YoVDO

Tropical Geometry of Phylogenetic Tree Spaces

Offered By: Applied Algebraic Topology Network via YouTube

Tags

Tropical Geometry Courses Computer Vision Courses Combinatorics Courses Statistical Analysis Courses Computational Biology Courses Category Theory Courses

Course Description

Overview

Explore the tropical geometry of phylogenetic tree spaces in this 59-minute lecture by Anthea Monod. Delve into the BHV (Billera Holmes Vogtmann) space, a moduli space of phylogenetic trees with applications in computational biology, computer vision, combinatorics, and category theory. Discover the homeomorphism between BHV space and the Grassmannian using tropical geometry, and learn how this tropical structure enhances computational studies. Examine the coincidence between BHV space and the tropical Grassmannian, and gain insights into recent research on the tropical Grassmannian as a metric space. Understand the practical implications of these findings on probabilistic and statistical studies of phylogenetic tree sets. Cover topics such as notation, terminology, phylogenetic tree origins, tree comparison methods, BHV space construction, the BHV metric, tropical geometry examples, statistical challenges, and the tropical metric's stability.

Syllabus

Introduction
Notation and Terminology
Where do phylogenetic trees come from?
Motivation and Overview
Comparing Phylogenetic Trees
BHV Space: A Geometric Construction
The BHV Metric
Defining Phylogenetic Trees as Metrics
Tropical Geometry
An Example: 4 Leaves
Statistical Issues: Stickiness & High Dimensionality
The Tropical Metric
Stability
What else do we know?


Taught by

Applied Algebraic Topology Network

Related Courses

Synapses, Neurons and Brains
Hebrew University of Jerusalem via Coursera
Моделирование биологических молекул на GPU (Biomolecular modeling on GPU)
Moscow Institute of Physics and Technology via Coursera
Bioinformatics Algorithms (Part 2)
University of California, San Diego via Coursera
Biology Meets Programming: Bioinformatics for Beginners
University of California, San Diego via Coursera
Neuronal Dynamics
École Polytechnique Fédérale de Lausanne via edX