Praćenje stanica u mikroskopskim snimkama

undergraduate thesis

• Title (english): Cell tracking in microscopic sequences
• Author: Domagoj Razum
• Mentor: Igor Lacković (mentor)
• Committee member: Igor Lacković (predsjednik povjerenstva)
• Committee member: Dominik Džaja (član povjerenstva)
• Committee member: Goran Šeketa (član povjerenstva)
• Granter: University of Zagreb; Faculty of Electrical Engineering and Computing; Zagreb
• Defense date and country: 2018-07-13, Croatia
• Scientific / art field, discipline and subdiscipline: TECHNICAL SCIENCES; Computing
• Scientific / art field, discipline and subdiscipline: TECHNICAL SCIENCES; Electrical Engineering

Abstract

U ovom radu ukratko su objašnjene metode detekcije, klasifikacije i praćenja objekata u
video snimkama. Rad se fokusira na praćenje i analizu oblika i kretanja stanica u
mikroskopskim snimaka. Analizirani su neki od dostupnih programa (iTrack4U, TrackMate)
za automatsko praćenje stanica, te su opisane njihove funkcionalnosti i statistički podatci
koje mogu izračunati analizom kretnja stanica. Poboljšane su mogućnosti programa
CellTracker i to tako da je implementiran algoritam za izračun površine stanice koja se prati
i omogućeno je crtanje obrisa svih vidljivih stanica unutar slike. Korištene su javno dostupne
mikroskopske snimke i video snimke in vitro kultura živčanih matičnih stanica. Prikazani su
rezultati obrisa i izračunate površine stanica na slikama različitih složenosti. Opisani su i
problemi koji se javljaju prilikom obrade ovakvih slika.

Abstract (english)

This thesis briefly explains object detection, classification and tracking methodologies in
video sequences. The focus of the work is on cell tracking and, movement and shape analysis in microscopic sequences. Some of the available programs for automatic cell tracking have been analysed (iTrack4U, TrackMate), including their functionalities and statistical data that can be calculated based on cell movement analysis. Functionalities of CellTracker image processing software was improved by implementing an algorithm for calculating tracked cell surface area, as well as the drawing of cell contour of all visible cells in the image. Publicly available microscopy image sequences and in vitro culture of neural stem cells were used. As a result, cell contour and calculated cell surface area were shown on images of different complexity. Moreover, various difficulties during image processing were described.

• Keywords: obrada slike; praćenje stanica; detekcija objekata; kontura objeka
• Keywords (english): image processing; cell tracking; object detection; object contour
• Language: croatian
• URN:NBN: urn:nbn:hr:168:957579
• Study programme: Title: Electrical Engineering and Information Technology; Study programme type: university; Study level: undergraduate; Academic / professional title: sveučilišni/a prvostupnik/ prvostupnica (baccalaureus/baccalaurea) inženjer/inženjerka elektrotehnike i informacijske tehnologije (sveučilišni/a prvostupnik/ prvostupnica (baccalaureus/baccalaurea) inženjer/inženjerka elektrotehnike i informacijske tehnologije)
• Type of resource: Text
• File origin: Born digital
• Access conditions: Closed access
• Created on: 2019-03-14 00:23:56