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diff --git a/articles/scDiagnostics_files/figure-html/unnamed-chunk-16-1.png b/articles/scDiagnostics_files/figure-html/unnamed-chunk-16-1.png
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diff --git a/pkgdown.yml b/pkgdown.yml
index d6b230c..b2135fe 100644
--- a/pkgdown.yml
+++ b/pkgdown.yml
@@ -6,7 +6,7 @@ articles:
   DatasetMarkerGeneAlignment: DatasetMarkerGeneAlignment.html
   scDiagnostics: scDiagnostics.html
   VisualizationTools: VisualizationTools.html
-last_built: 2025-01-08T02:46Z
+last_built: 2025-01-08T04:28Z
 urls:
   reference: https://ccb-hms.github.io/scDiagnostics/reference
   article: https://ccb-hms.github.io/scDiagnostics/articles
diff --git a/reference/calculateDiscriminantSpace.html b/reference/calculateDiscriminantSpace.html
index b631728..e33737d 100644
--- a/reference/calculateDiscriminantSpace.html
+++ b/reference/calculateDiscriminantSpace.html
@@ -236,8 +236,8 @@ <h2>Examples</h2>
 <span class="r-in"><span><span class="co"># Generate scatter and boxplot</span></span></span>
 <span class="r-in"><span><span class="fu"><a href="https://rdrr.io/r/graphics/plot.default.html" class="external-link">plot</a></span><span class="op">(</span><span class="va">disc_output</span>, plot_type <span class="op">=</span> <span class="st">"scatterplot"</span><span class="op">)</span></span></span>
 <span class="r-plt img"><img src="calculateDiscriminantSpace-1.png" alt="" width="700" height="433"></span>
-<span class="r-in"><span><span class="fu"><a href="https://rdrr.io/r/graphics/plot.default.html" class="external-link">plot</a></span><span class="op">(</span><span class="va">disc_output</span>, cell_types <span class="op">=</span> <span class="st">"CD4-CD8"</span>, plot_type <span class="op">=</span> <span class="st">"boxplot"</span><span class="op">)</span></span></span>
-<span class="r-err co"><span class="r-pr">#&gt;</span> <span class="error">Error in plot.calculateDiscriminantSpaceObject(disc_output, cell_types = "CD4-CD8",     plot_type = "boxplot"):</span> There are no combinations of the 'cell_types' to plot.</span>
+<span class="r-in"><span><span class="fu"><a href="https://rdrr.io/r/graphics/plot.default.html" class="external-link">plot</a></span><span class="op">(</span><span class="va">disc_output</span>, cell_types <span class="op">=</span> <span class="fu"><a href="https://rdrr.io/r/base/c.html" class="external-link">c</a></span><span class="op">(</span><span class="st">"CD4"</span>, <span class="st">"CD8"</span><span class="op">)</span>, plot_type <span class="op">=</span> <span class="st">"boxplot"</span><span class="op">)</span></span></span>
+<span class="r-plt img"><img src="calculateDiscriminantSpace-2.png" alt="" width="700" height="433"></span>
 <span class="r-in"><span></span></span>
 <span class="r-in"><span><span class="co"># Check comparison</span></span></span>
 <span class="r-in"><span><span class="fu"><a href="https://rdrr.io/r/base/table.html" class="external-link">table</a></span><span class="op">(</span>Expert_Annotation <span class="op">=</span> <span class="va">query_data</span><span class="op">$</span><span class="va">expert_annotation</span>, SingleR <span class="op">=</span> <span class="va">query_data</span><span class="op">$</span><span class="va">SingleR_annotation</span><span class="op">)</span></span></span>
diff --git a/reference/detectAnomaly-1.png b/reference/detectAnomaly-1.png
index 1298948..2c21a8b 100644
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diff --git a/reference/detectAnomaly.html b/reference/detectAnomaly.html
index d5b350e..7608418 100644
--- a/reference/detectAnomaly.html
+++ b/reference/detectAnomaly.html
@@ -238,7 +238,7 @@ <h2>Examples</h2>
 <span class="r-in"><span><span class="co"># Plot the output for a cell type</span></span></span>
 <span class="r-in"><span><span class="fu"><a href="https://rdrr.io/r/graphics/plot.default.html" class="external-link">plot</a></span><span class="op">(</span><span class="va">anomaly_output</span>,</span></span>
 <span class="r-in"><span>     cell_type <span class="op">=</span> <span class="st">"CD4"</span>,</span></span>
-<span class="r-in"><span>     pc_subset <span class="op">=</span> <span class="fl">1</span><span class="op">:</span><span class="fl">5</span>,</span></span>
+<span class="r-in"><span>     pc_subset <span class="op">=</span> <span class="fl">1</span><span class="op">:</span><span class="fl">3</span>,</span></span>
 <span class="r-in"><span>     data_type <span class="op">=</span> <span class="st">"query"</span><span class="op">)</span></span></span>
 <span class="r-plt img"><img src="detectAnomaly-1.png" alt="" width="700" height="433"></span>
 <span class="r-in"><span></span></span>