SectorAnalysisToolbox Details: Difference between revisions
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Clones of cells arise from divisions of a single cell. It becomes useful if the cell (and its daughters) are marked in some way. The mark could be the shape of hairs in a fly wing, or the colour of cells in a flower petal. As result of multiple cell divisions, growth, the shape of the clone (sometimes call the sector) changes. The Sector Analysis Toolbox '''(SAT)''' is used ''' to quantify patterns of growth''' by analysing the shapes of these sectors or clones. | Clones of cells arise from divisions of a single cell. It becomes useful if the cell (and its daughters) are marked in some way. The mark could be the shape of hairs in a fly wing, or the colour of cells in a flower petal. As result of multiple cell divisions, growth, the shape of the clone (sometimes call the sector) changes. The Sector Analysis Toolbox '''(SAT)''' is used ''' to quantify patterns of growth''' by analysing the shapes of these sectors or clones. | ||
<span style="color: Navy">'''How'''?</span> | <span style="color: Navy">'''How'''? What does '' SectorAnalysisToolbox'' require?</span> | ||
''''' Sector Analysis Toolbox'' is written in [http://en.wikipedia.org/wiki/MATLAB Matlab].''' It does not require any extra Mathworks toolboxes, nor any separately compiled modules. Matlab is available as a [http://www.mathworks.com/products/matlab/tryit.html 30 day free trial] and as a [http://www.mathworks.com/academia/student_version/?s_cid=global_nav student edition]. '' Sector Analysis Toolbox'' comprises around 20,000 lines of code. <br><br> | |||
<span style="color: Navy">'''Where'''?</span> | |||
[http://cmpdartsvr1.cmp.uea.ac.uk/downloads/software/OpenSourceDownload_Science_Paper_2012/SectorAnalysisToolbox.zip <span style="color: Gray">'''''Download''''' </span>] | |||
Revision as of 08:59, 16 March 2012
What? How? Where?
What? We wish to understand how patterns of gene activity in biological organs influence the developing shape. The shapes arise because different regions of, for example a sheet of cells, grow at different rates. The problem is that a particular shape outline could arise through a number of different patterns of growth inside the outline. To solve the problem, therefore, it is necessary to observe and measure growth rates of the growing organ. With small organs growth can be tracked at the cell scale using confocal microscopy. As the organ gets larger, this becomes impractical and we use an alternative: clonal analysis.
Clones of cells arise from divisions of a single cell. It becomes useful if the cell (and its daughters) are marked in some way. The mark could be the shape of hairs in a fly wing, or the colour of cells in a flower petal. As result of multiple cell divisions, growth, the shape of the clone (sometimes call the sector) changes. The Sector Analysis Toolbox (SAT) is used to quantify patterns of growth by analysing the shapes of these sectors or clones.
How? What does SectorAnalysisToolbox require?
Sector Analysis Toolbox is written in Matlab. It does not require any extra Mathworks toolboxes, nor any separately compiled modules. Matlab is available as a 30 day free trial and as a student edition. Sector Analysis Toolbox comprises around 20,000 lines of code.
Where? Download