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scxa-experiment-page-tsne-plot-view's Introduction

This component has been permanently moved to the Atlas Components monorepo

t-SNE plot for Single Cell Expression Atlas experiments

Visualisation of t-SNE plots of single cell expression experiments for Single Cell Expression Atlas. The component is able to select and display different plots for more than one perplexity value, and several clustering strategies. At the moment only the number of clusters produced by different values of k in single-cell consensus clustering (SC3) is supported.

It uses Highcharts for plotting and expects the series property in the JSON payload of both plots to adhere to Highcharts series format for scatter plots.

Elements use classes from the EBI Visual Framework for styling and layout.

scxa-experiment-page-tsne-plot-view's People

Contributors

alfonsomunozpomer avatar haideriqbal avatar lingyun1010 avatar monicajianu avatar

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shoo99

scxa-experiment-page-tsne-plot-view's Issues

Experiment E-GEOD-109159 doesn't seem to have any metadata

The single cell portal is very pretty! I saw a couple of experiments, and some of them have metadata whereas others don't, e.g. E-ENAD-13 has inferred cell types, but E-GEOD-109159 doesn't have any.

It would be interesting if the visualization knew what metadata the experiment has and e.g. let me highlight parts of t-SNE by inferred cell types in E-ENAD-13, and didn't try to load any metadata in E-GEOD-109159.

Right now it's a bit of a surprise what the popup will say after I hover on the cell on the left, and when I see that "loading metadata" doesn't ever show any metadata it makes me think something might be wrong with the page.

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