. EECE5698 SSI Course Home Page

EECE5698 --- Subsurface Sensing and Imaging --- Spring 2011

Prof. DiMarzio | Course Syllabus (.pdf) TA: Masoud Rostami msdrstm @ gmail.com

Office Hours:
Prof. DiMarzio: TBD ?pm to ?pm, 302 Stearns
TA Masoud Rostami msdrstm @ gmail.com

Homework (.pdf files): | Homework 1 | Homework 2 | Homework 3 |

.pdf files:| HW1 Solutions |

Class Notes (.pdf files): | Lecture 6 | Lecture 7 | Lecture 8 | Lecture 8 Monte-Carlo Presentation | Lecture 9 | Lecture 9 Microscopy Presentation |
| Lecture 10 | Lecture 10 DOT Presentation | Lecture 11 | Lecture 12 Presentation by Prof. Brooks |
Lecture 13 Presentation by Prof. Brooks | Lecture 13 Notes by Prof. Brooks | Lecture 13 Matlab file by Prof. Brooks |
| Lecture 14 | Lecture 15 | Lecture 15 API Presentation | Lecture 16 | Lecture 17 | Lecture 18 |
| Lecture 19 | Lecture 20 Presentation | Lecture 21 |
| Prof. Rappaport's Slides (Lec 22) | Lecture 23 | Lecture 24 |

Papers on THz. Sensing: Cook, 2000 | Dai, 2010 | Liu, 2009 | Liu, 2010 |
Papers on Negative Index: Parimi 2004 | Fu 2005 |

Announcements (Updated 1 May 2011)

(1 May 2011) Thanks to all of you for your participation in this course. I have enjoyed teaching it, and I appreciate the contributions that so many of you made to the course. I know that participating in a course of this scope electronically has been a challenge for you as well as for me, and I sincerely appreciate your efforts. I look forward to seeing you as you continue your graduate careers at Northeastern.

(28 Apr 2011) Final papers may be emailed to me as .pdf files. Please don't send any other kind of file. When I open a .docx file, it usually looks quite different than it looks to the person who created it. Thanks.

(16 Apr 2011) My last note combined two issues, and caused a lot of confusion. Let me explain correctly here. (1) The HW3 reports were due last night, as I think everyone understood. (2) The presentations on term projects are Tuesday, 19 April, in class, as we have discussed, and I think everyone understands that. (3) The reports on the term projects are due Thursday, 28 April. Sorry for the confusion.

(14 Apr 2011) The Blackboard dropbox for HW3 is open. Reports are due by Thursday, 28 April.

(11 Apr 2011) Two papers on Negative Index are posted, along with all the lecture notes. Reminder: No class Friday. Bring your presentation on a memory stick Tuesday and arrive a few minutes before class, or send it to me Monday night.

(7 Apr 2011) Four papers on Terahertz imaging are posted above.

(18 Mar 2011) The corrected solutions for HW1 are now posted.

(17 Mar 2011) There is some confusion about the lab experiment. Two groups have been combined, so we have a total of four rather than five. The other three groups will remain as they are. You may submit one report per group.

(16 Mar 2011) The solutions for HW1 are now posted.

(14 Mar 2011) The most recent lecture by Prof. Brooks is now posted.

(12 Mar 2011) Homework 3 is posted. Work with the TA (email above) to set up a time to do the lab work. I'm going to try to consolidate two groups for this experiment so there will be a total of four groups. I will email someone from each group to try to make this happen.

(8 Mar 2011) As mentioned in class today, I would like each group to email me a project status report. I'm not looking for a major report, but simply an update to help me help you.

(6 Mar 2011) I realize that HW2 is an open-ended problem. I assigned it to get everyone thinking about the differences among Beer's Law, Diffusive Imaging, and MCML. Watching the discussion, I realize it was a much more open-ended problem than I intended, but it seems that it is leading people to a really good understanding of wave propagation in scattering media. Therefore, I am going to extend the deadline from Tuesday to Friday. I will comment on the problem in class on Tuesday. Meanwhile keep up the good work, and the discussion online.

(2 Mar 2011) I've corrected some errors in the presentation material for lecture 10. Check that your copy says (rev1) at the bottom of each page.

(2 Mar 2011) My solution to HW1 Problem 2 is posted above. The result agrees with the earlier solution from the book.

(2 Mar 2011) Looking at the book solution I posted, it is not quite what I had in mind. I was expecting to see the integrals over the three layers, with careful attention to the attenuation. I'll post my own solution later. The approach in the book seems right, but I haven't checked the numbers myself. I'll have a look this afternoon.

