pca_umap_plot.py

pca = PCA(n_components=100)
pca.fit(mat)
mat_reduce = pca.transform(mat)
embedding = umap.UMAP(n_neighbors=5,
                      min_dist=0.5,
                      metric='euclidean').fit_transform(mat_reduce)
plt.figure(figsize=(15,15))
plt.scatter(embedding[:,0],embedding[:,1],s=0.2);
plt.title('Naive clustering');