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RootTrace specifications

Information


Unique identifier OMICS_12621
Name RootTrace
Software type Package/Module
Interface Command line interface
Restrictions to use None
Operating system Windows
Programming languages C++
License BSD 3-clause “New” or “Revised” License
Computer skills Advanced
Stability Stable
Maintained Yes

Taxon


  • Plants and Fungi
    • Arabidopsis thaliana

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Maintainer


  • person_outline Andrew French <>

Publication for RootTrace

RootTrace in publications

 (6)
PMCID: 5924893
PMID: 29643073
DOI: 10.1073/pnas.1717649115

[…] on 6-d-old seedlings grown on 1/2 ms medium containing 1% sucrose and supplemented with 100 nm iaa under a 16-h/8-h photoperiod., the plates were imaged, and the seedlings were analyzed with roottrace () or/and imagej (nih; https://imagej.nih.gov/ij/) software. at least 20 individuals per line and per treatment were analyzed in each experiment., the screen was performed via evaluation […]

PMCID: 5805786
PMID: 29422488
DOI: 10.1038/s41598-018-20361-w

[…] of rsa-related phenome research has promoted the provision of a number of modern tools, many of which were resorted to computer science or image processing, e.g. dart, smartroot, rootnav, roottrace, rhizoscan, rootsystemanalyser. as these platforms are largely varied from one to another, cross-platform protocols are needed, paving a way for inter-platform exchanges of information, […]

PMCID: 5632296
PMID: 29020747
DOI: 10.1093/gigascience/gix083

[…] analysis [] and is often omitted from image analysis software due to the challenges localization presents. as another example, locating seed feature points must occur before automated tracing in roottrace (roottrace, rrid:scr_015585) []. localization of the different biological feature classes for a shoot is vital in capturing the architecture of the plant, essential for phenotyping. we also […]

PMCID: 4844396
PMID: 27135334
DOI: 10.3390/plants4030369

[…] from whole root systems or specific roots of interest []. several sophisticated image analysis programs have been developed to measure plant root system architecture and traits; these include roottrace, regr analysis, kine-root, and root flowrt. these programs focus on analyzing root growth and architecture from a time series of images and are extremely useful for measuring effects […]

PMCID: 4585416
PMID: 26019255
DOI: 10.1093/jxb/erv235

[…] techniques exist for the investigation of root growth characteristics. many of these also allow a manual or semi-automated analysis of root zone-specific responses [for example, rootreader2d (), roottrace (), or winrhizo ()]. however, these methods do not completely capture the interactive architectural properties of the root system as a whole. here, an easily manageable root phenotyping […]


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RootTrace institution(s)
Centre for Plant Integrative Biology, University of Nottingham, Nottingham, UK; School of Computer Science, Jubilee Campus, University of Nottingham, Nottingham, UK
RootTrace funding source(s)
This work was supported by the Biotechnology and Biological Sciences Research Council and the Engineering and Physical Sciences Research Council as part of their Systems Biology Initiative to establish a number of Centres for Integrative Systems Biology.

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