Changes for page 2. Example of use

Last modified by puchades on 2020/10/06 13:18
From version 34.1
edited by puchades
on 2020/10/01 09:55
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To version 26.1
edited by puchades
on 2020/09/30 15:04
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1 1  == (% style="color:#c0392b" %)How can I identify brain regions in my images?(%%) ==
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4 -By using QuickNII, you will be able to register this image series to the mouse reference atlas version of your choice and obtain adapted atlas maps and coordinates. Further, in-plane non-linear adjustments can be made with VisuAlign in order to obtain a more precise registration. The regions shown in the example below are color coded and correspond to Mouse CCFv3_2017 atlas^^1^^ .
4 +By using QuickNII, you will be able to register this image series to the mouse reference atlas version of your choice and obtain adapted atlas maps and coordinates. Further, in-plane non-linear adjustments can be made with VisuAlign in order to obtain a more precise registration. The regions shown in the example below are color coded and correspond to Mouse CCFv3_2017 atlas
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7 7  (% style="color:#c0392b" %)[[image:Doublet_illust_NOP_tta.png]]
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10 -== (% style="color:#c0392b" %)How can I map the position of my reconstructed neuron?(%%) ==
10 +== (% style="color:#c0392b" %)How can I map the position of my electrode?(%%) ==
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12 -After in-vivo electrophysiology experiments, the recorded neurons are filled with neurobiotin making them visible on histological images. These images are registered to the Mouse atlas CCFv3_2017^^1^^. The extracted coordinates of the neuron soma and the coordinates of the neuronal arbor, could then be mapped in the 3D reference space.
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17 -[[image:QNII_neuron_recons.png||height="600" width="565"]]
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20 -Image from Bjerke et al. 2018. //Front. Neuroinform.// 12:82. [[doi:10.3389/fnana.2018.00082>>https://www.frontiersin.org/articles/10.3389/fnana.2018.00082/full]]
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22 22  == (% style="color:#c0392b" %)How can I count my labelled cells?(%%) ==
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27 27  [[image:Figure4.jpg]]
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29 -Image from Groeneboom NE, Yates SC, Puchades MA and Bjaalie JG (2020) Nutil: A Pre- and Post-processing Toolbox for Histological Rodent Brain Section Images. //Front. Neuroinform.// 14:37. doi: [[10.3389/fninf.2020.00037>>url:https://www.frontiersin.org/articles/10.3389/fninf.2020.00037/full]]
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32 -== (% style="color:#c0392b" %)How can I map the position of my electrode?(%%) ==
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37 -~1. (Oh et al. 2014)
22 +Image from Groeneboom NE, Yates SC, Puchades MA and Bjaalie JG (2020) Nutil: A Pre- and Post-processing Toolbox for Histological Rodent Brain Section Images. Front. Neuroinform. 14:37. doi:
QNII_neuron_recons.png
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1 -XWiki.puchades
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