BrainStorm recent updates

[Sylvain]

Dear all,

Quite a few updates are not yet documented in our webpages. Your download of BrainStorm may contain the following add-ons you might find quite useful (remember BrainStorm is updated daily on the next day following the dates marked in this log):


Revision: 182
Author: silvin
Date: 20:20:44, vendredi 6 octobre 2006
Message:
Another fix (sourceimaging.m) when multiple variable names in datafile start with 'F' or 'Time'
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Modified : /BrainStorm_2/trunk/Toolbox/sourceimaging.m



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Revision: 180
Author: karimn & silvin
Date: 10:42:22, jeudi 5 octobre 2006
Message:
Missing subarray.m called by myttest
Fixed issue when datafile contain multiple variable with names starting with 'F' or 'Time'.
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Added : /BrainStorm_2/trunk/Toolbox/subarray.m


October 02 version
Better 3D renderings in DataViewer
Enhanced colorbar in DataViewer
More informative messages in Channel Selector
Can warp the Montreal template even without specifying the Nasion/LPA/RPA fiducials

---
Revision: 178
Date: 11:15:09, jeudi 14 septembre 2006
Message:
Fixed problems with colorbar appearance in Data Time Series window.
Other miscellaneous fixings.
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Modified : /BrainStorm_2/trunk/Toolbox/bst_wavedata_display.m
Modified : /BrainStorm_2/trunk/Toolbox/contents.m
Modified : /BrainStorm_2/trunk/Toolbox/dataplot_cb.m



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Revision: 168
Author: pantazis
Date: 21:24:36, mercredi 16 août 2006
Message:
change name of saved files from 4D into FIF
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Modified : /BrainStorm_2/trunk/Toolbox/tess_align_tool.m


Revision: 167
Author: mosher
Date: 07:17:22, mercredi 16 août 2006
Message:
Wanted activation time series window (from scouts) to have a figure menu
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Modified : /BrainStorm_2/trunk/Toolbox/manage_corticalscouts.m


Revision: 164
Author: felix
Date: 00:27:40, mercredi 16 août 2006
Message:
fixed syntax error in line 13 "uniqe" to correct "unique"
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Modified : /BrainStorm_2/trunk/Toolbox/fem/calc_leadpre.m


Revision: 160
Author: mosher
Date: 04:17:11, mercredi 9 août 2006
Message:
Allowing EEG REF in the SensorType for Channels_Callback function
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Modified : /BrainStorm_2/trunk/Toolbox/tess_align_tool.m


Revision: 159
Author: mosher
Date: 04:00:13, mercredi 9 août 2006
Message:
Fixed Channels_Callback bug for the case of landmarks
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Modified : /BrainStorm_2/trunk/Toolbox/tess_align_tool.m


Revision: 158
Author: mosher
Date: 03:20:26, samedi 29 juillet 2006
Message:
minor error fixing found by MLINT
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Modified : /BrainStorm_2/trunk/Toolbox/parametric_estimation.m


Revision: 157
Author: pantazis
Date: 04:11:49, vendredi 28 juillet 2006
Message:
Add support for FreeSurfer tessellation files (with extension .surf)
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Modified : /BrainStorm_2/trunk/Toolbox/tessellation_manager.m


Revision: 156
Author: mosher
Date: 03:39:48, vendredi 28 juillet 2006
Message:
Upgraded tess_align_tool.m to use ray_intersect.m instead of select3d. Surface alignment was crashing if we had surfaces with identical numbers of vertices, or if we had only a single surface. See case switches and comments that uses new intersection routine.
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Modified : /BrainStorm_2/trunk/Toolbox/ray_intersect.m
Modified : /BrainStorm_2/trunk/Toolbox/tess_align_tool.m



2006/07/17
Gathered and added statistics tools into the statistics folder into <BrainStorm>/toolbox. Reminder: most stat solutions can be called from permtest.m (parametric & non parametric tests).

2006/07/10
Clarified help header of bst_tess2tess.m: a script to interpolate surface data (sources) on a denser grid (e.g. high-resolution cortex).

2006/07/07
Surface manager now properly displays 50% default data threshold value when loading from a results file

2006/07/06
Fixed minor typos in importdata.m

2006/04/26
Fixed bug when plotting multiple cortical scout time series in DataViewer? + other fixes in FEM toolbox (FelixDarvas, USC)

2006/03/15
ds2brainstorm: fixed bug from 01-Mar-2006 version
BrainStorm version is now 2.2: it includes the FEM toolbox from Felix Darvas (USC) (see Toolbox/fem) and all the help pages are now in Toolbox/help.

2006/03/01
ds2brainstorm now reads VSM/CTF 4.2 file format
Fixed minor bugs + included recent updates from the USC group (e.g. orientation-free beamformer)SylvainBaillet

2006/02/24
[update] permtest permtest_cluster New options in permutation tests (local maximum/minimum). Input syntax changed (but backward compatibility is preserved). KarimNDiaye

[new] scout_swell lists connected nodes to a given vertex on a mesh.
[new] vertconn_swell lists connected nodes to all vertices of a mesh.
[new] vertconn_min vertconn_max (mex file) computes minimum/maximum over neighbouring vertices.

