SimRoot specifications

Information


Unique identifier OMICS_18891
Name SimRoot
Software type Package/Module
Interface Command line interface
Restrictions to use None
Operating system Unix/Linux
Programming languages C
Computer skills Advanced
Stability Stable
Maintained Yes

Versioning


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Maintainers


  • person_outline Johannes Postma <>
  • person_outline Christian Kuppe <>

Additional information


Access available upon request.

Publication for SimRoot

SimRoot in publications

 (8)
PMCID: 5892862
PMID: 29562368
DOI: 10.1093/nutrit/nux076

[…] large-scale agriculture, plant science, and nutrition data as it becomes available. one of the best examples of scientific discovery through visualization of agronomic data comes from outputs of the simroot software. simroot is a functional–structural plant root model that can simulate several root-related parameters and render model outputs as 3d images. simroot was used to simulate the utility […]

PMCID: 5429021
PMID: 28338728
DOI: 10.1093/jxb/erw368

[…] using the same phenotyping platform. root trait data acquired in the present study form the basis for paramaterising three-dimensional root structural–functional models, such as rootmap (; ), and simroot (), for rapid and reliable reconstruction of root systems, similar to our recent simulation studies in narrow-leafed lupin (, )., the root system of chickpea is characterised […]

PMCID: 4973737
PMID: 27401910
DOI: 10.1093/jxb/erw243

[…] and reduced lateral branching (; ), and may synergistically improve resource acquisition under drought and suboptimal availability of mobile nutrients (). using the functional–structural plant model simroot, found that the synergistic effects of cn and root cortical aerenchyma on plant growth were greater than the additive effects by 32% at medium n and by 132% at medium phosphorus. […]

PMCID: 4905936
PMID: 27294384
DOI: 10.1186/s12284-016-0102-9

[…] (rca) formation reduces root respiration and the metabolic cost of soil exploration in maize subject to drought and low nitrogen (zhu et al. ; saengwilai et al. ). the functional-structural model simroot predicts that more rca would improve p efficiency in maize, substantially improving growth and reducing critical p levels by 12 % (postma and lynch ). despite the fact that rice […]

PMCID: 4407655
PMID: 25795737
DOI: 10.1093/jxb/erv074

[…] because individual metaxylem vessels had 12% less area. plasticity was also observed in cortical phenes such as aerenchyma, which increased at greater population densities. simulation modelling with simroot demonstrated that even these relatively small changes in root architecture and anatomy could increase maize shoot growth by 16% in a high density and high nitrogen environment. the authors […]


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SimRoot institution(s)
Department of Horticulture, The Pennsylvania State University, University Park, PA, USA; Department of Mechanical Engineering, The Pennsylvania State University, University Park, PA, USA
SimRoot funding source(s)
Supported by USDA/NRI grant 94371000311.

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