TRAgen: A Tool for Generation of Synthetic Time-Lapse Image
Sequences of Living Cells

D 2015

TRAgen: A Tool for Generation of Synthetic Time-Lapse Image Sequences of Living Cells

ULMAN, Vladimír; Zoltán ORÉMUŠ a David SVOBODA

Základní údaje

Originální název

TRAgen: A Tool for Generation of Synthetic Time-Lapse Image Sequences of Living Cells

Název česky

TRAgen: nástroj pro generování syntetických časosběrných obrazových sekvencí živých buněk

Autoři

ULMAN, Vladimír ; Zoltán ORÉMUŠ a David SVOBODA

Vydání

Heidelberg, Německo, Proceedings of 18th International Conference on Image Analysis and Processing, od s. 623-634, 12 s. 2015

Nakladatel

Springer International Publishing

Další údaje

Jazyk

angličtina

Typ výsledku

Stať ve sborníku

Obor

10201 Computer sciences, information science, bioinformatics

Stát vydavatele

Německo

Utajení

není předmětem státního či obchodního tajemství

Forma vydání

paměťový nosič (CD, DVD, flash disk)

Impakt faktor

Impact factor: 0.402 v roce 2005

Označené pro přenos do RIV

Ano

Kód RIV

RIV/00216224:14330/15:00080843

Organizační jednotka

Fakulta informatiky

ISBN

978-3-319-23230-0

ISSN

DOI

https://doi.org/10.1007/978-3-319-23231-7_56

UT WoS

000364991200056

EID Scopus

2-s2.0-84944755011

Klíčová slova česky

Biomedical Imaging; Simulation; Evaluation; Cell Tracking

Klíčová slova anglicky

Biomedical images; Simulations; Evaluation; Cell Tracking

Štítky

CBIA, cbia-web, core_B, firank_B

Příznaky

Mezinárodní význam, Recenzováno

Změněno: 7. 4. 2017 16:56, RNDr. Vladimír Ulman, Ph.D.

Anotace

V originále

In biomedical image processing, correct tracking of individual cells is important task for the study of dynamic cellular processes. It is, however, often difficult to decide whether obtained tracking results are correct or not. This is mainly due to complexity of the data that can show hundreds of cells, due to improper data sampling either in time or in space, or when the time-lapse sequence consists of blurred noisy images. This prohibits manual extraction of reliable ground truth (GT) data as well. Nonetheless, if reliable testing data with GT were available, one could compare the results of the examined tracking algorithm with the GT and assess its performance quantitatively. In this paper, we introduce a novel versatile tool capable of generating 2D image sequences showing simulated living cell populations with GT for evaluation of biomedical tracking. The simulated events include namely cell motion, cell division, and cell clustering up to tissue-level density. The method is primarily designed to operate at inter-cellular scope.

Návaznosti

GA14-22461S, projekt VaV

Název: Vývoj a studium metod pro kvantifikaci živých buněk (Akronym: Live Cell Quantification)

Investor: Grantová agentura ČR, Development and Study of Methods for Live Cell Quantification

Přiložené soubory

ICIAP15.pdf

Požádat o autorskou verzi souboru

Citovat

ULMAN, Vladimír; Zoltán ORÉMUŠ a David SVOBODA. TRAgen: A Tool for Generation of Synthetic Time-Lapse Image Sequences of Living Cells. In Vittorio Murino, Enrico Puppo, Gianni Vernazza. Proceedings of 18th International Conference on Image Analysis and Processing. Heidelberg, Německo: Springer International Publishing, 2015, s. 623-634. ISBN 978-3-319-23230-0. Dostupné z: https://doi.org/10.1007/978-3-319-23231-7_56.

@inproceedings{1300779,
   author = {Ulman, Vladimír and Orémuš, Zoltán and Svoboda, David},
   address = {Heidelberg, Německo},
   booktitle = {Proceedings of 18th International Conference on Image Analysis and Processing},
   doi = {https://doi.org/10.1007/978-3-319-23231-7_56},
   editor = {Vittorio Murino, Enrico Puppo, Gianni Vernazza},
   keywords = {Biomedical images; Simulations; Evaluation; Cell Tracking},
   howpublished = {paměťový nosič},
   language = {eng},
   location = {Heidelberg, Německo},
   isbn = {978-3-319-23230-0},
   pages = {623-634},
   publisher = {Springer International Publishing},
   title = {TRAgen: A Tool for Generation of Synthetic Time-Lapse Image Sequences of Living Cells},
   year = {2015}
}

TY  - CONF
ID  - 1300779
AU  - Ulman, Vladimír - Orémuš, Zoltán - Svoboda, David
PY  - 2015
TI  - TRAgen: A Tool for Generation of Synthetic Time-Lapse Image Sequences of Living Cells
PB  - Springer International Publishing
CY  - Heidelberg, Německo
SN  - 9783319232300
KW  - Biomedical images
KW  - Simulations
KW  - Evaluation
KW  - Cell Tracking
N2  - In biomedical image processing, correct tracking of individual cells is important task for the study of dynamic cellular processes. It is, however, often difficult to decide whether obtained tracking results are correct or not. This is mainly due to complexity of the data that can show hundreds of cells, due to improper data sampling either in time or in space, or when the time-lapse sequence consists of blurred noisy images. This prohibits manual extraction of reliable ground truth (GT) data as well. Nonetheless, if reliable testing data with GT were available, one could compare the results of the examined tracking algorithm with the GT and assess its performance quantitatively. In this paper, we introduce a novel versatile tool capable of generating 2D image sequences showing simulated living cell populations with GT for evaluation of biomedical tracking. The simulated events include namely cell motion, cell division, and cell clustering up to tissue-level density. The method is primarily designed to operate at inter-cellular scope.
ER  -

ULMAN, Vladimír; Zoltán ORÉMUŠ a David SVOBODA. TRAgen: A Tool for Generation of Synthetic Time-Lapse Image Sequences of Living Cells. In Vittorio Murino, Enrico Puppo, Gianni Vernazza. \textit{Proceedings of 18th International Conference on Image Analysis and Processing}. Heidelberg, Německo: Springer International Publishing, 2015, s.~623-634. ISBN~978-3-319-23230-0. Dostupné z: https://doi.org/10.1007/978-3-319-23231-7\_{}56.

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