2006/02/21
[update] Updated from Sylvain's recent visit at USC. Toolbox folder now contains a help subfolder.

2006/02/15
[new] permtest Generic permutation test: T-test, pseudo T-test, difference, signed rank, Wilcoxon. KarimNDiaye & KarimJerbi

2006/02/02
Fixed bug that occured when ChannelLoc? field is used to pass EEG channel locations to bst_headmodeler (thanks to Jeremie Mattout at the FIL) SylvainBaillet

[new] bst_baseline_correction Correct data from mean baseline activity, linear drift, polynomial drifts, median, zscore... KarimNDiaye
[new] bst_smooth_fun Computes smoothing kernels for meshes. KarimNDiaye
[new] vertices_distances Computes distances betwee vertices and their topological neighbours. KarimNDiaye

2006/01/27
Tiny bug fixings, especially those which occured when importing data under the RAW format (automatic creation of subject and studies database entries) SylvainBaillet

2006/01/26
The version number is now displayed in the main BrainStorm toolbar and should indicate the latest date of fixes. SylvainBaillet

2005/12/04
MNI_brain_small_tess_labels_Brodmann_LR.mat new file added to the MNITemplate/ folder. This file is basically the same as the older MNI_brain_small_tess_labels_Brodmann.mat but with Left vs. Right specifications for each Brodmann area labeling. (Note: The older one will soon become obsolete and replaced by this file) KarimJerbi

2005/12/04
[new] bst_atlas_jinn A pale analogue to the Talairach Daemon, which allows you to get the label of any location read in one of the current atlases (Brodmann and AAL). KarimNDiaye

2005/11/25
[new] SPM based tools for BrainNormalization (KarimNDiaye):
bst_spm_normalize Calls SPM normalization routines. Interface provided from bst_mriviewer
scs2spm Apply SPM computed normalization to SCS location(s)
bst_subjectimage2spmvol Exports subjectimage file into Analyze SPM volume

[Sylvain]

Revision: 185
Author: silvin
Date: 21:46:02, vendredi 6 octobre 2006
Message:
3D Sphere and 2D Disc scalp plots now have nose and ears! (thanks Karim N'Diaye). Also better, brighter default colormap for surface data plots.
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Modified : /BrainStorm_2/trunk/Toolbox/bst_wavedata_display.m
Modified : /BrainStorm_2/trunk/Toolbox/carto_sph.m
Modified : /BrainStorm_2/trunk/Toolbox/contents.m

http://neuroimage.usc.edu/brainstorm/images/BrainStorm_topoPlotSample.jpg

[Sylvain]

Revision: 186
Author: silvin
Date: 13:08:25, mardi 10 octobre 2006
Message:
Fixed troubles restarting BST when user disagrees to the license agreement. Also fixed issues when restarting BST wihthout having closed all previous GUIs (layout_manager GUI was causing some troubles).
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Modified : /BrainStorm_2/trunk/Toolbox/contents.m
Modified : /BrainStorm_2/trunk/Toolbox/layout_manager.m
Modified : /BrainStorm_2/trunk/startup.m

[Sylvain]

Revision: 187
Author: silvin
Date: 10:01:12, jeudi 12 octobre 2006
Message:
Fixed issue that prevented plotting too many scout time series (>10): thanks to Ghislaine Dehaene.
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Modified : /BrainStorm_2/trunk/Toolbox/manage_corticalscouts.m

[Sylvain]

Revision: 191
Author: silvin
Date: 22:50:29, jeudi 12 octobre 2006
Message:
Fixed blocking issue when aligning channels from channel files with both EEG and MEG using tess_align_tool.m
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Modified : /BrainStorm_2/trunk/Toolbox/contents.m
Modified : /BrainStorm_2/trunk/Toolbox/tess_align_tool.m



Revision: 190
Author: karimn
Date: 15:56:17, jeudi 12 octobre 2006
Message:
moved the reshape to a better place
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Modified : /BrainStorm_2/trunk/Toolbox/statistics/permtest.m


Revision: 189
Author: karimn
Date: 15:53:42, jeudi 12 octobre 2006
Message:
added comment line on last bug
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Modified : /BrainStorm_2/trunk/Toolbox/statistics/permtest.m


Revision: 188
Author: karimn
Date: 15:45:17, jeudi 12 octobre 2006
Message:
Bug in reshape after global statistics
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Modified : /BrainStorm_2/trunk/Toolbox/statistics/permtest.m

[Sylvain]

Revision: 192
Author: silvin
Date: 22:34:01, dimanche 15 octobre 2006
Message:
Fixed issue of warnings for BEM when heavy reduction fo the envelope size was required from user
Fixed also minor fatal bug for vertices_connectivity.m when called in VERBOSE mode
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Modified : /BrainStorm_2/trunk/Toolbox/bem_kernel.m
Modified : /BrainStorm_2/trunk/Toolbox/contents.m
Modified : /BrainStorm_2/trunk/Toolbox/headmodeler_gui.m
Modified : /BrainStorm_2/trunk/Toolbox/vertices_connectivity.m

[Sylvain]

Revision: 194
Author: silvin
Date: 18:50:13, lundi 16 octobre 2006
Message:
Fixing minor bugs for movie creations
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Modified : /BrainStorm_2/trunk/Toolbox/dataplot.fig
Modified : /BrainStorm_2/trunk/Toolbox/dataplot_cb.m



