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Oxford University Press (OUP), Bioinformatics, 7(30), p. 1008-1009

DOI: 10.1093/bioinformatics/btt737

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WiggleTools: parallel processing of large collections of genome-wide datasets for visualization and statistical analysis

This paper is made freely available by the publisher.
This paper is made freely available by the publisher.

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Abstract

Motivation: Using high-throughput sequencing, researchers are now generating hundreds of whole-genome assays to measure various features such as transcription factor binding, histone marks, DNA methylation or RNA transcription. Displaying so much data generally leads to a confusing accumulation of plots. We describe here a multithreaded library that computes statistics on large numbers of datasets (Wiggle, BigWig, Bed, BigBed and BAM), generating statistical summaries within minutes with limited memory requirements, whether on the whole genome or on selected regions.