Fixed one of the structure plots in newsgroups_more analysis.

docs/newsgroups_more.html

@@ -433,15 +433,15 @@ <h4 class="author">Peter Carbonetto</h4>
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-<a data-toggle="collapse" data-parent="#workflowr-checks" href="#strongRepositoryversionstrongahrefhttpsgithubcomstephenslabfastTopicsexperimentstree7f54463ce2a502abd6827e2c2726eed94cd06c74targetblank7f54463a">
+<a data-toggle="collapse" data-parent="#workflowr-checks" href="#strongRepositoryversionstrongahrefhttpsgithubcomstephenslabfastTopicsexperimentstree1716ea38accf6cbb8fdaa01efc3e3b52623f69e3targetblank1716ea3a">
 <span class="glyphicon glyphicon-ok text-success"
 aria-hidden="true"></span> <strong>Repository version:</strong>
-<a href="https://github.com/stephenslab/fastTopics-experiments/tree/7f54463ce2a502abd6827e2c2726eed94cd06c74" target="_blank">7f54463</a>
+<a href="https://github.com/stephenslab/fastTopics-experiments/tree/1716ea38accf6cbb8fdaa01efc3e3b52623f69e3" target="_blank">1716ea3</a>
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-id="strongRepositoryversionstrongahrefhttpsgithubcomstephenslabfastTopicsexperimentstree7f54463ce2a502abd6827e2c2726eed94cd06c74targetblank7f54463a"
+id="strongRepositoryversionstrongahrefhttpsgithubcomstephenslabfastTopicsexperimentstree1716ea38accf6cbb8fdaa01efc3e3b52623f69e3targetblank1716ea3a"
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@@ -451,7 +451,7 @@ <h4 class="author">Peter Carbonetto</h4>
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 <p>
 The results in this page were generated with repository version
-<a href="https://github.com/stephenslab/fastTopics-experiments/tree/7f54463ce2a502abd6827e2c2726eed94cd06c74" target="_blank">7f54463</a>.
+<a href="https://github.com/stephenslab/fastTopics-experiments/tree/1716ea38accf6cbb8fdaa01efc3e3b52623f69e3" target="_blank">1716ea3</a>.
 See the <em>Past versions</em> tab to see a history of the changes made
 to the R Markdown and HTML files.
 </p>
@@ -538,6 +538,40 @@ <h4 class="author">Peter Carbonetto</h4>
 Rmd
 </td>
 <td>
+<a href="https://github.com/stephenslab/fastTopics-experiments/blob/1716ea38accf6cbb8fdaa01efc3e3b52623f69e3/analysis/newsgroups_more.Rmd" target="_blank">1716ea3</a>
+</td>
+<td>
+Peter Carbonetto
+</td>
+<td>
+2024-08-10
+</td>
+<td>
+workflowr::wflow_publish("newsgroups_more.Rmd", verbose = TRUE)
+</td>
+</tr>
+<tr>
+<td>
+html
+</td>
+<td>
+<a href="https://rawcdn.githack.com/stephenslab/fastTopics-experiments/2b1b3d5171792963d78a06f627559b46e732403c/docs/newsgroups_more.html" target="_blank">2b1b3d5</a>
+</td>
+<td>
+Peter Carbonetto
+</td>
+<td>
+2024-08-10
+</td>
+<td>
+Switching to MLEs in newsgroups_more.
+</td>
+</tr>
+<tr>
+<td>
+Rmd
+</td>
+<td>
 <a href="https://github.com/stephenslab/fastTopics-experiments/blob/7f54463ce2a502abd6827e2c2726eed94cd06c74/analysis/newsgroups_more.Rmd" target="_blank">7f54463</a>
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@@ -761,6 +795,17 @@ <h4 class="author">Peter Carbonetto</h4>
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+<a href="https://github.com/stephenslab/fastTopics-experiments/blob/2b1b3d5171792963d78a06f627559b46e732403c/docs/figure/newsgroups_more.Rmd/structure-plot-em-1.png" target="_blank">2b1b3d5</a>
+</td>
+<td>
+Peter Carbonetto
+</td>
+<td>
+2024-08-10
+</td>
+</tr>
+<tr>
+<td>
 <a href="https://github.com/stephenslab/fastTopics-experiments/blob/f79da59cebfbbbfe09deb3407f374083529a3470/docs/figure/newsgroups_more.Rmd/structure-plot-em-1.png" target="_blank">f79da59</a>
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@@ -775,7 +820,7 @@ <h4 class="author">Peter Carbonetto</h4>
 </div>
 </div>
 <p>And here are the CD estimates:</p>
-<pre class="r"><code>L2 &lt;- select_loadings(fit1,rows)$L
+<pre class="r"><code>L2 &lt;- select_loadings(fit2,rows)$L
 p2 &lt;- structure_plot(L2,topics = 1:10,grouping = topics[rows],
                      colors = topic_colors,gap = 20) +
   ggtitle(&quot;CD with extrapolation&quot;) +
@@ -806,6 +851,17 @@ <h4 class="author">Peter Carbonetto</h4>
 <tbody>
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+<a href="https://github.com/stephenslab/fastTopics-experiments/blob/2b1b3d5171792963d78a06f627559b46e732403c/docs/figure/newsgroups_more.Rmd/structure-plot-cd-1.png" target="_blank">2b1b3d5</a>
+</td>
+<td>
+Peter Carbonetto
+</td>
+<td>
+2024-08-10
+</td>
+</tr>
+<tr>
+<td>
 <a href="https://github.com/stephenslab/fastTopics-experiments/blob/f79da59cebfbbbfe09deb3407f374083529a3470/docs/figure/newsgroups_more.Rmd/structure-plot-cd-1.png" target="_blank">f79da59</a>
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