|
Please refer
to this sample
video in AVI
format or MOV
format on how to use NeuronIQ software for image
analysis.
User Manual
in PDF format. Installation
Please download all the files
into one folder, on the local machine. Change the
current Matlab directory into the folder containing
the downloaded files. To run the software, type
‘NeuronIQ’ in the command window of Matlab. Also, the Image
Process Toolbox of Matlab is required in order to
run NeuronIQ.
Hardware/Software and image requirement
NeuronIQ is running
under Matlab environment, for both Windows and
Linux. Before the installation, the following should
have
been installed on the
local machine:
-
Matlab version 7.0
or up (http://www.mathworks.com/products/matlab/).
-
javax package, which
is included in the freely available Java 2
Platform (http://java.sun.com/j2se/1.4.2/download.html).
-
Matlab toolbox:
-
image processing
toolbox
-
bioinformatics
toolbox
NeuronIQ is designed to deal
with 3D neuron images,
which can be very big with many slices and different
resolutions. There is a requirement about memory
whose minimal size should be 1G (2G is recommended).
With 1G memory size, the maximal image size to be
processed is 1024*1024 per slice. The size of
512*512 per slice is recommended. Since NeuronIQ can
run at background without human interference, there
is no strict requirement about the CPU. As a
reference, the average processing time of a 512*512
3D image with twenty slices is about three minutes
for a PC with a 2.8GHz CPU.
NeuronIQ has the best
performance for images with resolution of 0.08
µm/pixel or higher. It is also possible for NeuronIQ
to deal with images with lower resolution such as
0.125 µm/pixel. In this case, interpolation is
required before NeuronIQ processing. The Matlab
codes for interpolation are also provided together
with NeuronIQ. |