Revision: 193
Author: silvin
Date: 12:56:53, lundi 16 octobre 2006
Message:
Fixed database integrity violation due to bstscript_ForwardInverse_basic.m. Beefed-up the response to these issues in data_manager.mand database_manager.m
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Modified : /BrainStorm_2/trunk/Toolbox/bstscript_ForwardInverse_basic.m
Modified : /BrainStorm_2/trunk/Toolbox/contents.m
Modified : /BrainStorm_2/trunk/Toolbox/data_manager.m
Modified : /BrainStorm_2/trunk/Toolbox/database_manager.m

[Sylvain]

Revision: 195
Author: silvin
Date: 20:56:15, lundi 16 octobre 2006
Message:
Fixed minor bug when calling bst_headmodeler.m when only channel locations - not the entire Channel structure - are specified (thanks Mickel)
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Modified : /BrainStorm_2/trunk/Toolbox/bst_headmodeler.m

[Sylvain]

Revision: 197
Author: silvin
Date: 22:04:38, vendredi 20 octobre 2006
Message:

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Added : /BrainStorm_2/trunk/Toolbox/statistics/tvalue_paired.c
Added : /BrainStorm_2/trunk/Toolbox/statistics/tvalue_paired.dll

These are called from PERMTEST.M. The DLL is for Windows usage? Linux users: please recompile the .c script before usage.

[Sylvain]

Revision: 198
Author: silvin
Date: 17:07:23, lundi 23 octobre 2006
Message:
Improved importation of GIS file format (MRI volumes)
Added new statistical scripts from Karim N'Diaye
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Modified : /BrainStorm_2/trunk/Toolbox/bst_mriviewer.m
Added : /BrainStorm_2/trunk/Toolbox/gis2brainstorm.m
Added : /BrainStorm_2/trunk/Toolbox/statistics/alpha_threshold.m
Added : /BrainStorm_2/trunk/Toolbox/statistics/bst_smooth_fun.m
Added : /BrainStorm_2/trunk/Toolbox/statistics/fillarray.m
Added : /BrainStorm_2/trunk/Toolbox/statistics/nd2array.m
Added : /BrainStorm_2/trunk/Toolbox/statistics/permdifftest_cluster.m
Added : /BrainStorm_2/trunk/Toolbox/statistics/piecemeal.m
Added : /BrainStorm_2/trunk/Toolbox/statistics/prob_clusters.m
Added : /BrainStorm_2/trunk/Toolbox/statistics/quantile.m
Added : /BrainStorm_2/trunk/Toolbox/statistics/tcdf.m
Added : /BrainStorm_2/trunk/Toolbox/statistics/tex_clusters.m
Added : /BrainStorm_2/trunk/Toolbox/statistics/tiedrank.m

Revision: 199
Author: silvin
Date: 17:41:50, lundi 23 octobre 2006
Message:
Minor fixes when manipulating data in NEUROMAG subject coordinate system (SCS)
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Modified : /BrainStorm_2/trunk/Toolbox/bst_wavedata_display.m
Modified : /BrainStorm_2/trunk/Toolbox/dataplot_cb.m
Modified : /BrainStorm_2/trunk/Toolbox/subject_editor.m

[Sylvain]

Revision: 202
Author: silvin
Date: 14:41:30, jeudi 26 octobre 2006
Message:
Enabled importation of NEUROSCAN average (.avr) datatypes (see eeg_load_scan3avg.m) (Thanks to Pablo Gaspar)
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Modified : /BrainStorm_2/trunk/Toolbox/eeg_load_scan3avg.m
Modified : /BrainStorm_2/trunk/Toolbox/elpos2bs.m
Modified : /BrainStorm_2/trunk/Toolbox/importdata.m


Revision: 201
Author: silvin
Date: 17:47:11, mercredi 25 octobre 2006
Message:
Fixed minnorm.m call when the gain and channels are passed as arguments (i.e. as a callable script)
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Modified : /BrainStorm_2/trunk/Toolbox/bst_mriviewer.m
Modified : /BrainStorm_2/trunk/Toolbox/minnorm.m

[Sylvain]

Revision: 203
Author: silvin
Date: 10:36:57, vendredi 27 octobre 2006
Message:
Packed the MNITemplate/ folder with zipped and deleted obsolete files
Updated the MNITemplate and montreal_subject MRI with proper definition of fiducials
Better management of Landmarks in MRITool (bst_mriviewer.m)
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Modified : /BrainStorm_2/trunk/MNITemplate/MNI_braincereb_small_tess_CTF.mat
Modified : /BrainStorm_2/trunk/MNITemplate/MNI_subjectimage.mat
Deleted : /BrainStorm_2/trunk/MNITemplate/ch2aal.hdr
Deleted : /BrainStorm_2/trunk/MNITemplate/ch2aal.img
Deleted : /BrainStorm_2/trunk/MNITemplate/ch2aal.txt
Deleted : /BrainStorm_2/trunk/MNITemplate/ch2brodmann.hdr
Deleted : /BrainStorm_2/trunk/MNITemplate/ch2brodmann.img
Deleted : /BrainStorm_2/trunk/Phantom/montreal_subject/montreal_4layer_tess.mat
Modified : /BrainStorm_2/trunk/Phantom/montreal_subject/montreal_subjectimage.mat
Modified : /BrainStorm_2/trunk/Toolbox/bst_mriviewer.m
Modified : /BrainStorm_2/trunk/Toolbox/contents.m
Modified : /BrainStorm_2/trunk/Toolbox/mri2scs.m

