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Temporarily reduce size of vignette.
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AnthonyChristidis committed Jun 23, 2024
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Showing 1 changed file with 10 additions and 5 deletions.
15 changes: 10 additions & 5 deletions vignettes/scDiagnostics.Rmd
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Expand Up @@ -317,17 +317,22 @@ second principal component (Dimension 2). Each cell is represented as a
point on the plot, and its color reflects the expression level of the
gene "VPREB3," ranging from low (lighter color) to high (darker color).

```{r plot-Gene-Expression-Dimred, warning=FALSE, message=FALSE}
```{r plot-Gene-Expression-Dimred-1, warning=FALSE, message=FALSE}
# Run PCA on the query data
query_data <- runPCA(query_data)
```

# Generate dimension reduction plot color code by gene expression
plotGeneExpressionDimred(se_object = query_data,
method = "PCA",
pc_subset = c(1:5),
```{r plot-Gene-Expression-Dimred-2, warning=FALSE, message=FALSE, eval=FALSE}
# Generate dimension reduction plot color code by gene expression
plotGeneExpressionDimred(se_object = query_data,
method = "PCA",
pc_subset = c(1:5),
feature = "VPREB3")
```

The dimensional reduction plot allows us to observe how the gene
expression of VPREB3 is distributed

The dimensional reduction plot allows us to observe how the gene
expression of VPREB3 is distributed across the cells and whether any
clusters or patterns emerge in the data.
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