Further Information
BrainVoyager has been developed by Rainer
Goebel and Brain Innovation
B.V. since 1996 and is distributed and supported by Cambridge
Research Systems in the UK.
Documentation
- BrainVoyager 2000 - Getting
Started Guide (12 MB Zip archive. Contains 120 MB Adobe
Acrobat document with high resolution images, optimized for
high quality printing)
FAQs
Video Collection
Publications
- Kriegeskorte, N. & Goebel, R. (2001). An efficient algorithm
for topologically correct segmentation of the cortical sheet
in anatomical MR volumes. NeuroImage, 14, 329-346
- Vaughan, J.T., Garwood, M., Collins, C.M., Liu, W., DelaBarre,
L., Adrainy, G., Andersen, P., Merkle, H., Goebel, R., Smith,
M.B. & Ugurbil, K. (2001). 7T vs. 4T: RF power, homogeneity,
and signal-to-noise comparison in head images. Magnetic Resonance
in Medicine, 46, 24-30.
- Goebel, R., Muckli, L., Zanella, F.E., Singer, W. & Stoerig,
P. (2001). Sustained extrastriate cortical activation without
visual awareness revealed by fMRI studies of hemianopic patients.
Vision Research, 41, 1459-1474.
- Fries, P., Neuenschwander, S., Engel, A.K., Goebel, R. &
Singer, W. (2001). Rapid feature selective neuronal synchronization
through correlated latency shifting. Nature Neuroscience, 4,
194-200.
- Kleiser, R, Wittsack, J., Niedeggen, M., Goebel, R & Stoerig,
P. (2001). Is V1 necessary for conscious vision in areas of
relative cortical blindness? NeuroImage, 13, 654-661.
- Di Salle, F., Formisano, E., Seifritz, E., Linden, D.E.J.,
Scheffler, K., Saulino, C., Tedeschi, G., Zanella, F.E., Pepino,
A., Goebel, R., & Marciano, E. (2001). Functional fields
in human auditory cortex revealed by time-resolved fMRI without
interference of EPI noise. NeuroImage, 13, 328-338.
- Brecht, M., Goebel, R., Singer, W. & Engel, A.K. (2001).
Synchronization of visual responses in the superior colliculus
of awake cats. NeuroReport, 12, 43-47.
- Castelo-Branco, M., Goebel, R., Neuenschwander, S. & Singer,
W. (2000). Neural synchrony correlates with transparency rules
constraining visual surface segregation. Nature, 8, 685-689.
Kiebel, S., Goebel, R. & Friston, K. (2000).
- Characterization of functional observations using anatomically
informed spatiotemporal basis functions, NeuroImage, 11, 656-667.
Trojano, L., Grossi, D., Linden, D.E.J., Formisano, E., Hacker,
H., Zanella, F.E., Goebel, R. & Di Salle, F. (2000).
- Matching two imagined clocks: The functional anatomy of spatial
analysis in the absence of visual stimulation. Cerebral Cortex,
10, 473-481.
- Dierks, T., Linden, D.E.J., Jandl, M., Formisano, E., Goebel,
R., Lanfermann, H., Singer,W. (1999). Activation of Heschl's
gyrus during auditory hallucinations. Neuron, 22, 615-621.
- Di Salle, F., Formisano, E., Linden, D., Goebel, R., Bonavita,
S., Pepino, A., Smaltino, F. & Tedeschi, G. (1999). Exploring
brain function with Magnetic Resonance Imaging. European Journal
of Radiology, 30, 84-94.
- Linden, D.E.J., Kallenbach, U., Heinecke, A., Singer, W.,
& Goebel, R. (1999). The myth of upright vision. A psychophysical
and functional imaging study of adaptation to inverting spectacles.
Perception, 28, 469-481.