[Sylvain]

Revision: 204
Author: silvin
Date: 17:31:31, lundi 30 octobre 2006
Message:
Enhanced importation of Neuroscan files with .dat electrode locations
Added more explicit error messages in some parts of data_manager.m
Added a verbose mode to permtest.m (Thanks Vincent Roger de Gardelle)
----
Modified : /BrainStorm_2/trunk/Toolbox/contents.m
Modified : /BrainStorm_2/trunk/Toolbox/data_manager.m
Modified : /BrainStorm_2/trunk/Toolbox/dataplot_cb.m
Modified : /BrainStorm_2/trunk/Toolbox/elpos2bs.m
Modified : /BrainStorm_2/trunk/Toolbox/statistics/permtest.m

[Sylvain]

Revision: 205
Author: silvin
Date: 14:29:50, jeudi 9 novembre 2006
Message:
Fixed bug (crashed) with bst_registerstudies.m when a channel set was specified by user as a target for registring MEG recordings to the same sensor array? - Thanks Vincent Roger de Gardelle!
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Modified : /BrainStorm_2/trunk/Toolbox/bst_registerstudies.m

[Sylvain]

Revision: 206
Author: silvin
Date: 18:22:27, lundi 27 novembre 2006
Message:
Enhanced importation of Neuroscan EEG data.
Fixed issues on standalone call to minnorm.m
Changed the bandpass and lowpass filters to more robust solutions (still under development)
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Added : /BrainStorm_2/trunk/PublicToolbox/filters
Added : /BrainStorm_2/trunk/PublicToolbox/filters/bandpassFilter.m
Added : /BrainStorm_2/trunk/PublicToolbox/filters/lowpassFilter.m
Modified : /BrainStorm_2/trunk/Toolbox/brainstorm_filt.m
Modified : /BrainStorm_2/trunk/Toolbox/eeg2bs.m
Modified : /BrainStorm_2/trunk/Toolbox/elpos2bs.m
Modified : /BrainStorm_2/trunk/Toolbox/importdata.m
Modified : /BrainStorm_2/trunk/Toolbox/minnorm.m

[Sylvain]

Revision: 208
Author: silvin
Date: 17:50:02, mercredi 29 novembre 2006
Message:
Ask user whether to swap sensor coordinates for proper display of scalp topography
Fixed bugs with EEG minnorm.m when there are badchannels
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Modified : /BrainStorm_2/trunk/Toolbox/bst_wavedata_display.m
Modified : /BrainStorm_2/trunk/Toolbox/minnorm.m

[Sylvain]

Revision: 210
Author: silvin
Date: 12:51:38, jeudi 30 novembre 2006
Message:
Fixed bug when extracting subset of channels using channel names rather than indices in ds2brainstorm.m/ thanks Alexis Barbot !
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Modified : /BrainStorm_2/trunk/Toolbox/ds2brainstorm.m

[Sylvain]

Revision: 212
Author: silvin
Date: 13:46:36, vendredi 1 décembre 2006
Message:
Fixed bug due to yesterday's fix in minnorm.m
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Modified : /BrainStorm_2/trunk/Toolbox/contents.m
Modified : /BrainStorm_2/trunk/Toolbox/minnorm.m

[Sylvain]

Revision: 213
Author: silvin
Date: 18:08:52, lundi 4 décembre 2006
Message:
re-Added the montreal_4layer_tess.mat file which was deleted from the distribution mistakenly.
Deleted obsolete montreal_subject/montreal_white_matter_tess.mat instead
Beefed-up good_channel.m
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Added : /BrainStorm_2/trunk/Phantom/montreal_subject/montreal_4layer_tess.mat
Deleted : /BrainStorm_2/trunk/Phantom/montreal_subject/montreal_white_matter_tess.mat
Modified : /BrainStorm_2/trunk/Toolbox/contents.m
Modified : /BrainStorm_2/trunk/Toolbox/good_channel.m

[Sylvain]

Revision: 214
Author: silvin
Date: 19:59:21, mardi 5 décembre 2006
Message:
Fixed new bugs in bst_mriviewer.m that occurred in recent versions on the definition of fiducials + better importation of GIS MRI images from brainVISA
Better channel assignement based on distance for studies with template anatomy (phantom_channel_assignment.m)
Fixed uint8 conversion warnings during template warping (warp_everything_bst.m)
Fixed bad channel management in minnorm.m
Fixed irritating new question dialog that recently popped in from bst_wavedata_display.m
----
Modified : /BrainStorm_2/trunk/Toolbox/bst_mriviewer.m
Modified : /BrainStorm_2/trunk/Toolbox/bst_wavedata_display.m
Modified : /BrainStorm_2/trunk/Toolbox/contents.m
Modified : /BrainStorm_2/trunk/Toolbox/minnorm.m
Modified : /BrainStorm_2/trunk/Toolbox/phantom_channel_assignment.m
Modified : /BrainStorm_2/trunk/Toolbox/warp_everything_bst.m

