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‎README.md‎

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| Nbviewer | Jupyter Notebook | Jupyter Lab | HTML |
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| [0-Workflow.ipynb](https://nbviewer.jupyter.org/github/jupyter-guide/ten-rules-jupyter/blob/master/example1/0-Workflow.ipynb) | [![Binder](https://mybinder.org/badge.svg)](https://mybinder.org/v2/gh/jupyter-guide/ten-rules-jupyter/master?filepath=example1%2F0-Workflow.ipynb) | [![Binder](https://mybinder.org/badge.svg)](https://mybinder.org/v2/gh/jupyter-guide/ten-rules-jupyter/master?urlpath=lab/tree/example1%2F0-Workflow.ipynb) | [HTML](https://htmlpreview.github.io?https://github.com/jupyter-guide/ten-rules-jupyter/blob/master/example1/0-Workflow.html) |
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| [1-CreateDataset.ipynb](https://nbviewer.jupyter.org/github/jupyter-guide/ten-rules-jupyter/blob/master/example1/1-CreateDataset.ipynb) | [![Binder](https://mybinder.org/badge.svg)](https://mybinder.org/v2/gh/jupyter-guide/ten-rules-jupyter/master?filepath=example1%2F1-CreateDataset.ipynb) | [![Binder](https://mybinder.org/badge.svg)](https://mybinder.org/v2/gh/jupyter-guide/ten-rules-jupyter/master?urlpath=lab/tree/example1%2F1-CreateDataset.ipynb) | [HTML](https://htmlpreview.github.io?https://github.com/jupyter-guide/ten-rules-jupyter/blob/master/example1/1-CreateDataset.html) |
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| [2-CalculateFeatures.ipynb](https://nbviewer.jupyter.org/github/jupyter-guide/ten-rules-jupyter/blob/master/example1/2-CalculateFeatures.ipynb) | [![Binder](https://mybinder.org/badge.svg)](https://mybinder.org/v2/gh/jupyter-guide/ten-rules-jupyter/master?filepath=example1%2F2-CalculateFeatures.ipynb) | [![Binder](https://mybinder.org/badge.svg)](https://mybinder.org/v2/gh/jupyter-guide/ten-rules-jupyter/master?urlpath=lab/tree/example1%2F2-CalculateFeatures.ipynb) | [HTML](https://htmlpreview.github.io?https://github.com/jupyter-guide/ten-rules-jupyter/blob/master/example1/2-CalculateFeatures.html) |
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| [3-FitModel.ipynb](https://nbviewer.jupyter.org/github/jupyter-guide/ten-rules-jupyter/blob/master/example1/3-FitModel.ipynb) | [![Binder](https://mybinder.org/badge.svg)](https://mybinder.org/v2/gh/jupyter-guide/ten-rules-jupyter/master?filepath=example1%2F3-FitModel.ipynb) |[![Binder](https://mybinder.org/badge.svg)](https://mybinder.org/v2/gh/jupyter-guide/ten-rules-jupyter/master?urlpath=lab/tree/example1%2F3-FitModel.ipynb) | [HTML](https://htmlpreview.github.io?https://github.com/jupyter-guide/ten-rules-jupyter/blob/master/example1/3-FitModel.html) |
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| [4-Predict.ipynb](https://nbviewer.jupyter.org/github/jupyter-guide/ten-rules-jupyter/blob/master/example1/4-Predict.ipynb) | [![Binder](https://mybinder.org/badge.svg)](https://mybinder.org/v2/gh/jupyter-guide/ten-rules-jupyter/master?filepath=example1%2F4-Predict.ipynb) | [![Binder](https://mybinder.org/badge.svg)](https://mybinder.org/v2/gh/jupyter-guide/ten-rules-jupyter/master?urlpath=lab/tree/example1%2F4-Predict.ipynb)| [HTML](https://htmlpreview.github.io?https://github.com/jupyter-guide/ten-rules-jupyter/blob/master/example1/4-Predict.html) |
