Cell Details
Cell Details Usage Clicking Cell details shows a table view of cell-level metadata.
Input
None Notes
Click “Select Columns” to pick and display your columns of interests.
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Single Cell - Dot Plot
DotPlot view Usage This chart allows to view feature patterns, such as gene co-expression across cell clusters.
Input
Feature: select a feature type and then input a list of feature names Group By: the column shown on Y-axis Options
Click Add to create additional charts and show side-by-side.
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Single Cell - Feature
Feature view Usage This view allows the visualization of one or multiple features on the dimension reduction plots, such as on tSNE or UMAP.
Input
Embedding: select a dimension reduction method. Trellis By: a metadata column used to split the plots ; choose “None” if splitting is irrelevant. Notes
Click Add to view additional features and show side-by-side. Point and click a category value – in legend – to hide/unhide that group.
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Single Cell - Markers
Cell Markers Usage Clicking Markers button will show a table view of cell markers unique to each cluster (e.g. from calling Seurat “FindAllMarkers”). Further clicking a gene name will pop-up a window showing the “Feature” plot colored by the expression values of that gene.
Input
None Notes
The feature plot means to provide a quick view of gene expression levels across cells. For more plotting flexibility, please refer to the Feature view.
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Single Cell - Violin Plot
Violin plot view Usage This chart allows to compare distribution of feature measurements across groups, e.g. gene expression levels across cell clusters. It is similar to Box Plot
Input
Feature: select a feature type and name. Group By: the column shown on X-axis Options
Click Add to create additional charts and show side-by-side.
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