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"\n",
"\n",
"Tian, J., Liu, Y.-C., Glaser, N., Hsu, Y.-C., & Kira, Z. (2020). Posterior Re-calibration for Imbalanced Datasets (No. arXiv:2010.11820). arXiv. http://arxiv.org/abs/2010.11820\n",
"\n",
"Horsch, K., Giger, M. L., & Metz, C. E. (2008). Prevalence scaling: applications to an intelligent workstation for the diagnosis of breast cancer. Academic radiology, 15(11), 1446–1457. https://doi.org/10.1016/j.acra.2008.04.022\n",
"\n"
]
}
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Expand Up @@ -101,7 +101,7 @@ <h1>Source code for calzone.metrics</h1><div class="highlight"><pre>
<span class="kn">import</span> <span class="nn">statsmodels.api</span> <span class="k">as</span> <span class="nn">sm</span>
<span class="kn">import</span> <span class="nn">statsmodels.nonparametric.smoothers_lowess</span> <span class="k">as</span> <span class="nn">lowess</span>
<span class="kn">import</span> <span class="nn">numpy.lib.recfunctions</span> <span class="k">as</span> <span class="nn">rf</span>

<span class="kn">import</span> <span class="nn">contextlib</span>

<div class="viewcode-block" id="hosmer_lemeshow_test">
<a class="viewcode-back" href="../../calzone.html#calzone.metrics.hosmer_lemeshow_test">[docs]</a>
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<span class="c1"># Fit the logistic regression model</span>
<span class="n">logit_model</span> <span class="o">=</span> <span class="n">sm</span><span class="o">.</span><span class="n">Logit</span><span class="p">(</span><span class="n">y_true</span><span class="p">,</span> <span class="n">X</span><span class="p">)</span>
<span class="k">if</span> <span class="n">fix_intercept</span> <span class="o">==</span> <span class="kc">True</span><span class="p">:</span>
<span class="n">logit_result</span> <span class="o">=</span> <span class="n">logit_model</span><span class="o">.</span><span class="n">fit_constrained</span><span class="p">(</span><span class="s2">&quot;const=0&quot;</span><span class="p">,</span> <span class="n">disp</span><span class="o">=</span><span class="mi">0</span><span class="p">)</span>
<span class="k">with</span> <span class="n">contextlib</span><span class="o">.</span><span class="n">redirect_stdout</span><span class="p">(</span><span class="kc">None</span><span class="p">):</span>
<span class="n">logit_result</span> <span class="o">=</span> <span class="n">logit_model</span><span class="o">.</span><span class="n">fit_constrained</span><span class="p">(</span><span class="s2">&quot;const=0&quot;</span><span class="p">,</span> <span class="n">disp</span><span class="o">=</span><span class="mi">0</span><span class="p">)</span>
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<span class="n">logit_result</span> <span class="o">=</span> <span class="n">logit_model</span><span class="o">.</span><span class="n">fit_constrained</span><span class="p">(</span><span class="s2">&quot;x1=1&quot;</span><span class="p">,</span> <span class="n">disp</span><span class="o">=</span><span class="mi">0</span><span class="p">)</span>
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<span class="n">logit_result</span> <span class="o">=</span> <span class="n">logit_model</span><span class="o">.</span><span class="n">fit_constrained</span><span class="p">(</span><span class="s2">&quot;x1=1&quot;</span><span class="p">,</span> <span class="n">disp</span><span class="o">=</span><span class="mi">0</span><span class="p">)</span>
<span class="k">else</span><span class="p">:</span>
<span class="n">logit_result</span> <span class="o">=</span> <span class="n">logit_model</span><span class="o">.</span><span class="n">fit</span><span class="p">(</span><span class="n">disp</span><span class="o">=</span><span class="mi">0</span><span class="p">)</span>

