update

filtering.html

@@ -323,12 +323,18 @@ <h2 class="anchored" data-anchor-id="not-logic">NOT Logic</h2>
 <p><img src="images/not-filter1.png" class="img-fluid"></p>
 <p>Clicking this will change the logic to <strong>NOT</strong>.</p>
 <p><img src="images/not-filter2.png" class="img-fluid"></p>
-<p>In our case, we have 1,729 variants that do not meet our filter criterion.</p>
+<p>Then we can hit <strong>Apply Filter</strong> again. In our case, we have 1,729 variants that do not meet our filter criterion. This makes sense because there were 9 variants total that met our grouped criterion, and 1,738 variants total, and 1738 - 9 = 1729.</p>
 </section>
 <section id="deleting-a-filter" class="level2">
 <h2 class="anchored" data-anchor-id="deleting-a-filter">Deleting a Filter</h2>
-<p>If you need to delete a filter, you can mouse to the right of the filter. A faint “X” will appear. Clicking on it will delete that filter.</p>
-<p><img src="images/filter-delete.png" class="img-fluid"> ## Case Study: Filtering Pathogenic Variants</p>
+<p>Finally, if you need to delete a filter, you can mouse to the right of the filter. A faint “X” will appear. Clicking on it will delete that filter.</p>
+<p><img src="images/filter-delete.png" class="img-fluid"></p>
+</section>
+<section id="case-study-filtering-pathogenic-variants" class="level2">
+<h2 class="anchored" data-anchor-id="case-study-filtering-pathogenic-variants">Case Study: Filtering Pathogenic Variants</h2>
+<p>Let’s combine a sample filter with a grouped variant filter.</p>
+<p>In our case, we want variants that are associated with the mother of the family combined with our joint missense/pathogenic variant filter.</p>
+<p><img src="images/case-study-filter.png" class="img-fluid"></p>
 <div class="cell" data-layout-align="default">
 <div class="cell-output-display">
 <div>

filtering.qmd

@@ -250,6 +250,7 @@ Then we can hit **Apply Filter** again. In our case, we have 1,729 variants that
 Finally, if you need to delete a filter, you can mouse to the right of the filter. A faint "X" will appear. Clicking on it will delete that filter.
 
 ![](images/filter-delete.png)
+
 ## Case Study: Filtering Pathogenic Variants
 
 Let's combine a sample filter with a grouped variant filter.