Universität Wien
Achtung! Das Lehrangebot ist noch nicht vollständig und wird bis Semesterbeginn laufend ergänzt.

300154 UE 3D Image data: processing, landmarking and template building (2021S)

3.00 ECTS (2.00 SWS), SPL 30 - Biologie
Prüfungsimmanente Lehrveranstaltung
DIGITAL
Moodle

An/Abmeldung

Hinweis: Ihr Anmeldezeitpunkt innerhalb der Frist hat keine Auswirkungen auf die Platzvergabe (kein "first come, first served").

Details

max. 15 Teilnehmer*innen
Sprache: Englisch

Lehrende

Termine (iCal) - nächster Termin ist mit N markiert

Dates and times will be decided with the participants during the Vorbesprechung

Veranstaltungsort ist der Computerraum des Mikro-CT-Labors (bereits reserviert), sofern der Zugang zu den Räumlichkeiten der Universität möglich ist. Andernfalls wird es online, mit Skype oder gleichwertigen Mitteln durchgeführt.

  • Montag 15.03. 13:00 - 14:00 Digital (Vorbesprechung)
  • Montag 10.05. 13:30 - 15:00 Digital
  • Montag 10.05. 17:00 - 18:30 Digital
  • Dienstag 11.05. 16:30 - 17:30 Digital
  • Dienstag 11.05. 20:00 - 22:00 Digital
  • Mittwoch 12.05. 16:30 - 19:30 Digital
  • Freitag 14.05. 12:00 - 15:00 Digital
  • Montag 17.05. 13:30 - 15:00 Digital
  • Montag 17.05. 17:00 - 18:30 Digital
  • Dienstag 18.05. 16:30 - 17:30 Digital
  • Dienstag 18.05. 20:00 - 22:00 Digital
  • Mittwoch 19.05. 16:30 - 19:30 Digital
  • Freitag 21.05. 12:00 - 15:00 Digital

Information

Ziele, Inhalte und Methode der Lehrveranstaltung

The main aim of the course is applying virtual tools and techniques in order to build a template dataset suitable for the investigation of a given biological object in order to address hypothetical biological question(s). The participants will be offered diverse didactical data sets from which to choose. The template for the analysis of the biological object(s) chosen will be built using coordinate variables (i.e., landmarks, curve semilandmarks, surface semilandmarks, pseudolandmarks, outlines). Other variables, such as surface area or volume can be considered too. Literature pertinent to the biological object selected will be provided for facilitating the formulation of possible biological questions. Further reading will be up to the participant.
Additionally, Amira software advanced tools (e.g., superimposition of datasets, advanced image segmentation) will be illustrated.
Amira and EvanToolbox will be available to the participants and will be mainly used.
(Participants are asked to have a capable hard disk to work on.)

Art der Leistungskontrolle und erlaubte Hilfsmittel

Attendance: attendance of the course is compulsory. Absences are allowed up to 80% of the total number of hours. During the course, the participants will be practicing tools and techniques useful for image manipulation and specifically suited for the data set they have selected. Discussion on the possible hypothetical biological questions to address will be constantly held in the class.
Homework exercises: participants are asked to complete works left unfinished during the class time and are invited to practice in the computer room after the class hours
Test: At the end of the course participants must present the outcome of their work to the teacher and the rest of the class (see section Prüfungsstoff - Englisch). One lesson (usually the one preceding the date of the exam) will be specifically devoted to practice tools and procedures necessary to successfully pass the exam.

Mindestanforderungen und Beurteilungsmaßstab

In order to attend the course, the participants are required to have passed the basic course 300038-1 UE Virtual images manipulation and segmentation. Alternatively, they should have independently acquired basic skills in 3D virtual image manipulation.

Prüfungsstoff

Through the course and with the constant support of the teacher, the participant will be asked to work on a given 3D image data set, built a template data set (with the aim to address hypothetical biological questions). The outcome of this work must be orally presented to the teacher and the rest of the class using a slide presentation. The focus of the presentation is mainly on the methodological aspects. However, no statistical analysis is requested since that is not the purpose of the course (moreover, the participants will mostly work on a sample composed of one single specimen). The files produced (presentation file and networks) should be handed in for evaluation. The performance of the student will be evaluated mostly based on the technical skills applied for the development of the project. Clarity and completeness of the presentation will be considered as an additional merit. The exam is based on the content of the course and on topics thoroughly discussed in class.

Literatur

Zuordnung im Vorlesungsverzeichnis

MAN W5, MAN 3

Letzte Änderung: Fr 12.05.2023 00:23