ACORBA: Automated workflow to measure Arabidopsis thaliana root tip angle dynamics
The result's identifiers
Result code in IS VaVaI
<a href="https://www.isvavai.cz/riv?ss=detail&h=RIV%2F00216208%3A11310%2F22%3A10464640" target="_blank" >RIV/00216208:11310/22:10464640 - isvavai.cz</a>
Result on the web
<a href="https://verso.is.cuni.cz/pub/verso.fpl?fname=obd_publikace_handle&handle=tBs-I_y2rz" target="_blank" >https://verso.is.cuni.cz/pub/verso.fpl?fname=obd_publikace_handle&handle=tBs-I_y2rz</a>
DOI - Digital Object Identifier
<a href="http://dx.doi.org/10.1017/qpb.2022.4" target="_blank" >10.1017/qpb.2022.4</a>
Alternative languages
Result language
angličtina
Original language name
ACORBA: Automated workflow to measure Arabidopsis thaliana root tip angle dynamics
Original language description
The ability of plants to sense and orient their root growth towards gravity is studied in many laboratories. It is known that manual analysis of image data is subjected to human bias. Several semi-automated tools are available for analysing images from flatbed scanners, but there is no solution to automatically measure root bending angle over time for vertical-stage microscopy images. To address these problems, we developed ACORBA, which is an automated software that can measure root bending angle over time from vertical-stage microscope and flatbed scanner images. ACORBA also has a semi-automated mode for camera or stereomicroscope images. It represents a flexible approach based on both traditional image processing and deep machine learning segmentation to measure root angle progression over time. As the software is automated, it limits human interactions and is reproducible. ACORBA will support the plant biologist community by reducing labour and increasing reproducibility of image analysis of root gravitropism.
Czech name
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Czech description
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Classification
Type
J<sub>SC</sub> - Article in a specialist periodical, which is included in the SCOPUS database
CEP classification
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OECD FORD branch
10611 - Plant sciences, botany
Result continuities
Project
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Continuities
I - Institucionalni podpora na dlouhodoby koncepcni rozvoj vyzkumne organizace
Others
Publication year
2022
Confidentiality
S - Úplné a pravdivé údaje o projektu nepodléhají ochraně podle zvláštních právních předpisů
Data specific for result type
Name of the periodical
Quantitative Plant Biology
ISSN
2632-8828
e-ISSN
2632-8828
Volume of the periodical
3
Issue of the periodical within the volume
May
Country of publishing house
GB - UNITED KINGDOM
Number of pages
11
Pages from-to
e9
UT code for WoS article
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EID of the result in the Scopus database
2-s2.0-85146831755