- Linden, D.E.J., Prvulovic, D., Formisano, E., Völlinger,
M., Zanella, F.E., Goebel, R. and Dierks, T. (1999). The functional
neuroanatomy of target detection: An fMRI study of visual and
auditory oddball tasks. Cerebral Cortex, 9, 815-823.
- Dierks, T., Linden, D.E.J, Hertel, A., Günther, T., Lanfermann,
H., Niesen, A., Frölich, L., Zanella, F.E., Hör, G.,
Goebel, R. Maurer, K. (1998). Multimodal imaging of residual
function and compensatory resource allocation in cortical atrophy:
a case study of parietal lobe function in a patient with Huntingtion's
disease. Psychiatry Research, 84, 27-35.
- Goebel, R., Khorram-Sefat, D., Muckli, L., Hacker, H. and
Singer, W. (1998) The constructive nature of vision: Direct
evidence from fMRI studies of apparent motion and motion imagery.
The European Journal of Neuroscience, 10, 1563-1573.
- Goebel, R., Linden, D. E. J., Lanfermann, H., Zanella, F.
E. and Singer, W. (1998). Functional imaging of mirror and inverse
reading reveals separate coactivated networks for oculomotion
and spatial transformations. NeuroReport, 9(4), 713-719.
- Schmidt, K. E., Goebel, R., Löwel, S., & Singer,
W. (1997). The perceptual grouping criterion of colinearity
is reflected by anisotropies of connections in primary visual
cortex. European Journal of Neuroscience, 9, 1083-1089.
Technical Support FAQ
- How do I import my data into BrainVoyager?
- How do I interpret BrainVoyager file names?
- What do the 3d motion correction plot colours
mean?
- Which video card should I buy to get the best
performance from the BrainVoyager Surface module?
- I tried to install the BrainVoyager Trial
version, but Windows produced an error message and could not
find the file
Setup_ck.exe
- I tried to install the Key Server from the
CD distributed with the BrainVoyager Evaluation Toolkit, but
Windows produced an error message and could not find the file
Setup_ck.exe
- How do I get a Site Key to unlock the BrainVoyager
Trial version?
- When I run the BrainVoyager Trial version,
Windows produces an error message about the CrypKey Server not
running
1. How do I import my data
into BrainVoyager 2000?
BrainVoyager includes a New Project Wizard, which will help you
to create one of three supported project types. If you have any
problems importing your data, please email
our BrainVoyager staff scientists with information about:
the data file format, the scanner manufacturer and model number,
and the acquisition software revision number. If necessary, they
will provide you with a username and password so that you can
access our FTP server
and upload a sample data file for further inspection.
2. How do I interpret BrainVoyager
file names?
BrainVoyager automatically saves the results of data preprocessing
into new data files. The files are named according to the types
of preprocessing which have been performed. An abbreviated description
of each step is appended to the base file name as described in
the table below.
| File
Name |
Description |
| _3DMC_ |
3d Motion Corrected |
| _pp_ |
2d Temporally Smoothed |
| _FTS- |
3d Temporally Smoothed e.g.
"_FTS-3-126" is frequency domain temporal smoothing with
high pass of 3 cycles and low pass of 126 (note: not available
from GUI ) |
| _FSS- |
3d Spatially Smoothed in frequency
domain e.g. "_FSS-1-14" is spatial smoothing with high pass
of 1 voxels and low pass of 14 voxels |
| _MIA_ |
Mean Intensity Adjusted |
| _SCpoI |
Slice scan Time corrected. The
letter p codes the scan interpolation: p=S signifies sinc
interpolation and p=L linear interpolation. The letter o
codes scan slice order: o=A for ascending and o=D for ascending
e.g SCLD. An optional final character, I, indicates that
the scan order was interleaved e.g. SCLAI (incorrectly described
in help) |
| _SD3DSS |
3d Spatially Smoothed in Spatial
Domain e.g. SD3DSS4.00mm is spatial smoothing with a Gaussian
kernel with FWHM of 2.00 mm while SD3DSS5.12px specifies
a Gaussian with FWHM of 5.12 pixels |
| _LTR_ |
Linear Trends Removed |
| _THP |
Temporally High Pass filtered
e.g. LTR_THP3c specifies a filter of 3 cycles in time course,
THP1.00Hz specifies a filter of 3 Hz, and THP3.00cp is a
filter of 3 cycles/point |
| _TDTS |
Temporally smoothed in the time
domain e.g. TDTS0.3dp is temporally smoothed with a Gaussian
kernel with FWHM of 3 data points, and TDTS0.9s is FWHM
of 0.9 seconds |
3. What do the 3d motion
correction plot colours mean?