By the way, for those of you who have been working the MC problem with index of refraction greater than one, the Fresnel reflections at the surfaces become complicated. When light is scattered into all directions, the Fresnel reflection is no longer at normal incidence, and the reflection coefficient increases. In fact, some angles of incidence will exceed the critical angle and produce 100% reflection. This effect is real. If laser light enters skin, it scatters into all directions, and light that is backscattered toward the surface is strongly reflected back into the skin. The result is much higher fluence rate in the skin near the surface than one would have expected using ((n-1)/(n+1))^2.

(2 Mar 2011) Some people report the solution to HW1 link being broken. It works for me on Firefox 3.6 under Linux, and the browser that comes with KDE. For those of you having trouble, here is the link . There was some confusion about these links. When Freddy reported the broken link, I thought he meant the Haskell paper, but I'm sure now he meant the homework solution. In any case, the homework solution is two2ten.pdf on this site, and the Haskell paper is haskell1994.pdf

(2 Mar 2011) The broken link to the Haskell paper is fixed.

(1 Mar 2011) The Haskell paper mentioned in class is here.

See the blackboard discussions for solutions to the problem of HW1 that is related to the current assignment.

(23 Feb 2011) Chapters 5 and 6 have been posted on Blackboard. Thanks to Francesca in the CenSSIS office for handling this.

(22 Feb 2011) I have posted the Tuesday lecture by Prof. Brooks, as Lecture 12. I have also posted the second homework which will be due the Tuesday after Spring Break.

(11 Feb 2011) HW 1, Pr 3. I don't like the wording in this problem (2.2-3 in the text). The implication of "detect a target" implies to me that there is a reflection of some sort from a transmitter to a receiver. In fact, the problem actually assumes that the detector is detecting the source itself, rather than scatter from a target. I guess we can expect this because no backscattering cross-section is given.

(11 Feb 2011) A dropbox has been created for HW1 on Blackboard. Please submit your assignment there.

(8 Feb 2011) Homework 1 is due Monday, 14 Feb, 2011, to be submitted electronically on Blackboard. I will create the location for it this evening.

The textbook is expected in the bookstore on or before 27 Feb 2011. Chapters 3 and 4 are now posted on Blackboard.

I have received some questions about the projects. Let me offer the following suggestions: The project for SSI is 35% of the course grade. If you spend three times the class time in working on a course (a good number for a 5xxx level course, I think), for 14 weeks, that's about 45 hours per person. Of course this is just a rough number, but it's probably a good guideline.

The project is not to be a literature survey, although you should do one to get started. I'd also like to see some combination of computational modeling, possibly an experiment, and some mathematical analysis. The report and presentation should each have something like introduction, background, theory, maybe an experimental section, results, discussion, and conclusion. Exact details will depend on your project.

(4 Feb 2011) By popular request (one student actually), I have added the file for bhmie.m to the supporting material below. You may find it useful to explore the range of wavelengths, particle sizes, and indices of refraction. What happens if you make the imaginary part of the index of refraction negative? I haven't tried it. Also, I have posted a .pdf of the notes I used in class for Tuesday's lecture, above under "Class Notes." I plan to continue to do so, but in the future, I'll try to post directly after class. Remote students may find it useful to print these before viewing the lecture, as I'm told that the updating algorithm makes it hard to follow the lecture on the slides.

(29 Jan 2011) Homework Set 1 is posted. Next week I will give a lecture that relates to Problem 2. Then I will set the due date.

(20 Jan 2011) As announced, I will be on travel through the end of January. I have pre-recorded two additional lectures and they will be posted on the Blackboard site for all to view. Please note that there will be no activity in the classroom for Friday and next week. You will view the material through streaming video.

Some of the groups are being organized, and starting to think about a project. I intend to be quite flexible about the groups. Ideally groups will consist of 3 to 5 people, and a mix of graduate/undergraduate full/part-time, but the important point is to be able to work on a project you find interesting. When I get back, hopefully the groups will be formed.

I will be posting the first homework in the next couple of days.

(14 Jan 2011) There are references to Appendices A and B in the first two chapters. I have asked for these appendices to be posted to the Blackboard site. This should happen early next week.

(11 Jan 2011) If you are not yet registered for the course and you would like to post on blackboard, send me an email of what you would like to post and I will post it for you.

(7 Jan 2011) Chapters 1 and 2 of the book are posted on Blackboard. Please do not distribute these to anyone who is not in the class.

(22 Dec 2010) Note about the book: The book will not be published until the end of February. I will make .pdf files of individual chapters available as they are needed, until that time.

