supplementary material, which is available to authorized users.
format Online
Article
Text
id pubmed-6109259
institution National Center for Biotechnology Information
language English
publishDate 2018
publisher BioMed Central
record_format MEDLINE/PubMed
spelling pubmed-61092592018-08-29 HiGlass: web-based visual exploration and analysis of genome interaction maps Kerpedjiev, Peter Abdennur, Nezar Lekschas, Fritz McCallum, Chuck Dinkla, Kasper Strobelt, Hendrik Luber, Jacob M. Ouellette, Scott B. Azhir, Alaleh Kumar, Nikhil Hwang, Jeewon Lee, Soohyun Alver, Burak H. Pfister, Hanspeter Mirny, Leonid A. Park, Peter J. Gehlenborg, Nils Genome Biol Software We present HiGlass, an open source visualization tool built on web technologies that provides a rich interface for rapid, multiplex, and multiscale navigation of 2D genomic maps alongside 1D genomic tracks, allowing users to combine various data types, synchronize multiple visualization modalities, and share fully customizable views with others. We demonstrate its utility in exploring different experimental conditions, comparing the results of analyses, and creating interactive snapshots to share with collaborators and the broader public. HiGlass is accessible online at http://higlass.io and is also available as a containerized application that can be run on any platform. ELECTRONIC SUPPLEMENTARY MATERIAL: The online version of this article (10.1186/s13059-018-1486-1) contains supplementary material, which is available to authorized users. BioMed Central 2018-08-24 /pmc/articles/PMC6109259/ /pubmed/30143029 http://dx.doi.org/10.1186/s13059-018-1486-1 Text en © The Author(s). 2018 Open AccessThis article is distributed under the terms of the Creative Commons Attribution 4.0 International License (http://creativecommons.org/licenses/by/4.0/), which permits unrestricted use, distribution, and reproduction in any medium, provided you give appropriate credit to the original author(s) and the source, provide a link to the Creative Commons license, and indicate if changes were made. The Creative Commons Public Domain Dedication waiver (http://creativecommons.org/publicdomain/zero/1.0/) applies to the data made available in this article, unless otherwise stated.
spellingShingle Software
Kerpedjiev, Peter
Abdennur, Nezar
Lekschas, Fritz
McCallum, Chuck
Dinkla, Kasper
Strobelt, Hendrik
Luber, Jacob M.
Ouellette, Scott B.
Azhir, Alaleh
Kumar, Nikhil
Hwang, Jeewon
Lee, Soohyun
Alver, Burak H.
Pfister, Hanspeter
Mirny, Leonid A.
Park, Peter J.
Gehlenborg, Nils
HiGlass: web-based visual exploration and analysis of genome interaction maps
title HiGlass: web-based visual exploration and analysis of genome interaction maps
title_full HiGlass: web-based visual exploration and analysis of genome interaction maps
title_fullStr HiGlass: web-based visual exploration and analysis of genome interaction maps
title_full_unstemmed HiGlass: web-based visual exploration and analysis of genome interaction maps
title_short HiGlass: web-based visual exploration and analysis of genome interaction maps
title_sort higlass: web-based visual exploration and analysis of genome interaction maps
topic Software
url https://www.ncbi.nlm.nih.gov/pmc/articles/PMC6109259/
https://www.ncbi.nlm.nih.gov/pubmed/30143029
http://dx.doi.org/10.1186/s13059-018-1486-1
work_keys_str_mv AT kerpedjievpeter higlasswebbasedvisualexplorationandanalysisofgenomeinteractionmaps
AT abdennurnezar higlasswebbasedvisualexplorationandanalysisofgenomeinteractionmaps
AT lekschasfritz higlasswebbasedvisualexplorationandanalysisofgenomeinteractionmaps
AT mccallumchuck higlasswebbasedvisualexplorationandanalysisofgenomeinteractionmaps
AT dinklakasper higlasswebbasedvisualexplorationandanalysisofgenomeinteractionmaps
AT strobelthendrik higlasswebbasedvisualexplorationandanalysisofgenomeinteractionmaps
AT luberjacobm higlasswebbasedvisualexplorationandanalysisofgenomeinteractionmaps
AT ouellettescottb higlasswebbasedvisualexplorationandanalysisofgenomeinteractionmaps
AT azhiralaleh higlasswebbasedvisualexplorationandanalysisofgenomeinteractionmaps
AT kumarnikhil higlasswebbasedvisualexplorationandanalysisofgenomeinteractionmaps
AT hwangjeewon higlasswebbasedvisualexplorationandanalysisofgenomeinteractionmaps
AT leesoohyun higlasswebbasedvisualexplorationandanalysisofgenomeinteractionmaps
AT alverburakh higlasswebbasedvisualexplorationandanalysisofgenomeinteractionmaps
AT pfisterhanspeter higlasswebbasedvisualexplorationandanalysisofgenomeinteractionmaps
AT mirnyleonida higlasswebbasedvisualexplorationandanalysisofgenomeinteractionmaps
AT parkpeterj higlasswebbasedvisualexplorationandanalysisofgenomeinteractionmaps
AT gehlenborgnils higlasswebbasedvisualexplorationandanalysisofgenomeinteractionmaps

Ejemplares similares