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ncborcherding / scRepertoire

A toolkit for single-cell immune profiling
https://www.borch.dev/uploads/screpertoire/
MIT License
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plotUMAP(sce, colour_by = "cloneSize") : could not find function "plotUMAP" #360

Closed hangsuUNC closed 6 months ago

hangsuUNC commented 6 months ago

Hi,

Thanks for the tool! I was trying to combine expression and clone data and plot UMAP following the tutorial. I got an Error saying "plotUMAP(sce, colour_by = "cloneSize") : could not find function "plotUMAP"". Could you please help double check your package?

Thanks,

Hang

ncborcherding commented 6 months ago

Hey Hang,

There is no UMAP/Dimensional Reduction plotting functions (outside of clonalNetwork()) in scRepertoire. If you are trying to replicate the vignette - plotUMAP() is from the scater R package. But you could use other methods of plotting as well.

Hope that helps, Nick