BigWig and BigBed: enabling browsing of large distributed datasets - PubMed (original) (raw)

BigWig and BigBed: enabling browsing of large distributed datasets

W J Kent et al. Bioinformatics. 2010.

Abstract

Summary: BigWig and BigBed files are compressed binary indexed files containing data at several resolutions that allow the high-performance display of next-generation sequencing experiment results in the UCSC Genome Browser. The visualization is implemented using a multi-layered software approach that takes advantage of specific capabilities of web-based protocols and Linux and UNIX operating systems files, R trees and various indexing and compression tricks. As a result, only the data needed to support the current browser view is transmitted rather than the entire file, enabling fast remote access to large distributed data sets.

Availability and implementation: Binaries for the BigWig and BigBed creation and parsing utilities may be downloaded at http://hgdownload.cse.ucsc.edu/admin/exe/linux.x86\_64/. Source code for the creation and visualization software is freely available for non-commercial use at http://hgdownload.cse.ucsc.edu/admin/jksrc.zip, implemented in C and supported on Linux. The UCSC Genome Browser is available at http://genome.ucsc.edu.

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Figures

Fig. 1.

Genome Browser image of BigWig annotation tracks. The top track is displayed as a bar graph, the bottom track as a point graph. Shading is used to distinguish the mean (dark), one standard deviation above the mean (medium) and the maximum (light). Peaks with clipped tops are colored magenta.

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BigWig and BigBed: enabling browsing of large distributed datasets - PubMed (original) (raw)