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VCCRI / Sierra

Discover differential transcript usage from polyA-captured single cell RNA-seq data
GNU General Public License v3.0
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PlotRelativeExpressionBox looks for tSNE #40

Closed GeertvanGeest closed 3 years ago

GeertvanGeest commented 3 years ago

The function PlotRelativeExpressionBox looks for tSNE cell embeddings, and throws an error if there is no tSNE run (I've only run a UMAP):

Error in PlotRelativeExpressionBox(peaks.seurat, peaks.to.plot = peaks.to.plot) : 
  trying to get slot "cell.embeddings" from an object of a basic class ("NULL") with no slots

As far as I understand, a boxplot shouldn't require tSNE coordinates.

rj-patrick commented 3 years ago

Hi @GeertvanGeest,

Yes, that's a bug - fixed now.

Cheers, Ralph

GeertvanGeest commented 3 years ago

👍👍 great, thanks!