Answered step by step
Verified Expert Solution
Question
1 Approved Answer
tsne_scores.csv is single-cell gene expression dataset of Arabidopsis thaliana root cells processed by a 10x genomics Cell Ranger pipcline. The dataset is pre-processed t-SNE dimensionality
"tsne_scores.csv" is single-cell gene expression dataset of Arabidopsis thaliana root cells processed by a 10x genomics Cell Ranger pipcline. The dataset is pre-processed t-SNE dimensionality reduction technique. You will use the t-SNE vectors to identify the clusters using DBSCAN. 1. Compute required parameters (MinPts, eps) for DBSCAN clustering as illustrated in lab4 notebook a. Sinec you have 2 dimensionality in the dataset, what is the value of MinPts should be? b. Based on your choice of MinPts, use the ktt Nearest Neighbors to find the optimal value for eps (make the k value as (MinPts+1) ). 2. Pass the calculated parameters to the DBSCAN to predict the clusters using the skleam.cluster.DBSCAN class. 3. Visualize the cluster as a scatter plot and color the clusters using predicted class labels. Question 2: [PLO K1/CLO 1/ SO 1] [3 marks] 1. Using the same dataset question 1, apply kmeans and hicrarchal clustering (ward method) 2. Apply elbow method and show dendrogram to choose the best value for the number of clusters. 3. Compare the clustering results of kmeans and hierarchal clustering to DBSCAN's results
Step by Step Solution
There are 3 Steps involved in it
Step: 1
Get Instant Access to Expert-Tailored Solutions
See step-by-step solutions with expert insights and AI powered tools for academic success
Step: 2
Step: 3
Ace Your Homework with AI
Get the answers you need in no time with our AI-driven, step-by-step assistance
Get Started