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authorJohannes Ranke <jranke@uni-bremen.de>2022-09-16 10:51:48 +0200
committerJohannes Ranke <jranke@uni-bremen.de>2022-09-16 10:51:48 +0200
commit2a521ab0a4b7d981a2042353e2c60b8a877489b8 (patch)
tree5198483a73f37335733cb78cb6507b3ffdbb9fe5 /docs/dev/reference/saem.html
parent03e1598a3c79911a497758fe382461f288bf05e6 (diff)
Improve docs and update pkgdown
Diffstat (limited to 'docs/dev/reference/saem.html')
-rw-r--r--docs/dev/reference/saem.html18
1 files changed, 13 insertions, 5 deletions
diff --git a/docs/dev/reference/saem.html b/docs/dev/reference/saem.html
index b55f29a8..ce3d428c 100644
--- a/docs/dev/reference/saem.html
+++ b/docs/dev/reference/saem.html
@@ -124,7 +124,10 @@ Expectation Maximisation algorithm (SAEM).</p>
<span> <span class="va">...</span></span>
<span><span class="op">)</span></span>
<span></span>
-<span><span class="fu">saemix_data</span><span class="op">(</span><span class="va">object</span>, verbose <span class="op">=</span> <span class="cn">FALSE</span>, <span class="va">...</span><span class="op">)</span></span></code></pre></div>
+<span><span class="fu">saemix_data</span><span class="op">(</span><span class="va">object</span>, verbose <span class="op">=</span> <span class="cn">FALSE</span>, <span class="va">...</span><span class="op">)</span></span>
+<span></span>
+<span><span class="co"># S3 method for saem.mmkin</span></span>
+<span><span class="fu"><a href="parms.html">parms</a></span><span class="op">(</span><span class="va">object</span>, ci <span class="op">=</span> <span class="cn">FALSE</span>, <span class="va">...</span><span class="op">)</span></span></code></pre></div>
</div>
<div id="arguments">
@@ -199,6 +202,11 @@ and the end of the optimisation process?</p></dd>
<dt>digits</dt>
<dd><p>Number of digits to use for printing</p></dd>
+
+<dt>ci</dt>
+<dd><p>Should a matrix with estimates and confidence interval boundaries
+be returned? If FALSE (default), a vector of estimates is returned.</p></dd>
+
</dl></div>
<div id="value">
<h2>Value</h2>
@@ -304,7 +312,7 @@ using <a href="mmkin.html">mmkin</a>.</p>
<span class="r-msg co"><span class="r-pr">#&gt;</span> Likelihoods calculated by importance sampling</span>
<span class="r-out co"><span class="r-pr">#&gt;</span> AIC BIC</span>
<span class="r-out co"><span class="r-pr">#&gt;</span> 1 467.8664 465.1324</span>
-<span class="r-out co"><span class="r-pr">#&gt;</span> 2 469.9096 466.7851</span>
+<span class="r-out co"><span class="r-pr">#&gt;</span> 2 469.8018 466.6773</span>
<span class="r-in"><span></span></span>
<span class="r-in"><span><span class="va">sfo_sfo</span> <span class="op">&lt;-</span> <span class="fu"><a href="mkinmod.html">mkinmod</a></span><span class="op">(</span>parent <span class="op">=</span> <span class="fu"><a href="mkinmod.html">mkinsub</a></span><span class="op">(</span><span class="st">"SFO"</span>, <span class="st">"A1"</span><span class="op">)</span>,</span></span>
<span class="r-in"><span> A1 <span class="op">=</span> <span class="fu"><a href="mkinmod.html">mkinsub</a></span><span class="op">(</span><span class="st">"SFO"</span><span class="op">)</span><span class="op">)</span></span></span>
@@ -365,8 +373,8 @@ using <a href="mmkin.html">mmkin</a>.</p>
<span class="r-out co"><span class="r-pr">#&gt;</span> saemix version used for fitting: 3.1 </span>
<span class="r-out co"><span class="r-pr">#&gt;</span> mkin version used for pre-fitting: 1.1.2 </span>
<span class="r-out co"><span class="r-pr">#&gt;</span> R version used for fitting: 4.2.1 </span>
-<span class="r-out co"><span class="r-pr">#&gt;</span> Date of fit: Wed Aug 10 15:27:26 2022 </span>
-<span class="r-out co"><span class="r-pr">#&gt;</span> Date of summary: Wed Aug 10 15:27:26 2022 </span>
+<span class="r-out co"><span class="r-pr">#&gt;</span> Date of fit: Fri Sep 16 10:30:47 2022 </span>
+<span class="r-out co"><span class="r-pr">#&gt;</span> Date of summary: Fri Sep 16 10:30:47 2022 </span>
<span class="r-out co"><span class="r-pr">#&gt;</span> </span>
<span class="r-out co"><span class="r-pr">#&gt;</span> Equations:</span>
<span class="r-out co"><span class="r-pr">#&gt;</span> d_parent/dt = - ((k1 * g * exp(-k1 * time) + k2 * (1 - g) * exp(-k2 *</span>
@@ -381,7 +389,7 @@ using <a href="mmkin.html">mmkin</a>.</p>
<span class="r-out co"><span class="r-pr">#&gt;</span> </span>
<span class="r-out co"><span class="r-pr">#&gt;</span> Model predictions using solution type analytical </span>
<span class="r-out co"><span class="r-pr">#&gt;</span> </span>
-<span class="r-out co"><span class="r-pr">#&gt;</span> Fitted in 9.438 s</span>
+<span class="r-out co"><span class="r-pr">#&gt;</span> Fitted in 9.651 s</span>
<span class="r-out co"><span class="r-pr">#&gt;</span> Using 300, 100 iterations and 10 chains</span>
<span class="r-out co"><span class="r-pr">#&gt;</span> </span>
<span class="r-out co"><span class="r-pr">#&gt;</span> Variance model: Constant variance </span>

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