bimagicLab<bioimage informatics lab > home \ people \ research \ publications \ teaching \ contact 42-731/18-795: Advanced Bioimaging The instructor for this course is Jelena Kovačević. Basic course information The course will meet for one lecture and one lab/recitation/reviewsession each week. Course web site Course date and times: Tue-Thu, 2:30-4:20pm, 1004 Hamburg Hall Instructor’s office hours: Tue, 1:30-2:30pm, HH 121 (map) Contacting the Instructor: The best way to contact me is by email(jelenak at cmu dot edu). Putting "42-731" or "18-795" in the Subject line guarantees a faster response from me. TAs: Gowri Srinivasa, Charles Jackson and Heather Kirschner TA’s office hours: Mon, 3:30-5:00pm, ECE undergraduate lounge (HH 1113) All course material will be posted at the course site. Lecture topics can change without notice depending on the students enrolled andtheir backgrounds. A prerequisite for this course is 18-396 Signals and Systems or equivalent. Course goals The goal of this course is to expose you to multiresolution signal processing methods and their use in bio(medical) imagingapplications as well as to guide you through the steps of a researchprocess. The course is roughly divided in two parts: The first part introduces all necessary mathematical tools with a great emphasis on intuitive understanding of how they operate on real-life signals while keeping the necessary mathematical rigor. The second part is project-based, where, through your own bio(medical)imaging project, you will learn how to choose a research area, formulate a problem, research previous work, propose your own solutions, carryout experiments and interpret results. The focus is on training you tobecome a researcher. To that end, you will write papers in a typicallyconference format, rehearse your presentations with feedback both fromthe instructor and other students in the class, as well as present yourproject as part of the Biomedical Engineering Department seminar. Upon successful completion of this course, you will be able to: Explain the importance and use of Hilbert spaces and signalrepresentations in building more sophisticated signal processing tools,such as wavelets. Think in basic time-frequency terms. Describe how Fourier theory fits in a bigger picture of signalrepresentations. Use basic multirate building blocks, such as a two-channel filter bank. Characterize the discrete wavelet transform and its variations. Construct a time-frequency decomposition to fit the signal you are given. Explain how these tools are used in various applications. Apply these concepts to solve a practical bioimaging problem throughyour independent project. Through an independent project, you will learn to recognizetechniques covered in the course, evaluate their usefulness in the real world and compare them to other techniques available. You willalso develop your own algorithm to solve a practical problem. My stress in this course is on the process of learning. If you strive tounderstand and apply the concepts you learned in class, you will be successful in it. Asking questions and doing is the best way tolearn. There are no stupid questions. You are not in class toimpress me but to learn and develop one step closer to being anindependent researcher. Asking a lot and early is the way to go. Do not wait for five minutes before homework due time/midterm/projectpresentation to ask a question because I will not have sufficienttime to go into details with you. I will continuously assess how the course is going by usingfeedback from you. I will give you an anonymous 5-minute questionnaire at the end of each class where I will ask you to rateand give comments on a variety of topics to do with the course:from my preparation and delivery, to the level of difficulty ofhomeworks and anything else you wish to add. I will use that toanswer your concerns and to improve your learning experience. Iwill not see these forms, someone else will type them for me.Course materials The required textbook for this course is Wavelets and Subband Coding, by Martin Vetterli and Jelena Kovačević . For the more mathematically oriented, I also recommend A WaveletTour of Signal Processing, by Stephane Mallat. In addition to the textbook, handouts will be provided on thecourse site. Grading policies Class participation Active class participation is very important. It will count as much as homework towards the final grade. After each class, I will note your levelof participation. Active participation means getting to class prepared,reading the assigned text, doing your homework and getting involved indiscussions. You will be expected to read the material indicated on thecourse site prior to coming to class (except for the first day of class). Ipraise effort, not necessarily right answers. I do not expect you to havemastered the material before coming to class (this is what we do together), but I do expect you to put in a serious effort to try and masterit. Homeworks Homeworks will be given and solutions posted at this course site.Students are required to turn in their homeworks on time, by thebeginning of the class, on the day the homework is due. Homeworks willcount toward the final grade. Midterm Midterm will be given in class. Final There will be no final exam. Project You will be expected to do an independent project. Grading Grading is absolute, not on a curve. This means I will grade you basedsolely on your work and will not compare you to the others in the class.This is done so that you can obtain a grade based on your independentperformance and not in competition with others. This also means that everyone can get an A (everyone can get an R as well, but I am hopingyou will strive for better). The final grade will be calculated as follows: 10%: class participation,10%: homework, 30%: midterm, 50%: project.Projects Project format You will be expected to complete an independent project as part of thecourse. You should work in groups of two or three. You will have to writetwo papers and give a presentation at the end of the term. Project content You will be expected to write two 4-page conference-style papers (I will provide you with a template): the first on the background of yourapplication, and the second on your work. Project presentation The whole class will present their projects as a BME seminar on the lastday of the class. We will do a dry-run for those presentations the week before. Your