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Boxplot of cell-level expression by gene and contrast #1333

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Tracked by #1270
arteymix opened this issue Feb 8, 2025 · 1 comment
Open
Tracked by #1270

Boxplot of cell-level expression by gene and contrast #1333

arteymix opened this issue Feb 8, 2025 · 1 comment
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gui Issues or pull requests involving the Web UI single cell Issues related to single-cell data support
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@arteymix
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arteymix commented Feb 8, 2025

When rendering DE results for single cell data, it should be possible to render a boxplot for each sample grouped by condition for a given gene.

This would be informative in many ways as a user could assess how many cells each sample contributes, the expression level of those cells, the variability, presence of outliers, etc.

When getting results by gene, we can pool all the design elements.

This would be in the EE QC controller with the following parameters:

  • gene ID or design element ID
  • result set ID

I think we will have to modify the sorting code to group sub-assays by their source assay or else the cell type factor would be used and result in a grouping by subset.

@arteymix arteymix added gui Issues or pull requests involving the Web UI single cell Issues related to single-cell data support labels Feb 8, 2025
@arteymix arteymix self-assigned this Feb 24, 2025
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The boxplot code was completed in 5840b71.

The missing part now is to integrate it with the result set and organized assays for a given contrast. I'll do that once I get the experimental design view fixed.

@arteymix arteymix modified the milestones: 1.32.0, 1.31.13 Mar 1, 2025
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