Schex avoids overplotting for large single cell RNA-sequencing datasets

Saskia Freytag; Ryan Lister

doi:10.1093/bioinformatics/btz907

Schex avoids overplotting for large single cell RNA-sequencing datasets

Saskia Freytag
, Ryan Lister

Research output: Contribution to journal › Article › peer-review

6 Citations (Scopus)

Abstract

SUMMARY: Due to the scale and sparsity of single cell RNA-sequencing data, traditional plots can obscure vital information. Our R package schex overcomes this by implementing hexagonal binning, which has the additional advantages of improving speed and reducing storage for resulting plots.

AVAILABILITY: schex is freely available from Bioconductor via http://bioconductor.org/packages/release/bioc/html/schex.html and its development version can be accessed on GitHub via https://github.com/SaskiaFreytag/schex.

Original language	English
Pages (from-to)	2291-2292
Number of pages	2
Journal	Bioinformatics (Oxford, England)
Volume	36
Issue number	7
Early online date	3 Dec 2019
DOIs	https://doi.org/10.1093/bioinformatics/btz907
Publication status	Published - 1 Apr 2020

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10.1093/bioinformatics/btz907

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abstract = "SUMMARY: Due to the scale and sparsity of single cell RNA-sequencing data, traditional plots can obscure vital information. Our R package schex overcomes this by implementing hexagonal binning, which has the additional advantages of improving speed and reducing storage for resulting plots.AVAILABILITY: schex is freely available from Bioconductor via http://bioconductor.org/packages/release/bioc/html/schex.html and its development version can be accessed on GitHub via https://github.com/SaskiaFreytag/schex.",

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AB - SUMMARY: Due to the scale and sparsity of single cell RNA-sequencing data, traditional plots can obscure vital information. Our R package schex overcomes this by implementing hexagonal binning, which has the additional advantages of improving speed and reducing storage for resulting plots.AVAILABILITY: schex is freely available from Bioconductor via http://bioconductor.org/packages/release/bioc/html/schex.html and its development version can be accessed on GitHub via https://github.com/SaskiaFreytag/schex.

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JO - Bioinformatics (Oxford, England)

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Schex avoids overplotting for large single cell RNA-sequencing datasets

Abstract

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