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| 5 | == (% style="color:#16a085" %)**QUINT: Workflow for Quantification and Spatial Analysis of Features in Histological Images from Rodent Brain**(%%) == | ||
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| 7 | (% style="color:#999999" %)Neural Systems Laboratory, University of Oslo | ||
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| 11 | ==== ==== | ||
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| 14 | ==== (% style="color:#c0392b" %)Workflow Description(%%) ==== | ||
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| 16 | The QUINT workflow enables the quantification and spatial analysis of labelled features in histological images of rodent brain sections based on reference atlases of the brain. It utilises three open-source software: | ||
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| 18 | 1. (% style="color:#2980b9" %)//**ilastik**//(%%) allows the extraction of labelled features such as cells by segmentation. | ||
| 19 | 1. (% style="color:#2980b9" %)**//QuickNII//**(%%) generates atlas maps customised to match the proportions and cutting plane of the brain sections. | ||
| 20 | 1. (% style="color:#2980b9" %)**//Nutil//**(%%) enables image transformations, in addition to quantification and spatial analysis of features by drawing on the output of ilastik and QuickNII. | ||
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| 22 | In combination, the tools facilitate semi-automated quantification, eliminating the need for more time consuming methods such as stereological analysis with manual delineation of brain regions. | ||
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