[Sylvain]

Revision: 215
Author: silvin
Date: 16:51:51, vendredi 26 janvier 2007
Message:
fixed left/right swap in scalp topographic plots in CTF/VSM coordinate systems (from veresion 2.2.21) (Thanks Dimitrios Pantazis)
fixed display of results when time window parameters in data viwer were altered manually (From/Step/Stop) (Thanks Vincent Roger de Gardelle)
----
Modified : /BrainStorm_2/trunk/Toolbox/bst_imaging_display.m
Modified : /BrainStorm_2/trunk/Toolbox/bst_wavedata_display.m
Modified : /BrainStorm_2/trunk/Toolbox/contents.m
Modified : /BrainStorm_2/trunk/Toolbox/dataplot_cb.m
Modified : /BrainStorm_2/trunk/Toolbox/tessellation_manager.fig
Modified : /BrainStorm_2/trunk/Toolbox/tessellation_manager.m

[Sylvain]

Revision: 216
Author: silvin
Date: 23:28:20, mercredi 31 janvier 2007
Message:
fixed import of raw EGI data;
fixed issues when generate a movie of cortical activations
eeg2bs.m: cosmetic changes
----
Modified : /BrainStorm_2/trunk/Toolbox/dataplot_cb.m
Modified : /BrainStorm_2/trunk/Toolbox/eeg2bs.m
Modified : /BrainStorm_2/trunk/Toolbox/importdata.m

[Sylvain]

Revision: 105
Author: silvin
Date: 18:43:56, vendredi 2 février 2007
Message:
Added the MEGCoregistration.html documentation page: Coregistration of multiple MEG datasets to a unique sensor helmet
----
Added : /html/brainstorm/MEGCoregistration.html
Modified : /html/brainstorm/Tutorial.html
Modified : /html/brainstorm/TutorialImportRawData.html
Added : /html/brainstorm/images/AddToProcessCandidates.gif
Added : /html/brainstorm/images/CoregisteredDataSets.gif
Added : /html/brainstorm/images/CoregistrationMEGSensorArrays.jpg
Added : /html/brainstorm/images/CoregistrationMEGSeriesTopo.gif
Added : /html/brainstorm/images/ProcessLauncherCoregister.gif
Added : /html/brainstorm/images/TypicalMEGTopography.jpg
Modified : /html/brainstorm/index.php


Revision: 104
Author: silvin
Date: 23:44:14, mercredi 31 janvier 2007
Message:
Reset the menu_variable.js entry for Publications to the brainstorm Publications.html page
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Modified : /html/brainstorm/menu_variable.js


Revision: 102
Author: pantazis
Date: 01:48:08, mercredi 24 janvier 2007
Message:
fix brainuite
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Modified : /html/brainstorm/Newsandupdates.html

[Sylvain]

Revision: 106
Author: silvin
Date: 11:20:54, lundi 5 février 2007
Message:
Fixed typos in MEGCoregistration.html
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Modified : /html/brainstorm/MEGCoregistration.html

[Sylvain]

Revision: 221
Author: silvin
Date: 18:58:58, lundi 5 février 2007
Message:
Fixed importation of EGI demo data (Phantom study)
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Modified : /BrainStorm_2/trunk/Toolbox/eeg2bs.m
Modified : /BrainStorm_2/trunk/Toolbox/elpos2bs.m
Modified : /BrainStorm_2/trunk/Toolbox/importdata.m

[Sylvain]

Revision: 224
Author: pantazis
Date: 02:33:55, mardi 6 février 2007
Message:
fixed bug: when 'anatomy' is not included in the brainstormsubject file, search directories
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Modified : /BrainStorm_2/trunk/Toolbox/tessellation_manager.m


Revision: 222
Author: pantazis
Date: 01:42:09, mardi 6 février 2007
Message:
Fix bug: could not locate files within subdirectories (!)
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Modified : /BrainStorm_2/trunk/Toolbox/find_brainstorm_files.m

Revision: 226
Author: Dimitrios Pantazis
Date: 15:12:05, mardi 6 février 2007
Message:
Updated version of the Phantom Template MRI as it was not working properly with the thin-plate spline interpolation (Dimitrios Pantazis)
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Modified : /BrainStorm_2/trunk/Phantom/montreal_subject/montreal_subjectimage.mat

Revision: 228
Author: silvin
Date: 15:19:16, mardi 6 février 2007
Message:
average_channel_locs.m now allows to make the average on files with more than one channel without name (ask Etienne Guillaud why this might be useful ;) )
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Modified : /BrainStorm_2/trunk/Toolbox/average_channel_locs.m

[Sylvain]

Revision: 229
Author: silvin
Date: 18:49:03, mercredi 7 février 2007
Message:
Fixed minor bugs in importing data in RAW format.
Added an IMPORT button in DATAMANAGER for faster access to the importation routines
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Modified : /BrainStorm_2/trunk/Toolbox/browse_study_folder.m
Modified : /BrainStorm_2/trunk/Toolbox/contents.m
Modified : /BrainStorm_2/trunk/Toolbox/data_manager.fig
Modified : /BrainStorm_2/trunk/Toolbox/data_manager.m
Modified : /BrainStorm_2/trunk/Toolbox/importdata.m
Modified : /BrainStorm_2/trunk/Toolbox/study_editor.m

