The 3rd International Workshop on Monte Carlo eXtreme for Biomedical Optics Research (MCX'19)
- 1. Summary
- 2. Event agenda
- 3. Laptop preparation instructions
- 4. Directions and logistics
- 5. Organizer contact info
- ISEC 138 (1st floor), Northeastern University, 805 Columbus Ave, Boston, MA 02115
- Aug. 8-9, 2019
- We are the developers of MCX and MMC, two NIH-funded high-performance Monte Carlo photon transport simulation platforms that are widely distributed among the biophotonics research community. We organize this two-day event to train our software users - particularly students and researchers in the biophotonics/imaging areas - to properly and efficiently use our photon simulation packages. We will cover various tools we have developed, including MCX, MMC, MCXLAB/MMCLAB, MCX Studio and Iso2mesh (for 3D mesh-generation). We will show our participants via interactive sessions on how to define simulation domains, setting critical parameters, running simulations, and displaying results.
- How much is the registration fee
- Free! We thank the funding support from the NIH/NIGMS under Award# R01-GM114365. This event is not possible without this support! (Participants are responsible for the travel and lodging cost. We have limited funding for student travel grant and subsiding on-campus housing, please see registration form for details.)
- What do you need
- A laptop that can be connected to the Internet using Wifi/cable. We will have a reception/poster session on Day 2 (Aug. 2), we encourage all attendees to present a poster for your related research.
- How to register
- Registration has closed. If you have questions, please contact the organizer.
2. Event agenda
Day 0 (Aug. 7) - ISEC 232 (second floor)
- 5:30-7:30PM Badge pickup, user laptop preparation (pre-workshop)
Day 1 (Aug. 8) - ISEC 138 (first floor)
- 8:00-9:00 Breakfast (provided), badge pickup, user laptop preparation
- 9:00-9:15 Opening (Monte Carlo algorithm, MCX project overview) [Qianqian Fang]
- 9:15-11:00 MCX Studio Training [Qianqian Fang]
- 9:15-9:45 Basics of MCX Studio (GUI, built-in demo, remote execution, visualization, use binary data)
- 9:45-10:15 Designing complex domains using MCX Studio
- 10:15-10:45 Hands-on session on MCX Studio
- 10:45-11:00 Break
- 11:00-12:30 MCXLAB Training [Yaoshen Yuan]
- 11:00-11:15 MCXLAB Introduction
- 11:15-11:45 MCXLAB interactive demos
- 11:45-12:30 Hands-on session on MCXLAB
- 12:30 PM - Group photo (at the ISEC atrium)
- 12:35-1:30 PM Lunch Break (lunch provided - ISEC Atrium)
- 1:30 PM - Starting MMC/iso2mesh training session
- 1:30-2:45 PM Iso2Mesh/Brain2Mesh training [Qianqian Fang]
- 1:30-2:00 PM Introduction to Iso2Mesh and demos for basic mesh generation
- 2:00-2:15 PM Hands-on session on Iso2Mesh basic meshing features
- 2:15-2:30 PM Generating high-quality human brain 3D meshes [Shijie Yan]
- 2:30-2:45 PM Hands-on session on Brain2mesh
- 2:45-3:00 PM Break
- 3:00-4:00 PM MMCLAB Training [Shijie Yan]
- 3:00-3:30 PM MMC algorithm and simulation basics
- 3:30-4:00 PM Hands-on session on MMCLAB for brain simulations
- 4:00-5:00 PM (NEW!) Redbird-m training - a fast MATLAB-based diffusion forward/inverse solver [Edward Xu]
- 4:00-4:30 PM Redbird-m overview and demos, interact with MMCLAB
- 4:30-5:00 PM Hands-on session on Redbird-m
- 5:00-6:30 PM Break
- 6:30-8:00 PM Dinner (Faculty Club, 6th floor, 716 Columbus Ave, Boston)
Day 2 (Aug. 9) ISEC 138 (first floor)
- 8:30-9:30 Breakfast (provided, poster setup in RM 138)
- 9:30-11:30 Invited talks
- 9:30-10:15 Talk 1 - Dr. Steven L. Jacques, Tufts University
- Title: Tissue spectroscopy, spectral imaging and machine learning
- 10:15-10:45 Talk 2 - Dr. Paolo Cassano, Massachusetts General Hospital
- Title: Transcranial Near-Infrared Light: Shooting in the Dark. Could MCX guide us?
- 10:45-11:15 Talk 3 - Dr. Stefan A. Carp, Massachusetts General Hospital
- Title: Modeling of cerebral perfusion measurements using MCX photon momentum transfer tracking
- 11:15-11:30 PM Break
- 11:30-12:30 PM MCX/MMC advanced simulation features demo and hands-on [Shijie Yan]
- 12:30-1:30 PM Lunch break (lunch provided - ISEC Atrium, poster setup)
- 1:30-2:30 PM MCX/MMC developer guide and closing remarks [Qianqian Fang]
- 2:30-4:30 PM Poster session, social hours, developer meetings
- 4:30 PM Concluding Day 2
- Collaboration/troubleshooting meetings can be arranged with the MCX/MMC team in the afternoon of Aug. 9th. Please provide the meeting request via email to the organizer to arrange for collaboration meetings.
3. Laptop preparation instructions
Please follow the instructions in Workshop/MCX19Preparation to prepare your laptop before attending the conference. If properly configured, you should be able to run mcxcl simulation inside MCXStudio, and listing GPUs using mcxlabcl in MATLAB.
4. Directions and logistics
If you have booked the on-campus housing, or require location transportation to arrive at NU campus, please read our Logistics Letter on the directions and check-in information.
For those of you who will travel locally to attend this event, please try to utilize the subway (the "T") if possible. The ISEC building is just a short walk from the "Ruggles" Orange Line T station.
If you have to drive, please check out the parking information in the Logistics Letter. If you need a parking voucher, please contact Dr. Fang ahead of the event. The address for the ISEC building is 805 Columbus Ave, Boston, MA, and the address for the Renaissance Parking garage is at 835 Columbus Ave, Boston, MA 02120.
5. Organizer contact info
If you have any questions regarding this event, please feel free to contact the organizers. Their contact info is listed below.
- Prof. Qianqian Fang
- Email: q.fang at neu.edu
- Phone: 617-407-5769 (cell), 617-373-3829 (office)
- Office: ISEC 223
- Xin Sun (workshop coordinator)
- Email: sun.xin1 at husky.neu.edu
- Phone: 857-272-4545 (cell)