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"\n",
"\n",
"Tian, J., Liu, Y.-C., Glaser, N., Hsu, Y.-C., & Kira, Z. (2020). Posterior Re-calibration for Imbalanced Datasets (No. arXiv:2010.11820). arXiv. http://arxiv.org/abs/2010.11820\n",
"\n",
"Horsch, K., Giger, M. L., & Metz, C. E. (2008). Prevalence scaling: applications to an intelligent workstation for the diagnosis of breast cancer. Academic radiology, 15(11), 1446–1457. https://doi.org/10.1016/j.acra.2008.04.022\n",
"\n"
]
}
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Expand Up @@ -261,6 +261,7 @@ <h2>References<a class="headerlink" href="#References" title="Link to this headi
<p>Chen, W., Sahiner, B., Samuelson, F., Pezeshk, A., &amp; Petrick, N. (2018). Calibration of medical diagnostic classifier scores to the probability of disease. Statistical Methods in Medical Research, 27(5), 1394–1409. <a class="reference external" href="https://doi.org/10.1177/0962280216661371">https://doi.org/10.1177/0962280216661371</a></p>
<p>Gu, W., &amp; Pepe, M. S. (2011). Estimating the diagnostic likelihood ratio of a continuous marker. Biostatistics, 12(1), 87–101. <a class="reference external" href="https://doi.org/10.1093/biostatistics/kxq045">https://doi.org/10.1093/biostatistics/kxq045</a></p>
<p>Tian, J., Liu, Y.-C., Glaser, N., Hsu, Y.-C., &amp; Kira, Z. (2020). Posterior Re-calibration for Imbalanced Datasets (No. arXiv:2010.11820). arXiv. http://arxiv.org/abs/2010.11820</p>
<p>Horsch, K., Giger, M. L., &amp; Metz, C. E. (2008). Prevalence scaling: applications to an intelligent workstation for the diagnosis of breast cancer. Academic radiology, 15(11), 1446–1457. <a class="reference external" href="https://doi.org/10.1016/j.acra.2008.04.022">https://doi.org/10.1016/j.acra.2008.04.022</a></p>
</section>
</section>

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"\n",
"\n",
"Tian, J., Liu, Y.-C., Glaser, N., Hsu, Y.-C., & Kira, Z. (2020). Posterior Re-calibration for Imbalanced Datasets (No. arXiv:2010.11820). arXiv. http://arxiv.org/abs/2010.11820\n",
"\n",
"Horsch, K., Giger, M. L., & Metz, C. E. (2008). Prevalence scaling: applications to an intelligent workstation for the diagnosis of breast cancer. Academic radiology, 15(11), 1446–1457. https://doi.org/10.1016/j.acra.2008.04.022\n",
"\n"
]
}
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\title{calzone}
\date{Oct 07, 2024}
\date{Oct 17, 2024}
\release{develop}
\author{Kwok Lung "Jason" Fan, Qian Cao}
\newcommand{\sphinxlogo}{\vbox{}}
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\sphinxAtStartPar
Tian, J., Liu, Y.\sphinxhyphen{}C., Glaser, N., Hsu, Y.\sphinxhyphen{}C., \& Kira, Z. (2020). Posterior Re\sphinxhyphen{}calibration for Imbalanced Datasets (No. arXiv:2010.11820). arXiv. http://arxiv.org/abs/2010.11820

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Horsch, K., Giger, M. L., \& Metz, C. E. (2008). Prevalence scaling: applications to an intelligent workstation for the diagnosis of breast cancer. Academic radiology, 15(11), 1446\textendash{}1457. \sphinxurl{https://doi.org/10.1016/j.acra.2008.04.022}

\sphinxstepscope


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"\n",
"\n",
"Tian, J., Liu, Y.-C., Glaser, N., Hsu, Y.-C., & Kira, Z. (2020). Posterior Re-calibration for Imbalanced Datasets (No. arXiv:2010.11820). arXiv. http://arxiv.org/abs/2010.11820\n",
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"\n"
]
}
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