[Sylvain]

Revision: 237
Author: silvin
Date: 10:15:17, mardi 13 février 2007
Message:
Fixed minor bug in EEG channel selection for BEM (bst_headmodeler.m). Thanks Thorsteinn.
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Modified : /BrainStorm_2/trunk/Toolbox/bst_headmodeler.m

[Sylvain]

Revision: 239
Author: silvin
Date: 17:29:37, mardi 13 février 2007
Message:
Versionning
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Modified : /BrainStorm_2/trunk/Toolbox/contents.m


Revision: 238
Author: silvin
Date: 17:28:38, mardi 13 février 2007
Message:
Fixed RAP-MUSIC source display: Thanks Koffe.
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Modified : /BrainStorm_2/trunk/Toolbox/bst_imaging_display.m
Modified : /BrainStorm_2/trunk/Toolbox/bst_mriviewer.m
Modified : /BrainStorm_2/trunk/Toolbox/bst_wavedata_display.m
Modified : /BrainStorm_2/trunk/Toolbox/rapmusic_gui.m

[Sylvain]

Revision: 242
Author: silvin
Date: 18:13:52, jeudi 22 février 2007
Message:
bst_wavedata_display.m: fixed bug that showed swapped X and Y coordinates when plotting scalp data onto scalp envelope (recent bug from January)
manage_corticalscouts.m: fixed recent bug on display of scout time series.
----
Modified : /BrainStorm_2/trunk/Toolbox/bst_wavedata_display.m
Modified : /BrainStorm_2/trunk/Toolbox/manage_corticalscouts.m


Revision: 241
Author: silvin
Date: 10:54:56, jeudi 22 février 2007
Message:

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Modified : /BrainStorm_2/trunk/Toolbox/blend_anatomy_data.m
Modified : /BrainStorm_2/trunk/Toolbox/contents.m
Modified : /BrainStorm_2/trunk/Toolbox/mri2scs.m

[Sylvain]

Revision: 254
Author: silvin
Date: 20:54:15, lundi 19 mars 2007
Message:
contents.m: changed version number
----
Modified : /BrainStorm_2/trunk/Toolbox/contents.m


Revision: 253
Author: silvin
Date: 17:57:39, lundi 19 mars 2007
Message:
bst_headmodeler.m: Corrected BEM bug that occurred when EEG was referenced to specific electrode (i.e. not average-referenced) (caused crash)
dataplot_cb.m: Corrected bug occurring during display of results defined on sub time window of original data array (caused crash).
----
Modified : /BrainStorm_2/trunk/Toolbox/bst_headmodeler.m
Modified : /BrainStorm_2/trunk/Toolbox/dataplot_cb.m


Revision: 247
Author: pantazis
Date: 22:11:38, jeudi 8 mars 2007
Message:
testing
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Modified : /BrainStorm_2/trunk/Toolbox/mri_read_tool.m


Revision: 243
Author: mosher
Date: 01:15:10, samedi 24 février 2007
Message:
Commenting changes only
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Modified : /BrainStorm_2/trunk/Toolbox/lcmvbf.m
Modified : /BrainStorm_2/trunk/Toolbox/os_meg.m

[Sylvain]

Revision: 264
Author: silvin
Date: 11:37:48, jeudi 22 mars 2007
Message:
importdata.m and read_besa.m: fixed compatibility issues (thanks XY)
----
Modified : /BrainStorm_2/trunk/Toolbox/contents.m
Modified : /BrainStorm_2/trunk/Toolbox/importdata.m
Modified : /BrainStorm_2/trunk/Toolbox/read_besa.m

[Sylvain]

Revision: 265
Author: silvin
Date: 19:32:24, vendredi 30 mars 2007
Message:
tessellation_manager.m & dataplot_cb.m: Full range of colormap for cortical current maps when mode is not 'Normalize' can be specified
manage_corticalscouts.m: Forward fields of scouts can be computed (See Actions menu of the cortical scout manager) and will be saved to separate datafiles. Useful for simulating data!
get_channel.m: minor edit
----
Modified : /BrainStorm_2/trunk/Toolbox/dataplot_cb.m
Modified : /BrainStorm_2/trunk/Toolbox/get_channel.m
Modified : /BrainStorm_2/trunk/Toolbox/manage_corticalscouts.m
Modified : /BrainStorm_2/trunk/Toolbox/tessellation_manager.m

[Sylvain]

