Difference between revisions of "GFtbox Example pages"

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=The models=
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The models are a part of the GFtbox release in directory'' \GrowthToolbox\Models\Published''. The models can be loaded using the GUI: ''Menus:Projects:Models:Published:Kennaway etal 2011''<br><br>
 
==Richard Kennaway, Enrico Coen, Amelia Green, Andrew Bangham, "Generation of diverse biological forms through combinatorial interactions between tissue polarity and growth", PLoS Comp Biol, 2011 (''in press'')==
 
==Richard Kennaway, Enrico Coen, Amelia Green, Andrew Bangham, "Generation of diverse biological forms through combinatorial interactions between tissue polarity and growth", PLoS Comp Biol, 2011 (''in press'')==
 
The models shown here illustrate points about the understanding of growth. They are not designed to illustrate properties of the ''GFtbox'' (although this might be a by-product).<br><br>
 
The models shown here illustrate points about the understanding of growth. They are not designed to illustrate properties of the ''GFtbox'' (although this might be a by-product).<br><br>
The models are to be found using the GUI:
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Menus:Projects:Models:Published:Kennaway etal 2011<br><br>
 
 
CASES A to Q have been extracted from the original single project for two reasons, clarity and they have been altered slightly to make them more consistent with the style of programming that we have found makes interaction functions clearer. The results are the same.<br>
 
CASES A to Q have been extracted from the original single project for two reasons, clarity and they have been altered slightly to make them more consistent with the style of programming that we have found makes interaction functions clearer. The results are the same.<br>
 
The models are to be understood in conjuction with the paper.
 
The models are to be understood in conjuction with the paper.

Revision as of 10:10, 6 June 2011

The models

The models are a part of the GFtbox release in directory \GrowthToolbox\Models\Published. The models can be loaded using the GUI: Menus:Projects:Models:Published:Kennaway etal 2011

Richard Kennaway, Enrico Coen, Amelia Green, Andrew Bangham, "Generation of diverse biological forms through combinatorial interactions between tissue polarity and growth", PLoS Comp Biol, 2011 (in press)

The models shown here illustrate points about the understanding of growth. They are not designed to illustrate properties of the GFtbox (although this might be a by-product).

CASES A to Q have been extracted from the original single project for two reasons, clarity and they have been altered slightly to make them more consistent with the style of programming that we have found makes interaction functions clearer. The results are the same.
The models are to be understood in conjuction with the paper.

  • GPT_CASE_A
  • GPT_CASE_B
  • GPT_CASE_C
  • GPT_CASE_E
  • GPT_CASES_FGHI
  • GPT_CASES_JKLM
  • GPT_CASES_NOPQ

These models are those used in the paper.

  • GPT_CASE_RST
  • GPT_InvagEmbryo

The Snapdragon model is given in Green et. al. shown below.

Amelia A. Green, J. Richard Kennaway, Andrew I. Hanna, J. Andrew Bangham, Enrico Coen, "Genetic Control of Organ Shape and Tissue Polarity", PLoS Biol, 2010, vol.8, no.11, http://dx.doi.org/10.1371/journal.pbio.1000537.

The following project is the unabridged interaction function used to produce all the Figures. As result, it is very long. To understand it requires a good understanding of the GFtbox environment, the paper and its supplemental Text 1. The submodels capture the development of the scientific argument made in the paper. The same model is used for Cui et al.

  • GPT_Snapdragon_2010_Green_et_al.

Min-Long Cui, Lucy Copsey, Amelia A. Green, J. Andrew Bangham, Enrico Coen, "Quantitative Control of Organ Shape by Combinatorial Gene Activity", PLoS Biol, 2010, vol.8, no.11, http://dx.doi.org/10.1371/journal.pbio.1000538.

The models used in this paper are all a part of the project GPT_Snapdragon_2010_Green_et_al. However, to run the models requires an understanding of how to script GFtbox to run on a cluster.