As motion correction preprocessing is performed, the degree of
correction in each of the 6 degrees of freedom is plotted. The
movements are coded as:
| Colour |
Direction |
Units |
| Red |
X Translation |
mm |
| Green |
Y Translation |
mm |
| Blue |
Z Translation |
mm |
| Yellow |
X Rotation |
Deg |
| Purple |
Y Rotation |
Deg |
| Cyan |
Z Rotation |
Deg |
4. Which video card should
I buy to get the best performance from the BrainVoyager Surface
module?
The Surface module requires a hardware-accelerated OpenGL
video card with at least 16 MB of on-board graphics memory (32
MB or more is recommended). Currently the best price:performance
ratio is provided by video cards which are based on the NVIDIA
GeForce4 chipset, and you can get a solution based on the
entry-level GeForce4
MX series from as little as GBP75 (about US$100).
If you have an older video card, you may be able to improve the
performance of the Surface module just by updating your OpenGL
drivers. Try:
If you have a video card manufactured by a company which is not
in the list, try the Goggle
video card web directory.
5. I tried to install the
BrainVoyager Trial version, but Windows produced an error message
and could not find the file Setup_ck.exe
When you install the BrainVoyager Trial version from the BrainVoyager
Evaluation Toolkit on a PC running Windows NT 4, Windows 2000
or Windows XP, you must use an account that has
Administrator level privileges on the local PC.
If you do not use an account that has sufficient privileges,
Windows will produce an error and the installation will fail.
If the installation fails, contact your local IT support team
for help with the installation.
6. I tried to install the
Key Server from the CD distributed with the BrainVoyager Evaluation
Toolkit, but Windows produced an error message and could not find
the file Setup_ck.exe
If you attempt to install the Key Server from the CD distributed
with the BrainVoyager Evaluation Toolkit, Windows will produce
an error and the installation will fail to complete.
The error is produced because Windows is attempting to write
a file to the read-only CD. However, installing the Key Server
is not usually necessary as this software component is installed
during the main Trial Version installation.
7. How do I get a Site Key
to unlock the BrainVoyager Trial version?
When you run the BrainVoyager Trial version for the first time,
you will need a Site Key to unlock the software.
Send the Site Code produced by the Key Server to our BrainVoyager
Sales team, and they will send you a unique Site Key which
will unlock the software for 30 days. Run the BrainVoyager Trial
version again using the desktop shortcut and enter the Site Key.
Now press the Verify button to complete the unlock process. If
you need longer than 30 days to test the analysis using your own
data, just contact our BrainVoyager
Sales team for a new Site Key to extend the evaluation.
8. When I run the BrainVoyager
Trial version, Windows produces an error message about the CrypKey
Server not running
If the Key Server failed to install or the Crypkey Licence service
has not started, BrainVoyager will not run.
Run the program AdditionalInstallationTasks.exe,
which you will find in the folder "Program Files\BrainVoyager"
on your hard disk. This will silently install the Key Server and
start the Crypkey Licence service. If you are running Windows
NT 4, you can check the status of the Crypkey Licence service
using the Control Panel Services applet. If you are running Windows
2000 or Windows XP you can check the status using the Computer
Management MMC snap-in (right-click My Computer and select the
Manage shortcut).
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