Computational-Biology

This repository was created to maintain the assignments of UW CSEP 527.
We worked on some interesting problems using Hidden Markov Models, Viterbi algorithm, Gillespie algorithm, Smith–Waterman algorithm, and many others.

Biological Problem	Attempted Algorithm
Population Evolution	Gillespie
Genome Alignment	Smith Waterman
RNA Transcript Abundance Estimation	Expectation Maximization
Cluster Cell Types Based On Gene Expression (Single-Cell Analysis)	Dimensionality Reduction (T-SNE) / K-Means Clustering
Differential Analysis	T-tests
Learning Sequences from Observed Data	Viterbi / Hidden Markov Models
Alternative Splicing Prediction	Gradient Descent for L2 Regularized KL-Loss Logistic Regression

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