Revision: 268
Author: silvin
Date: 19:28:27, mardi 10 avril 2007
Message:
importdata.fig, importdata.m, bst_mriviewer.m: various fixes, including troubles under Matlab 2006a and after
pol2chan.m: reads out an ASCII Polhemus file
neuroscanAVG2bst.m: reads out a Neuroscan average file (EEG)
study_editor.m: minor fixes
tessellation_manager.m: minor fixes (window sometimes disappeared under Matlab 2006a and after)
ds2brainstorm.m: now properly import CTF/VSM files with channels dedicated to continuous head localization
We are grateful to the Lyon MEG center in France for valuable contributions to these fixes.
----
Modified : /BrainStorm_2/trunk/Toolbox/bst_mriviewer.m
Modified : /BrainStorm_2/trunk/Toolbox/contents.m
Modified : /BrainStorm_2/trunk/Toolbox/ds2brainstorm.m
Modified : /BrainStorm_2/trunk/Toolbox/importdata.fig
Modified : /BrainStorm_2/trunk/Toolbox/importdata.m
Added : /BrainStorm_2/trunk/Toolbox/neuroscanAVG2bst.m
Added : /BrainStorm_2/trunk/Toolbox/pol2chan.m
Modified : /BrainStorm_2/trunk/Toolbox/study_editor.fig
Modified : /BrainStorm_2/trunk/Toolbox/study_editor.m
Modified : /BrainStorm_2/trunk/Toolbox/tessellation_manager.fig
Modified : /BrainStorm_2/trunk/Toolbox/tessellation_manager.m

[Sylvain]

Revision: 269
Author: silvin
Date: 11:00:38, jeudi 12 avril 2007
Message:
ds2brainstorm.m: now properly applies channel gains when reading a subblock of data
minnorm.m, bst_wavedata_display.m and bst_headmodeler.m: command line call is facilitated
----
Modified : /BrainStorm_2/trunk/Toolbox/bst_headmodeler.m
Modified : /BrainStorm_2/trunk/Toolbox/bst_wavedata_display.m
Modified : /BrainStorm_2/trunk/Toolbox/contents.m
Modified : /BrainStorm_2/trunk/Toolbox/ds2brainstorm.m
Modified : /BrainStorm_2/trunk/Toolbox/minnorm.m

[Sylvain]

Revision: 271
Author: silvin
Date: 22:42:43, lundi 23 avril 2007
Message:
minnorm.m: Fixed bug that was added on Apr12 and that was causing error when using Mininum Norm current estimates from the GUI (thanks UCSF & D. Pantazis)
----
Modified : /BrainStorm_2/trunk/Toolbox/contents.m
Modified : /BrainStorm_2/trunk/Toolbox/minnorm.m

[Sylvain]

Revision: 272
Author: silvin
Date: 22:58:33, lundi 23 avril 2007
Message:
bst_headmodeler.m: Updated the help header
headmodeler_gui.m: Enhanced error feedback
----
Modified : /BrainStorm_2/trunk/Toolbox/bst_headmodeler.m
Modified : /BrainStorm_2/trunk/Toolbox/headmodeler_gui.m

[Sylvain]

Revision: 282
Author: silvin
Date: 16:42:35, mercredi 30 mai 2007
Message: Versioning 2.2.34

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Modified : /BrainStorm_2/trunk/Toolbox/contents.m


Revision: 281
Author: pantazis
Date: 22:00:23, vendredi 25 mai 2007
Message:
fix linefeeds
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Modified : /BrainStorm_2/trunk/Toolbox/find_subdir.m


Revision: 280
Author: pantazis
Date: 20:34:28, vendredi 25 mai 2007
Message:
Felix's correction for Linux
----
Modified : /BrainStorm_2/trunk/Toolbox/find_subdir.m


Revision: 279
Author: pantazis
Date: 05:06:11, vendredi 25 mai 2007
Message:
Add functionality: join scouts
----
Modified : /BrainStorm_2/trunk/Toolbox/manage_corticalscouts.fig
Modified : /BrainStorm_2/trunk/Toolbox/manage_corticalscouts.m


Revision: 278
Author: pantazis
Date: 03:51:14, vendredi 25 mai 2007
Message:
Importation of freesurfer surfaces into brainstorm
----
Added : /BrainStorm_2/trunk/Toolbox/freesurfer2brainstorm_toolbox
Added : /BrainStorm_2/trunk/Toolbox/freesurfer2brainstorm_toolbox/fsurfer2bstorm.m
Added : /BrainStorm_2/trunk/Toolbox/freesurfer2brainstorm_toolbox/fsurfer2bsuite.m
Added : /BrainStorm_2/trunk/Toolbox/freesurfer2brainstorm_toolbox/label2scout.m
Added : /BrainStorm_2/trunk/Toolbox/freesurfer2brainstorm_toolbox/readme.txt
Added : /BrainStorm_2/trunk/Toolbox/freesurfer2brainstorm_toolbox/scout2label.m
Added : /BrainStorm_2/trunk/Toolbox/freesurfer2brainstorm_toolbox/writedfs.m


Revision: 276
Author: karimn
Date: 16:04:53, jeudi 10 mai 2007
Message:
Permutation test for clusters
- Error-message leading bu corrected
- Minor changes in the code
----
Modified : /BrainStorm_2/trunk/Toolbox/statistics/permtest_cluster.m
Modified : /BrainStorm_2/trunk/Toolbox/statistics/prob_clusters.m


Revision: 275
Author: mosher
Date: 22:59:52, mardi 8 mai 2007
Message:
Okada's Baby SQUID now has a sensor type.
----
Modified : /BrainStorm_2/trunk/Toolbox/coil_def.dat


