Cell information vs Gene expression

Cell information and gene expression side-by-side on low-dimensional represention.

Dimension Reduction

Cell information

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Cell numbers / statistics

Gene expression


Cell info vs cell info

Two cell infos side-by-side on low-dimensional represention.

Dimension Reduction

Cell info 1

Cell info 2


Gene expression vs Gene expression

Visualise two gene expressions side-by-side on low-dimensional representions.

Dimension Reduction

Gene expression 1

Gene expression 2


Gene expression

Explore gene expression on low-dimensional represention.


Coexpression of two genes on reduced dimensions

Visualise the coexpression of two genes on low-dimensional representions.

Dimension Reduction

Cell numbers


Cell information / gene expression violin plot / box plot

Visualise the gene expression or continuous cell information (e.g. Number of UMIs / module score) across groups of cells (e.g. libary / clusters).


Proportion / cell numbers across different cell information

Visualise the composition of single cells based on one discrete cell information across another discrete cell information.


Gene expression bubbleplot / heatmap

Visualise the gene expression patterns of multiple genes grouped by categorical cell information (e.g. library / cluster). The normalised expression are averaged, log-transformed and then plotted.


About

Acknowledgements

This app was created using easyshiny. easyshiny is built on shinyCell

Ouyang, J. F., Kamaraj, U. S., Cao, E. Y., & Rackham, O. J. (2021). ShinyCell: simple and sharable visualization of single-cell gene expression data. Bioinformatics, 37(19), 3374-3376.

easyshiny v0.3.