JFRC2013 | R Documentation |
The JFRC2013
reference brain is a single female brain. It
is a spatially calibrated version of the brain used in Aso et al. 2014,
"The neuronal architecture of the mushroom body provides a logic for
associative learning".
JFRC2013.surf
was generated in Amira from a 2 micron
downsampled and median filtered version of the JFRC2013 template brain.
Further cleaning was then carried out in MeshLab to remove non-manifold
edges and fill holes.
JFRC2013DS
is a downsampled version of the
JFRC2013
reference brain, designed for use with images taken on a
microscope with 20 x magnification. The downsampling has shrunk the z
direction, such that the brain appears flattened when compared with the
original.
JFRC2013 JFRC2013DS
An object of class templatebrain
of dimension 1450 x 725 x 436.
An object of class templatebrain
of dimension 1184 x 592 x 218.
The isotropic calibration of 0.38 microns is based on a personal communication from Yoshi Aso on 21st May 2014, where he noted:
It is 0.38um isotropic. Due to dehydration steps with EtOH, tissues are about 20% smaller than when mounted in Vectashield or other glycerol based mounting medium.
No attempt was made to correct for this shrinkage artefact.
Aso, Y., Sitaraman, D., Ichinose, T., Kaun, K. R., Vogt, K., Belliart-Guerin, G., Placais, P.-Y., Robie, A. A., Yamagata, N., Schnaitmann, C., Rowell, W. J., Johnston, R. M., Ngo, T.-T. B., Chen, N., Korff, W., Nitabach, M. N., Heberlein, U., Preat, T., Branson, K. M., Tanimoto, H. and Rubin, G. M. (2014b). Mushroom body output neurons encode valence and guide memory-based action selection in Drosophila. Elife 3, e04580. doi:10.7554/eLife.04577
dim(JFRC2013) voxdims(JFRC2013) boundingbox(JFRC2013) JFRC2013 ## Not run: library(nat) plot3d(JFRC2013) plot3d(JFRC2013.surf) plot3d(JFRC2013.surf, col='red', alpha=0.3) ## End(Not run) dim(JFRC2013DS) voxdims(JFRC2013DS) boundingbox(JFRC2013DS) JFRC2013DS
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