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| extra:faqs [2020/05/27 15:44] – [FAST feels very restrictive. Can I increase its flexibility?] pseudomoaner | extra:faqs [2020/07/01 12:31] (current) – [FAST feels very restrictive. Can I increase its flexibility?] pseudomoaner |
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| * The inability to open more than one module at once. | * The inability to open more than one module at once. |
| * The inability to interact with a module's GUI while data processing is ongoing. | * The inability to interact with a module's GUI while data processing is ongoing. |
| * The inability to access modules before earlier processing stages have been completed. | * The inability to access later modules before earlier processing stages have been completed. |
| Nevertheless, you may have legitimate reasons to override these choices. For example, when generating [[usage:plotting#kymograph|kymographs]], you may wish to simultaneously use the [[usage:overlays|overlays module]] to find the indices of interesting looking cells. If you are using the Matlab-based version of FAST, you can disable many of these features by editing the 'homePanel.m' file and changing the line | Nevertheless, you may have legitimate reasons to override these choices. For example, when generating [[usage:plotting#kymograph|kymographs]], you may wish to simultaneously use the [[usage:overlays|overlays module]] to find the indices of interesting looking cells. If you are using the Matlab-based version of FAST, you can disable many of these features by editing the 'homePanel.m' file and changing the line |
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| </code> | </code> |
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| **Note that data and program stability is no longer guaranteed if this change is made. You apply it at your own peril!** | **Note that data and program stability is not guaranteed if this change is made. You apply it at your own peril!** |
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| ==== Can I process tiled images? ==== | ==== Can I process tiled images? ==== |
| Image cytometry is a simple alternative to flow cytometry, where microscopy is used to assess the fluorescence and morphological properties of thousands of cells simultaneously. After the appropriate experimental preparations, a single 2D image of a field of cells is taken and processed to extract useful information. It can be used, for example, to quantify the size of populations of cells labelled with different fluorophores, or to quantify the effect of different experimental conditions on the expression of specific proteins. | Image cytometry is a simple alternative to flow cytometry, where microscopy is used to assess the fluorescence and morphological properties of thousands of cells simultaneously. After the appropriate experimental preparations, a single 2D image of a field of cells is taken and processed to extract useful information. It can be used, for example, to quantify the size of populations of cells labelled with different fluorophores, or to quantify the effect of different experimental conditions on the expression of specific proteins. |
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| To use FAST to analyse image cytometry data, simply save each image in its own folder as described in the [[setup:data configuration]] page. When analysing single frames rather than time series, the feature extraction module will output single timepoint-long 'pseudotracks' which can be analysed much like normal tracks. Examples of scripts that allow automated processing of image cytometry data can be found in the [[post:post-processing toolbox]]. | To use FAST to analyse image cytometry data, simply save each image in its own folder as described in the [[setup:data configuration]] page. When analysing single frames rather than time series, the feature extraction module will output single timepoint-long 'pseudotracks' which can be analysed much like normal tracks. |