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| [0-Workflow.ipynb](https://nbviewer.jupyter.org/github/jupyter-guide/ten-rules-jupyter/blob/master/example1/0-Workflow.ipynb) | [![Binder](https://mybinder.org/badge.svg)](https://mybinder.org/v2/gh/jupyter-guide/ten-rules-jupyter/master?filepath=example1%2F0-Workflow.ipynb) | [![Binder](https://mybinder.org/badge.svg)](https://mybinder.org/v2/gh/jupyter-guide/ten-rules-jupyter/master?urlpath=lab/tree/example1%2F0-Workflow.ipynb) | [HTML](https://cdn.rawgit.com/jupyter-guide/ten-rules-jupyter/dd3a89ad/example1/0-Workflow.html) |
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| [1-CreateDataset.ipynb](https://nbviewer.jupyter.org/github/jupyter-guide/ten-rules-jupyter/blob/master/example1/1-CreateDataset.ipynb) | [![Binder](https://mybinder.org/badge.svg)](https://mybinder.org/v2/gh/jupyter-guide/ten-rules-jupyter/master?filepath=example1%2F1-CreateDataset.ipynb) | [![Binder](https://mybinder.org/badge.svg)](https://mybinder.org/v2/gh/jupyter-guide/ten-rules-jupyter/master?urlpath=lab/tree/example1%2F1-CreateDataset.ipynb) | [HTML](https://cdn.rawgit.com/jupyter-guide/ten-rules-jupyter/dd3a89ad/example1/1-CreateDataset.html) |
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| [2-CalculateFeatures.ipynb](https://nbviewer.jupyter.org/github/jupyter-guide/ten-rules-jupyter/blob/master/example1/2-CalculateFeatures.ipynb) | [![Binder](https://mybinder.org/badge.svg)](https://mybinder.org/v2/gh/jupyter-guide/ten-rules-jupyter/master?filepath=example1%2F2-CalculateFeatures.ipynb) | [![Binder](https://mybinder.org/badge.svg)](https://mybinder.org/v2/gh/jupyter-guide/ten-rules-jupyter/master?urlpath=lab/tree/example1%2F2-CalculateFeatures.ipynb) | [HTML](https://cdn.rawgit.com/jupyter-guide/ten-rules-jupyter/dd3a89ad/example1/2-CalculateFeatures.html) |
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| [3-FitModel.ipynb](https://nbviewer.jupyter.org/github/jupyter-guide/ten-rules-jupyter/blob/master/example1/3-FitModel.ipynb) | [![Binder](https://mybinder.org/badge.svg)](https://mybinder.org/v2/gh/jupyter-guide/ten-rules-jupyter/master?filepath=example1%2F3-FitModel.ipynb) |[![Binder](https://mybinder.org/badge.svg)](https://mybinder.org/v2/gh/jupyter-guide/ten-rules-jupyter/master?urlpath=lab/tree/example1%2F3-FitModel.ipynb) | [HTML](https://cdn.rawgit.com/jupyter-guide/ten-rules-jupyter/dd3a89ad/example1/3-FitModel.html) |
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| [4-Predict.ipynb](https://nbviewer.jupyter.org/github/jupyter-guide/ten-rules-jupyter/blob/master/example1/4-Predict.ipynb) | [![Binder](https://mybinder.org/badge.svg)](https://mybinder.org/v2/gh/jupyter-guide/ten-rules-jupyter/master?filepath=example1%2F4-Predict.ipynb) | [![Binder](https://mybinder.org/badge.svg)](https://mybinder.org/v2/gh/jupyter-guide/ten-rules-jupyter/master?urlpath=lab/tree/example1%2F4-Predict.ipynb)| [HTML](https://cdn.rawgit.com/jupyter-guide/ten-rules-jupyter/dd3a89ad/example1/4-Predict.html) |
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| [0-Workflow.ipynb](https://nbviewer.jupyter.org/github/jupyter-guide/ten-rules-jupyter/blob/master/example2/0-Workflow.ipynb) | [![Binder](https://mybinder.org/badge.svg)](https://mybinder.org/v2/gh/jupyter-guide/ten-rules-jupyter/master?filepath=example2%2F0-Workflow.ipynb) | [![Binder](https://mybinder.org/badge.svg)](https://mybinder.org/v2/gh/jupyter-guide/ten-rules-jupyter/master?urlpath=lab/tree/example2%2F0-Workflow.ipynb) | [HTML](https://htmlpreview.github.io?https://github.com/jupyter-guide/ten-rules-jupyter/blob/master/example2/0-Workflow.html) |
