Bio-Volumentations: A Python library for augmentation of
volumetric image sequences

J 2025

Bio-Volumentations: A Python library for augmentation of volumetric image sequences

HRADECKÁ, Lucia; Filip LUX; Samuel ŠUĽAN a Petr MATULA

Základní údaje

Originální název

Bio-Volumentations: A Python library for augmentation of volumetric image sequences

Autoři

HRADECKÁ, Lucia; Filip LUX; Samuel ŠUĽAN a Petr MATULA

Vydání

SOFTWAREX, NETHERLANDS, ELSEVIER, 2025, 2352-7110

Další údaje

Jazyk

angličtina

Typ výsledku

Článek v odborném periodiku

Obor

10201 Computer sciences, information science, bioinformatics

Stát vydavatele

Nizozemské království

Utajení

není předmětem státního či obchodního tajemství

Odkazy

Plný text výsledku

Impakt faktor

Impact factor: 2.400 v roce 2024

Označené pro přenos do RIV

Ano

Kód RIV

RIV/00216224:14330/25:00141005

Organizační jednotka

Fakulta informatiky

Klíčová slova anglicky

Image augmentation; Image preprocessing; Volumetric images; Image sequences; Biomedical image data; Python

Štítky

cbia-web

Příznaky

Mezinárodní význam, Recenzováno

Změněno: 1. 9. 2025 05:46, RNDr. Pavel Šmerk, Ph.D.

Anotace

V originále

Data augmentation is a widely used technique to increase generalization ability of deep learning models, especially when dealing with sparse training data. It is also crucial in biomedical applications, where annotated images are extremely rare due to high image dimensionality and expensive data acquisition processes. However, existing image augmentation toolboxes are not suitable for biomedical applications: they usually only support low-dimensional images or very few annotation types. To address this issue, we developed Bio-Volumentations—a Python library for transforming multidimensional biomedical images with image- and point-based annotations. Thanks to its universality, user-friendly interface, and independence of deep learning toolboxes, it facilitates efficient data preprocessing and augmentation in various computer vision tasks.

Návaznosti

GA21-20374S, projekt VaV

Název: Segmentace a sledování buněk se složitým tvarem

Investor: Grantová agentura ČR, Segmentace a sledování buněk se složitým tvarem

MUNI/A/1600/2024, interní kód MU

Název: Modelování, analýza a verifikace (2025)

Investor: Masarykova univerzita, Modelování, analýza a verifikace (2025)

Citovat

HRADECKÁ, Lucia; Filip LUX; Samuel ŠUĽAN a Petr MATULA. Bio-Volumentations: A Python library for augmentation of volumetric image sequences. SOFTWAREX. NETHERLANDS: ELSEVIER, 2025, roč. 30, č. 102151, s. 1-6. ISSN 2352-7110. Dostupné z: https://doi.org/10.1016/j.softx.2025.102151.

@article{2490358,
   author = {Hradecká, Lucia and Lux, Filip and Šuľan, Samuel and Matula, Petr},
   article_location = {NETHERLANDS},
   article_number = {102151},
   doi = {https://doi.org/10.1016/j.softx.2025.102151},
   keywords = {Image augmentation; Image preprocessing; Volumetric images; Image sequences; Biomedical image data; Python},
   language = {eng},
   issn = {2352-7110},
   journal = {SOFTWAREX},
   title = {Bio-Volumentations: A Python library for augmentation of volumetric image sequences},
   url = {http://dx.doi.org/10.1016/j.softx.2025.102151},
   volume = {30},
   year = {2025}
}

TY  - JOUR
ID  - 2490358
AU  - Hradecká, Lucia - Lux, Filip - Šuľan, Samuel - Matula, Petr
PY  - 2025
TI  - Bio-Volumentations: A Python library for augmentation of volumetric image sequences
JF  - SOFTWAREX
VL  - 30
IS  - 102151
SP  - 1-6
EP  - 1-6
PB  - ELSEVIER
SN  - 23527110
KW  - Image augmentation
KW  - Image preprocessing
KW  - Volumetric images
KW  - Image sequences
KW  - Biomedical image data
KW  - Python
UR  - http://dx.doi.org/10.1016/j.softx.2025.102151
N2  - Data augmentation is a widely used technique to increase generalization ability of deep learning models, especially when dealing with sparse training data. It is also crucial in biomedical applications, where annotated images are extremely rare due to high image dimensionality and expensive data acquisition processes. However, existing image augmentation toolboxes are not suitable for biomedical applications: they usually only support low-dimensional images or very few annotation types. To address this issue, we developed Bio-Volumentations—a Python library for transforming multidimensional biomedical images with image- and point-based annotations. Thanks to its universality, user-friendly interface, and independence of deep learning toolboxes, it facilitates efficient data preprocessing and augmentation in various computer vision tasks.
ER  -

HRADECKÁ, Lucia; Filip LUX; Samuel ŠUĽAN a Petr MATULA. Bio-Volumentations: A Python library for augmentation of volumetric image sequences. \textit{SOFTWAREX}. NETHERLANDS: ELSEVIER, 2025, roč.~30, č.~102151, s.~1-6. ISSN~2352-7110. Dostupné z: https://doi.org/10.1016/j.softx.2025.102151.

Přehled o publikaci