About the course

Course offered by Prof. Nassir Navab
Team: Ardit Ramadani, Tianyu Song, Vanessa Gonzales Duque and Shervin Dehghani (Contact the course tutors)
Type: Praktikum (IN2106, IN4136)
SWS: 6
ECTS: 10 Credits

Moodle link: Moodle


TUM Zoom Credentials

Meeting ID: 649 7406 7947

Passcode: PMSDSS23

Table of contents

Announcements

Intermediate presentations (as of 12.06.2023): Zoom link has been provided above, as well as instructions on uploading the presentation's slides through Moodle link. The order of presentations is based on Student ID as indicated in the schedule table below. 

Requirements presentations (as of 03.05.2023): Zoom link has been provided above, as well as instructions on uploading the presentation's slides. The order of presentations is based on Student ID, so we will start from Student ID 01 until Student ID 20 in order. 

Project assignment (as of 21.04.2023): The project assignment has been complete. Please check the projects below to find out which project has been assigned to you. We have tried really hard to fulfill everyone's preferences and include as many supervisors as possible, we hope everyone is happy with the assigned project. You are advised to contact your supervisor as soon as possible to introduce yourself and appoint a meeting to kick-off the project. Good luck!

Choice

Number of students

Percentage

1st choice assigned14 students70%
2nd choice assigned2 students10%
3rd choice assigned1 student5%
4th choice assigned3 students15 %

Tab. Percentage of assigned projects based on student's preferences 

Project Number

Selected by

1010 students
47 students
8 and 204 students

Tab. Top favorite projects (based on student's preferences)

Project announcements (as of 17.04.2023): Projects have been announced. Read through all project proposals and choose three favorite for which you write a short motivation and submit it to Moodle by THURSDAY, 20.04.2023 at 23:59 Munich time. Upload your file as PDF named StudentID-FullName-preferences.pdf (e.g. 05-ArditRamadani-preferences.pdf).The form to apply can be found at "Downloads > Student project application template". We will assign projects once everyone has submitted their preferences, we will try use the combination that maximizes the number of first choices. Until now, only the students that have proposed their own project have been assigned on the table below (those projects are reserved to those students and cannot be chosen from the rest). Good luck!

De-registration deadline: Friday, 31.03.2023, 23:59 Munich Time zone. All students who want to deregister the course without getting booked with a grade, please make sure to send all the course tutors an email for deregistration before the deadline.

Registration for the course (as of 30.01.2023):  Registration through the TUM Matching System is open between 09.02. and 14.02.2023. Results of the matching system will be announced on 23.02.2023. More information you can find on Matching Docs.

Schedule

For lecture sessions, presentation sessions and changes in the schedule, please also refer to TUMOnline.

DateTimePlaceTopicConducted byMaterials
Monday, 30.01.202315:00 - 16:00ZoomPreliminary meeting ("Vorbesprechung")Course tutors
Friday, 31.03.202323:59 CESTEmailDe-registration Deadline
To: All tutors
Monday, 17.04.202311:00 - 12:00

TUM zoom


Lecture 1: Introduction and Project AnnouncementCourse tutors
Tuesday, 18.04.202309:00 - 12:00

TUM zoom

Lecture 2: Presentation Tips and Project Management

Lecture 3: UML

Course tutors
Thursday, 20.04.202323:59 CESTTUM MoodleDeadline to submit project preferencesSeminar Participants
Monday, 15.05.202309:00 - 12:00

TUM zoom

Requirements PresentationsSeminar ParticipantsOrder of presentation from Student ID 01 to 20
Tuesday, 16.05.202309:00 - 10:00

TUM zoom

Lecture 4: Documentation, Tests, Design Patterns & Integration Strategy

Course tutors


Monday, 19.06.202309:00 - 12:00

TUM zoom

Intermediate Presentations Part ISeminar ParticipantsOrder of presentation from Student ID 01 to 10
Tuesday, 20.06.202309:00 - 12:00

TUM zoom

Intermediate Presentations Part IISeminar ParticipantsOrder of presentation from Student ID 11 to 20
Monday, 24.07.202309:00 - 12:00

TUM zoom

Final Presentations Part ISeminar ParticipantsOrder of presentation from Student ID 11 to 20
Tuesday, 25.07.202309:00 - 12:00

TUM zoom

Final Presentations Part IISeminar ParticipantsOrder of presentation from Student ID 01 to 10


Available Projects

Projects will be announced in due time and presented during the Introductory meeting. Please communicate a selection of 3 choices, each with an explanation (ca. 5 sentences) for why you want to work on this project and how you meet the requirements specified in the project proposal. Use the Student Application Template provided in the Download section.