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| [1-SimulateTree.ipynb](https://nbviewer.jupyter.org/github/jupyter-guide/ten-rules-jupyter/blob/master/example2/1-SimulateTree.ipynb) | [![Binder](https://mybinder.org/badge.svg)](https://mybinder.org/v2/gh/jupyter-guide/ten-rules-jupyter/master?filepath=example2%2F1-SimulateTree.ipynb) | [![Binder](https://mybinder.org/badge.svg)](https://mybinder.org/v2/gh/jupyter-guide/ten-rules-jupyter/master?urlpath=lab/tree/example2%2F1-SimulateTree.ipynb) | [HTML](https://htmlpreview.github.io?https://github.com/jupyter-guide/ten-rules-jupyter/blob/master/example2/1-SimulateTree.html) |
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| [2-SimulateSequences.ipynb](https://nbviewer.jupyter.org/github/jupyter-guide/ten-rules-jupyter/blob/master/example2/2-SimulateSequences.ipynb) | [![Binder](https://mybinder.org/badge.svg)](https://mybinder.org/v2/gh/jupyter-guide/ten-rules-jupyter/master?filepath=example2%2F2-SimulateSequences.ipynb) | [![Binder](https://mybinder.org/badge.svg)](https://mybinder.org/v2/gh/jupyter-guide/ten-rules-jupyter/master?urlpath=lab/tree/example2%2F2-SimulateSequences.ipynb) | [HTML](https://htmlpreview.github.io?https://github.com/jupyter-guide/ten-rules-jupyter/blob/master/example2/2-SimulateSequences.html) |
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| [0-Workflow.ipynb](https://nbviewer.jupyter.org/github/jupyter-guide/ten-rules-jupyter/blob/master/example2/0-Workflow.ipynb) | [![Binder](https://mybinder.org/badge.svg)](https://mybinder.org/v2/gh/jupyter-guide/ten-rules-jupyter/master?filepath=example2%2F0-Workflow.ipynb) | [![Binder](https://mybinder.org/badge.svg)](https://mybinder.org/v2/gh/jupyter-guide/ten-rules-jupyter/master?urlpath=lab/tree/example2%2F0-Workflow.ipynb) | [HTML](https://cdn.rawgit.com/jupyter-guide/ten-rules-jupyter/dd3a89ad/example2/0-Workflow.html) |
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| [1-SimulateTree.ipynb](https://nbviewer.jupyter.org/github/jupyter-guide/ten-rules-jupyter/blob/master/example2/1-SimulateTree.ipynb) | [![Binder](https://mybinder.org/badge.svg)](https://mybinder.org/v2/gh/jupyter-guide/ten-rules-jupyter/master?filepath=example2%2F1-SimulateTree.ipynb) | [![Binder](https://mybinder.org/badge.svg)](https://mybinder.org/v2/gh/jupyter-guide/ten-rules-jupyter/master?urlpath=lab/tree/example2%2F1-SimulateTree.ipynb) | [HTML](https://cdn.rawgit.com/jupyter-guide/ten-rules-jupyter/dd3a89ad/example2/1-SimulateTree.html) |
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| [2-SimulateSequences.ipynb](https://nbviewer.jupyter.org/github/jupyter-guide/ten-rules-jupyter/blob/master/example2/2-SimulateSequences.ipynb) | [![Binder](https://mybinder.org/badge.svg)](https://mybinder.org/v2/gh/jupyter-guide/ten-rules-jupyter/master?filepath=example2%2F2-SimulateSequences.ipynb) | [![Binder](https://mybinder.org/badge.svg)](https://mybinder.org/v2/gh/jupyter-guide/ten-rules-jupyter/master?urlpath=lab/tree/example2%2F2-SimulateSequences.ipynb) | [HTML](https://cdn.rawgit.com/jupyter-guide/ten-rules-jupyter/dd3a89ad/example2/2-SimulateSequences.html) |

