ydeng117 / problem-set-7 Goto Github PK

Due Sunday by 11:59 pm.

You fielded an experiment and collected observations for 10 respondents across two features. The data are:

input_1 = c(5,8,7,8,3,4,2,3,4,5)

input_2 = c(8,6,5,4,3,2,2,8,9,8)

After inspecting your data, you suspect 3 clusters likely characterize these data, but you'd like to check your intuition. Perform k-means clustering "by hand" on these data, initializing at k = 3. Be sure to set the seed for reproducibility. Specifically:

1. (5 points) Imitate the k-means random initialization part of the algorithm by assigning each observation to a cluster at random.

2. (5 points) Compute the cluster centroid and update cluster assignments for each observation iteratively based on spatial similarity.

3. (5 points) Present a visual description of the final, converged (stopped) cluster assignments.

4. (5 points) Now, repeat the process, but this time initialize at k = 2 and present a final cluster assignment visually next to the previous search at k = 3.

5. (10 points) Did your initial hunch of 3 clusters pan out, or would other values of k, like 2, fit these data better? Why or why not?

wiki.csv contains a data set of survey responses from university faculty members related to their perceptions and practices of using Wikipedia as a teaching resource. Documentation for this dataset can be found at the UCI machine learning repository. The dataset has been pre-processed for you as follows:

• Include only employees of UOC and remove OTHER*, UNIVERSITY variables
• Impute missing values
• Convert domain and uoc_position to dummy variables

6. (15 points) Perform PCA on the dataset and plot the observations on the first and second principal components. Describe your results, e.g.,

   • What variables appear strongly correlated on the first principal component?
   • What about the second principal component?

7. (5 points) Calculate the proportion of variance explained (PVE) and the cumulative PVE for all the principal components. Approximately how much of the variance is explained by the first two principal components?

8. (10 points) Perform $t$-SNE on the dataset and plot the observations on the first and second dimensions. Describe your results.

9. (15 points) Perform $k$-means clustering with $k = 2, 3, 4$. Be sure to scale each feature (i.e.,mean zero and standard deviation one). Plot the observations on the first and second principal components from PCA and color-code each observation based on their cluster membership. Discuss your results.

10. (10 points) Use the elbow method, average silhouette, and/or gap statistic to identify the optimal number of clusters based on $k$-means clustering with scaled features.

11. (15 points) Visualize the results of the optimal $\hat{k}$-means clustering model. First use the first and second principal components from PCA, and color-code each observation based on their cluster membership. Next use the first and second dimensions from $t$-SNE, and color-code each observation based on their cluster membership. Describe your results. How do your interpretations differ between PCA and $t$-SNE?