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Sabryr changes #2

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Include link to notebook
Sabryr May 30, 2025
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Include link to jupyter notebook
Sabryr May 30, 2025
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16 changes: 11 additions & 5 deletions content/1.PCA_n_Clustering.md
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:::{prereq}

* BioNT Applied Machine Learning for Biological Data
* Module 1: Python Numpy and Pandas
* Module 1: Python NumPy and Pandas
* Module 2: Unsupervised Learning: Clustering (K-Means Clustering, Hierarchical clustering, Clustering evaluation metrics)

*Participants should gain skills introduced in above mentioned Lessons or equivalent skills.*
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## Dataset

* Imputed Drug Sensitivities:
* This data was imputed for TCGA-BRCA patients based on a model trained on cancer cell line gene expression and corresponding in vitro drug response measurements
* Source: [Cancer drug sensitivity prediction from routine histology images](https://www.nature.com/articles/s41698-023-00491-9)
- Imputed Drug Sensitivities:
- This data was imputed for TCGA-BRCA patients based on a model trained on cancer cell line gene expression and corresponding in vitro drug response measurements
- Source: [Cancer drug sensitivity prediction from routine histology images](https://www.nature.com/articles/s41698-023-00491-9)

*[download test dataset](test_data/pca_clustering/BRCA_Drug_sensitivity_test_data.csv)*
- [Link to download test dataset](test_data/pca_clustering/BRCA_Drug_sensitivity_test_data.csv)*

## Jupyter notebook
- We have made a jupyter notebook with the exercises, learners are expected to download this to their
computer and open it in jupyter.

- [Link to download Jupyter notebook](https://raw.githubusercontent.com/NAICNO/BioNT_Module2_handson/refs/heads/main/content/1.Notebook_PCA_n_Clustering.ipynb)

## Workflow

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