RootNav protocols

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RootNav specifications

Information


Unique identifier OMICS_10506
Name RootNav
Software type Package/Module
Interface Graphical user interface
Restrictions to use None
Operating system Windows
Programming languages C#
Computer skills Medium
Version 1.8.1
Stability Stable
Maintained Yes

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Maintainer


  • person_outline Michael Pound <>

Publication for RootNav

RootNav in pipeline

2015
PMCID: 4299434
PMID: 25653655
DOI: 10.3389/fpls.2014.00770

[…] ), phenophyte (green et al., ), rosette tracker (de vylder et al., ), htpheno (hartmann et al., ), hypotrace (wang et al., ), lamina (bylesjo et al., ), or dedicated to plant organs such as roots rootnav (pound et al., ) or leaves leafanalyser (weight et al., ) and seeds smartgrain (tanabata et al., ). these software applications use a variety of algorithms to extract a wide range of plant […]


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RootNav in publications

 (8)
PMCID: 5805786
PMID: 29422488
DOI: 10.1038/s41598-018-20361-w

[…] recent advancement 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 […]

PMCID: 5656669
PMID: 29070807
DOI: 10.1038/s41598-017-14447-0

[…] pi (10 µm) in hydroponics. in later root density analysis, the roots were scanned using the scanner (hp scanjet 200). the lateral root density were counted using the scanned images with the help of rootnav software. the root hair density measurements were performed according to with some modifications. about 5 cm from the primary root cap was chosen for root hair analysis. the images […]

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

[…] using a nikon d5100 dslr camera controlled using nkremote software (breeze systems ltd, camberley, uk). root system architectural traits were extracted from images of 2697 seedlings using the rootnav software (rootnav, rrid:scr_015584) [] and used to produce the input images for cnn training., wheat varieties were grown as detailed previously []. plants in pots were imaged according […]

PMCID: 5508676
PMID: 28717384
DOI: 10.1186/s13007-017-0207-1

[…] the repositioned marker., third, an optimal path algorithm was used to connect a seed to all root tips in the image. various algorithms exists to perform such tasks, e.g. a* algorithm employed by rootnav []. here, a classic dijkstra’s algorithm was implemented []. the algorithm works by propagation of a front of pixels initiated at a seed. at each time increment, the growing front moves […]

PMCID: 4904005
PMID: 27379124
DOI: 10.3389/fpls.2016.00829

[…] of the pouches. the experiment was repeated four times independently. root traits (primary root length, lateral root density along the primary root and number of crown roots) were extracted using rootnav ()., one dag-old seedlings were transferred in a hydroponic system containing quarter strength hoagland medium () or put on the top of seed germination paper (anchor paper company, usa) […]


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RootNav institution(s)
Centre for Plant Integrative Biology, School of Biosciences, University of Nottingham, Sutton Bonington, UK; School of Computer Science, University of Nottingham, Jubilee Campus, Nottingham, UK

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