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GiA Roots specifications


Unique identifier OMICS_26041
Name GiA Roots
Software type Application/Script
Interface Command line interface, Graphical user interface
Restrictions to use Academic or non-commercial use
Operating system Mac OS
Programming languages C++, MATLAB
License GNU Lesser General Public License version 2.1
Computer skills Advanced
Stability Stable
Registration required Yes
Maintained Yes



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  • person_outline Joshua Weitz <>

Publication for GiA Roots

GiA Roots in publications

PMCID: 5306215
PMID: 28261244
DOI: 10.3389/fpls.2017.00188

[…] light treatment were selected, in order to separate their root section that was first gently washed out of the soil and subsequently scanned. scanned photos of seedling’s root system were loaded in gia roots (), which is a software tool to automate and facilitate the large-scale analysis of root networks. gia roots was used to quantify the structure of plant root system architecture by means […]

PMCID: 4652015
PMID: 26635834
DOI: 10.3389/fpls.2015.01007

[…] shoots and roots of plants were collected and weighted; photos of the root systems were taken (representative samples are shown in figure )., the analyses of root systems were performed using “gia roots” software () based on three independent biological replicates. according to , descriptions of traits are reported in the legend of supplementary table ., for 15n experiments, approximately […]

PMCID: 4521831
PMID: 26230608
DOI: 10.1371/journal.pone.0133123

[…] between 11 am—1 pm (). for the morphometric analysis of stem cutting images (), individualized vegetative (2800 × 2800 pixels) or soil plug (550 × 1100 pixels) regions were batch-imported into the gia roots software []. after scale calibration and grayscale conversion, stem cutting or soil plug images were segmented using the global thresholding method (). eventually, threshold was manually […]

PMCID: 3872734
PMID: 24421783
DOI: 10.3389/fpls.2013.00537

[…] on root phenotype analyses combined with accurate images is a desirable feature. fast and high-throughput phenotyping methods were developed to monitor the dynamic of root growth. for instance, the gia roots semi-automated software tool for high-throughput analysis of root system architecture (galkovskyi et al., ), the semiautomated 3d in vivo imaging and digital phenotyping pipeline […]

PMCID: 3584810
PMID: 23286457
DOI: 10.1186/1746-4811-9-1

[…] the accuracy of the method, the total root area estimated for 52 plants were compared with the area obtained from classical ex-situ images (similar to the one presented in the figure a) using gia roots [] (figure ). the high determination coefficient (linear regression without intercept, r2=0.96) between the two methods indicates that the results obtained with the hybrid method are within […]

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GiA Roots institution(s)
Department of Mathematics, Duke University, Durham, NC, USA; School of Biology, Georgia Institute of Technology, Atlanta, GA, USA; School of Interactive Computing, Georgia Institute of Technology, Atlanta, GA, USA; Department of Biology, Duke University, Durham, NC, USA; Institute of Science and Technology, Vienna, Austria; Department of Plant Biology, University of Western Australia, Perth, WA, Australia; Duke Center for Systems Biology, Duke University, Durham, NC, USA; Root Biology Center, South China; Agricultural University, Guangzhou, China; School of Physics, Georgia Institute of Technology, Atlanta, GA, USA
GiA Roots funding source(s)
Supported by a grant from the National Science Foundation (DBI-0820624-02), from the Defense Advanced Research Projects Agency (HR0011-09-1-0055) and by the National Science Foundation of China under grant 30890131.

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