Revision: 274
Author: pantazis
Date: 19:57:35, vendredi 27 avril 2007
Message:
replace sec with msec
----
Modified : /BrainStorm_2/trunk/Toolbox/sourceimaging.fig

[Sylvain]

Revision: 291
Author: silvin
Date: 20:06:52, vendredi 6 juillet 2007
Message:
bst_wavedata_display.m: Maximum value on scout times series in shown in message window
data_manager.m: fixed vannishing issues using lmatest versions of Matlab, 2006b and more
dataplot_cb.m: Compute Zscore online for sensor time series (right-click over a sensor time series in DataViewer)
ds2brainstorm.m: Fixed importation issues from CTF275-channel systems
manage_corticalscouts.m: Now it's possible to compute correlation coefficient betweeen scout and sensor traces (Scout manager>Actions> last menu item)
minnorm.m: fixed bug that occured when computing WMNE source estimates using EEG data with bad channels declared
----
Modified : /BrainStorm_2/trunk/Toolbox/bst_wavedata_display.m
Modified : /BrainStorm_2/trunk/Toolbox/contents.m
Modified : /BrainStorm_2/trunk/Toolbox/data_manager.m
Modified : /BrainStorm_2/trunk/Toolbox/dataplot_cb.m
Modified : /BrainStorm_2/trunk/Toolbox/ds2brainstorm.m
Modified : /BrainStorm_2/trunk/Toolbox/manage_corticalscouts.m
Modified : /BrainStorm_2/trunk/Toolbox/minnorm.m

[Sylvain]

Revision: 292
Author: silvin
Date: 19:07:43, mardi 10 juillet 2007
Message:
bst_wavedata_display.m: fixed minor bug from last version (multiple scout time series would not plot properly).
----
Modified : /BrainStorm_2/trunk/Toolbox/bst_wavedata_display.m

[Sylvain]

Revision: 306
Author: silvin
Date: 19:01:09, lundi 4 février 2008
Message:
Fixed minor bug that occurred when sending MR slices to 3D viewer and when number of voxels was not the same in X,Y and Z directions
+ other minor, non critical bug fixings
----
Modified : /BrainStorm_2/trunk/Toolbox/bst_mriviewer.m
Modified : /BrainStorm_2/trunk/Toolbox/contents.m
Modified : /BrainStorm_2/trunk/Toolbox/extract_channels.m
Modified : /BrainStorm_2/trunk/Toolbox/rap_music_parameters.m


Revision: 305
Author: pantazis
Date: 20:26:16, mardi 29 janvier 2008
Message:

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Modified : /BrainStorm_2/trunk/Toolbox/freesurfer2brainstorm_toolbox/fsurfer2bsuite.m


Revision: 304
Author: pantazis
Date: 00:00:46, samedi 15 décembre 2007
Message:
fixed a bug to disply labels of scouts
----
Modified : /BrainStorm_2/trunk/Toolbox/manage_corticalscouts.m


Revision: 303
Author: pantazis
Date: 22:15:42, lundi 3 décembre 2007
Message:
make it work for RAS surfaces
----
Modified : /BrainStorm_2/trunk/Toolbox/freesurfer2brainstorm_toolbox/fsurfer2bsuite.m


Revision: 302
Author: pantazis
Date: 05:30:03, jeudi 29 novembre 2007
Message:
display labels properly
----
Modified : /BrainStorm_2/trunk/Toolbox/manage_corticalscouts.m


Revision: 301
Author: pantazis
Date: 05:17:31, jeudi 29 novembre 2007
Message:
show labels of scouts correctly
----
Modified : /BrainStorm_2/trunk/Toolbox/manage_corticalscouts.m


Revision: 299
Author: pantazis
Date: 00:09:28, mercredi 28 novembre 2007
Message:
changed input of functions
----
Modified : /BrainStorm_2/trunk/Toolbox/freesurfer2brainstorm_toolbox/readme.txt


Revision: 298
Author: pantazis
Date: 00:08:14, mercredi 28 novembre 2007
Message:
Allow surfaces with variable size
----
Modified : /BrainStorm_2/trunk/Toolbox/freesurfer2brainstorm_toolbox/fsurfer2bstorm.m
Modified : /BrainStorm_2/trunk/Toolbox/freesurfer2brainstorm_toolbox/scout2label.m


Revision: 297
Author: pantazis
Date: 18:46:35, samedi 20 octobre 2007
Message:
instructions where to find read_surf.m
----
Modified : /BrainStorm_2/trunk/Toolbox/freesurfer2brainstorm_toolbox/readme.txt

[Sylvain]

Revision: 307
Author: silvin
Date: 12:02:59, jeudi 14 février 2008
Message:
Fixed minor bugs when displaying 3D envelopes with Matlab2007 versions
Fixed bug when sending MRI slices in 3D window that occurred only for non-square slices
----
Modified : /BrainStorm_2/trunk/Toolbox/bst_mriviewer.m
Modified : /BrainStorm_2/trunk/Toolbox/tessellation_manager.m

[Sylvain]

The distribution of BST is on hold until we release the next – much enhanced – version by mid June. The latest version will be presented at the next edition of the Human Brain Mapping meeting and download and documentation will be available.



Thanks for your interest and your patience.