Will Ludington, Research Fellow

Open (1) Machine learning in the microbiome

Open. Apprentices needed for the fall semester. Please do NOT contact faculty before September 11th (the start of the 4th week of classes)! Enter your application on the web beginning August 16th. The deadline to apply is Tuesday, August 29th at 8 AM.

A complex community of microorganisms inhabits our bodies. These cells interact physiologically with our bodies and with each other. Their interactions have fitness consequences both for us and for other microbes. The goal of this project is to build an understanding of how bacteria make decisions about the consequential interactions they engage in.

We gather a range of data types, and the specific goals for the URAP student revolve around data analysis. Specifically the student will write custom python code to analyze time series data of microbial communities. The student will apply machine learning algorithms including deep convolutional neural networks and standard computer vision approaches.

Qualifications: We are looking for a student with strong quantitative problem solving skills including math and programming. Presumably the candidate would be a math, physics, engineering, or computer science major, but the declared major is not a selection criterion. Python programming (required) MATLAB programming (desired) familiarity with Fourier transforms (required) familiarity with image analysis (desired) familiarity with time series analysis (desired)

Weekly Hours: more than 12 hrs

Related website: https://mcb.berkeley.edu/labs/ludington/