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Clustering trees: a visualisation for evaluating clusterings at multiple resolutions

View ORCID ProfileLuke Zappia, View ORCID ProfileAlicia Oshlack
doi: https://doi.org/10.1101/274035
Luke Zappia
1Bioinformatics, Murdoch Children’s Research Institute
2School of Biosciences, University of Melbourne
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Alicia Oshlack
1Bioinformatics, Murdoch Children’s Research Institute
2School of Biosciences, University of Melbourne
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  • ORCID record for Alicia Oshlack
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Abstract

Clustering techniques are widely used in the analysis of large data sets to group together samples with similar properties. For example, clustering is often used in the field of single-cell RNA-sequencing in order to identify different cell types present in a tissue sample. There are many algorithms for performing clustering and the results can vary substantially. In particular, the number of groups present in a data set is often unknown and the number of clusters identified by an algorithm can change based on the parameters used. To explore and examine the impact of varying clustering resolution we present clustering trees. This visualisation shows the relationships between clusters at multiple resolutions allowing researchers to see how samples move as the number of clusters increases. In addition, meta-information can be overlaid on the tree to inform the choice of resolution and guide in identification of clusters. We illustrate the uses of clustering trees using two examples, the classical iris dataset and a complex single-cell RNA-sequencing dataset.

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The copyright holder for this preprint is the author/funder, who has granted bioRxiv a license to display the preprint in perpetuity. It is made available under a CC-BY 4.0 International license.
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Posted March 02, 2018.
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Clustering trees: a visualisation for evaluating clusterings at multiple resolutions
Luke Zappia, Alicia Oshlack
bioRxiv 274035; doi: https://doi.org/10.1101/274035
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Clustering trees: a visualisation for evaluating clusterings at multiple resolutions
Luke Zappia, Alicia Oshlack
bioRxiv 274035; doi: https://doi.org/10.1101/274035

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