From 8883511b1d39b43313d0032141c803681452c913 Mon Sep 17 00:00:00 2001 From: Sabry Razick Date: Fri, 30 May 2025 13:44:26 +0200 Subject: [PATCH 1/2] Include link to notebook --- content/1.PCA_n_Clustering.md | 16 +++++++++++----- 1 file changed, 11 insertions(+), 5 deletions(-) diff --git a/content/1.PCA_n_Clustering.md b/content/1.PCA_n_Clustering.md index b237aad..b3b1d95 100644 --- a/content/1.PCA_n_Clustering.md +++ b/content/1.PCA_n_Clustering.md @@ -5,7 +5,7 @@ :::{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.* @@ -26,11 +26,17 @@ ## 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](1.Notebook_PCA_n_Clustering.ipynb) ## Workflow From 82913773ef76b6f8f026304fb0467f549cccf1de Mon Sep 17 00:00:00 2001 From: Sabry Razick Date: Fri, 30 May 2025 13:48:58 +0200 Subject: [PATCH 2/2] Include link to jupyter notebook --- content/1.PCA_n_Clustering.md | 2 +- 1 file changed, 1 insertion(+), 1 deletion(-) diff --git a/content/1.PCA_n_Clustering.md b/content/1.PCA_n_Clustering.md index b3b1d95..db9680a 100644 --- a/content/1.PCA_n_Clustering.md +++ b/content/1.PCA_n_Clustering.md @@ -36,7 +36,7 @@ - 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](1.Notebook_PCA_n_Clustering.ipynb) +- [Link to download Jupyter notebook](https://raw.githubusercontent.com/NAICNO/BioNT_Module2_handson/refs/heads/main/content/1.Notebook_PCA_n_Clustering.ipynb) ## Workflow