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Introduction to Machine Learning Homework 6

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HW6 (3)COM S 474/574 Spring 2020
Introduction to Machine Learning
Homework 6
1 Directions:
• Due: Friday April 24, 2020 at 10pm. Late submissions will be accepted for 24
hours after that time, with a 15% penalty. [note: we will keep office hours the same
days/times]
• Upload the homework to Canvas as a pdf file. Answers to problem 1 can be handwritten,
but writing must be neat and the scan should be high-quality image. Other responses
should be typed or computer generated.
• Any non-administrative questions must be asked in office hours or (if a brief response
is sufficient) Piazza.
2 Problems
Problem 1. [25 points] Ch 10 # 2 “Suppose that we have four. . . ”
Show your calculations. Recall that “single linkage” means we define the distance of two
clusters C1 and C2 as the minimum distance of any pair of elements
dist(C1, C2) := min
a∈C1,b∈C2
dist(a, b)
and that “complete linkage” means we define the distance of two clusters C1 and C2 as the
maximum distance of any pair of elements
dist(C1, C2) := max
a∈C1,b∈C2
dist(a, b).
Problem 2. [20 points] On canvas there is Python code HW6-PCA-template, saved as a
Jupyter notebook and a webpage. It applies PCA to a digit dataset. Each image is 8 by 8
pixels and gray scale, thus can be stored as a 64 dimensional vector.
A. Make a plot of the cumulative explained variance. You should get a curve that starts
close to 0 and monotonically increases to 1 (reaching 1 at least when all dimensions are
used).
B. Report the cumulative explained variance for the best two components.
C. Make images of the first five samples using just PCA with n_components=2, and display
them side by side next to the original images. (eg we find the best two-dimensional
projection for the data set, then project back to visualize how much/what information
was preserved.)
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D. In 2-3 sentences, comment on how visually similar (or not) the images made after PCA
transformation are to the originals.
E. Repeat the previous 3 steps with 32 components (half that of the original data).
Problem 3. [20 points] We will apply clustering to the HW 3 data. Just use the HW3train.
csv. Example Python code is posted as HW6-cluster-template.
A. Make a scatter-plot of the data, coloring each data point black.
B. For n_clusters=range(1,16), apply K-means clustering. Make a scatter plot for each.
You only need to include 3 of them in your homework submission. Select the three
pictures whose clusters you think look the best.
C. For bottom-up hierarchical clustering (aka ‘Agglomerative Clustering’), make a dendogram using ‘single’ linkage.
D. Manually select and report a distance threshold for single linkage. Look for regions in
the dendogram where there are few mergers (eg a big vertical gap in distance threshold
between mergers). Use that to make a scatter plot of the data clustered based on that
threshold.
E. Repeat the previous two steps, using ‘average’ linkage.
F. Repeat the previous two steps, using ‘complete’ linkage.
G. Using 1-3 sentences for each clustering method (k-means, single linkage aggl., average
linkage aggl., and complete linkage aggl.), comment on the clusters found and how they
compare to the other methods.
In 1-3 sentences, which clustering method do you think resulted in the best clusters
and why?
If you need more than 15 colors (eg you pick thresholds resulting in more than 15 clusters),
you can pick some at https://htmlcolorcodes.com/ and add their hex values to the colors
list in the code.
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