(22 Dec 2010) The syllabus is now posted above. It is still tentative, but should give you a rough idea of the material we plan to cover, and the organization of the course. Our first meeting will be on 11 January from 1:35 to 2:15, in 260 WVF. For those of you "out there in the heartland" the video streaming should be available within 24 hours after the lecture. Good holidays. See you in January.

(17 Dec 2010) We have been informed that "that EECE5XXX classes that include undergraduate students should follow the undergraduate calendar." This means classes begin on 10 January and end on 20 April. For this class, the first meeting will be Tuesday, 11 January, and the last day will be Tuesday, 19 April.

(29 Nov 2010) Welcome to Subsurface Sensing and Imaging. Some ten years ago, Prof. Silevitch organized a team to develop CenSSIS, now called the Gordon Center for Subsurface Sensing and Imaging Systems. The idea was to develop a systematic approach to diverse imaging problems (medical, biological, underground, undersea, etc.) with similar solutions. My group's experimental research on biomedical optics was a large part of the original work of the Center. In 2003, Prof. Brooks and I developed a course entitled Subsurface Sensing and Imaging, offered to advanced undergraduates, addressing analytical models, instrumentation and signal processing for subsurface problems, with experimental work in a research laboratory environment. The course has spread to the other universities affiliated with CenSSIS, and has been offered many times by many faculty members.

Some members of the CenSSIS team, led by Prof. Bahaa Saleh, now of University of Central Florida, have written a textbook which provides coverage of all aspects of the field. In the spring of 2011, I will offer the course, using this textbook. The book is due to be published in February. Until then, we will use .pdf files of specific chapters. This time, the course will be jointly listed with a special topics number for graduate and undergraduate students. Content and approach will be similar to the last time the course was taught. The old website is listed below. During December, I will complete a syllabus and begin to migrate the course material to the current page.

The course is offered on video streaming and is available to students at partner universities. For further information go to http://www.ece.neu.edu/courses/eece5698/2011sp/ssi-info.html.

I plan to have the course focus on team projects: A few hard homework problems as opposed to a large number of easy ones, projects as opposed to exams, and one laboratory project in one of our research laboratories. http://www.ece.neu.edu/courses/eceu692/2006sp/index.html.

Supporting Material
http://www.ece.neu.edu/courses/eece5698/2011sp/matlab/miedemo.html Mie Scattering Demonstration
http://www.ece.neu.edu/courses/eece5698/2011sp/matlab/bhmie.m Mie Scattering Matlab Code: BHMIE
http://www.ece.neu.edu/courses/eece5698/2011sp/radiometry.pdf Radiometry Terminology Chart
http://www.ece.neu.edu/courses/eece5698/2011sp/skin.png FDTD Skin Model
http://www.ece.neu.edu/courses/eece5698/2011sp/Eznormal_conj_sim_lensy486_0.avi FDTD Movie
http://omlc.ogi.edu/software/mc/ Monte-Carlo Simulation Page. Look for .exe file or source code for MCML, and MCML Manual.
http://www.ece.neu.edu/courses/eece5698/2011sp/hb.pdf Light Absorption by Blood. Plot of absorption and diffuse reflectance spectra.
http://www.ece.neu.edu/courses/eece5698/2011sp/11418w.pdf Presentation on Microscopy for Lecture 9
http://www.ece.neu.edu/courses/eece5698/2011sp/joesfilt.mat Image for Filtering
http://www.ece.neu.edu/courses/eece5698/2011sp/joeshist.m Histogram Equalization
http://www.ece.neu.edu/courses/eece5698/2011sp/joeshomomorphic.m Homomorphic Filter
http://www.ece.neu.edu/courses/eece5698/2011sp/hbspec.m Hemoglobin Spectrum Function in Matlab
http://www.ece.neu.edu/courses/eece5698/2011sp/2231.dat Hemoglobin Data for hbspec.m
http://www.ece.neu.edu/courses/eece5698/2011sp/hbdemo.m Hemoglobin Spectrum Demo Script in Matlab
Other Resources

For help with Matlab, you may find this tutorial useful. http://people.cs.ubc.ca/~murphyk/Software/matlabTutorial/html/index.html. Thanks to Tom Gaudette (NU ECE BS 1996, MS 1998), at Mathworks for passing this along.

ABOUT THE BACKGROUND: My favorite winter passtime is skiing. I put this background together from a detail of a photograph taken at Park City, in 2003. There are four copies in different orientations so that the tracks (and more importantly, the brightness levels) line up as the pattern repeats.