IDTitleSupervisorStudentPDF
1

Medical Device Feedback Reporting

Dr. Stephan Dörfler
2

Object Recognition of Medical Device Classes

Dr. Stephan DörflerSerdar D.
3

Development of a Wearable IMU Sensor System for Balance and Sway Measurement in Patients with Balance Disorders

Mohamad AtayiCelia P.
4

Deep Neural Networks for stimulation artifact recognition and removal in epidural spinal cord recordings

Mohamad AtayiRadu R.
5

Development of a Cloud-based Data Management and Analytics System for Neurostimulation Studies

Dr. Gijs van ElswijkAdrian D.
6

Design and Implementation of a web-based dashboard for evaluation of user studies in a surgical simulation environment

Shervin Dehghani and Michael Sommersperger
7

Development of a preoperative plan plugin for fracture and deformity correction treated with the iFixation Hexapodalic platform

Fernando Garnica
8

Confidence Maps implementation in MONAI

Vanessa Gonzalez DuqueBugra Y.
9

Managing multi-reader medical imaging annotations with CVAT

Mickael Tardy
10

Image processing for Digital Breast Tomosynthesis

Mickael TardyBerfin K.
11

Integrating Single-Cell and Spatial Transcriptomics via Deep Learning Generative models and in a Contrastive Method

Mohammad LotfollhiMostafa S.
12

Development of a Mo Biosignal Visualization App with Flutter

Dr. Sebastian HerbergerGhaith C.
13

Development of a PyQt Based Plugin to Quantify System Performance for Explore Desktop

Dr. Sebastian Herberger
14

Improving Human Motion Capture Algorithms for Orthopedic Assessments

Dr. Lara Marie ReimerFinn G.
15

Real-time Visualization and Guidance for Neural Radiance Fields

Mahdi SalehHaoyang S.
16

Augmented Reality See-Through Walls for Intuitive Patient Monitoring during an X-Ray Acquisition

Kevin Yu and Tianyu Song
17

Automated 3D mesh preparation and parameter determination for SPH simulations

Diogo Ferreira de Almeida, John Benjamin and Moritz JungZichen Z.
18

Propagating anatomical measurements over point cloud meshes registration

Diogo Ferreira de Almeida, Ching-En Lin and Moritz JungDongha L.
19

Benchmarking Statistical Analysis of Anatomical Measurement

Ching-En Lin and Gentrit BegajRuxandra P.
20

Deep Learning-based Digital Breast Cancer Diagnosis (collaboration with Stockholm)

Zhikai Yang

Umaid Z.

21

Visualization tool for the evaluation of medical image registration

Dr. Veronika ZimmerRachelle T.
22

Deformation of soft tissue using physics-based simulator

Dr. Thomas. Wendler, Farid Azampour, and Yordanka VelikovaJovana L.
23

Segmentation of COVID pathological changes and surrounding organs for longitudinal analyses

Dr. Thomas. Wendler and Francesca De BenettiJorge P.
24

Biomechanics-constrained registration of thorax CTs for longitudinal analyses

Dr. Thomas. Wendler and Francesca De BenettiJakob R.
25

Interpretable Alzheimer’s Disease Classification with Clinical Features

Tom Nuno WolfPablo C.

Students

IDNameIDNameIDNameIDName
01Jorge P.06Jovana L.11Bugra Y.16Mostafa S.
02Umer S.07Zichen Z.12Celia P.17Ghaith C.
03Pablo C.08Dongha L.13

Radu R.

18Finn G.
04Jakob R.09Haoyang S.14Ruxandra P.19Adrian D.
05Umaid Z.10Serdar D.15Berfin K.20Rachelle T.

Preliminary Meeting

Topic: PMSD SS23 - Preliminary meeting
Time: Jan 30, 2023 03:00 PM Amsterdam, Berlin, Rome, Stockholm, Vienna

Link:

Meeting ID
Passcode:

Prerequisites and Registration

This course requires basic knowledge of C++ or similar OO programming language. The concepts of OO programming and other concepts as conducted in the Introduction to Computer Science lecture are assumed.Registration through the TUM Matching System is mandatory. Your chances to be assigned to the course increase if you give the course a higher rank in your choices. If you already have a potential project, notify the course tutors via e-mail as soon as possible. This increases your chances to be assigned to the course, but you have to register through the matching system in any case. For further details about how the matching system works and its schedule please check the documentation.

Project Proposals

In this lab course, students work on clinical software projects and find solutions for problems in the field of medical applications. The student's workload should be around 10-14 hours per week for a period of 3 - 4 months on the assigned project (10 ECTS course).

Each project is expected to have one contact person (supervisor) who should be available for regular updates or if the student needs any help. In addition, the supervisors are kindly invited to participate in the student presentations (Requirements, Intermediate, Final) taking place at the CAMP chair. Each project supervisor will decide on 50% of the grade based on the student’s performance in the project. The other 50% will be decided upon by lecturers, based on the quality of project management and presentation skills of the student.The project proposal should give a short introduction into the context and describe the most important aspects and expected outcome of the project. Furthermore it should clearly state the required (and optional) skills (programming language, experience with certain libraries etc.).

If you have a suitable project, preferably with a clinical or industrial partner, you are kindly invited to fill out the project proposal template and send it to the course tutors. The deadline for proposal submission is two weeks before the beginning of the lecture period for the Summer Semester 2023.

Downloads

* TUM Informatics Student Code of Conduct

* TUM Citation Guide

* CAMP presentation slides for PowerPoint:  CAMPmaster.ppt

* CAMP presentation slides for Latex

* Student project application template

* Supervisor project proposal template

Literature and Resources

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