Meets Thursday 9:00-10:00 Physics Room 1131
Instructor: Prof. Keith Lidke
Room 1140, Physics and Astronomye-mail: klidke@unm.edu
phone: (505)277-0302
Overview
The format will be one ~ 30 minute presentation per week of either a research report or a journal paper presentation. Topics will be any aspect of fluorescence super-resolution imaging, single particle tracking, single molecule imaging or spectral imaging. After the contributed talk, I will discuss topics in computing/programming related to the work in my lab. Topics will include object oriented programming in Matlab, generating Matlab mex files, instrument control, using Microsoft Visual Studio, and GPU programming using NVIDIA's CUDA. We may also have a few full-hour talks by external speakers during the semester.Registration is not required for attendance or participation, but please register if you can.
Grading
Credit for the seminar requires attendance and one research or journal presentation.Fall Semester Schedule
| Date | Presenter | Topic | Compute Topic |
|---|---|---|---|
| 20-Aug | Organizational Meeting | ||
| 27-Aug | Dr. Marjolein Meddens | Journal Presentation: "Quantifying and Optimizing Single-Molecule Switching Nanoscopy at High Speeds" | Introduction to OOP in MATLAB |
| 3-September | Dr. Sheng Liu, Dr. Michael Wester, Farzin Farzam | Research Presentation: Phase retrieval and Point Spread Function calculations. | None (Lidke Absence) |
| 10-September | Peter Relich | "Estimation of the Diffusion Constant" | Advanced concepts in OOP in MATLAB |
| 17-September | Farzin Farzam | "Radial Polarization for Imaging / Isotropic TIRF Imaging" | Instrumentation Abstract class; GUI elements. |
| 24-September | Dr. Mark Olah | Introduction to the c-language | NA |
| 1-October | Mohamad Fazel | "RJMCMC for Multiple Fluorophore Fitting." | Introduction to Visual Studio |
| 8-October | All Lidke Lab | Show and tell about instrument control codes. | NA |
| 15-October | Sheng Liu, Farzin Farzam, Marjolein Meddens, Peter Relich | Journal Presentation: "Extended-resolution structured illumination imaging of endocytic and cytoskeletal dynamics" | None |
| 22-October | Genevieve Phillips | Journal Presentation: "Cyanine fluorophore derivatives with enhanced photostability" | Compiling MATLAB mex files. |
| 29-October | Hanieh Farsibaf | "High-Speed Single Particle Tracking" | Survey for new SR codes. |
| 5-November | Peter Relich | "Single Image Gain Estimation" | Compiling MATLAB mex files in Visual Studio |
| 12-November | Mohamad Fazel | Journal Presentation: "FALCON: fast and unbiased reconstruction of high-density super-resolution microscopy data" | Control code updates |
| 19-November | Dr. Mark Olah | "Detecting particle interactions in 2-color and hyperspectral single particle tracking" | Working with SDKs |
| 3-December | Dr. Sheng Liu | Research Presentation | TBD |
| 10-December | Marjolein Meddens | Research Presentation | TBD |