‎example1/0-Workflow.html‎

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<p><strong>Authors:</strong> Peter W. Rose, Shih-Cheng Huang, UC San Diego, October 1, 2018</p>
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<p><strong>Authors:</strong> <a href="mailto:pwrose.ucsd@gmail.com">Peter W. Rose</a>, Shih-Cheng Huang, UC San Diego, October 1, 2018</p>
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‎example1/0-Workflow.ipynb‎

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‎example1/1-CreateDataset.html‎

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<h2 id="Next-step">Next step<a class="anchor-link" href="#Next-step">&#182;</a></h2><p>After you saved the dataset here, go back to the <a href="./0-Workflow.ipynb">0-Workflow.ipynb</a> to run the next step of the analysis.</p>
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<h2 id="Next-step">Next step<a class="anchor-link" href="#Next-step">&#182;</a></h2><p>After you saved the dataset here, run the next step in the workflow <a href="./2-CalculateFeatures.ipynb">2-CalculateFeatures.ipynb</a> or go back to <a href="./0-Workflow.ipynb">0-Workflow.ipynb</a>.</p>
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<p><strong>Authors:</strong> Peter W. Rose, Shih-Cheng Huang, UC San Diego, October 1, 2018</p>
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<p><strong>Authors:</strong> <a href="mailto:pwrose.ucsd@gmail.com">Peter W. Rose</a>, Shih-Cheng Huang, UC San Diego, October 1, 2018</p>
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‎example1/1-CreateDataset.ipynb‎

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‎example1/2-CalculateFeatures.html‎

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<h2 id="Next-step">Next step<a class="anchor-link" href="#Next-step">&#182;</a></h2><p>After you saved the dataset here, run the next step in the workflow <a href="./3-FitModel.ipynb">3-FitModel.ipynb</a> or go back go back to <a href="./0-Workflow.ipynb">0-Workflow.ipynb</a>.</p>
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<p><strong>Authors:</strong> <a href="mailto:pwrose.ucsd@gmail.com">Peter W. Rose</a>, Shih-Cheng Huang, UC San Diego, October 1, 2018</p>
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‎example1/2-CalculateFeatures.ipynb‎

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‎example1/3-FitModel.html‎

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<h2 id="Next-Step">Next Step<a class="anchor-link" href="#Next-Step">&#182;</a></h2><p>After you saved the classification model here, go back to the <a href="./0-Workflow.ipynb">0-Workflow.ipynb</a> to run the next step of the analysis.</p>
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<h2 id="Next-Step">Next Step<a class="anchor-link" href="#Next-Step">&#182;</a></h2><p>After you saved the classification model here, run the next step in the workflow <a href="./4-Predict.ipynb">4-Predict.ipynb</a> or go back go back to <a href="./0-Workflow.ipynb">0-Workflow.ipynb</a>.</p>
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<p><strong>Authors:</strong> Peter W. Rose, Shih-Cheng Huang, UC San Diego, October 1, 2018</p>
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<p><strong>Authors:</strong> <a href="mailto:pwrose.ucsd@gmail.com">Peter W. Rose</a>, Shih-Cheng Huang, UC San Diego, October 1, 2018</p>
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‎example1/3-FitModel.ipynb‎

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"**Authors:** [Peter W. Rose](mailto:pwrose.ucsd@gmail.com), Shih-Cheng Huang, UC San Diego, October 1, 2018\n",
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‎example1/4-Predict.html‎

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{"model_id": "450d2400f1134413be6083bf5021d15e", "version_major": 2, "version_minor": 0}
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{"model_id": "e070e5e45045460e91c7c2b703f2e994", "version_major": 2, "version_minor": 0}
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<p>Note the limitations of the model (see <a href="./3-FitModel.ipynb">3-FitModel.ipynb</a>). This is not a state-of-the art model to predict protein fold classes, rather it serves as an example how to create a reproducible and interactive workflow with Jupyter Notebooks.</p>
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<p><strong>Authors:</strong> Peter W. Rose, Shih-Cheng Huang, UC San Diego, October 1, 2018</p>
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<p><strong>Authors:</strong> <a href="mailto:pwrose.ucsd@gmail.com">Peter W. Rose</a>, Shih-Cheng Huang, UC San Diego, October 1, 2018</p>
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